API Reference

Warning

Private functions are not meant to be used out of context, and doing so may lead to unexpected results.

rnalysis.fastq module

The fastq module provides a unified programmatic interface to external tools that process FASTQ files. Those currently include the CutAdapt adapter-trimming tool, the kallisto RNA-sequencing quantification tool, the bowtie2 alignment tool, and the featureCounts feature counting tool.

class rnalysis.fastq.PairedEndPipeline

Bases: _FASTQPipeline

_func_signature(func: function, args: tuple, kwargs: dict)

Returns a string functions signature for the given function and arguments.

Parameters

• func (function) – the function or method to generate signature for

• args (tuple) – arguments given for the function

• kwargs (dict) – keyworded arguments given for the function

Returns

function signature string

Return type

str

static _param_string(args: tuple, kwargs: dict)

Returns a formatted string of the given arguments and keyworded arguments.

Parameters

• args (tuple) – arguments to format as string

• kwargs (dict) – keyworded arguments to format as string

Returns

a formatted string of arguments and keyworded argumentss

Return type

str

_readable_func_signature(func: function, args: tuple, kwargs: dict)

Returns a human-readable string functions signature for the given function and arguments.

Parameters

• func (function) – the function or method to generate signature for

• args (tuple) – arguments given for the function

• kwargs (dict) – keyworded arguments given for the function

Returns

function signature string

Return type

str

export_pipeline(filename: Optional[Union[str, Path]]) → Union[None, str]

Export a Pipeline to a Pipeline YAML file or YAML-like string.

Parameters

filename (str, pathlib.Path, or None) – filename to save the Pipeline YAML to, or None to return a YAML-like string instead.

Returns

if filename is None, returns the Pipeline YAML-like string.

functions

list of functions to perform

classmethod import_pipeline(filename: Union[str, Path]) → GenericPipeline

Import a Pipeline from a Pipeline YAML file or YAML-like string.

Parameters

filename (str or pathlib.Path) – name of the YAML file containing the Pipeline, or a YAML-like string.

Returns

the imported Pipeline

Return type

Pipeline

params

list of function parameters

remove_last_function()

Removes from the Pipeline the last function that was added to it. Removal is in-place.

Examples

>>> from rnalysis import filtering
>>> pipe = filtering.Pipeline()
>>> pipe.add_function(filtering.Filter.filter_missing_values)
Added function 'Filter.filter_missing_values()' to the pipeline.
>>> pipe.remove_last_function()
Removed function filter_missing_values with parameters [] from the pipeline.

class rnalysis.fastq.SingleEndPipeline

Bases: _FASTQPipeline

_func_signature(func: function, args: tuple, kwargs: dict)

Returns a string functions signature for the given function and arguments.

Parameters

• func (function) – the function or method to generate signature for

• args (tuple) – arguments given for the function

• kwargs (dict) – keyworded arguments given for the function

Returns

function signature string

Return type

str

static _param_string(args: tuple, kwargs: dict)

Returns a formatted string of the given arguments and keyworded arguments.

Parameters

• args (tuple) – arguments to format as string

• kwargs (dict) – keyworded arguments to format as string

Returns

a formatted string of arguments and keyworded argumentss

Return type

str

_readable_func_signature(func: function, args: tuple, kwargs: dict)

Returns a human-readable string functions signature for the given function and arguments.

Parameters

• func (function) – the function or method to generate signature for

• args (tuple) – arguments given for the function

• kwargs (dict) – keyworded arguments given for the function

Returns

function signature string

Return type

str

export_pipeline(filename: Optional[Union[str, Path]]) → Union[None, str]

Export a Pipeline to a Pipeline YAML file or YAML-like string.

Parameters

filename (str, pathlib.Path, or None) – filename to save the Pipeline YAML to, or None to return a YAML-like string instead.

Returns

if filename is None, returns the Pipeline YAML-like string.

functions

list of functions to perform

classmethod import_pipeline(filename: Union[str, Path]) → GenericPipeline

Import a Pipeline from a Pipeline YAML file or YAML-like string.

Parameters

filename (str or pathlib.Path) – name of the YAML file containing the Pipeline, or a YAML-like string.

Returns

the imported Pipeline

Return type

Pipeline

params

list of function parameters

remove_last_function()

Removes from the Pipeline the last function that was added to it. Removal is in-place.

Examples

>>> from rnalysis import filtering
>>> pipe = filtering.Pipeline()
>>> pipe.add_function(filtering.Filter.filter_missing_values)
Added function 'Filter.filter_missing_values()' to the pipeline.
>>> pipe.remove_last_function()
Removed function filter_missing_values with parameters [] from the pipeline.

class rnalysis.fastq._FASTQPipeline

Bases: GenericPipeline, ABC

_func_signature(func: function, args: tuple, kwargs: dict)

Returns a string functions signature for the given function and arguments.

Parameters

• func (function) – the function or method to generate signature for

• args (tuple) – arguments given for the function

• kwargs (dict) – keyworded arguments given for the function

Returns

function signature string

Return type

str

static _param_string(args: tuple, kwargs: dict)

Returns a formatted string of the given arguments and keyworded arguments.

Parameters

• args (tuple) – arguments to format as string

• kwargs (dict) – keyworded arguments to format as string

Returns

a formatted string of arguments and keyworded argumentss

Return type

str

_readable_func_signature(func: function, args: tuple, kwargs: dict)

Returns a human-readable string functions signature for the given function and arguments.

Parameters

• func (function) – the function or method to generate signature for

• args (tuple) – arguments given for the function

• kwargs (dict) – keyworded arguments given for the function

Returns

function signature string

Return type

str

export_pipeline(filename: Optional[Union[str, Path]]) → Union[None, str]

Export a Pipeline to a Pipeline YAML file or YAML-like string.

Parameters

filename (str, pathlib.Path, or None) – filename to save the Pipeline YAML to, or None to return a YAML-like string instead.

Returns

if filename is None, returns the Pipeline YAML-like string.

functions

list of functions to perform

classmethod import_pipeline(filename: Union[str, Path]) → GenericPipeline

Import a Pipeline from a Pipeline YAML file or YAML-like string.

Parameters

filename (str or pathlib.Path) – name of the YAML file containing the Pipeline, or a YAML-like string.

Returns

the imported Pipeline

Return type

Pipeline

params

list of function parameters

remove_last_function()

Removes from the Pipeline the last function that was added to it. Removal is in-place.

Examples

>>> from rnalysis import filtering
>>> pipe = filtering.Pipeline()
>>> pipe.add_function(filtering.Filter.filter_missing_values)
Added function 'Filter.filter_missing_values()' to the pipeline.
>>> pipe.remove_last_function()
Removed function filter_missing_values with parameters [] from the pipeline.

rnalysis.fastq._merge_kallisto_outputs(output_folder: Union[str, Path])

output a merged csv file of transcript estimated counts, and a merged csv file of transcript estimated TPMs.

Parameters

output_folder –

Returns

Return type

rnalysis.fastq.bowtie2_align_paired_end(r1_files: List[str], r2_files: List[str], output_folder: Union[str, Path], index_file: Union[str, Path], bowtie2_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', mode: Literal['end-to-end', 'local'] = 'end-to-end', settings_preset: Literal['very-fast', 'fast', 'sensitive', 'very-sensitive'] = 'very-sensitive', ignore_qualities: bool = False, quality_score_type: Literal['phred33', 'phred64', 'solexa-quals', 'int-quals'] = 'phred33', mate_orientations: Literal['fwd-rev', 'rev-fwd', 'fwd-fwd'] = 'fwd-rev', min_fragment_length: NonNegativeInt = 0, max_fragment_length: PositiveInt = 500, allow_individual_alignment: bool = True, allow_disconcordant_alignment: bool = True, random_seed: NonNegativeInt = 0, threads: PositiveInt = 1)

Align paired-end reads from FASTQ files to a reference sequence using the bowtie2 aligner. The FASTQ file pairs will be individually aligned, and the aligned SAM files will be saved in the output folder. You can read more about how bowtie2 works in the bowtie2 manual.

Parameters

• r1_files (list of str/Path to existing FASTQ files) – a list of paths to your Read#1 files. The files should be sorted in tandem with r2_files, so that they line up to form pairs of R1 and R2 files.

• r2_files (list of str/Path to existing FASTQ files) – a list of paths to your Read#2 files. The files should be sorted in tandem with r1_files, so that they line up to form pairs of R1 and R2 files.

• output_folder (str/Path to an existing folder) – Path to a folder in which the aligned reads, as well as the log files, will be saved.

• index_file (str or Path) – Path to a pre-built bowtie2 index of the target genome. Can either be downloaded from the bowtie2 website (menu on the right), or generated manually from FASTA files using the function ‘bowtie2_create_index’. Note that bowtie2 indices are composed of multiple files ending with the ‘.bt2’ suffix. All of those files should be in the same location. It is enough to specify the path to one of those files (for example, ‘path/to/index.1.bt2’), or to the main name of the index (for example, ‘path/to/index’).

• bowtie2_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of bowtie2. For example: ‘C:/Program Files/bowtie2-2.5.1’. if installation folder is set to ‘auto’, RNAlysis will attempt to find it automatically.

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each quantified sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the file pairs.

• mode ('end-to-end' or 'local' (default='end-to-end')) – determines the alignment mode of bowtie2. end-to-end mode will look for alignments involving all the read characters. local mode will allow ‘clipping’ of nucleotides from both sides of the read, if that maximizes the alignment score.

• settings_preset ('very-sensitive', 'sensitive', 'fast', or 'very-fast' (default='very-sensitive')) – determines the alignment sensitivity preset. Higher sensitivity will result in more accurate alignments, but will take longer to calculate. You can read more about the settings presets in the bowtie2 manual.

• ignore_qualities (bool (default=False)) – if True, bowtie2 will ignore the qualities of the reads and treat them all as maximum quality.

• quality_score_type ('phred33', 'phred64', 'solexa-quals', or 'int-quals' (default='phred33')) – determines the encoding type of the read quality scores. Most modern sequencing setups use phred+33.

• mate_orientations ('fwd-rev', 'rev-fwd', or 'fwd-fwd' (default='fwd-rev')) –

• min_fragment_length (int >= 0 (default=0)) – The minimum fragment length for valid paired-end alignments.

• max_fragment_length (int > 0 (default=500)) – The maximum fragment length for valid paired-end alignments.

• allow_individual_alignment (bool (default=) –

• allow_disconcordant_alignment (bool (default=) –

• random_seed (int >=0 (default=0)) – determines the seed for pseudo-random number generator.

• threads (int > 0 (default=1)) – number of threads to run bowtie2-build on. More threads will generally make index building faster.

rnalysis.fastq.bowtie2_align_single_end(fastq_folder: Union[str, Path], output_folder: Union[str, Path], index_file: Union[str, Path], bowtie2_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', mode: Literal['end-to-end', 'local'] = 'end-to-end', settings_preset: Literal['very-fast', 'fast', 'sensitive', 'very-sensitive'] = 'very-sensitive', ignore_qualities: bool = False, quality_score_type: Literal['phred33', 'phred64', 'solexa-quals', 'int-quals'] = 'phred33', random_seed: NonNegativeInt = 0, threads: PositiveInt = 1)

Align single-end reads from FASTQ files to a reference sequence using the bowtie2 aligner. The FASTQ files will be individually aligned, and the aligned SAM files will be saved in the output folder. You can read more about how bowtie2 works in the bowtie2 manual.

Parameters

• fastq_folder (str or Path) – Path to the folder containing the FASTQ files you want to quantify

• output_folder (str/Path to an existing folder) – Path to a folder in which the aligned reads, as well as the log files, will be saved.

• index_file (str or Path) –

  Path to a pre-built bowtie2 index of the target genome. Can either be downloaded from the bowtie2 website (menu on the right), or generated manually from FASTA files using the function ‘bowtie2_create_index’. Note that bowtie2 indices are composed of multiple files ending with the ‘.bt2’ suffix. All of those files should be in the same location. It is enough to specify the path to one of those files (for example, ‘path/to/index.1.bt2’), or to the main name of the index (for example, ‘path/to/index’).

• bowtie2_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of bowtie2. For example: ‘C:/Program Files/bowtie2-2.5.1’. if installation folder is set to ‘auto’, RNAlysis will attempt to find it automatically.

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each quantified sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the file pairs.

• mode ('end-to-end' or 'local' (default='end-to-end')) – determines the alignment mode of bowtie2. end-to-end mode will look for alignments involving all the read characters. local mode will allow ‘clipping’ of nucleotides from both sides of the read, if that maximizes the alignment score.

• settings_preset ('very-sensitive', 'sensitive', 'fast', or 'very-fast' (default='very-sensitive')) – determines the alignment sensitivity preset. Higher sensitivity will result in more accurate alignments, but will take longer to calculate. You can read more about the settings presets in the bowtie2 manual.

• ignore_qualities (bool (default=False)) – if True, bowtie2 will ignore the qualities of the reads and treat them all as maximum quality.

• quality_score_type ('phred33', 'phred64', 'solexa-quals', or 'int-quals' (default='phred33')) – determines the encoding type of the read quality scores. Most modern sequencing setups use phred+33.

• random_seed (int >=0 (default=0)) – determines the seed for pseudo-random number generator.

• threads (int > 0 (default=1)) – number of threads to run bowtie2-build on. More threads will generally make index building faster.

rnalysis.fastq.bowtie2_create_index(genome_fastas: List[Union[str, Path]], output_folder: Union[str, Path], index_name: Union[str, Literal['auto']] = 'auto', bowtie2_installation_folder: Union[str, Path, Literal['auto']] = 'auto', random_seed: Optional[NonNegativeInt] = None, threads: PositiveInt = 1)

builds a bowtie index from FASTA formatted files of target sequences (genome). The index files will be saved in the same folder as your first FASTA file, with the .bt2 suffix. Be aware that there are pre-built bowtie2 indices for popular model organisms. These can be downloaded from the bowtie2 website (from menu on the right).

Parameters

• genome_fastas (list of str or Path) – Path to the FASTA file/files which contain reference sequences to be aligned to.

• output_folder (str or Path) – Path to the folder in which the bowtie2 index files will be saved.

• index_name (str or 'auto' (default='auto')) – The basename of the index files. bowtie2 will create files named index_name.1.bt2, index_name.2.bt2, index_name.3.bt2, index_name.4.bt2, index_name.rev.1.bt2, and index_name.rev.2.bt2. if index_name=’auto’, the index name used will be the stem of the first supplied genome FASTA file (for example: if the first genome FASTA file is ‘path/to/genome.fa.gz’, the index name will be ‘genome’).

• bowtie2_installation_folder – Path to the installation folder of bowtie2. For example:

‘C:/Program Files/bowtie2-2.5.1’. if installation folder is set to ‘auto’, RNAlysis will attempt to find it automatically. :type bowtie2_installation_folder: str, Path, or ‘auto’ (default=’auto’) :param random_seed: if specified, determines the seed for pseudo-random number generator. :type random_seed: int >=0 or None (default=None) :param threads: number of threads to run bowtie2-build on. More threads will generally make index building faster. :type threads: int > 0 (default=1)

rnalysis.fastq.convert_sam_format(input_folder: Union[str, Path], output_folder: Union[str, Path], picard_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', output_format: Literal['sam', 'bam'] = 'bam')

Convert SAM files to BAM files or vice versa using Picard SamFormatConverter.

Parameters

• input_folder (str or Path) – Path to the folder containing the SAM/BAM files you want to convert.

• output_folder (str or Path) – Path to a folder in which the converted FASTQ files will be saved.

• picard_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of Picard. For example: ‘C:/Program Files/Picard’

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each converted sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the files in the directory.

• output_format ('sam' or 'bam' (default='bam')) – format to convert the files into.

rnalysis.fastq.fastq_to_sam_paired(r1_files: List[str], r2_files: List[str], output_folder: Union[str, Path], picard_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', output_format: Literal['sam', 'bam'] = 'bam', quality_score_type: Union[Literal['auto'], Literal['phred33', 'phred64', 'solexa-quals', 'int-quals']] = 'auto')

Convert SAM/BAM files to FASTQ files using Picard SamToFastq.

Parameters

• input_folder (str or Path) – Path to the folder containing the SAM/BAM files you want to convert.

• output_folder (str or Path) – Path to a folder in which the converted FASTQ files will be saved.

• picard_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of Picard. For example: ‘C:/Program Files/Picard’

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each converted sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the files in the directory.

Returns

a list of the paths to the generated FASTQ files.

Return type

list of str

rnalysis.fastq.fastq_to_sam_single(input_folder: Union[str, Path], output_folder: Union[str, Path], picard_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', output_format: Literal['sam', 'bam'] = 'bam', quality_score_type: Union[Literal['auto'], Literal['phred33', 'phred64', 'solexa-quals', 'int-quals']] = 'auto')

Convert SAM/BAM files to FASTQ files using Picard SamToFastq.

Parameters

• input_folder (str or Path) – Path to the folder containing the SAM/BAM files you want to convert.

• output_folder (str or Path) – Path to a folder in which the converted FASTQ files will be saved.

• picard_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of Picard. For example: ‘C:/Program Files/Picard’

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each converted sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the files in the directory.

Returns

a list of the paths to the generated FASTQ files.

Return type

list of str

rnalysis.fastq.featurecounts_paired_end(input_folder: Union[str, Path], output_folder: Union[str, Path], gtf_file: Union[str, Path], gtf_feature_type: str = 'exon', gtf_attr_name: str = 'gene_id', r_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', stranded: Literal['no', 'forward', 'reverse'] = 'no', min_mapping_quality: int = 0, count_multi_mapping_reads: bool = False, count_multi_overlapping_reads: bool = False, ignore_secondary: bool = True, count_fractionally: bool = False, is_long_read: bool = False, require_both_mapped: bool = True, count_chimeric_fragments: bool = False, min_fragment_length: NonNegativeInt = 50, max_fragment_length: Optional[PositiveInt] = 600, report_read_assignment: Optional[Literal['bam', 'sam', 'core']] = None, threads: PositiveInt = 1) → Tuple[CountFilter, DataFrame, DataFrame]

Assign mapped paired-end sequencing reads to specified genomic features using RSubread featureCounts. Returns a count matrix (CountFilter) containing feature counts for all input files, a DataFrame summarizing the features reads were aligned to, and a DataFrame summarizing the alignment statistics.

Parameters

• input_folder (str or Path) – Path to the folder containing the SAM/BAM files you want to quantfy.

• output_folder (str or Path) – Path to a folder in which the quantified results, as well as the log files and R script used to generate them, will be saved.

• gtf_file (str or Path) – Path to a GTF annotation file. This file will be used to map reads to features. The chromosome names in the GTF files should match the ones in the index file with which you aligned the reads.

• gtf_feature_type (str (default='exon')) – the feature type or types used to select rows in the GTF annotation which will be used for read summarization.

• gtf_attr_name (str (default='gene_id')) – the attribute type in the GTF annotation which will be used to group features (eg. exons) into meta-features (eg. genes).

• r_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of R. For example: ‘C:/Program Files/R/R-4.2.1’

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each quantified sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the file pairs.

• stranded ('no', 'forward', 'reverse' (default='no')) – Indicates the strandedness of the data. ‘no’ indicates the data is not stranded. ‘forward’ indicates the data is stranded, where the first read in the pair aligns to the forward strand of a transcript. ‘reverse’ indicates the data is stranded, where the first read in the pair aligns to the reverse strand of a transcript.

• min_mapping_quality (int >= 0 (default=0)) – the minimum mapping quality score a read must satisfy in order to be counted. For paired-end reads, at least one end should satisfy this criteria.

• count_multi_mapping_reads (bool (default=True)) – indicating if multi-mapping reads/fragments should be counted (‘NH’ tag in BAM/SAM files).

• count_multi_overlapping_reads (bool (default=False)) – indicating if a read is allowed to be assigned to more than one feature (or meta-feature) if it is found to overlap with more than one feature (or meta-feature).

• ignore_secondary (bool (default=True)) – indicating if only primary alignments should be counted. Primary and secondary alignments are identified using bit 0x100 in the Flag field of SAM/BAM files. If True, all primary alignments in a dataset will be counted no matter they are from multi-mapping reads or not.

• count_fractionally (bool (default=False)) – indicating if fractional counts are produced for multi-mapping reads and/or multi-overlapping reads.

• is_long_read (bool (default=False)) – indicating if input data contain long reads. This option should be set to True if counting Nanopore or PacBio long reads.

• report_read_assignment ('bam', 'sam', 'core', or None (default=None)) – if not None, featureCounts will generated detailed read assignment results for each read pair. These results can be saved in one of three formats: BAM, SAM, or CORE.

• require_both_mapped (bool (default=True)) – indicating if both ends from the same fragment are required to be successfully aligned before the fragment can be assigned to a feature or meta-feature.

• count_chimeric_fragments (bool(default=False)) – indicating whether a chimeric fragment, which has its two reads mapped to different chromosomes, should be counted or not.

• min_fragment_length (int >= 0 (default=50)) – The minimum fragment length for valid paired-end alignments. Read pairs with shorter fragments will not be counted.

• max_fragment_length (int > 0 or None (default=600)) – The maximum fragment length for valid paired-end alignments. Read pairs with longer fragments will not be counted.

• threads (int > 0 (default=1)) – number of threads to run bowtie2-build on. More threads will generally make index building faster.

Returns

a count matrix (CountFilter) containing feature counts for all input files, a DataFrame summarizing the features reads were aligned to, and a DataFrame summarizing the alignment statistics.

Return type

(filtering.CountFilter, pd.DataFrame, pd.DataFrame)

rnalysis.fastq.featurecounts_single_end(input_folder: Union[str, Path], output_folder: Union[str, Path], gtf_file: Union[str, Path], gtf_feature_type: str = 'exon', gtf_attr_name: str = 'gene_id', r_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', stranded: Literal['no', 'forward', 'reverse'] = 'no', min_mapping_quality: int = 0, count_multi_mapping_reads: bool = False, count_multi_overlapping_reads: bool = False, ignore_secondary: bool = True, count_fractionally: bool = False, is_long_read: bool = False, report_read_assignment: Optional[Literal['bam', 'sam', 'core']] = None, threads: PositiveInt = 1) → Tuple[CountFilter, DataFrame, DataFrame]

Assign mapped single-end sequencing reads to specified genomic features using RSubread featureCounts. Returns a count matrix (CountFilter) containing feature counts for all input files, a DataFrame summarizing the features reads were aligned to, and a DataFrame summarizing the alignment statistics.

Parameters

• input_folder (str or Path) – Path to the folder containing the SAM/BAM files you want to quantfy.

• output_folder (str or Path) – Path to a folder in which the quantified results, as well as the log files, will be saved.

• gtf_file (str or Path) – Path to a GTF annotation file. This file will be used to map reads to features. The chromosome names in the GTF files should match the ones in the index file with which you aligned the reads.

• gtf_feature_type (str (default='exon')) – the feature type or types used to select rows in the GTF annotation which will be used for read summarization.

• gtf_attr_name (str (default='gene_id')) – the attribute type in the GTF annotation which will be used to group features (eg. exons) into meta-features (eg. genes).

• r_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of R. For example: ‘C:/Program Files/R/R-4.2.1’

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each quantified sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the alphabetical order of the files in the directory.

• stranded ('no', 'forward', 'reverse' (default='no')) – Indicates the strandedness of the data. ‘no’ indicates the data is not stranded. ‘forward’ indicates the data is stranded, where the reads align to the forward strand of a transcript. ‘reverse’ indicates the data is stranded, where the reads align to the reverse strand of a transcript.

• min_mapping_quality (int >= 0 (default=0)) – the minimum mapping quality score a read must satisfy in order to be counted.

• count_multi_mapping_reads (bool (default=True)) – indicating if multi-mapping reads/fragments should be counted (‘NH’ tag in BAM/SAM files).

• count_multi_overlapping_reads (bool (default=False)) – indicating if a read is allowed to be assigned to more than one feature (or meta-feature) if it is found to overlap with more than one feature (or meta-feature).

• ignore_secondary (bool (default=True)) – indicating if only primary alignments should be counted. Primary and secondary alignments are identified using bit 0x100 in the Flag field of SAM/BAM files. If True, all primary alignments in a dataset will be counted no matter they are from multi-mapping reads or not.

• count_fractionally (bool (default=False)) – indicating if fractional counts are produced for multi-mapping reads and/or multi-overlapping reads.

• is_long_read (bool (default=False)) – indicating if input data contain long reads. This option should be set to True if counting Nanopore or PacBio long reads.

• report_read_assignment ('bam', 'sam', 'core', or None (default=None)) – if not None, featureCounts will generated detailed read assignment results for each read. These results can be saved in one of three formats: BAM, SAM, or CORE.

• threads (int > 0 (default=1)) – number of threads to run bowtie2-build on. More threads will generally make index building faster.

Returns

a count matrix (CountFilter) containing feature counts for all input files, a DataFrame summarizing the features reads were aligned to, and a DataFrame summarizing the alignment statistics.

Return type

(filtering.CountFilter, pd.DataFrame, pd.DataFrame)

rnalysis.fastq.find_duplicates(input_folder: Union[str, Path], output_folder: Union[str, Path], picard_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', output_format: Literal['sam', 'bam'] = 'bam', duplicate_handling: Literal['mark', 'remove_optical', 'remove_all'] = 'remove_all', duplicate_scoring_strategy: Literal['reference_length', 'sum_of_base_qualities', 'random'] = 'sum_of_base_qualities', optical_duplicate_pixel_distance: int = 100)

Find duplicate reads in SAM/BAM files using Picard MarkDuplicates.

Parameters

• input_folder (str or Path) – Path to the folder containing the SAM/BAM files you want to sort.

• output_folder (str or Path) – Path to a folder in which the sorted SAM/BAM files will be saved.

• picard_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of Picard. For example: ‘C:/Program Files/Picard’

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each converted sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the files in the directory.

• output_format ('sam' or 'bam' (default='bam')) – Format of the output file.

• duplicate_handling ('mark', 'remove_optical', or 'remove_all' (default='remove_all')) – How to handle detected duplicate reads. If ‘mark’, duplicate reads will be marked with a 1024 flag. If ‘remove_optical’, ‘optical’ duplicates and other duplicates that appear to have arisen from the sequencing process instead of the library preparation process will be removed. If ‘remove_all’, all duplicate reads will be removed.

• duplicate_scoring_strategy ('reference_length', 'sum_of_base_qualities', or 'random' (default='sum_of_base_qualities')) – How to score duplicate reads. If ‘reference_length’, the length of the reference sequence will be used. If ‘sum_of_base_qualities’, the sum of the base qualities will be used.

• optical_duplicate_pixel_distance (int (default=100)) – The maximum offset between two duplicate clusters in order to consider them optical duplicates. The default (100) is appropriate for unpatterned versions of the Illumina platform. For the patterned flowcell models, 2500 is moreappropriate. For other platforms and models, users should experiment to find what works best.

rnalysis.fastq.kallisto_create_index(transcriptome_fasta: Union[str, Path], kallisto_installation_folder: Union[str, Path, Literal['auto']] = 'auto', kmer_length: PositiveInt = 31, make_unique: bool = False)

builds a kallisto index from a FASTA formatted file of target sequences (transcriptome). The index file will be saved in the same folder as your FASTA file, with the .idx suffix. Be aware that there are pre-built kallisto indices for popular model organisms. These can be downloaded from the kallisto transcriptome indices site.

Parameters

• transcriptome_fasta (str or Path) – Path to the FASTA file of your desired transcriptome.

• kallisto_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of kallisto. For example: ‘C:/Program Files/kallisto’. if installation folder is set to ‘auto’, RNAlysis will attempt to find it automatically.

• kmer_length (an odd int between 1 and 31 (default=31)) – k-mer length of the index.

• make_unique (bool (default=False)) – if True, replace repeated target names with unique names.

rnalysis.fastq.kallisto_quantify_paired_end(r1_files: List[str], r2_files: List[str], output_folder: Union[str, Path], index_file: Union[str, Path], gtf_file: Union[str, Path], kallisto_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', stranded: Literal['no', 'forward', 'reverse'] = 'no', bootstrap_samples: Optional[PositiveInt] = None, **legacy_args) → CountFilter

Quantify transcript abundance in paired-end mRNA sequencing data using kallisto. The FASTQ file pairs will be individually quantified and saved in the output folder, each in its own sub-folder. Alongside these files, three .csv files will be saved: a per-transcript count estimate table, a per-transcript TPM estimate table, and a per-gene scaled output table. The per-gene scaled output table is generated using the scaledTPM method (scaling the TPM estimates up to the library size) as described by Soneson et al 2015 and used in the tximport R package. This table format is considered un-normalized for library size, and can therefore be used directly by count-based statistical inference tools such as DESeq2. RNAlysis will return this table once the analysis is finished.

Parameters

• r1_files (list of str/Path to existing FASTQ files) – a list of paths to your Read#1 files. The files should be sorted in tandem with r2_files, so that they line up to form pairs of R1 and R2 files.

• r2_files (list of str/Path to existing FASTQ files) – a list of paths to your Read#2 files. The files should be sorted in tandem with r1_files, so that they line up to form pairs of R1 and R2 files.

• output_folder (str/Path to an existing folder) – Path to a folder in which the quantified results, as well as the log files, will be saved. The individual output of each pair of FASTQ files will reside in a different sub-folder within the output folder, and a summarized results table will be saved in the output folder itself.

• index_file (str or Path) –

  Path to a pre-built kallisto index of the target transcriptome. Can either be downloaded from the kallisto transcriptome indices site, or generated manually from a FASTA file using the function kallisto_create_index.

• gtf_file (str or Path) – Path to a GTF annotation file. This file will be used to map per-transcript abundances to per-gene estimated counts. The transcript names in the GTF files should match the ones in the index file - we recommend downloading cDNA FASTA/index files and GTF files from the same data source.

• kallisto_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of kallisto. For example: ‘C:/Program Files/kallisto’. if installation folder is set to ‘auto’, RNAlysis will attempt to find it automatically.

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each quantified sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the file pairs.

• stranded ('no', 'forward', 'reverse' (default='no')) – Indicates the strandedness of the data. ‘no’ indicates the data is not stranded. ‘forward’ indicates the data is stranded, where the first read in the pair pseudoaligns to the forward strand of a transcript. ‘reverse’ indicates the data is stranded, where the first read in the pair pseudoaligns to the reverse strand of a transcript.

• learn_bias (bool (default=False)) – if True, kallisto learns parameters for a model of sequences specific bias and corrects the abundances accordlingly. Note that this feature is not supported by kallisto versions beyond 0.48.0.

• seek_fusion_genes (bool (default=False)) – if True, does normal quantification, but additionally looks for reads that do not pseudoalign because they are potentially from fusion genes. All output is written to the file fusion.txt in the output folder. Note that this feature is not supported by kallisto versions beyond 0.48.0.

• bootstrap_samples (int >0 or None (default=None)) – Number of bootstrap samples to be generated. Bootstrap samples do not affect the estimated count values, but generates an additional .hdf5 output file which contains uncertainty estimates for the expression levels. This is required if you use tools such as Sleuth for downstream differential expression analysis, but not for more traditional tools such as DESeq2 and edgeR.

rnalysis.fastq.kallisto_quantify_single_end(fastq_folder: Union[str, Path], output_folder: Union[str, Path], index_file: Union[str, Path], gtf_file: Union[str, Path], average_fragment_length: float, stdev_fragment_length: float, kallisto_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', stranded: Literal['no', 'forward', 'reverse'] = 'no', bootstrap_samples: Optional[PositiveInt] = None, **legacy_args) → CountFilter

Quantify transcript abundance in single-end mRNA sequencing data using kallisto. The FASTQ files will be individually quantified and saved in the output folder, each in its own sub-folder. Alongside these files, three .csv files will be saved: a per-transcript count estimate table, a per-transcript TPM estimate table, and a per-gene scaled output table. The per-gene scaled output table is generated using the scaledTPM method (scaling the TPM estimates up to the library size) as described by Soneson et al 2015 and used in the tximport R package. This table format is considered un-normalized for library size, and can therefore be used directly by count-based statistical inference tools such as DESeq2. RNAlysis will return this table once the analysis is finished.

Parameters

• fastq_folder (str or Path) – Path to the folder containing the FASTQ files you want to quantify

• output_folder (str/Path to an existing folder) – Path to a folder in which the quantified results, as well as the log files, will be saved. The individual output of each pair of FASTQ files will reside in a different sub-folder within the output folder, and a summarized results table will be saved in the output folder itself.

• index_file (str or Path) –

  Path to a pre-built kallisto index of the target transcriptome. Can either be downloaded from the kallisto transcriptome indices site, or generated manually from a FASTA file using the function kallisto_create_index.

• gtf_file (str or Path) – Path to a GTF annotation file. This file will be used to map per-transcript abundances to per-gene estimated counts. The transcript names in the GTF files should match the ones in the index file - we recommend downloading cDNA FASTA/index files and GTF files from the same data source.

• average_fragment_length (float > 0) – Estimated average fragment length. Typical Illumina libraries produce fragment lengths ranging from 180–200bp, but it’s best to determine this from a library quantification with an instrument such as an Agilent Bioanalyzer.

• stdev_fragment_length (float > 0) – Estimated standard deviation of fragment length. Typical Illumina libraries produce fragment lengths ranging from 180–200bp, but it’s best to determine this from a library quantification with an instrument such as an Agilent Bioanalyzer.

• kallisto_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of kallisto. For example: ‘C:/Program Files/kallisto’. if installation folder is set to ‘auto’, RNAlysis will attempt to find it automatically.

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each quantified sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the file pairs.

• stranded ('no', 'forward', 'reverse' (default='no')) – Indicates the strandedness of the data. ‘no’ indicates the data is not stranded. ‘forward’ indicates the data is stranded, where the first read in the pair pseudoaligns to the forward strand of a transcript. ‘reverse’ indicates the data is stranded, where the first read in the pair pseudoaligns to the reverse strand of a transcript.

• learn_bias (bool (default=False)) – if True, kallisto learns parameters for a model of sequences specific bias and corrects the abundances accordlingly. Note that this feature is not supported by kallisto versions beyond 0.48.0.

• seek_fusion_genes (bool (default=False)) – if True, does normal quantification, but additionally looks for reads that do not pseudoalign because they are potentially from fusion genes. All output is written to the file fusion.txt in the output folder. Note that this feature is not supported by kallisto versions beyond 0.48.0.

• bootstrap_samples (int >0 or None (default=None)) – Number of bootstrap samples to be generated. Bootstrap samples do not affect the estimated count values, but generates an additional .hdf5 output file which contains uncertainty estimates for the expression levels. This is required if you use tools such as Sleuth for downstream differential expression analysis, but not for more traditional tools such as DESeq2 and edgeR.

rnalysis.fastq.sam_to_fastq_paired(input_folder: Union[str, Path], output_folder: Union[str, Path], picard_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', re_reverse_reads: bool = True, include_non_primary_alignments: bool = False, quality_trim: Optional[PositiveInt] = None, return_new_filenames: bool = False)

Convert SAM/BAM files to FASTQ files using Picard SamToFastq.

Parameters

• input_folder (str or Path) – Path to the folder containing the SAM/BAM files you want to convert.

• output_folder (str or Path) – Path to a folder in which the converted FASTQ files will be saved.

• picard_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of Picard. For example: ‘C:/Program Files/Picard’

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each converted sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the files in the directory.

before writing them to FASTQ. :type re_reverse_reads: bool (default=True) :param include_non_primary_alignments: If true, include non-primary alignments in the output. Support of non-primary alignments in SamToFastq is not comprehensive, so there may be exceptions if this is set to true and there are paired reads with non-primary alignments. :type include_non_primary_alignments: bool (default=False) :param quality_trim: If enabled, End-trim reads using the phred/bwa quality trimming algorithm and this quality. :type quality_trim: positive int or None (default=None) :return: a list of the paths to the generated FASTQ files. :return: a list of the paths to the generated FASTQ files. :rtype: list of str

rnalysis.fastq.sam_to_fastq_single(input_folder: Union[str, Path], output_folder: Union[str, Path], picard_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', re_reverse_reads: bool = True, include_non_primary_alignments: bool = False, quality_trim: Optional[PositiveInt] = None)

Convert SAM/BAM files to FASTQ files using Picard SamToFastq.

Parameters

• input_folder (str or Path) – Path to the folder containing the SAM/BAM files you want to convert.

• output_folder (str or Path) – Path to a folder in which the converted FASTQ files will be saved.

• picard_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of Picard. For example: ‘C:/Program Files/Picard’

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each converted sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the files in the directory.

• re_reverse_reads (bool (default=True)) – Re-reverse bases and qualities of reads with the negative-strand flag before writing them to FASTQ.

• include_non_primary_alignments (bool (default=False)) – If true, include non-primary alignments in the output. Support of non-primary alignments in SamToFastq is not comprehensive, so there may be exceptions if this is set to true and there are paired reads with non-primary alignments.

• quality_trim (positive int or None (default=None)) – If enabled, End-trim reads using the phred/bwa quality trimming algorithm and this quality.

Returns

a list of the paths to the generated FASTQ files.

Return type

list of str

rnalysis.fastq.shortstack_align_smallrna(fastq_folder: Union[str, Path], output_folder: Union[str, Path], genome_fasta: Union[str, Path], shortstack_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', known_rnas: Optional[Union[str, Path]] = None, trim_adapter: Optional[Union[str, Literal['autotrim']]] = None, autotrim_key: str = 'TCGGACCAGGCTTCATTCCCC', multimap_mode: Literal['fractional', 'unique', 'random'] = 'fractional', align_only: bool = False, show_secondary_alignments: bool = False, dicer_min_length: PositiveInt = 21, dicer_max_length: PositiveInt = 24, loci_file: Optional[Union[str, Path]] = None, locus: Optional[str] = None, search_microrna: Union[None, Literal['de-novo', 'known-rnas']] = 'known-rnas', strand_cutoff: Fraction = 0.8, min_coverage: float = 2, pad: PositiveInt = 75, threads: PositiveInt = 1)

Align small RNA single-end reads from FASTQ files to a reference sequence using the ShortStack aligner (version 4). ShortStack is currently not supported on computers running Windows.

Parameters

• fastq_folder (str or Path) – Path to the folder containing the FASTQ files you want to quantify

• output_folder (str/Path to an existing folder) – Path to a folder in which the aligned reads, as well as the log files, will be saved.

• genome_fasta (str or Path) – Path to the FASTA file which contain the reference sequences to be aligned to.

• shortstack_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of ShortStack. For example: ‘/home/myuser/anaconda3/envs/myenv/bin’. if installation folder is set to ‘auto’, RNAlysis will attempt to find it automatically.

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each quantified sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the file pairs.

• known_rnas (str, Path, or None (default=None)) – Path to FASTA-formatted file of known small RNAs. FASTA must be formatted such that a single RNA sequence is on one line only. ATCGUatcgu characters are acceptable. These RNAs are typically the sequences of known microRNAs. For instance, a FASTA file of mature miRNAs pulled from https://www.mirbase.org. Providing these data increases the accuracy of MIRNA locus identification.

• trim_adapter (str, 'autotrim', or None (default=None)) – Determines whether ShortStack will attempt to trim the supplied reads. If trim_adapter is not provided (default), no trimming will be run. If trim_adapter is set to ‘autotrim’, ShortStack will automatically infer the 3’ adapter sequence of the untrimmed reads, and the uses that to coordinate read trimming. If trim_adapter is a DNA sequence, ShortStack will trim the reads using the given DNA sequence as the 3’ adapter.

• autotrim_key (str (default="TCGGACCAGGCTTCATTCCCC" (miR166))) – A DNA sequence to use as a known suffix during the autotrim procedure. This parameter is used only if trim_adapter is set to ‘autotrim’. ShortStack’s autotrim discovers the 3’ adapter by scanning for reads that begin with the sequence given by autotrim_key. This should be the sequence of a small RNA that is known to be highly abundant in all the libraries. The default sequence is for miR166, a microRNA that is present in nearly all plants at high levels. For non-plant experiments, or if the default is not working well, consider providing an alternative to the default.

• multimap_mode ('fractional', 'unique', or 'random' (default='fractional')) – Sets the mode by which multi-mapped reads are handled. These modes are described in Johnson et al. (2016). The default mode (‘fractional’) has the best performance. In ‘fractional’ mode, ShortStack will use a fractional weighting scheme for placement of multi-mapped reads. In ‘unique’ mode, only uniquely-aligned reads are used as weights for placement of multi-mapped reads. In ‘random’ mode, multi-mapped read placement is random.

• align_only (bool (default=False)) – if True, ShortStack will terminate after the alignment phase; no additional analysis will occur.

• show_secondary_alignments (bool (default=False)) – if True, ShortStack will retain secondary alignments for multimapped reads. This will increase bam file size, possibly by a lot.

• dicer_min_length (positive int (default=21)) – the minimum size (in nucleotides) of a valid small RNA. Together with dicer_max_length, this option sets the bounds to discriminate Dicer-derived small RNA loci from other loci. At least 80% of the reads in a given cluster must be in the range indicated by dicer_min_length and dicer_max_length.

• dicer_max_length (positive int (default=24)) – the maximun size (in nucleotides) of a valid small RNA. Together with dicer_min_length, this option sets the bounds to discriminate Dicer-derived small RNA loci from other loci. At least 80% of the reads in a given cluster must be in the range indicated by dicer_min_length and dicer_max_length.

• loci_file (str, Path, or None (default=None)) – Path to a file of pre-determined loci to analyze. This will prevent de-novo discovery of small RNA loci. The file may be in gff3, bed, or simple tab-delimited format (Chr:Start-Stop[tab]Name). Mutually exclusive with locus.

• locus (str or None (default=None)) – A single locus to analyze, given as a string in the format Chr:Start-Stop (using one-based, inclusive numbering). This will prevent de novo discovery of small RNA loci. Mutually exclusive with loci_file.

• search_microrna ('de-novo', 'known-rnas', or None (default='known-rnas')) – determines whether and how search for microRNAs will be performed. if search_microrna is None, ShortStack will not search for microRNAs. This saves computational time, but MIRNA loci will not be differentiated from other types of small RNA clusters. if search_microrna is ‘known-rnas’, t ShortStack will confine MIRNA analysis to loci where one or more queries from the known_rnas file are aligned to the genome. if search_microrna is ‘de-novo’, ShortStack will run a more comprehensive genome-wide scan for MIRNA loci. Discovered loci that do not overlap already known microRNAs should be treated with caution.

• strand_cutoff (float between 0.5 and 1 (default=0.8)) – Floating point number that sets the cutoff for standedness. By default (strand_cutoff=0.8), loci with >80% reads on the top genomic strand are ‘+’ stranded, loci with <20% reads on the top genomic strand are ‘-’ stranded, and all others are unstranded ‘.’.

• min_coverage (float > 0 (default=2)) – Minimum alignment depth, in units of ‘reads per million’, required to nucleate a small RNA cluster during de-novo cluster search.

• pad (positive int (default=75)) – initial peaks (continuous regions with depth exceeding the argument min_coverage) are merged if they are this distance or less from each other.

• threads (int > 0 (default=1)) – number of threads to run ShortStack on. More threads will generally make index building faster.

rnalysis.fastq.sort_sam(input_folder: Union[str, Path], output_folder: Union[str, Path], picard_installation_folder: Union[str, Path, Literal['auto']] = 'auto', new_sample_names: Union[List[str], Literal['auto']] = 'auto', sort_order: Literal['coordinate', 'queryname', 'duplicate'] = 'coordinate')

Sort SAM/BAM files using Picard SortSam.

Parameters

• input_folder (str or Path) – Path to the folder containing the SAM/BAM files you want to sort.

• output_folder (str or Path) – Path to a folder in which the sorted SAM/BAM files will be saved.

• picard_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of Picard. For example: ‘C:/Program Files/Picard’

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each converted sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the files in the directory.

• sort_order ('coordinate', 'queryname', or 'duplicate' (default='coordinate')) – The order in which the alignments should be sorted.

rnalysis.fastq.trim_adapters_paired_end(r1_files: List[Union[str, Path]], r2_files: List[Union[str, Path]], output_folder: Union[str, Path], three_prime_adapters_r1: Union[None, str, List[str]], three_prime_adapters_r2: Union[None, str, List[str]], five_prime_adapters_r1: Union[None, str, List[str]] = None, five_prime_adapters_r2: Union[None, str, List[str]] = None, any_position_adapters_r1: Union[None, str, List[str]] = None, any_position_adapters_r2: Union[None, str, List[str]] = None, new_sample_names: Union[List[str], Literal['auto']] = 'auto', quality_trimming: Optional[NonNegativeInt] = 20, trim_n: bool = True, minimum_read_length: NonNegativeInt = 10, maximum_read_length: Optional[PositiveInt] = None, discard_untrimmed_reads: bool = True, pair_filter_if: Literal['both', 'any', 'first'] = 'both', error_tolerance: Fraction = 0.1, minimum_overlap: NonNegativeInt = 3, allow_indels: bool = True, parallel: bool = True, gzip_output: bool = False, return_new_filenames: bool = False)

Trim adapters from paired-end reads using CutAdapt.

Parameters

• r1_files (list of str/Path to existing FASTQ files) – a list of paths to your Read#1 files. The files should be sorted in tandem with r2_files, so that they line up to form pairs of R1 and R2 files.

• r2_files (list of str/Path to existing FASTQ files) – a list of paths to your Read#2 files. The files should be sorted in tandem with r1_files, so that they line up to form pairs of R1 and R2 files.

• output_folder (str/Path to an existing folder) – Path to a folder in which the trimmed FASTQ files, as well as the log files, will be saved.

• three_prime_adapters_r1 (str, list of str, or None) – the sequence of the adapter/adapters to trim from the 3’ end of the reads in Read#1 files.

• three_prime_adapters_r2 (str, list of str, or None) – the sequence of the adapter/adapters to trim from the 3’ end of the reads in Read#2 files.

• five_prime_adapters_r1 (str, list of str, or None (default=None)) – the sequence of the adapter/adapters to trim from the 5’ end of the reads in Read#1 files.

• five_prime_adapters_r2 (str, list of str, or None (default=None)) – the sequence of the adapter/adapters to trim from the 5’ end of the reads in Read#2 files.

• any_position_adapters_r1 (str, list of str, or None (default=None)) – the sequence of the adapter/adapters to trim from either end (or the middle) of the reads in Read#1 files.

• any_position_adapters_r2 (str, list of str, or None (default=None)) – the sequence of the adapter/adapters to trim from either end (or the middle) of the reads in Read#2 files.

• quality_trimming (int or None (default=20)) – if specified, trim low-quality 3’ end from the reads. Any bases with quality score below the specified value will be trimmed from the 3’ end of the read.

• trim_n (bool (default=True)) – if True, removem flanking N bases from each read. For example, a read with the sequence ‘NNACGTACGTNNNN’ will be trimmed down to ‘ACGTACGT’. This occurs after adapter trimming.

• minimum_read_length (int or None (default=10)) – if specified (default), discard processed reads that are shorter than minimum_read_length.

• maximum_read_length (int or None (default=None)) – if specified, discard processed reads that are shorter than minimum_read_length.

• discard_untrimmed_reads (bool (default=True)) – if True, discards reads in which no adapter was found.

• pair_filter_if ('both', 'any', or 'first' (default='both')) – Cutadapt always discards both reads of a pair if it determines that the pair should be discarded. This parameter determines how to combine the filters for Read#1 and Read#2 into a single decision about the read pair. When the value is ‘both’, you require that filtering criteria must apply to both reads in order for a read pair to be discarded. When the value is ‘any’, you require that at least one of the reads (R1 or R2) fulfills the filtering criterion in order to discard them. When the value is ‘first’, only the first read in each pair determines whether to discard the pair or not.

• error_tolerance (float between 0 and 1 (default=0.1)) – The level of error tolerance permitted when searching for adapters, with the lowest value being 0 (no error tolerance) and the maximum being 1 (100% error tolerance). Allowed errors are mismatches, insertions and deletions.

• minimum_overlap (int >= 0 (default=3)) – the minimum number of nucleotides that must match exactly to the adapter sequence in order to trim it.

• allow_indels (bool (default=True)) – if False, insertions and deletions in the adapter sequence are not allowed - only mismatches.

• parallel (bool (default=True)) – if True, runs CutAdapt on all available cores in parallel. Otherwise, run CutAdapt on a single processor only.

• gzip_output (bool (default=False)) – if True, gzips the output FASTQ files.

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each trimmed sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the file pairs.

rnalysis.fastq.trim_adapters_single_end(fastq_folder: Union[str, Path], output_folder: Union[str, Path], three_prime_adapters: Union[None, str, List[str]], five_prime_adapters: Union[None, str, List[str]] = None, any_position_adapters: Union[None, str, List[str]] = None, new_sample_names: Union[List[str], Literal['auto']] = 'auto', quality_trimming: Optional[NonNegativeInt] = 20, trim_n: bool = True, minimum_read_length: NonNegativeInt = 10, maximum_read_length: Optional[PositiveInt] = None, discard_untrimmed_reads: bool = True, error_tolerance: Fraction = 0.1, minimum_overlap: NonNegativeInt = 3, allow_indels: bool = True, parallel: bool = True, gzip_output: bool = False)

Trim adapters from single-end reads using CutAdapt.

Parameters

• fastq_folder (str/Path to an existing folder) – Path to the folder containing your untrimmed FASTQ files

• output_folder (str/Path to an existing folder) – Path to a folder in which the trimmed FASTQ files, as well as the log files, will be saved.

• three_prime_adapters (str, list of str, or None) – the sequence of the adapter/adapters to trim from the 3’ end of the reads.

• five_prime_adapters (str, list of str, or None (default=None)) – the sequence of the adapter/adapters to trim from the 5’ end of the reads.

• any_position_adapters (str, list of str, or None (default=None)) – the sequence of the adapter/adapters to trim from either end (or from the middle) of the reads.

• quality_trimming (int or None (default=20)) – if specified, trim low-quality 3’ end from the reads. Any bases with quality score below the specified value will be trimmed from the 3’ end of the read.

• trim_n (bool (default=True)) – if True, removem flanking N bases from each read. For example, a read with the sequence ‘NNACGTACGTNNNN’ will be trimmed down to ‘ACGTACGT’. This occurs after adapter trimming.

• minimum_read_length (int or None (default=10)) – if specified (default), discard processed reads that are shorter than minimum_read_length.

• maximum_read_length (int or None (default=None)) – if specified, discard processed reads that are shorter than minimum_read_length.

• discard_untrimmed_reads (bool (default=True)) – if True, discards reads in which no adapter was found.

• error_tolerance (float between 0 and 1 (default=0.1)) – The level of error tolerance permitted when searching for adapters, with the lowest value being 0 (no error tolerance) and the maximum being 1 (100% error tolerance). Allowed errors are mismatches, insertions and deletions.

• minimum_overlap (int >= 0 (default=3)) – the minimum number of nucleotides that must match exactly to the adapter sequence in order to trim it.

• allow_indels (bool (default=True)) – if False, insertions and deletions in the adapter sequence are not allowed - only mismatches.

• parallel (bool (default=True)) – if True, runs CutAdapt on all available cores in parallel. Otherwise, run CutAdapt on a single processor only.

• gzip_output (bool (default=False)) – if True, gzips the output FASTQ files.

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each trimmed sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the alphabetical order of the input files.

rnalysis.fastq.validate_sam(input_folder: Union[str, Path], output_folder: Union[str, Path], picard_installation_folder: Union[str, Path, Literal['auto']] = 'auto', verbose: bool = True, is_bisulfite_sequenced: bool = False)

Validate SAM/BAM files using Picard ValidateSamFile.

Parameters

• input_folder (str or Path) – Path to the folder containing the SAM/BAM files you want to validate.

• output_folder (str or Path) – Path to a folder in which the validation reports will be saved.

• picard_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of Picard. For example: ‘C:/Program Files/Picard’

• new_sample_names (list of str or 'auto' (default='auto')) – Give a new name to each converted sample (optional). If sample_names=’auto’, sample names will be given automatically. Otherwise, sample_names should be a list of new names, with the order of the names matching the order of the files in the directory.

• verbose (bool (default=True)) – If True, the validation report will be verbose. If False, the validation report will be a summary.

• is_bisulfite_sequenced (bool (default=False)) – Indicates whether the SAM/BAM file consists of bisulfite sequenced reads. If so, C->T is not counted as en error in computer the value of the NM tag.

Returns

a list of the paths to the generated FASTQ files.

Return type

list of str

rnalysis.filtering module

This module can filter, normalize, intersect and visualize tabular data such as read counts and differential expression data. Any tabular data saved in a csv format can be imported. Use this module to perform various filtering operations on your data, normalize your data, perform set operations (union, intersection, etc), run basic exploratory analyses and plots (such as PCA, clustergram, violin plots, scatter, etc), save the filtered data to your computer, and more. When you save filtered/modified data, its new file name will include by default all of the operations performed on it, in the order they were performed, to allow easy traceback of your analyses.

class rnalysis.filtering.CountFilter(fname: Union[str, Path, tuple], drop_columns: Union[str, List[str]] = None, is_normalized: bool = False)

Bases: Filter

A class that receives a count matrix and can filter it according to various characteristics.

Attributes

df: pandas DataFrame

A DataFrame that contains the count matrix contents. The DataFrame is modified upon usage of filter operations.

shape: tuple (rows, columns)

The dimensions of df.

columns: list

The columns of df.

fname: pathlib.Path

The path and filename for the purpose of saving df as a csv file. Updates automatically when filter operations are applied.

index_set: set

All of the indices in the current DataFrame (which were not removed by previously used filter methods) as a set.

index_string: string

A string of all feature indices in the current DataFrame separated by newline.

triplicates: list

Returns a nested list of the column names in the CountFilter, grouped by alphabetical order into triplicates. For example, if counts.columns is [‘A_rep1’,’A_rep2’,’A_rep3’,’B_rep1’,’B_rep2’,_B_rep3’], then counts.triplicates will be [[‘A_rep1’,’A_rep2’,’A_rep3’],[‘B_rep1’,’B_rep2’,_B_rep3’]]

_avg_subsamples(sample_grouping: GroupedColumns, function: Literal['mean', 'median', 'geometric_mean'] = 'mean', new_column_names: Union[Literal['auto'], List[str]] = 'auto')

Avarages subsamples/replicates according to the specified sample list. Every member in the sample list should be either a name of a single sample (str), or a list of multiple sample names to be averaged (list).

Parameters

sample_grouping – A list of the sample names and/or grouped sample names passed by the user. All specified samples must be present in the CountFilter object. To average multiple replicates of the same condition, they can be grouped in an inner list. Example input: [[‘SAMPLE1A’, ‘SAMPLE1B’, ‘SAMPLE1C’], [‘SAMPLE2A’, ‘SAMPLE2B’, ‘SAMPLE2C’],’SAMPLE3’ , ‘SAMPLE6’] and the resulting output will be a DataFrame containing the following columns: [‘SAMPLE1’, ‘SAMPLE2’, ‘SAMPLE3’, ‘SAMPLE6’]

Returns

a pandas DataFrame containing samples/averaged subsamples according to the specified sample_list.

static _from_string(msg: str = '', delimiter: str = '\n')

Takes a manual string input from the user, and then splits it using a delimiter into a list of values.

param msg

a promprt to be printed to the user

param delimiter

the delimiter used to separate the values. Default is ‘

‘

return

A list of the comma-seperated values the user inserted.

_inplace(new_df: DataFrame, opposite: bool, inplace: bool, suffix: str, printout_operation: str = 'filter', **filter_update_kwargs)

Executes the user’s choice whether to filter in-place or create a new instance of the Filter object.

Parameters

• new_df (pd.DataFrame) – the post-filtering DataFrame

• opposite (bool) – Determines whether to return the filtration ,or its opposite.

• inplace (bool) – Determines whether to filter in-place or not.

• suffix (str) – The suffix to be added to the filename

Returns

If inplace is False, returns a new instance of the Filter object.

_is_normalized

indicates whether the values in this CountFilter were normalized

property _numeric_columns: list

Returns a list of the numeric (int/float) columns in the DataFrame.

static _pca_plot(final_df: DataFrame, pc1_var: float, pc2_var: float, sample_grouping: GroupedColumns, labels: bool, title: str, title_fontsize: float, label_fontsize: float, tick_fontsize: float, proportional_axes: bool, plot_grid: bool, legend: Optional[List[str]]) → Figure

Internal method, used to plot the results from CountFilter.pca().

Parameters

• final_df – The DataFrame output from pca

• pc1_var – Variance explained by the first PC.

• pc2_var – Variance explained by the second PC.

• sample_grouping – A list of the sample names and/or grouped sample names to be plotted. All specified samples must be present in the DataFrame object. To draw multiple replicates of the same condition in the same color, they can be grouped in an inner list. Example input: [[‘SAMPLE1A’, ‘SAMPLE1B’, ‘SAMPLE1C’], [‘SAMPLE2A’, ‘SAMPLE2B’, ‘SAMPLE2C’],’SAMPLE3’ , ‘SAMPLE6’]

Returns

an axis object containing the PCA plot.

_set_ops(others, return_type: Literal['set', 'str'], op: Any, **kwargs)

Apply the supplied set operation (union/intersection/difference/symmetric difference) to the supplied objects.

Parameters

• others (Filter or set objects.) – the other objects to apply the set operation to

• return_type ('set' or 'str') – the return type of the output

• op (function (set.union, set.intersection, set.difference or set.symmetric_difference)) – the set operation

• kwargs – any additional keyworded arguments to be supplied to the set operation.

Returns

a set/string of indices resulting from the set operation

Return type

set or str

_sort(by: Union[str, List[str]], ascending: Union[bool, List[bool]] = True, na_position: str = 'last', inplace: bool = True)

Sort the rows by the values of specified column or columns.

Parameters

• by (str or list of str) – Names of the column or columns to sort by.

• ascending (bool or list of bool, default True) – Sort ascending vs. descending. Specify list for multiple sort orders. If this is a list of bools, it must have the same length as ‘by’.

• na_position ('first' or 'last', default 'last') – If ‘first’, puts NaNs at the beginning; if ‘last’, puts NaNs at the end.

• inplace (bool, default True) – If True, perform operation in-place. Otherwise, returns a sorted copy of the Filter object without modifying the original.

Returns

None if inplace=True, a sorted Filter object otherwise.

average_replicate_samples(sample_grouping: GroupedColumns, new_column_names: Union[Literal['auto'], List[str]] = 'auto', function: Literal['mean', 'median', 'geometric_mean'] = 'mean', inplace: bool = True) → CountFilter

Average the expression values of gene expression for each group of replicate samples. Each group of samples (e.g. biological/technical replicates)

Parameters

• sample_grouping (nested list of column names) – grouping of the samples into conditions. Each grouping should containg all replicates of the same condition. Each condition will be averaged separately.

• new_column_names (list of str or 'auto' (default='auto') – names to be given to the columns in the new count matrix. Each new name should match a group of samples to be averaged. If `new_column_names`=’auto’, names will be generated automatically.

• function ('mean', 'median', or 'geometric_mean' (default='mean')) – the function which will be used to average the values within each group.

• inplace (bool (default=True)) – If True (default), averaging will be applied to the current CountFilter object. If False, the function will return a new CountFilter instance and the current instance will not be affected.

biotypes_from_gtf(gtf_path: Union[str, Path], attribute_name: Union[Literal['biotype', 'gene_biotype', 'transcript_biotype', 'gene_type', 'transcript_type'], str] = 'gene_biotype', feature_type: Literal['gene', 'transcript'] = 'gene', long_format: bool = False) → DataFrame

Returns a DataFrame describing the biotypes in the table and their count. The data about feature biotypes is drawn from a GTF (Gene transfer format) file supplied by the user.

Parameters

• gtf_path (str or Path) – Path to your GTF (Gene transfer format) file. The file should match the type of gene names/IDs you use in your table, and should contain an attribute describing biotype.

• attribute_name (str (default='gene_biotype')) – name of the attribute in your GTF file that describes feature biotype.

• feature_type ('gene' or 'transcript' (default='gene')) – determined whether the features/rows in your data table describe individual genes or transcripts.

:param long_format:if True, returns a short-form DataFrame, which states the biotypes in the Filter object and their count. Otherwise, returns a long-form DataFrame, which also provides descriptive statistics of each column per biotype. :rtype: pandas.DataFrame :returns: a pandas DataFrame showing the number of values belonging to each biotype, as well as additional descriptive statistics of format==’long’.

biotypes_from_ref_table(long_format: bool = False, ref: Union[str, Path, Literal['predefined']] = 'predefined') → DataFrame

Returns a DataFrame describing the biotypes in the table and their count. The data about feature biotypes is drawn from a Biotype Reference Table supplied by the user.

:param long_format:if True, returns a short-form DataFrame, which states the biotypes in the Filter object and their count. Otherwise, returns a long-form DataFrame, which also provides descriptive statistics of each column per biotype. :param ref: Name of the biotype reference table used to determine biotype. Default is ce11 (included in the package). :rtype: pandas.DataFrame :returns: a pandas DataFrame showing the number of values belonging to each biotype, as well as additional descriptive statistics of format==’long’.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> # short-form view
>>> d.biotypes_from_ref_table(ref='tests/biotype_ref_table_for_tests.csv')
                gene
biotype
protein_coding    26
pseudogene         1
unknown            1

>>> # long-form view
>>> d.biotypes_from_ref_table(long_format=True,ref='tests/biotype_ref_table_for_tests.csv')
               baseMean               ...           padj
                  count         mean  ...            75%            max
biotype                               ...
protein_coding     26.0  1823.089609  ...   1.005060e-90   9.290000e-68
pseudogene          1.0  2688.043701  ...   1.800000e-94   1.800000e-94
unknown             1.0  2085.995094  ...  3.070000e-152  3.070000e-152

[3 rows x 48 columns]

box_plot(samples: Union[GroupedColumns, Literal['all']] = 'all', notch: bool = True, scatter: bool = False, ylabel: str = 'log10(Normalized reads + 1)', title: Union[str, Literal['auto']] = 'auto', title_fontsize: float = 20, label_fontsize: float = 16, tick_fontsize: float = 12) → Figure

Generates a box plot of the specified samples in the CountFilter object in log10 scale. Can plot both single samples and average multiple replicates. It is recommended to use this function on normalized values and not on absolute read values. The box indicates 25% and 75% percentiles, and the white dot indicates the median.

Parameters

• samples ('all' or list.) – A list of the sample names and/or grouped sample names to be plotted. All specified samples must be present in the CountFilter object. To average multiple replicates of the same condition, they can be grouped in an inner list. Example input: [[‘SAMPLE1A’, ‘SAMPLE1B’, ‘SAMPLE1C’], [‘SAMPLE2A’, ‘SAMPLE2B’, ‘SAMPLE2C’],’SAMPLE3’ , ‘SAMPLE6’]

• notch (bool (default=True)) – if True, adds a confidence-interval notch to the box-plot.

• scatter (bool (default=False)) – if True, adds a scatter-plot on top of the box-plot.

• ylabel (str (default='Log10(Normalized reads + 1)')) – the label of the Y axis.

• title (str or 'auto' (default='auto')) – The title of the plot. If ‘auto’, a title will be generated automatically.

• title_fontsize (float (default=30)) – determines the font size of the graph title.

• label_fontsize (float (default=15) :param tick_fontsize: determines the font size of the X and Y tick labels.) – determines the font size of the X and Y axis labels.

Return type

a matplotlib Figure.

Example plot of box_plot(add_scatter=True)

clustergram(sample_names: Union[ColumnNames, Literal['all']] = 'all', metric: str = 'Euclidean', linkage: Literal['Single', 'Average', 'Complete', 'Ward', 'Weighted', 'Centroid', 'Median'] = 'Average', title: Union[str, Literal['auto']] = 'auto', title_fontsize: float = 20, tick_fontsize: float = 12, colormap: ColorMap = 'inferno', colormap_label: str = '$\\log_2$(Normalized reads + 1)') → Figure

Performs hierarchical clustering and plots a clustergram on the base-2 log of a given set of samples.

Parameters

• sample_names ('all' or list.) – the names of the relevant samples in a list. Example input: [“condition1_rep1”, “condition1_rep2”, “condition1_rep3”, “condition2_rep1”, “condition3_rep1”, “condition3_rep2”]

• metric ('Euclidean', 'hamming', 'correlation', or any other distance metric available in scipy.spatial.distance.pdist) – the distance metric to use in the clustergram. For all possible inputs and their meaning see scipy.spatial.distance.pdist documentation online.

• linkage ('single', 'average', 'complete', 'weighted', 'centroid', 'median' or 'ward'.) – the linkage method to use in the clustergram. For all possible inputs and their meaning see scipy.cluster.hierarchy.linkage documentation online.

• title (str or 'auto' (default='auto')) – The title of the plot. If ‘auto’, a title will be generated automatically.

• title_fontsize (float (default=30)) – determines the font size of the graph title.

• tick_fontsize (float (default=10)) – determines the font size of the X and Y tick labels.

Return type

A matplotlib Figure.

Example plot of clustergram()

property columns: list

The columns of df.

Returns

a list of the columns in the Filter object.

Return type

list

describe(percentiles: Union[float, List[float]] = (0.01, 0.25, 0.5, 0.75, 0.99)) → DataFrame

Generate descriptive statistics that summarize the central tendency, dispersion and shape of the dataset’s distribution, excluding NaN values. For more information see the documentation of pandas.DataFrame.describe.

Parameters

percentiles (list-like of floats (default=(0.01, 0.25, 0.5, 0.75, 0.99))) – The percentiles to include in the output. All should fall between 0 and 1. The default is [.25, .5, .75], which returns the 25th, 50th, and 75th percentiles.

Returns

Summary statistics of the dataset.

Return type

Series or DataFrame

Examples

>>> from rnalysis import filtering
>>> import numpy as np
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.describe()
              cond1         cond2         cond3         cond4
count     22.000000     22.000000     22.000000     22.000000
mean    2515.590909   2209.227273   4230.227273   3099.818182
std     4820.512674   4134.948493   7635.832664   5520.394522
min        0.000000      0.000000      0.000000      0.000000
1%         0.000000      0.000000      0.000000      0.000000
25%        6.000000      6.250000      1.250000      0.250000
50%       57.500000     52.500000     23.500000     21.000000
75%     2637.000000   2479.000000   6030.500000   4669.750000
99%    15054.950000  12714.290000  21955.390000  15603.510000
max    15056.000000  12746.000000  22027.000000  15639.000000

>>> # show the deciles (10%, 20%, 30%... 90%) of the columns
>>> counts.describe(percentiles=np.arange(0.1, 1, 0.1))
              cond1         cond2         cond3         cond4
count     22.000000     22.000000     22.000000     22.000000
mean    2515.590909   2209.227273   4230.227273   3099.818182
std     4820.512674   4134.948493   7635.832664   5520.394522
min        0.000000      0.000000      0.000000      0.000000
10%        0.000000      0.200000      0.000000      0.000000
20%        1.400000      3.200000      1.000000      0.000000
30%       15.000000     15.700000      2.600000      1.000000
40%       28.400000     26.800000     14.000000      9.000000
50%       57.500000     52.500000     23.500000     21.000000
60%       82.000000    106.800000     44.000000     33.000000
70%      484.200000    395.500000    305.000000    302.500000
80%     3398.600000   3172.600000   7981.400000   6213.000000
90%     8722.100000   7941.800000  16449.500000  12129.900000
max    15056.000000  12746.000000  22027.000000  15639.000000

df

difference(*others: Union[Filter, set], return_type: Literal['set', 'str'] = 'set', inplace: bool = False)

Keep only the features that exist in the first Filter object/set but NOT in the others. Can be done inplace on the first Filter object, or return a set/string of features.

Parameters

• others (Filter or set objects.) – Objects to calculate difference with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the features that exist only in the first Filter object. If ‘str’, returns a string of the WBGene indices that exist only in the first Filter object, delimited by a comma.

• inplace (bool, default False) – If True, filtering will be applied to the current Filter object. If False (default), the function will return a set/str that contains the intersecting features.

Return type

set or str

Returns

If inplace=False, returns a set/string of the features that exist only in the first Filter object/set (set difference).

Examples

>>> from rnalysis import filtering
>>> d = filtering.DESeqFilter("tests/test_files/test_deseq.csv")
>>> counts = filtering.CountFilter('tests/test_files/counted.csv')
>>> a_set = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> # calculate difference and return a set
>>> d.difference(counts, a_set)
{'WBGene00007063', 'WBGene00007064', 'WBGene00007066', 'WBGene00007067', 'WBGene00007069', 'WBGene00007071',
 'WBGene00007074', 'WBGene00007075', 'WBGene00007076', 'WBGene00007077', 'WBGene00007078', 'WBGene00007079',
 'WBGene00014997', 'WBGene00043987', 'WBGene00043988', 'WBGene00043989', 'WBGene00043990', 'WBGene00044022',
 'WBGene00044951', 'WBGene00077502', 'WBGene00077503', 'WBGene00077504'}

# calculate difference and filter in-place >>> d.difference(counts, a_set, inplace=True) Filtered 2 features, leaving 26 of the original 28 features. Filtered inplace.

differential_expression_deseq2(design_matrix: Union[str, Path], comparisons: Iterable[Tuple[str, str, str]], r_installation_folder: Union[str, Path, Literal['auto']] = 'auto', output_folder: Optional[Union[str, Path]] = None) → Tuple[DESeqFilter, ...]

Run differential expression analysis on the count matrix using the DESeq2 algorithm. The count matrix you are analyzing should be unnormalized (meaning, raw read counts). The analysis will be based on a design matrix supplied by the user. The design matrix should contain at least two columns: the first column contains all the sample names, and each of the following columns contains an experimental design factor (e.g. ‘condition’, ‘replicate’, etc). (see the User Guide and Tutorial for a complete example). The analysis formula will contain all the factors in the design matrix. To run this function, a version of R must be installed.

Parameters

• design_matrix (str or Path) – path to a csv file containing the experiment’s design matrix. The design matrix should contain at least two columns: the first column contains all the sample names, and each of the following columns contains an experimental design factor (e.g. ‘condition’, ‘replicate’, etc). (see the User Guide and Tutorial for a complete example). The analysis formula will contain all the factors in the design matrix.

• comparisons (Iterable of tuple(factor, numerator_value, denominator_value)) – specifies what comparisons to build results tables out of. each individual comparison should be a tuple with exactly three elements: the name of a factor in the design formula, the name of the numerator level for the fold change, and the name of the denominator level for the fold change.

• r_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of R. For example: ‘C:/Program Files/R/R-4.2.1’

• output_folder (str, Path, or None) – Path to a folder in which the analysis results, as well as the log files and R script used to generate them, will be saved. if output_folder is None, the results will not be saved to a specified directory.

Returns

a tuple of DESeqFilter objects, one for each comparison

differential_expression_limma_voom(design_matrix: Union[str, Path], comparisons: Iterable[Tuple[str, str, str]], r_installation_folder: Union[str, Path, Literal['auto']] = 'auto', output_folder: Optional[Union[str, Path]] = None, random_effect: Optional[str] = None) → Tuple[DESeqFilter, ...]

Run differential expression analysis on the count matrix using the Limma-Voom pipeline. The count matrix you are analyzing should be normalized (typically to Reads Per Million). The analysis will be based on a design matrix supplied by the user. The design matrix should contain at least two columns: the first column contains all the sample names, and each of the following columns contains an experimental design factor (e.g. ‘condition’, ‘replicate’, etc). (see the User Guide and Tutorial for a complete example). The analysis formula will contain all the factors in the design matrix. To run this function, a version of R must be installed.

Parameters

• design_matrix (str or Path) – path to a csv file containing the experiment’s design matrix. The design matrix should contain at least two columns: the first column contains all the sample names, and each of the following columns contains an experimental design factor (e.g. ‘condition’, ‘replicate’, etc). (see the User Guide and Tutorial for a complete example). The analysis formula will contain all the factors in the design matrix.

• comparisons (Iterable of tuple(factor, numerator_value, denominator_value)) – specifies what comparisons to build results tables out of. each individual comparison should be a tuple with exactly three elements: the name of a factor in the design formula, the name of the numerator level for the fold change, and the name of the denominator level for the fold change.

• r_installation_folder (str, Path, or 'auto' (default='auto')) – Path to the installation folder of R. For example: ‘C:/Program Files/R/R-4.2.1’

• output_folder (str, Path, or None) – Path to a folder in which the analysis results, as well as the log files and R script used to generate them, will be saved. if output_folder is None, the results will not be saved to a specified directory.

• random_effect (str or None) – optionally, specify a single factor to model as a random effect. This is useful when your experimental design is nested. limma-voom can only treat one factor as a random effect.

Returns

a tuple of DESeqFilter objects, one for each comparison

drop_columns(columns: ColumnNames, inplace: bool = True)

Drop specific columns from the table.

Parameters

• columns (str or list of str) – The names of the column/columns to be dropped fro mthe table.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

enhanced_box_plot(samples: Union[GroupedColumns, Literal['all']] = 'all', scatter: bool = False, ylabel: str = 'log10(Normalized reads + 1)', title: Union[str, Literal['auto']] = 'auto', title_fontsize: float = 20, label_fontsize: float = 16, tick_fontsize: float = 12) → Figure

Generates an enhanced box-plot of the specified samples in the CountFilter object in log10 scale. Can plot both single samples and average multiple replicates. It is recommended to use this function on normalized values and not on absolute read values. The box indicates 25% and 75% percentiles, and the white dot indicates the median.

Parameters

• samples ('all' or list.) – A list of the sample names and/or grouped sample names to be plotted. All specified samples must be present in the CountFilter object. To average multiple replicates of the same condition, they can be grouped in an inner list. Example input: [[‘SAMPLE1A’, ‘SAMPLE1B’, ‘SAMPLE1C’], [‘SAMPLE2A’, ‘SAMPLE2B’, ‘SAMPLE2C’],’SAMPLE3’ , ‘SAMPLE6’]

• scatter (bool (default=False)) – if True, adds a scatter-plot on top of the box-plot.

• ylabel (str (default='Log10(RPM + 1)')) – the label of the Y axis.

• title (str or 'auto' (default='auto')) – The title of the plot. If ‘auto’, a title will be generated automatically.

• title_fontsize (float (default=30)) – determines the font size of the graph title.

• label_fontsize (float (default=15)) – determines the font size of the X and Y axis labels.

• tick_fontsize (float (default=10)) – determines the font size of the X and Y tick labels.

Return type

matplotlib Figure.

Example plot of enhanced_box_plot(add_scatter=True)

filter_biotype_from_gtf(gtf_path: Union[str, Path], biotype: Union[Literal['protein_coding', 'pseudogene', 'lincRNA', 'miRNA', 'ncRNA', 'piRNA', 'rRNA', 'snoRNA', 'snRNA', 'tRNA'], str, List[str]] = 'protein_coding', attribute_name: Union[Literal['biotype', 'gene_biotype', 'transcript_biotype', 'gene_type', 'transcript_type'], str] = 'gene_biotype', feature_type: Literal['gene', 'transcript'] = 'gene', opposite: bool = False, inplace: bool = True)

Filters out all features that do not match the indicated biotype/biotypes (for example: ‘protein_coding’, ‘ncRNA’, etc). The data about feature biotypes is drawn from a GTF (Gene transfer format) file supplied by the user.

Parameters

• gtf_path (str or Path) – Path to your GTF (Gene transfer format) file. The file should match the type of gene names/IDs you use in your table, and should contain an attribute describing biotype.

• biotype (str or list of strings) – the biotypes which will not be filtered out.

• attribute_name (str (default='gene_biotype')) – name of the attribute in your GTF file that describes feature biotype.

• feature_type ('gene' or 'transcript' (default='gene')) – determined whether the features/rows in your data table describe individual genes or transcripts.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

filter_biotype_from_ref_table(biotype: Union[Literal['protein_coding', 'pseudogene', 'lincRNA', 'miRNA', 'ncRNA', 'piRNA', 'rRNA', 'snoRNA', 'snRNA', 'tRNA'], str, List[str]] = 'protein_coding', ref: Union[str, Path, Literal['predefined']] = 'predefined', opposite: bool = False, inplace: bool = True)

Filters out all features that do not match the indicated biotype/biotypes (for example: ‘protein_coding’, ‘ncRNA’, etc). The data about feature biotypes is drawn from a Biotype Reference Table supplied by the user.

Parameters

• biotype (string or list of strings) – the biotypes which will not be filtered out.

• ref – Name of the biotype reference file used to determine biotypes. Default is the path defined by the user in the settings.yaml file.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows whose biotype is 'protein_coding'
>>> counts.filter_biotype_from_ref_table('protein_coding',ref='tests/biotype_ref_table_for_tests.csv')
Filtered 9 features, leaving 13 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows whose biotype is 'protein_coding' or 'pseudogene'
>>> counts.filter_biotype_from_ref_table(['protein_coding','pseudogene'],ref='tests/biotype_ref_table_for_tests.csv')
Filtered 0 features, leaving 22 of the original 22 features. Filtered inplace.

filter_by_attribute(attributes: Union[str, List[str]] = None, mode: Literal['union', 'intersection'] = 'union', ref: Union[str, Path, Literal['predefined']] = 'predefined', opposite: bool = False, inplace: bool = True)

Filters features according to user-defined attributes from an Attribute Reference Table. When multiple attributes are given, filtering can be done in ‘union’ mode (where features that belong to at least one attribute are not filtered out), or in ‘intersection’ mode (where only features that belong to ALL attributes are not filtered out). To learn more about user-defined attributes and Attribute Reference Tables, read the user guide.

Parameters

• attributes (string or list of strings, which are column titles in the user-defined Attribute Reference Table.) – attributes to filter by.

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

• ref (str or pathlib.Path (default='predefined')) – filename/path of the attribute reference table to be used as reference.

• opposite (bool (default=False)) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new and filtered instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that belong to the attribute 'attribute1'
>>> counts.filter_by_attribute('attribute1',ref='tests/attr_ref_table_for_examples.csv')
Filtered 15 features, leaving 7 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that belong to the attributes 'attribute1' OR 'attribute3' (union)
>>> counts.filter_by_attribute(['attribute1','attribute3'],ref='tests/attr_ref_table_for_examples.csv')
Filtered 14 features, leaving 8 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that belong to both attributes 'attribute1' AND 'attribute3' (intersection)
>>> counts.filter_by_attribute(['attribute1','attribute3'],mode='intersection',
... ref='tests/attr_ref_table_for_examples.csv')
Filtered 19 features, leaving 3 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that DON'T belong to either 'attribute1','attribute3' or both
>>> counts.filter_by_attribute(['attribute1','attribute3'],ref='tests/attr_ref_table_for_examples.csv',
... opposite=True)
Filtered 8 features, leaving 14 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that DON'T belong to both 'attribute1' AND 'attribute3'
>>> counts.filter_by_attribute(['attribute1','attribute3'],mode='intersection',
... ref='tests/attr_ref_table_for_examples.csv',opposite=True)
Filtered 3 features, leaving 19 of the original 22 features. Filtered inplace.

filter_by_go_annotations(go_ids: Union[str, List[str]], mode: Literal['union', 'intersection'] = 'union', organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', propagate_annotations: bool = True, evidence_types: Union[Literal['any', 'experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = 'any', excluded_evidence_types: Union[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = (), databases: Union[str, Iterable[str]] = 'any', excluded_databases: Union[str, Iterable[str]] = (), qualifiers: Union[Literal['any', 'not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'any', excluded_qualifiers: Union[Literal['not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'not', opposite: bool = False, inplace: bool = True)

Filters genes according to GO annotations, keeping only genes that are annotated with a specific GO term. When multiple GO terms are given, filtering can be done in ‘union’ mode (where genes that belong to at least one GO term are not filtered out), or in ‘intersection’ mode (where only genes that belong to ALL GO terms are not filtered out).

Parameters

• go_ids (str or list of str) –

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

param organism: organism name or NCBI taxon ID for which the function will fetch GO annotations. :type organism: str or int :param gene_id_type: the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping :type gene_id_type: str or ‘auto’ (default=’auto’) :param propagate_annotations: determines the propagation method of GO annotations. ‘no’ does not propagate annotations at all; ‘classic’ propagates all annotations up to the DAG tree’s root; ‘elim’ terminates propagation at nodes which show significant enrichment; ‘weight’ performs propagation in a weighted manner based on the significance of children nodes relatively to their parents; and ‘allm’ uses a combination of all proopagation methods. To read more about the propagation methods, see Alexa et al: https://pubmed.ncbi.nlm.nih.gov/16606683/ :type propagate_annotations: ‘classic’, ‘elim’, ‘weight’, ‘all.m’, or ‘no’ (default=’elim’) :param evidence_types: only annotations with the specified evidence types will be included in the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/ :type evidence_types: str, Iterable of str, ‘experimental’, ‘phylogenetic’ ,’computational’, ‘author’, ‘curator’, ‘electronic’, or ‘any’ (default=’any’) :param excluded_evidence_types: annotations with the specified evidence types will be excluded from the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/ :type excluded_evidence_types: str, Iterable of str, ‘experimental’, ‘phylogenetic’ ,’computational’, ‘author’, ‘curator’, ‘electronic’, or None (default=None) :param databases: only annotations from the specified databases will be included in the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type databases: str, Iterable of str, or ‘any’ (default) :param excluded_databases: annotations from the specified databases will be excluded from the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type excluded_databases: str, Iterable of str, or None (default) :param qualifiers: only annotations with the speficied qualifiers will be included in the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type qualifiers: str, Iterable of str, or ‘any’ (default) :param excluded_qualifiers: annotations with the speficied qualifiers will be excluded from the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type excluded_qualifiers: str, Iterable of str, or None (default=’not’) :type opposite: bool (default=False) :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current FeatureSet object. If False, the function will return a new FeatureSet instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new, filtered instance of the FeatureSet object.

filter_by_kegg_annotations(kegg_ids: Union[str, List[str]], mode: Literal['union', 'intersection'] = 'union', organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', opposite: bool = False, inplace: bool = True)

Filters genes according to KEGG pathways, keeping only genes that belong to specific KEGG pathway. When multiple KEGG IDs are given, filtering can be done in ‘union’ mode (where genes that belong to at least one pathway are not filtered out), or in ‘intersection’ mode (where only genes that belong to ALL pathways are not filtered out).

Parameters

• kegg_ids (str or list of str) – the KEGG pathway IDs according to which the table will be filtered. An example for a legal KEGG pathway ID would be ‘path:cel04020’ for the C. elegans calcium signaling pathway.

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

param organism: organism name or NCBI taxon ID for which the function will fetch GO annotations. :type organism: str or int :param gene_id_type: the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping :type gene_id_type: str or ‘auto’ (default=’auto’) :type opposite: bool (default=False) :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new, filtered instance of the Filter object.

filter_by_row_name(row_names: Union[str, List[str]], opposite: bool = False, inplace: bool = True)

Filter out specific rows from the table by their name (index).

Parameters

• row_names (str or list of str) – list of row names to be removed from the table.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

filter_by_row_sum(threshold: float = 5, opposite: bool = False, inplace: bool = True)

Removes features/rows whose sum is belove ‘threshold’.

Parameters

• threshold (float) – The minimal sum a row should have in order not to be filtered out.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current CountFilter object. If False, the function will return a new CountFilter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of CountFilter.

Examples

>>> from rnalysis import filtering
>>> c = filtering.CountFilter('tests/test_files/counted.csv')
>>> c.filter_by_row_sum(5) # remove all rows whose sum is <5
Filtered 4 features, leaving 18 of the original 22 features. Filtered inplace.

filter_duplicate_ids(keep: Literal['first', 'last', 'neither'] = 'first', opposite: bool = False, inplace: bool = True)

Filter out rows with duplicate names/IDs (index).

Parameters

• keep ('first', 'last', or 'neither' (default='first')) – determines which of the duplicates to keep for each group of duplicates. ‘first’ will keep the first duplicate found for each group; ‘last’ will keep the last; and ‘neither’ will remove all of the values in the group.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

filter_low_reads(threshold: float = 5, opposite: bool = False, inplace: bool = True)

Filter out features which are lowly-expressed in all columns, keeping only features with at least ‘threshold’ reads in at least one column.

Parameters

• threshold (float) – The minimal number of reads (counts, rpm, rpkm, tpm, etc) a feature should have in at least one sample in order not to be filtered out.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current CountFilter object. If False, the function will return a new CountFilter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of CountFilter.

Examples

>>> from rnalysis import filtering
>>> c = filtering.CountFilter('tests/test_files/counted.csv')
>>> c.filter_low_reads(5) # remove all rows whose values in all columns are all <5
Filtered 6 features, leaving 16 of the original 22 features. Filtered inplace.

filter_missing_values(columns: Union[ColumnNames, Literal['all']] = 'all', opposite: bool = False, inplace: bool = True)

Remove all rows whose values in the specified columns are missing (NaN).

:param columns:name/names of the columns to check for missing values. :type opposite: bool :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/test_deseq_with_nan.csv')
>>> filt_no_nan = filt.filter_missing_values(inplace=False)
Filtered 3 features, leaving 25 of the original 28 features. Filtering result saved to new object.
>>> filt_no_nan_basemean = filt.filter_missing_values(columns='baseMean', inplace=False)
Filtered 1 features, leaving 27 of the original 28 features. Filtering result saved to new object.
>>> filt_no_nan_basemean_pval = filt.filter_missing_values(columns=['baseMean','pval'], inplace=False)
Filtered 2 features, leaving 26 of the original 28 features. Filtering result saved to new object.

filter_percentile(percentile: Fraction, column: ColumnName, opposite: bool = False, inplace: bool = True)

Removes all entries above the specified percentile in the specified column. For example, if the column were ‘pvalue’ and the percentile was 0.5, then all features whose pvalue is above the median pvalue will be filtered out.

Parameters

• percentile (float between 0 and 1) – The percentile that all features above it will be filtered out.

• column (str) – Name of the DataFrame column according to which the filtering will be performed.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> # keep only the rows whose value in the column 'log2FoldChange' is below the 75th percentile
>>> d.filter_percentile(0.75,'log2FoldChange')
Filtered 7 features, leaving 21 of the original 28 features. Filtered inplace.

>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> # keep only the rows vulse value in the column 'log2FoldChange' is above the 25th percentile
>>> d.filter_percentile(0.25,'log2FoldChange',opposite=True)
Filtered 7 features, leaving 21 of the original 28 features. Filtered inplace.

filter_top_n(by: ColumnNames, n: NonNegativeInt = 100, ascending: Union[bool, List[bool]] = True, na_position: str = 'last', opposite: bool = False, inplace: bool = True)

Sort the rows by the values of specified column or columns, then keep only the top ‘n’ rows.

Parameters

• by (name of column/columns (str/List[str])) – Names of the column or columns to sort and then filter by.

• n (int) – How many features to keep in the Filter object.

• ascending (bool or list of bools (default=True)) – Sort ascending vs. descending. Specify list for multiple sort orders. If this is a list of bools, it must have the same length as ‘by’.

• na_position ('first' or 'last', default 'last') – If ‘first’, puts NaNs at the beginning; if ‘last’, puts NaNs at the end.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of Filter.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only the 10 rows with the highest values in the columns 'cond1'
>>> counts.filter_top_n(by='cond1',n=10, ascending=False)
Filtered 12 features, leaving 10 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only the 10 rows which have the lowest values in the columns 'cond1'
>>> # and then the highest values in the column 'cond2'
>>> counts.filter_top_n(by=['cond1','cond2'],n=10, ascending=[True,False])
Filtered 12 features, leaving 10 of the original 22 features. Filtered inplace.

find_paralogs_ensembl(organism: Union[Literal['auto'], str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_percent_identity: bool = True)

Find paralogs within the same species using the Ensembl database.

Parameters

• organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_percent_identity (bool (default=True)) – if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest percent_identity score.

Returns

DataFrame describing all discovered paralog mappings.

find_paralogs_panther(organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto')

Find paralogs within the same species using the PantherDB database.

Parameters

• organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

Returns

DataFrame describing all discovered paralog mappings.

fname

fold_change(numerator: ColumnNames, denominator: ColumnNames, numer_name: str = 'default', denom_name: str = 'default') → FoldChangeFilter

Calculate the fold change between the numerator condition and the denominator condition, and return it as a FoldChangeFilter object.

Parameters

• numerator (str, or list of strs) – the CountFilter columns to be used as the numerator. If multiple arguments are given in a list, they will be averaged.

• denominator (str, or list of strs) – the CountFilter columns to be used as the denominator. If multiple arguments are given in a list, they will be averaged.

• numer_name (str or 'default') – name to give the numerator condition. If ‘default’, the name will be generarated automatically from the names of numerator columns.

• denom_name (str or 'default') – name to give the denominator condition. If ‘default’, the name will be generarated automatically from the names of denominator columns.

Return type

FoldChangeFilter

Returns

A new instance of FoldChangeFilter

Examples

>>> from rnalysis import filtering
>>> c = filtering.CountFilter('tests/test_files/counted_fold_change.csv')
>>> # calculate the fold change of mean(cond1_rep1,cond1_rep2)/mean(cond2_rep1,cond_2rep2)
>>> f = c.fold_change(['cond1_rep1','cond1_rep2'],['cond2_rep1','cond2_rep2'])
>>> f.numerator
"Mean of ['cond1_rep1', 'cond1_rep2']"
>>> f.denominator
"Mean of ['cond2_rep1', 'cond2_rep2']"
>>> type(f)
rnalysis.filtering.FoldChangeFilter

classmethod from_folder(folder_path: str, save_csv: bool = False, fname: str = None, input_format: str = '.txt') → CountFilter

Iterates over count .txt files in a given folder and combines them into a single CountFilter table. Can also save the count data table and the uncounted data table to .csv files.

Parameters

• folder_path – str or pathlib.Path. Full path of the folder that contains individual htcount .txt files.

• save_csv – bool. If True, the joint DataFrame of count data and uncounted data will be saved to two separate .csv files. The files will be saved in ‘folder_path’, and named according to the parameters ‘counted_fname’ for the count data, and ‘uncounted_fname’ for the uncounted data (unaligned, alignment not unique, etc).

• fname – str. Name under which to save the combined count data table. Does not need to include the ‘.csv’ suffix.

• input_format – the file format of the input files. Default is ‘.txt’.

Returns

an CountFilter object containing the combined count data from all individual htcount .txt files in the specified folder.

Examples

>>> from rnalysis import filtering
>>> c = filtering.CountFilter.from_folder('tests/test_files/test_count_from_folder')

classmethod from_folder_htseqcount(folder_path: str, norm_to_rpm: bool = False, save_csv: bool = False, counted_fname: str = None, uncounted_fname: str = None, input_format: str = '.txt') → CountFilter

Iterates over HTSeq count .txt files in a given folder and combines them into a single CountFilter table. Can also save the count data table and the uncounted data table to .csv files, and normalize the CountFilter table to reads per million (RPM). Note that the saved data will always be count data, and not normalized data, regardless if the CountFilter table was normalized or not.

Parameters

• folder_path – str or pathlib.Path. Full path of the folder that contains individual htcount .txt files.

• norm_to_rpm – bool. If True, the CountFilter table will be automatically normalized to reads per million (RPM). If False (defualt), the CountFilter object will not be normalized, and will instead contain absolute count data (as in the original htcount .txt files). Note that if save_csv is True, the saved .csv fill will contain ABSOLUTE COUNT DATA, as in the original htcount .txt files, and NOT normalized data.

• save_csv – bool. If True, the joint DataFrame of count data and uncounted data will be saved to two separate .csv files. The files will be saved in ‘folder_path’, and named according to the parameters ‘counted_fname’ for the count data, and ‘uncounted_fname’ for the uncounted data (unaligned, alignment not unique, etc).

• counted_fname – str. Name under which to save the combined count data table. Does not need to include the ‘.csv’ suffix.

• uncounted_fname – counted_fname: str. Name under which to save the combined uncounted data. Does not need to include the ‘.csv’ suffix.

• input_format – the file format of the input files. Default is ‘.txt’.

Returns

an CountFilter object containing the combined count data from all individual htcount .txt files in the specified folder.

Examples

>>> from rnalysis import filtering
>>> c = filtering.CountFilter.from_folder_htseqcount('tests/test_files/test_count_from_folder')

>>> c = filtering.CountFilter.from_folder_htseqcount('tests/test_files/test_count_from_folder', norm_to_rpm=True) # This will also normalize the CountFilter to reads-per-million (RPM).

Normalized 10 features. Normalized inplace.

>>> c = filtering.CountFilter.from_folder_htseqcount('tests/test_files/test_count_from_folder', save_csv=True, counted_fname='name_for_reads_csv_file', uncounted_fname='name_for_uncounted_reads_csv_file') # This will also save the counted reads and uncounted reads as separate .csv files

head(n: PositiveInt = 5) → DataFrame

Return the first n rows of the Filter object. See pandas.DataFrame.head documentation.

Parameters

n (positive int, default 5) – Number of rows to show.

Returns

returns the first n rows of the Filter object.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> d.head()
                   baseMean  log2FoldChange  ...         pvalue           padj
WBGene00000002  6820.755327        7.567762  ...   0.000000e+00   0.000000e+00
WBGene00000003  3049.625670        9.138071  ...  4.660000e-302  4.280000e-298
WBGene00000004  1432.911791        8.111737  ...  6.400000e-237  3.920000e-233
WBGene00000005  4028.154186        6.534112  ...  1.700000e-228  7.800000e-225
WBGene00000006  1230.585240        7.157428  ...  2.070000e-216  7.590000e-213

[5 rows x 6 columns]

>>> d.head(3) # return only the first 3 rows
                   baseMean  log2FoldChange  ...         pvalue           padj
WBGene00000002  6820.755327        7.567762  ...   0.000000e+00   0.000000e+00
WBGene00000003  3049.625670        9.138071  ...  4.660000e-302  4.280000e-298
WBGene00000004  1432.911791        8.111737  ...  6.400000e-237  3.920000e-233

[3 rows x 6 columns]

property index_set: set

Returns all of the features in the current DataFrame (which were not removed by previously used filter methods) as a set. if any duplicate features exist in the filter object (same WBGene appears more than once), the corresponding WBGene index will appear in the returned set ONLY ONCE.

Returns

A set of WBGene names.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> myset = counts.index_set
>>> print(myset)
{'WBGene00044022', 'WBGene00077504', 'WBGene00007079', 'WBGene00007069', 'WBGene00007063',
'WBGene00007067', 'WBGene00077503', 'WBGene00007078', 'WBGene00007064', 'WBGene00077502', 'WBGene00044951',
'WBGene00007077', 'WBGene00007066', 'WBGene00007076', 'WBGene00014997', 'WBGene00043990', 'WBGene00007074',
'WBGene00043987', 'WBGene00007071', 'WBGene00043989', 'WBGene00043988', 'WBGene00007075'}

property index_string: str

Returns a string of all feature indices in the current DataFrame, sorted by their current order in the FIlter object, and separated by newline.

This includes all of the feature indices which were not filtered out by previously-used filter methods.

if any duplicate features exist in the filter object (same index appears more than once),

the corresponding index will appear in the returned string ONLY ONCE.

Returns

A string of WBGene indices separated by newlines (\n).

For example, “WBGene00000001\nWBGene00000003\nWBGene12345678”.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.sort(by='cond1',ascending=False)
>>> mystring = counts.index_string
>>> print(mystring)
WBGene00007075
WBGene00043988
WBGene00043990
WBGene00007079
WBGene00007076
WBGene00043989
WBGene00007063
WBGene00007077
WBGene00007078
WBGene00007071
WBGene00007064
WBGene00007066
WBGene00007074
WBGene00043987
WBGene00007067
WBGene00014997
WBGene00044022
WBGene00077503
WBGene00077504
WBGene00077502
WBGene00007069
WBGene00044951

intersection(*others: Union[Filter, set], return_type: Literal['set', 'str'] = 'set', inplace: bool = False)

Keep only the features that exist in ALL of the given Filter objects/sets. Can be done either inplace on the first Filter object, or return a set/string of features.

Parameters

• others (Filter or set objects.) – Objects to calculate intersection with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the intersecting features. If ‘str’, returns a string of the intersecting features, delimited by a comma.

• inplace (bool (default=False)) – If True, the function will be applied in-place to the current Filter object. If False (default), the function will return a set/str that contains the intersecting indices.

Return type

set or str

Returns

If inplace=False, returns a set/string of the features that intersect between the given Filter objects/sets.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> a_set = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> # calculate intersection and return a set
>>> d.intersection(a_set)
{'WBGene00000002', 'WBGene00000003'}

# calculate intersection and filter in-place >>> d.intersection(a_set, inplace=True) Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

ma_plot(ref_column: Union[Literal['auto'], ColumnName] = 'auto', columns: Union[ColumnNames, Literal['all']] = 'all', split_plots: bool = False, title: Union[str, Literal['auto']] = 'auto', title_fontsize: float = 20, label_fontsize: Union[float, Literal['auto']] = 'auto', tick_fontsize: float = 12) → List[Figure]

Generates M-A (log-ratio vs. log-intensity) plots for selected columns in the dataset. This plot is particularly useful for indicating whether a dataset is properly normalized.

Parameters

• ref_column (name of a column or 'auto' (default='auto')) – the column to be used as reference for MA plot. If ‘auto’, then the reference column will be chosen automatically to be the column whose upper quartile is closest to the mean upper quartile.

• columns (str or list of str) – A list of the column names to generate an MA plot for.

• split_plots (bool (default=False)) – if True, each individual MA plot will be plotted in its own Figure. Otherwise, all MA plots will be plotted on the same Figure.

• title (str or 'auto' (default='auto')) – The title of the plot. If ‘auto’, a title will be generated automatically.

• title_fontsize (float (default=30)) – determines the font size of the graph title.

• label_fontsize (float (default=15) :param tick_fontsize: determines the font size of the X and Y tick labels.) – determines the font size of the X and Y axis labels.

Return type

a list of matplotlib Figures.

majority_vote_intersection(*others: Union[Filter, set], majority_threshold: float = 0.5, return_type: Literal['set', 'str'] = 'set')

Returns a set/string of the features that appear in at least (majority_threhold * 100)% of the given Filter objects/sets. Majority-vote intersection with majority_threshold=0 is equivalent to Union. Majority-vote intersection with majority_threshold=1 is equivalent to Intersection.

Parameters

• others (Filter or set objects.) – Objects to calculate intersection with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the intersecting WBGene indices. If ‘str’, returns a string of the intersecting indices, delimited by a comma.

• majority_threshold (float (default=0.5)) – The threshold that determines what counts as majority. Features will be returned only if they appear in at least (majority_threshold * 100)% of the given Filter objects/sets.

Return type

set or str

Returns

If inplace=False, returns a set/string of the features that uphold majority vote intersection between two given Filter objects/sets.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> a_set = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> b_set = {'WBGene00000002','WBGene00000004'}
>>> # calculate majority-vote intersection and return a set
>>> d.majority_vote_intersection(a_set, b_set, majority_threshold=2/3)
{'WBGene00000002', 'WBGene00000003', 'WBGene00000004'}

map_orthologs_ensembl(map_to_organism: Union[str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']], map_from_organism: Union[Literal['auto'], str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_percent_identity: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the Ensembl database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_percent_identity (bool (default=True)) – if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest percent_identity score.

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_orthoinspector(map_to_organism: Union[str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']], map_from_organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the OrthoInspector database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_panther(map_to_organism: Union[str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']], map_from_organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_least_diverged: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the PantherDB database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_least_diverged (bool (default=True)) – if True (default), RNAlysis will only fetch ortholog mappings that were flagged as a ‘least diverged ortholog’ on the PantherDB database. You can read more about this flag on the PantherDB website: https://www.pantherdb.org/genes/

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_phylomedb(map_to_organism: Union[str, int, Literal['Azorhizobium caulinodans ORS 571', 'Buchnera aphidicola str. G002 (Myzus persicae)', 'Cellulomonas gilvus ATCC 13127', 'Dictyoglomus thermophilum H-6-12', 'Methylophilus methylotrophus DSM 46235 = ATCC 53528', 'Pelobacter carbinolicus DSM 2380', 'Shewanella putrefaciens CN-32', 'Myxococcus fulvus HW-1', 'Myxococcus xanthus DK 1622', 'Stigmatella aurantiaca DW4/3-1', 'Cystobacter fuscus DSM 2262', 'Chondromyces apiculatus DSM 436', 'Sorangium cellulosum So0157-2', 'Vitreoscilla stercoraria DSM 513', 'Herpetosiphon aurantiacus DSM 785', 'Simonsiella muelleri ATCC 29453', 'Hyphomonas jannaschiana VP2', 'Flectobacillus major DSM 103', 'Cyclobacterium marinum DSM 745', 'Runella slithyformis DSM 19594', 'Spirosoma linguale DSM 74', 'Rubinisphaera brasiliensis DSM 5305', 'Planctopirus limnophila DSM 3776', 'Gimesia maris DSM 8797', 'Blastopirellula marina DSM 3645', 'Pirellula staleyi DSM 6068', 'Isosphaera pallida ATCC 43644', 'Methylocystis parvus OBBP', 'Borreliella burgdorferi B31', 'Borrelia hermsii DAH', 'Borrelia parkeri SLO', 'Borrelia turicatae 91E135', 'Borrelia anserina BA2', 'Sediminispirochaeta bajacaliforniensis DSM 16054', 'Spirochaeta thermophila DSM 6192', 'Treponema denticola ATCC 35405', 'Brachyspira hyodysenteriae WA1', 'Treponema pallidum subsp. pallidum str. Nichols', 'Treponema phagedenis F0421', 'Treponema bryantii NK4A124', 'Treponema saccharophilum DSM 2985', 'Treponema succinifaciens DSM 2489', "Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'", 'Leptospira interrogans serovar Lai str. 56601', 'Leptospira borgpetersenii serovar Hardjo-bovis str. L550', 'Leptospirillum ferrooxidans C2-3', 'Leptonema illini DSM 21528', 'Novispirillum itersonii subsp. itersonii ATCC 12639', 'Aquaspirillum serpens DSM 68', 'Azospirillum sp. B510', 'Campylobacter coli 76339', 'Campylobacter fetus subsp. venerealis NCTC 10354', 'Campylobacter jejuni subsp. jejuni 414', 'Campylobacter concisus 13826', 'Campylobacter curvus 525.92', 'Campylobacter lari RM2100', 'Campylobacter rectus RM3267', 'Campylobacter showae CSUNSWCD', 'Campylobacter sputorum biovar sputorum', 'Helicobacter pylori 26695', 'Helicobacter acinonychis str. Sheeba', 'Helicobacter cinaedi CCUG 18818 = ATCC BAA-847', 'Helicobacter felis ATCC 49179', 'Helicobacter fennelliae MRY12-0050', 'Helicobacter mustelae 12198', 'Pseudoalteromonas haloplanktis ATCC 14393', 'Brucella abortus 2308', 'Brucella ovis ATCC 25840', 'Elizabethkingia meningoseptica ATCC 13253 = NBRC 12535', 'Flavobacterium aquatile LMG 4008 = ATCC 11947', 'Empedobacter brevis NBRC 14943 = ATCC 43319', 'Chryseobacterium gleum ATCC 35910', 'Psychroflexus gondwanensis ACAM 44', 'Chryseobacterium indologenes NBRC 14944', 'Myroides odoratus DSM 2801', 'Sphingobacterium spiritivorum ATCC 33861', 'Francisella cf. tularensis subsp. novicida 3523', 'Paracoccus denitrificans PD1222', 'Thermus aquaticus Y51MC23', 'Thermus thermophilus HB8', 'Meiothermus ruber DSM 1279', 'Xanthobacter autotrophicus Py2', 'Comamonas testosteroni KF-1', 'Pseudomonas aeruginosa PAO1', 'Pseudoalteromonas atlantica T6c', 'Burkholderia cepacia', 'Brevundimonas diminuta 470-4', 'Pseudomonas fluorescens NCIMB 11764', 'Pseudomonas fragi B25', 'Pseudomonas mendocina NK-01', 'Pseudomonas pseudoalcaligenes AD6', 'Pseudomonas putida KT2440', 'Ralstonia solanacearum GMI1000', 'Pseudomonas stutzeri MF28', 'Pseudomonas syringae pv. syringae B728a', 'Ralstonia pickettii DTP0602', 'Burkholderia glumae BGR1', 'Xanthomonas campestris pv. campestris', 'Xanthomonas translucens DAR61454', 'Xanthomonas citri pv. citri str. 306', 'Xanthomonas oryzae pv. oryzae PXO99A', 'Azotobacter chroococcum NCIMB 8003', 'Azotobacter vinelandii DJ', 'Agrobacterium radiobacter K84', 'Agrobacterium rhizogenes', 'Agrobacterium vitis S4', 'Bradyrhizobium japonicum', 'Sinorhizobium fredii USDA 257', 'Mesorhizobium loti CJ3sym', 'Sinorhizobium meliloti 1021', 'Rhizobium leguminosarum bv. viciae GB30', 'Rhizobium tropici CIAT 899', 'Neorhizobium galegae bv. orientalis str. HAMBI 540', 'Methylobacillus flagellatus KT', 'Methylobacillus glycogenes JCM 2850', 'Methylorubrum extorquens AM1', 'Methylococcus capsulatus str. Bath', 'Methylomonas methanica MC09', 'Methylosinus trichosporium OB3b', 'Acetobacter aceti ATCC 23746', 'Komagataeibacter hansenii ATCC 23769', 'Acetobacter pasteurianus 3P3', 'Gluconobacter oxydans H24', 'Legionella pneumophila str. Paris', 'Legionella hackeliae', 'Legionella longbeachae NSW150', 'Tatlockia micdadei', 'Fluoribacter dumoffii NY 23', 'Acinetobacter baumannii', 'Acinetobacter calcoaceticus ANC 3680', 'Moraxella catarrhalis O35E', 'Neisseria cinerea ATCC 14685', 'Neisseria flavescens NRL30031/H210', 'Neisseria gonorrhoeae NCCP11945', 'Neisseria lactamica 020-06', 'Neisseria meningitidis MC58', 'Neisseria mucosa ATCC 25996', 'Neisseria polysaccharea ATCC 43768', 'Neisseria sicca ATCC 29256', 'Neisseria elongata subsp. glycolytica ATCC 29315', 'Neisseria macacae ATCC 33926', 'Thermomicrobium roseum DSM 5159', 'Kingella denitrificans ATCC 33394', 'Kingella kingae ATCC 23330', 'Kingella oralis ATCC 51147', 'Alcaligenes faecalis', 'Bordetella bronchiseptica RB50', 'Bordetella parapertussis Bpp5', 'Bordetella pertussis Tohama I', 'Bordetella avium 197N', 'Acidiphilium angustum ATCC 35903', 'Acidiphilium cryptum JF-5', 'Acidocella facilis ATCC 35904', 'Ochrobactrum anthropi ATCC 49188', 'Polaribacter irgensii 23-P', 'Beijerinckia indica subsp. indica ATCC 9039', 'Chromobacterium violaceum ATCC 12472', 'Eikenella corrodens ATCC 23834', 'Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821', 'Citrobacter koseri ATCC BAA-895', 'Citrobacter freundii MGH 56', 'Klebsiella aerogenes KCTC 2190', 'Pantoea agglomerans', 'Enterobacter cloacae subsp. cloacae ATCC 13047', 'Erwinia amylovora CFBP1430', 'Pantoea ananatis LMG 20103', 'Pectobacterium carotovorum subsp. carotovorum PC1', 'Dickeya chrysanthemi Ech1591', 'Escherichia coli K-12', 'Shimwellia blattae DSM 4481 = NBRC 105725', 'Escherichia fergusonii B253', 'Atlantibacter hermannii NBRC 105704', 'Pseudescherichia vulneris NBRC 102420', 'Hafnia alvei FB1', 'Klebsiella oxytoca', 'Klebsiella pneumoniae', 'Morganella morganii subsp. morganii KT', 'Proteus mirabilis HI4320', 'Proteus vulgaris', 'Providencia rettgeri DSM 1131', 'Providencia stuartii ATCC 25827', 'Serratia liquefaciens ATCC 27592', 'Serratia marcescens subsp. marcescens Db11', 'Serratia odorifera DSM 4582', 'Shigella boydii CDC 3083-94', 'Shigella dysenteriae 1617', 'Shigella flexneri 2a str. 301', 'Shigella sonnei Ss046', 'Xenorhabdus nematophila ATCC 19061', 'Yersinia enterocolitica LC20', 'Yersinia intermedia ATCC 29909', 'Yersinia pestis CO92', 'Yersinia pseudotuberculosis', 'Edwardsiella tarda ATCC 15947 = NBRC 105688', 'Aeromonas hydrophila subsp. hydrophila ATCC 7966', 'Aeromonas salmonicida subsp. salmonicida A449', 'Aeromonas media WS', 'Aeromonas veronii B565', 'Photobacterium phosphoreum ANT-2200', 'Photobacterium angustum S14', 'Vibrio alginolyticus NBRC 15630 = ATCC 17749', 'Vibrio cholerae O395', 'Aliivibrio fischeri ES114', 'Vibrio parahaemolyticus RIMD 2210633', 'Vibrio proteolyticus NBRC 13287', 'Vibrio vulnificus', 'Grimontia hollisae CIP 101886', 'Vibrio mimicus MB451', 'Vibrio campbellii ATCC BAA-1116', 'Vibrio diazotrophicus NBRC 103148', 'Plesiomonas shigelloides 302-73', 'Aggregatibacter actinomycetemcomitans HK1651', 'Actinobacillus pleuropneumoniae serovar 1 str. 4074', 'Actinobacillus suis H91-0380', 'Actinobacillus capsulatus DSM 19761', 'Actinobacillus equuli subsp. equuli', 'Actinobacillus ureae ATCC 25976', 'Haemophilus haemolyticus M21639', 'Haemophilus influenzae Rd KW20', 'Avibacterium paragallinarum 221', 'Haemophilus parainfluenzae T3T1', 'Histophilus somni 129PT', 'Aggregatibacter aphrophilus NJ8700', 'Haemophilus paraphrohaemolyticus HK411', 'Glaesserella parasuis ZJ0906', 'Aggregatibacter segnis ATCC 33393', 'Pasteurella multocida', 'Gallibacterium anatis UMN179', 'Pasteurella bettyae CCUG 2042', 'Pasteurella dagmatis ATCC 43325', 'Rodentibacter pneumotropicus', 'Anaplasma centrale str. Israel', 'Anaplasma marginale str. St. Maries', 'Bartonella bacilliformis KC583', 'Coxiella burnetii RSA 493', 'Ehrlichia ruminantium str. Welgevonden', 'Rickettsia conorii str. Malish 7', 'Rickettsia prowazekii str. Madrid E', 'Rickettsia rickettsii str. Iowa', 'Orientia tsutsugamushi str. Boryong', 'Rickettsia typhi str. Wilmington', 'Rickettsia akari str. Hartford', 'Rickettsia australis str. Cutlack', 'Rickettsia canadensis str. McKiel', 'Bartonella quintana str. Toulouse', 'Bartonella elizabethae F9251 = ATCC 49927', 'Chlamydia trachomatis D/UW-3/CX', 'Bacteroides fragilis 3_1_12', 'Bacteroides thetaiotaomicron VPI-5482', 'Bacteroides uniformis ATCC 8492', 'Bacteroides vulgatus ATCC 8482', 'Parabacteroides distasonis ATCC 8503', 'Campylobacter gracilis RM3268', 'Sebaldella termitidis ATCC 33386', 'Campylobacter ureolyticus', 'Butyrivibrio fibrisolvens ND3005', 'Fibrobacter succinogenes subsp. succinogenes S85', 'Porphyromonas gingivalis ATCC 33277', 'Prevotella ruminicola 23', 'Prevotella loescheii DSM 19665 = JCM 12249 = ATCC 15930', 'Wolinella succinogenes DSM 1740', 'Oxalobacter formigenes HOxBLS', 'Fusobacterium gonidiaformans ATCC 25563', 'Fusobacterium mortiferum ATCC 9817', 'Fusobacterium nucleatum subsp. nucleatum ATCC 25586', 'Fusobacterium perfoetens ATCC 29250', 'Faecalibacterium prausnitzii A2-165', 'Fusobacterium russii ATCC 25533', 'Fusobacterium varium ATCC 27725', 'Fusobacterium necrophorum subsp. funduliforme ATCC 51357', 'Fusobacterium periodonticum ATCC 33693', 'Fusobacterium ulcerans ATCC 49185', 'Syntrophomonas wolfei subsp. wolfei str. Goettingen G311', 'Dichelobacter nodosus VCS1703A', 'Desulfocurvibacter africanus subsp. africanus str. Walvis Bay', 'Desulfovibrio desulfuricans ND132', 'Desulfovibrio fructosivorans JJ', 'Desulfovibrio gigas DSM 1382 = ATCC 19364', 'Desulfovibrio salexigens DSM 2638', 'Desulfovibrio vulgaris str. Hildenborough', 'Thermodesulfobacterium thermophilum DSM 1276', 'Desulfovibrio longus DSM 6739', 'Desulfobulbus propionicus DSM 2032', 'Desulfococcus multivorans DSM 2059', 'Desulfomicrobium baculatum DSM 4028', 'Desulfovibrio piger ATCC 29098', 'Acidaminococcus fermentans DSM 20731', 'Megasphaera elsdenii DSM 20460', 'Nitrobacter hamburgensis X14', 'Nitrobacter winogradskyi Nb-255', 'Nitrosomonas europaea ATCC 19718', 'Nitrosomonas eutropha C91', 'Acidithiobacillus ferrooxidans ATCC 23270', 'Starkeya novella DSM 506', 'Thiomonas intermedia K12', 'Halothiobacillus neapolitanus c2', 'Thermithiobacillus tepidarius DSM 3134', 'Acidithiobacillus thiooxidans ATCC 19377', 'Thiobacillus thioparus DSM 505', 'Thiomicrospira pelophila DSM 1534', 'Hydrogenobacter thermophilus TK-6', 'Ehrlichia canis str. Jake', 'Ehrlichia chaffeensis str. Arkansas', 'Anaplasma phagocytophilum str. HZ', 'Neorickettsia risticii str. Illinois', 'Neorickettsia sennetsu str. Miyayama', 'Bdellovibrio bacteriovorus HD100', 'Herbaspirillum seropedicae SmR1', 'Selenomonas ruminantium AB3002', 'Cellulophaga lytica DSM 7489', 'Saccharicrinis fermentans DSM 9555 = JCM 21142', 'Pedobacter heparinus DSM 2366', 'Cytophaga hutchinsonii ATCC 33406', 'Flavobacterium johnsoniae UW101', 'Marinilabilia salmonicolor JCM 21150', 'Flavobacterium hydatis', 'Solitalea canadensis DSM 3403', 'Flavobacterium columnare ATCC 49512', 'Bernardetia litoralis DSM 6794', 'Marivirga tractuosa DSM 4126', 'Saprospira grandis str. Lewin', 'Weeksella virosa DSM 16922', 'Bergeyella zoohelcum ATCC 43767', 'Capnocytophaga gingivalis ATCC 33624', 'Capnocytophaga ochracea F0287', 'Capnocytophaga sputigena ATCC 33612', 'Beggiatoa alba B18LD', 'Microscilla marina ATCC 23134', 'Thiothrix nivea DSM 5205', 'Afipia clevelandensis ATCC 49720', 'Afipia felis ATCC 53690', 'Erythrobacter longus', 'Allochromatium vinosum DSM 180', 'Halorhodospira halochloris str. A', 'Halorhodospira halophila SL1', 'Rhodobacter capsulatus SB 1003', 'Rhodobacter sphaeroides 2.4.1', 'Rhodomicrobium vannielii ATCC 17100', 'Rhodopseudomonas palustris CGA009', 'Phaeospirillum fulvum MGU-K5', 'Phaeospirillum molischianum DSM 120', 'Pararhodospirillum photometricum DSM 122', 'Rhodospirillum rubrum ATCC 11170', 'Rhodovibrio salinarum DSM 9154', 'Chlorobium limicola DSM 245', 'Chlorobium phaeovibrioides DSM 265', 'Chlorobium phaeobacteroides DSM 266', 'Chlorobaculum tepidum TLS', 'Pelodictyon luteolum DSM 273', 'Prosthecochloris aestuarii DSM 271', 'Chloroflexus aurantiacus J-10-fl', 'Chlorogloeopsis fritschii PCC 6912', 'Microcystis aeruginosa NIES-843', 'Synechocystis sp. PCC 6714', 'Synechocystis sp. PCC 6803 substr. Kazusa', 'Planktothrix agardhii NIVA-CYA 126/8', 'Anabaena cylindrica PCC 7122', 'Leptolyngbya boryana PCC 6306', 'Tolypothrix sp. PCC 7601', 'Trichodesmium erythraeum IMS101', 'Prochlorococcus marinus str. AS9601', 'Prochlorothrix hollandica PCC 9006 = CALU 1027', 'Nitrosococcus oceani ATCC 19707', 'Nitrosospira multiformis ATCC 25196', 'Leuconostoc gelidum subsp. gasicomitatum LMG 18811', 'Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293', 'Leuconostoc lactis', 'Oenococcus oeni PSU-1', 'Weissella paramesenteroides ATCC 33313', 'Leuconostoc fallax KCTC 3537', 'Leuconostoc carnosum JB16', 'Pediococcus acidilactici DSM 20284', 'Pediococcus pentosaceus ATCC 25745', 'Finegoldia magna ATCC 53516', 'Peptostreptococcus anaerobius VPI 4330 = DSM 2949', 'Ruminococcus albus 8', 'Ruminococcus flavefaciens FD-1', 'Micrococcus luteus NCTC 2665', 'Dermacoccus nishinomiyaensis', 'Kytococcus sedentarius DSM 20547', 'Staphylococcus aureus subsp. aureus Mu50', 'Staphylococcus carnosus subsp. carnosus TM300', 'Staphylococcus epidermidis RP62A', 'Staphylococcus haemolyticus JCSC1435', 'Staphylococcus hyicus', 'Staphylococcus intermedius NCTC 11048', 'Staphylococcus simulans UMC-CNS-990', 'Staphylococcus xylosus', 'Staphylococcus hominis SK119', 'Staphylococcus warneri L37603', 'Staphylococcus sciuri subsp. sciuri Z8', 'Deinococcus radiodurans R1', 'Streptococcus gordonii str. Challis substr. CH1', 'Streptococcus oralis subsp. tigurinus AZ_3a', 'Streptococcus salivarius 57.I', 'Streptococcus sanguinis SK1057', 'Streptococcus suis R61', 'Streptococcus thermophilus LMG 18311', 'Streptococcus mutans UA159', 'Streptococcus sobrinus W1703', 'Streptococcus agalactiae LMG 14747', 'Streptococcus pneumoniae R6', 'Streptococcus pyogenes', 'Streptococcus downei F0415', 'Streptococcus parasanguinis ATCC 903', 'Blautia hansenii DSM 20583', 'Faecalicoccus pleomorphus DSM 20574', 'Streptococcus anginosus DORA_7', 'Streptococcus canis FSL Z3-227', 'Streptococcus criceti HS-6', 'Streptococcus dysgalactiae subsp. equisimilis AC-2713', 'Streptococcus equinus ATCC 9812', 'Streptococcus equi subsp. zooepidemicus', 'Streptococcus intermedius B196', 'Streptococcus macacae NCTC 11558', 'Streptococcus porcinus str. Jelinkova 176', 'Streptococcus ratti FA-1 = DSM 20564', 'Streptococcus vestibularis F0396', 'Streptococcus ferus DSM 20646', 'Streptococcus iniae', 'Streptococcus parauberis NCFD 2020', 'Streptococcus uberis 0140J', 'Enterococcus faecalis V583', 'Enterococcus faecium C68', 'Enterococcus gallinarum EG2', 'Enterococcus hirae ATCC 9790', 'Enterococcus columbae DSM 7374 = ATCC 51263', 'Enterococcus sulfureus ATCC 49903', 'Lactococcus lactis subsp. cremoris SK11', 'Lactococcus garvieae DCC43', 'Lactococcus piscium MKFS47', 'Lactococcus raffinolactis 4877', 'Aerococcus urinae ACS-120-V-Col10a', 'Aerococcus viridans ATCC 11563 = CCUG 4311', 'Gemella haemolysans M341', 'Atopobium minutum 10063974', 'Atopobium parvulum DSM 20469', 'Atopobium rimae ATCC 49626', 'Bacillus amyloliquefaciens Y2', 'Aneurinibacillus aneurinilyticus ATCC 12856', 'Bacillus anthracis str. Ames', 'Brevibacillus brevis X23', 'Bacillus cereus', 'Bacillus coagulans 36D1', 'Bacillus firmus DS1', 'Bacillus licheniformis DSM 13 = ATCC 14580', 'Bacillus megaterium QM B1551', 'Bacillus mycoides KBAB4', 'Paenibacillus polymyxa SC2', 'Bacillus psychrosaccharolyticus ATCC 23296', 'Bacillus pumilus SAFR-032', 'Bacillus sp. (in: Bacteria)', 'Bacillus akibai JCM 9157', 'Bacillus cellulosilyticus DSM 2522', 'Lysinibacillus sphaericus OT4b.31', 'Bacillus subtilis subsp. subtilis str. 168', 'Parageobacillus thermoglucosidasius C56-YS93', 'Bacillus thuringiensis serovar kurstaki', 'Bacillus alcalophilus ATCC 27647 = CGMCC 1.3604', 'Amphibacillus xylanus NBRC 15112', 'Alicyclobacillus acidoterrestris ATCC 49025', 'Bacillus atrophaeus 1942', 'Geobacillus kaustophilus HTA426', 'Paenibacillus larvae subsp. larvae DSM 25430', 'Brevibacillus laterosporus DSM 25', 'Bacillus methanolicus PB1', 'Peribacillus simplex BA2H3', 'Bacillus smithii 7_3_47FAA', 'Virgibacillus halodenitrificans 1806', 'Clostridium acetobutylicum ATCC 824', 'Paraclostridium bifermentans WYM', 'Clostridium botulinum A2 str. Kyoto', 'Clostridium butyricum E4 str. BoNT E BL5262', 'Clostridium cellulovorans 743B', 'Clostridioides difficile', 'Ruminiclostridium josui JCM 17888', 'Clostridium pasteurianum BC1', 'Clostridium perfringens ATCC 13124', 'Paeniclostridium sordellii VPI 9048', 'Clostridium sp. ATCC 29733', 'Clostridium sporogenes PA 3679', 'Thermoclostridium stercorarium subsp. stercorarium DSM 8532', 'Acetoanaerobium sticklandii', 'Clostridium tetani 12124569', 'Hungateiclostridium thermocellum ATCC 27405', 'Thermoanaerobacter thermohydrosulfuricus WC1', 'Thermoanaerobacterium thermosaccharolyticum DSM 571', 'Clostridium tyrobutyricum DSM 2637 = ATCC 25755 = JCM 11008', 'Clostridium beijerinckii NCIMB 8052', 'Ruminiclostridium cellulolyticum H10', 'Moorella thermoacetica ATCC 39073', 'Clostridium cadaveris AGR2141', 'Clostridium kluyveri DSM 555', 'Clostridium ljungdahlii DSM 13528', 'Clostridioides mangenotii TR', 'Clostridium novyi B str. NCTC 9691', 'Erysipelatoclostridium ramosum DSM 1402', 'Clostridium scatologenes', 'Clostridium tetanomorphum DSM 665', 'Gottschalkia acidurici 9a', 'Peptoclostridium litorale DSM 5388', 'Clostridium baratii str. Sullivan', 'Desulfosporosinus orientis DSM 765', 'Desulfotomaculum ruminis DSM 2154', 'Desulfotomaculum nigrificans DSM 574', 'Halobacillus halophilus DSM 2266', 'Sporosarcina ureae DSM 2281', 'Leifsonia xyli subsp. cynodontis DSM 46306', 'Lactobacillus acidophilus 30SC', 'Lactobacillus brevis ATCC 367', 'Lactobacillus buchneri ATCC 11577', 'Lactobacillus casei BL23', 'Weissella confusa LBAE C39-2', 'Lactobacillus delbrueckii subsp. bulgaricus 2038', 'Lactobacillus helveticus CNRZ32', 'Lactobacillus hilgardii DSM 20176 = ATCC 8290', 'Lactobacillus pentosus KCA1', 'Lactobacillus plantarum WCFS1', 'Lactobacillus gasseri ATCC 33323 = JCM 1131', 'Lactobacillus paracasei subsp. paracasei ATCC 25302', 'Lactobacillus reuteri 100-23', 'Lactobacillus sakei subsp. sakei 23K', 'Lactobacillus amylovorus GRL 1112', 'Lactobacillus animalis', 'Lactobacillus coryniformis subsp. coryniformis KCTC 3167 = DSM 20001', 'Lactobacillus farciminis KCTC 3681 = DSM 20184', 'Lactobacillus fermentum IFO 3956', 'Lactobacillus fructivorans KCTC 3543 = DSM 20203', 'Weissella halotolerans DSM 20190', 'Lactobacillus murinus ASF361', 'Lactobacillus ruminis ATCC 27782', 'Lactobacillus salivarius UCC118', 'Lactobacillus sanfranciscensis TMW 1.1304', 'Kandleria vitulina MC3001', 'Fructobacillus fructosus KCTC 3544', 'Lactobacillus oris F0423', 'Lactobacillus vaginalis DSM 5837 = ATCC 49540', 'Listeria ivanovii subsp. londoniensis', 'Listeria monocytogenes EGD-e', 'Listeria seeligeri serovar 1/2b str. SLCC3954', 'Listeria grayi DSM 20601', 'Listeria innocua Clip11262', 'Listeria welshimeri serovar 6b str. SLCC5334', 'Renibacterium salmoninarum ATCC 33209', 'Erysipelothrix rhusiopathiae str. Fujisawa', 'Alloiococcus otitis ATCC 51267', 'Actinomyces naeslundii str. Howell 279', 'Actinomyces viscosus C505', 'Actinomyces israelii DSM 43320', 'Schaalia odontolytica ATCC 17982', 'Trueperella pyogenes TP8', 'Arthrobacter globiformis NBRC 12137', 'Bifidobacterium adolescentis', 'Bifidobacterium bifidum NCIMB 41171', 'Bifidobacterium angulatum DSM 20098 = JCM 7096', 'Bifidobacterium asteroides PRL2011', 'Bifidobacterium breve UCC2003', 'Bifidobacterium catenulatum DSM 16992 = JCM 1194 = LMG 11043', 'Bifidobacterium coryneforme', 'Bifidobacterium cuniculi', 'Bifidobacterium dentium Bd1', 'Bifidobacterium indicum LMG 11587 = DSM 20214', 'Bifidobacterium magnum', 'Bifidobacterium minimum', 'Bifidobacterium pseudolongum subsp. globosum', 'Corynebacterium ammoniagenes DSM 20306', 'Brevibacterium linens BL2', 'Cellulomonas fimi ATCC 484', 'Cellulosimicrobium cellulans J36', 'Cellulomonas flavigena DSM 20109', 'Oerskovia turbata', 'Corynebacterium diphtheriae PW8', 'Corynebacterium glutamicum', 'Corynebacterium pseudotuberculosis', 'Corynebacterium callunae DSM 20147', 'Corynebacterium variabile DSM 44702', 'Peptoclostridium acidaminophilum DSM 3953', 'Holdemanella biformis DSM 3989', 'Eubacterium limosum KIST612', 'Thermodesulfobacterium commune DSM 2178', 'Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1', 'Cutibacterium acnes KPA171202', 'Acidipropionibacterium acidipropionici ATCC 4875', 'Acidipropionibacterium jensenii DSM 20535', 'Pseudopropionibacterium propionicum F0230a', 'Acidipropionibacterium thoenii DSM 20276', 'Mycobacterium avium subsp. avium', 'Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841', 'Mycobacterium intracellulare ATCC 13950', 'Mycobacterium kansasii 732', 'Mycobacterium leprae TN', 'Mycolicibacterium phlei RIVM601174', 'Mycolicibacterium smegmatis MC2 155', 'Mycobacterium tuberculosis H37Rv', 'Mycobacteroides chelonae', 'Mycobacterium marinum M', 'Mycobacterium asiaticum DSM 44297', 'Mycolicibacterium neoaurum VKM Ac-1815D', 'Mycolicibacterium thermoresistibile ATCC 19527', 'Mycolicibacterium chubuense NBB4', 'Mycolicibacterium farcinogenes', 'Mycolicibacterium gilvum PYR-GCK', 'Mycobacterium ulcerans Agy99', 'Mycolicibacterium vaccae ATCC 25954', 'Amycolatopsis methanolica 239', 'Nocardia otitidiscaviarum NBRC 14405', 'Nocardia asteroides NBRC 15531', 'Rhodococcus fascians', 'Rhodococcus rhodochrous ATCC 21198', 'Rhodococcus ruber Chol-4', 'Rhodococcus erythropolis PR4', 'Saccharopolyspora erythraea NRRL 2338', 'Actinopolyspora halophila DSM 43834', 'Saccharomonospora viridis DSM 43017', 'Frankia alni ACN14a', 'Geodermatophilus obscurus DSM 43160', 'Actinoplanes missouriensis 431', 'Actinoplanes utahensis', 'Streptomyces albus subsp. albus', 'Kitasatospora aureofaciens', 'Streptomyces bikiniensis', 'Streptomyces coelicolor A3(2)', 'Streptomyces fradiae', 'Streptomyces glaucescens', 'Streptomyces griseus subsp. griseus NBRC 13350', 'Streptomyces hygroscopicus subsp. jinggangensis 5008', 'Streptomyces lividans 1326', 'Streptomyces scabiei 87.22', 'Streptomyces viridochromogenes DSM 40736', 'Streptomyces halstedii', 'Streptomyces purpureus KA281', 'Streptomyces sclerotialus', 'Streptomyces virginiae', 'Streptomyces cellulosae', 'Streptomyces chartreusis NRRL 12338', 'Actinomadura atramentaria DSM 43919', 'Actinomadura madurae LIID-AJ290', 'Microtetraspora glauca', 'Streptosporangium roseum DSM 43021', 'Streptosporangium amethystogenes', 'Thermobispora bispora DSM 43833', 'Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111', 'Nocardiopsis prasina DSM 43845', 'Thermomonospora curvata DSM 43183', 'Thermobifida fusca YX', 'Microbacterium testaceum StLB037', 'Curtobacterium flaccumfaciens UCD-AKU', 'Tropheryma whipplei str. Twist', 'Pimelobacter simplex', 'Rothia dentocariosa ATCC 17931', 'Mobiluncus curtisii ATCC 43063', 'Mobiluncus mulieris 28-1', 'Gordonia bronchialis DSM 43247', 'Gordonia terrae', 'Sphaerobacter thermophilus DSM 20745', 'Tsukamurella paurometabola DSM 20162', 'Kitasatospora setae KM-6054', 'Pseudonocardia autotrophica', 'Mycoplasma arginini 7264', 'Mycoplasma capricolum subsp. capricolum ATCC 27343', 'Mycoplasma gallisepticum', 'Mycoplasma genitalium G37', 'Mycoplasma hominis', 'Mycoplasma hyopneumoniae J', 'Mycoplasma hyorhinis SK76', 'Mycoplasma mycoides subsp. mycoides SC str. PG1', 'Mycoplasma pneumoniae', 'Mycoplasma leachii PG50', 'Mycoplasma pulmonis', 'Mycoplasma synoviae 53', 'Mycoplasma agalactiae PG2', 'Mycoplasma arthritidis 158L3-1', 'Mycoplasma bovigenitalium 51080', 'Mycoplasmopsis californica', 'Mycoplasma fermentans PG18', 'Mycoplasma iowae 695', 'Mycoplasma mobile', 'Mycoplasma putrefaciens Mput9231', 'Mycoplasma flocculare ATCC 27399', 'Ureaplasma urealyticum serovar 7 str. ATCC 27819', 'Spiroplasma melliferum IPMB4A', 'Spiroplasma apis B31', 'Spiroplasma mirum ATCC 29335', 'Spiroplasma taiwanense CT-1', 'Acholeplasma laidlawii PG-8A', 'Acholeplasma modicum ATCC 29102', 'Mesoplasma florum L1', 'Methanobrevibacter smithii ATCC 35061', 'Methanohalophilus mahii DSM 5219', 'Methanothermus fervidus DSM 2088', 'Methanothermococcus thermolithotrophicus DSM 2095', 'Methanococcus vannielii SB', 'Methanococcus voltae A3', 'Methanotorris igneus Kol 5', 'Methanocaldococcus jannaschii DSM 2661', 'Methanoculleus marisnigri JR1', 'Methanofollis liminatans DSM 4140', 'Methanospirillum hungatei JF-1', 'Methanomicrobium mobile BP', 'Methanosarcina barkeri str. Fusaro', 'Methanosarcina mazei Go1', 'Methanosarcina thermophila TM-1', 'Methanosarcina acetivorans C2A', 'Methanosarcina vacuolata Z-761', 'Methanothrix soehngenii GP6', 'Methanothrix thermoacetophila PT', 'Methanococcoides methylutens MM1', 'Archaeoglobus fulgidus DSM 4304', 'Haloarcula marismortui ATCC 43049', 'Halobacterium salinarum NRC-1', 'Haloferax volcanii DS2', 'Halorubrum lacusprofundi ATCC 49239', 'Halorubrum saccharovorum DSM 1137', 'Halococcus morrhuae DSM 1307', 'Haloferax mediterranei ATCC 33500', 'Natronomonas pharaonis DSM 2160', 'Pyrococcus furiosus DSM 3638', 'Thermococcus litoralis DSM 5473', 'Thermofilum pendens Hrk 5', 'Thermoproteus tenax Kra 1', 'Desulfurococcus mucosus DSM 2162', 'Pyrobaculum islandicum DSM 4184', 'Staphylothermus marinus F1', 'Sulfolobus acidocaldarius DSM 639', 'Saccharolobus solfataricus P2', 'Desulfobacter curvatus DSM 3379', 'Desulfobacter postgatei 2ac9', 'Desulfobacterium autotrophicum HRM2', 'Thermoplasma acidophilum DSM 1728', 'Methanoplanus limicola DSM 2279', 'Methanosphaera stadtmanae DSM 3091', 'Methanopyrus kandleri AV19', 'Methanohalobium evestigatum Z-7303', 'Thermoanaerobacter kivui', 'Halanaerobium praevalens DSM 2228', 'Thermotoga maritima MSB8', 'Thermotoga neapolitana DSM 4359', 'Solemya velum gill symbiont', 'Haliscomenobacter hydrossis DSM 1100', 'Flexistipes sinusarabici DSM 4947', 'Desulfomonile tiedjei DSM 6799', 'Xylella fastidiosa 9a5c', 'Acetonema longum DSM 6540', 'Sporomusa ovata DSM 2662', 'Thermosipho africanus TCF52B', 'Fervidobacterium islandicum', 'Fervidobacterium nodosum Rt17-B1', 'Teredinibacter turnerae T7901', 'Roseobacter denitrificans OCh 114', 'Gardnerella vaginalis 6119V5', 'Citrus sinensis', 'Cardiobacterium hominis ATCC 15826', 'Hirschia baltica ATCC 49814', 'Symbiobacterium thermophilum IAM 14863', 'Verrucomicrobium spinosum DSM 4136 = JCM 18804', 'Marinobacter hydrocarbonoclasticus VT8', 'Halomonas elongata DSM 2581', 'Carnobacterium divergens DSM 20623', 'Carnobacterium gallinarum DSM 4847', 'Carnobacterium mobile DSM 4848', 'Carnobacterium maltaromaticum LMA28', 'Carnobacterium funditum DSM 5970', 'Synergistes jonesii', 'Chondrus crispus', 'Phaeodactylum tricornutum', 'Ectocarpus siliculosus', 'Cryptomonas paramecium', 'Emiliania huxleyi', 'Symbiodinium microadriaticum', 'Chlamydomonas reinhardtii', 'Volvox carteri', 'Auxenochlorella protothecoides', 'Marchantia polymorpha', 'Physcomitrium patens', 'Cannabis sativa', 'Actinidia chinensis var. chinensis', 'Theobroma cacao', 'Carica papaya', 'Citrullus lanatus', 'Cucumis melo', 'Cucumis sativus', 'Populus trichocarpa', 'Arabidopsis thaliana', 'Brassica napus', 'Brassica rapa', 'Brassica oleracea', 'Malus domestica', 'Prunus dulcis', 'Prunus persica', 'Cajanus cajan', 'Cicer arietinum', 'Glycine max', 'Glycine soja', 'Lupinus angustifolius', 'Medicago truncatula', 'Phaseolus vulgaris', 'Vigna angularis', 'Manihot esculenta', 'Ricinus communis', 'Linum usitatissimum', 'Daucus carota subsp. sativus', 'Capsicum annuum', 'Solanum lycopersicum', 'Nicotiana sylvestris', 'Nicotiana tabacum', 'Nicotiana tomentosiformis', 'Nicotiana benthamiana', 'Solanum commersonii', 'Solanum tuberosum', 'Olea europaea', 'Erythranthe guttata', 'Sesamum indicum', 'Helianthus annuus', 'Cynara cardunculus var. scolymus', 'Nelumbo nucifera', 'Hordeum vulgare', 'Oryza longistaminata', 'Oryza rufipogon', 'Oryza sativa Japonica Group', 'Oryza brachyantha', 'Oryza nivara', 'Oryza punctata', 'Oryza glaberrima', 'Setaria italica', 'Setaria viridis', 'Sorghum bicolor', 'Triticum aestivum', 'Triticum turgidum subsp. durum', 'Triticum urartu', 'Zea mays', 'Ananas comosus', 'Musa acuminata', 'Pneumocystis carinii', 'Plasmopara halstedii', 'Phytophthora infestans', 'Phytophthora nicotianae', 'Phytophthora parasitica', 'Phytophthora megakarya', 'Phytophthora palmivora var. palmivora', 'Phycomyces blakesleeanus', 'Schizosaccharomyces pombe 972h-', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces octosporus', 'Cyberlindnera jadinii', 'Pichia kudriavzevii', 'Kluyveromyces marxianus DMKU3-1042', 'Lachancea waltii', 'Pachysolen tannophilus NRRL Y-2460', 'Millerozyma farinosa', 'Komagataella pastoris', 'Scheffersomyces stipitis', 'Pichia membranifaciens NRRL Y-2026', 'Wickerhamomyces anomalus', 'Meyerozyma guilliermondii', 'Saccharomyces bayanus', 'Saccharomyces cerevisiae S288C', 'Lachancea kluyveri', 'Torulaspora delbrueckii CBS 1146', 'Yarrowia lipolytica CLIB122', 'Zygosaccharomyces bailii CLIB 213', 'Lachancea fermentati', 'Zygosaccharomyces rouxii', 'Debaryomyces hansenii', 'Kockovaella imperatae', 'Brettanomyces bruxellensis', 'Taphrina deformans PYCC 5710', 'Bipolaris maydis', 'Bipolaris zeicola', 'Leptosphaeria maculans', 'Histoplasma capsulatum', 'Blastomyces dermatitidis', 'Acremonium chrysogenum ATCC 11550', 'Aspergillus aculeatus', 'Aspergillus clavatus', 'Aspergillus flavus', 'Aspergillus niger', 'Aspergillus oryzae', 'Penicillium camemberti', 'Penicillium chrysogenum', 'Penicillium roqueforti', 'Amorphotheca resinae ATCC 22711', 'Ascosphaera apis ARSEF 7405', 'Claviceps purpurea 20.1', 'Epichloe typhina E8', 'Cryphonectria parasitica', 'Fusarium fujikuroi', 'Neurospora crassa OR74A', 'Sordaria macrospora k-hell', 'Ophiostoma ulmi', 'Sclerotinia sclerotiorum 1980 UF-70', 'Cryptococcus neoformans var. neoformans JEC21', 'Cryptococcus depauperatus CBS 7841', 'Tremella mesenterica', 'Exidia glandulosa HHB12029', 'Ustilago maydis 521', 'Microbotryum violaceum', 'Tilletiaria anomala UBC 951', 'Rhodotorula toruloides', 'Puccinia graminis f. sp. tritici CRL 75-36-700-3', 'Phanerochaete chrysosporium', 'Pleurotus ostreatus var. ostreatus', 'Trametes versicolor FP-101664 SS1', 'Schizophyllum commune', 'Agaricus bisporus', 'Coprinopsis cinerea', 'Lentinula edodes', 'Suillus luteus UH-Slu-Lm8-n1', 'Ascochyta rabiei', 'Colletotrichum orbiculare', 'Candida albicans SC5314', 'Candida maltosa', 'Candida parapsilosis', 'Diutina rugosa', 'Candida tropicalis', 'Coccidioides immitis', 'Fusarium oxysporum', 'Fusarium culmorum CS7071', 'Fusarium graminearum', 'Metarhizium anisopliae ARSEF 549', 'Rhodotorula glutinis', 'Trichoderma harzianum', 'Trichoderma longibrachiatum ATCC 18648', 'Trichophyton rubrum', 'Aureobasidium pullulans EXF-150', 'Alternaria alternata', 'Phialophora americana', 'Saitoella complicata NRRL Y-17804', 'Cryptococcus wingfieldii CBS 7118', 'Grifola frondosa', 'Laetiporus sulphureus 93-53', 'Trametes cinnabarina', 'Leishmania braziliensis MHOM/BR/75/M2904', 'Leishmania donovani BPK282A1', 'Leishmania major', 'Leishmania mexicana MHOM/GT/2001/U1103', 'Leishmania infantum JPCM5', 'Leishmania panamensis', 'Leptomonas seymouri', 'Leishmania tarentolae', 'Trypanosoma brucei brucei', 'Trypanosoma cruzi', 'Trypanosoma equiperdum', 'Trypanosoma rangeli SC58', 'Trichomonas vaginalis', 'Giardia lamblia ATCC 50803', 'Acanthamoeba castellanii str. Neff', 'Entamoeba histolytica', 'Naegleria gruberi', 'Dictyostelium purpureum', 'Eimeria acervulina', 'Eimeria tenella', 'Eimeria maxima', 'Cryptosporidium parvum Iowa II', 'Cryptosporidium muris', 'Toxoplasma gondii ME49', 'Plasmodium berghei', 'Plasmodium chabaudi', 'Plasmodium cynomolgi strain B', 'Plasmodium falciparum 3D7', 'Plasmodium gallinaceum', 'Plasmodium knowlesi strain H', 'Plasmodium reichenowi', 'Plasmodium vivax Sal-1', 'Plasmodium fragile', 'Plasmodium malariae', 'Plasmodium vinckei', 'Plasmodium yoelii yoelii', 'Babesia bovis T2Bo', 'Babesia bigemina', 'Theileria equi', 'Theileria annulata', 'Theileria parva', 'Paramecium tetraurelia', 'Tetrahymena thermophila', 'Ichthyophthirius multifiliis', 'Stylonychia lemnae', 'Stentor coeruleus', 'Exophiala dermatitidis', 'Encephalitozoon cuniculi', 'Hydra vulgaris', 'Schistosoma japonicum', 'Schistosoma mansoni', 'Schistosoma haematobium', 'Echinococcus multilocularis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Ascaris suum', 'Brugia malayi', 'Onchocerca volvulus', 'Meloidogyne hapla', 'Bursaphelenchus xylophilus', 'Trichinella spiralis', 'Helobdella robusta', 'Aplysia californica', 'Biomphalaria glabrata', 'Crassostrea virginica', 'Mizuhopecten yessoensis', 'Daphnia pulex', 'Tigriopus californicus', 'Ixodes scapularis', 'Blattella germanica', 'Acyrthosiphon pisum', 'Bemisia tabaci', 'Tribolium castaneum', 'Bombyx mori', 'Aedes aegypti', 'Aedes albopictus', 'Anopheles gambiae', 'Anopheles albimanus', 'Anopheles dirus', 'Anopheles arabiensis', 'Culex pipiens', 'Culex quinquefasciatus', 'Lutzomyia longipalpis', 'Loa loa', 'Ceratitis capitata', 'Drosophila ananassae', 'Drosophila erecta', 'Drosophila grimshawi', 'Drosophila melanogaster', 'Drosophila mojavensis', 'Drosophila persimilis', 'Drosophila pseudoobscura pseudoobscura', 'Drosophila sechellia', 'Drosophila simulans', 'Drosophila virilis', 'Drosophila yakuba', 'Drosophila willistoni', 'Drosophila saltans', 'Musca domestica', 'Lucilia cuprina', 'Glossina morsitans morsitans', 'Glossina austeni', 'Glossina fuscipes fuscipes', 'Glossina palpalis gambiensis', 'Glossina pallidipes', 'Nasonia vitripennis', 'Apis mellifera', 'Lingula anatina', 'Strongylocentrotus purpuratus', 'Ciona intestinalis', 'Branchiostoma floridae', 'Branchiostoma lanceolatum', 'Petromyzon marinus', 'Eptatretus burgeri', 'Callorhinchus milii', 'Latimeria chalumnae', 'Lepisosteus oculatus', 'Clupea harengus', 'Danio rerio', 'Carassius auratus', 'Cyprinus carpio', 'Astyanax mexicanus', 'Ictalurus punctatus', 'Electrophorus electricus', 'Esox lucius', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Salmo salar', 'Salmo trutta', 'Gadus morhua', 'Fundulus heteroclitus', 'Poecilia reticulata', 'Xiphophorus maculatus', 'Oryzias latipes', 'Cyclopterus lumpus', 'Oreochromis niloticus', 'Haplochromis burtoni', 'Astatotilapia calliptera', 'Sparus aurata', 'Lates calcarifer', 'Xenopus tropicalis', 'Chelonia mydas', 'Chelydra serpentina', 'Chrysemys picta', 'Alligator mississippiensis', 'Crocodylus porosus', 'Sphenodon punctatus', 'Laticauda laticaudata', 'Notechis scutatus', 'Pseudonaja textilis', 'Dromaius novaehollandiae', 'Struthio camelus', 'Apteryx haastii', 'Apteryx owenii', 'Anas platyrhynchos', 'Anser cygnoides', 'Cairina moschata domestica', 'Chaetura pelagica', 'Columba livia', 'Falco peregrinus', 'Aquila chrysaetos chrysaetos', 'Haliaeetus albicilla', 'Numida meleagris', 'Gallus gallus', 'Pavo cristatus', 'Phasianus colchicus', 'Chrysolophus pictus', 'Meleagris gallopavo', 'Serinus canaria', 'Parus major', 'Phalacrocorax carbo', 'Phoenicopterus ruber ruber', 'Aptenodytes forsteri', 'Pygoscelis adeliae', 'Calypte anna', 'Ornithorhynchus anatinus', 'Sarcophilus harrisii', 'Notamacropus eugenii', 'Choloepus hoffmanni', 'Dasypus novemcinctus', 'Erinaceus europaeus', 'Echinops telfairi', 'Pteropus alecto', 'Callithrix jacchus', 'Cercocebus atys', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Papio anubis', 'Theropithecus gelada', 'Mandrillus leucophaeus', 'Gorilla gorilla gorilla', 'Pan paniscus', 'Pan troglodytes', 'Pongo abelii', 'Homo sapiens', 'Canis lupus familiaris', 'Vulpes vulpes', 'Ursus thibetanus thibetanus', 'Ursus americanus', 'Ailuropoda melanoleuca', 'Mustela putorius', 'Felis catus', 'Panthera leo', 'Panthera onca', 'Panthera pardus', 'Panthera tigris', 'Zalophus californianus', 'Odobenus rosmarus', 'Leptonychotes weddellii', 'Orcinus orca', 'Tursiops truncatus', 'Delphinapterus leucas', 'Physeter catodon', 'Balaenoptera acutorostrata', 'Balaenoptera musculus', 'Trichechus manatus', 'Loxodonta africana', 'Equus asinus asinus', 'Equus caballus', 'Procavia capensis', 'Orycteropus afer', 'Sus scrofa', 'Camelus dromedarius', 'Bison bison bison', 'Bos taurus', 'Capra hircus', 'Ovis aries', 'Ochotona princeps', 'Oryctolagus cuniculus', 'Marmota marmota marmota', 'Urocitellus parryii', 'Dipodomys ordii', 'Cricetulus griseus', 'Mesocricetus auratus', 'Peromyscus maniculatus', 'Meriones unguiculatus', 'Mus caroli', 'Mus musculus', 'Mus pahari', 'Mus spretus', 'Mus spicilegus', 'Rattus norvegicus', 'Cavia porcellus', 'Octodon degus', 'Heterocephalus glaber', 'Saccoglossus kowalevskii', 'Trichoplax adhaerens', 'Sagitta elegans', 'Atta cephalotes', 'Blastocystis hominis', 'Danaus plexippus', 'Lynx lynx', 'Melopsittacus undulatus', 'Myzus persicae', 'Rhodnius prolixus', 'Tilletia caries', 'Tilletia controversa', 'Amborella trichopoda', 'Anaerobiospirillum succiniciproducens DSM 6400', 'Arthrobotrys oligospora ATCC 24927', 'Burkholderia mallei ATCC 23344', 'Dicentrarchus labrax', 'Monodelphis domestica', 'Parastagonospora nodorum SN15', 'Solenopsis invicta', 'Sphingomonas paucimobilis', 'Sphingobium yanoikuyae', 'Syncephalastrum racemosum', 'Pelodiscus sinensis', 'Utricularia gibba', 'Natrialba magadii ATCC 43099', 'Pyrobaculum aerophilum str. IM2', 'Brachypodium distachyon', 'Naumovozyma castellii', 'Naumovozyma dairenensis CBS 421', 'Saccharomyces paradoxus', 'Saccharomyces pastorianus Weihenstephan 34/70', 'Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993', 'Penicillium expansum', 'Verticillium dahliae VdLs.17', 'Schizopora paradoxa', 'Puccinia coronata var. avenae f. sp. avenae', 'Puccinia sorghi', 'Puccinia striiformis', 'Saimiri boliviensis', 'Erpetoichthys calabaricus', 'Mnemiopsis leidyi', 'Encephalitozoon hellem ATCC 50504', 'Nosema bombycis CQ1', 'Strigomonas culicis', 'Bifidobacterium animalis subsp. lactis BB-12', 'Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505', 'Lysinibacillus fusiformis ZC1', 'Staphylococcus lugdunensis HKU09-01', 'Streptococcus mitis B6', 'Lactobacillus curvatus CRL 705', 'Saccharopolyspora rectivirgula', 'Acidothermus cellulolyticus 11B', 'Lachnospira multipara ATCC 19207', 'Rubrivivax gelatinosus IL144', 'Nostoc sp. PCC 7524', 'Campylobacter upsaliensis RM3195', 'Legionella anisa str. Linanisette', 'Legionella sainthelensi ATCC 35248 = DSM 19231', 'Acinetobacter lwoffii SH145', 'Neisseria weaveri LMG 5135', 'Burkholderia gladioli BSR3', 'Mesorhizobium huakuii 7653R', "Alteromonas macleodii str. 'Black Sea 11'", 'Francisella philomiragia subsp. philomiragia ATCC 25017', 'Bacteroides eggerthii DSM 20697', 'Tannerella forsythia 92A2', 'Porphyromonas levii DSM 23370', 'Porphyromonas macacae', 'Bacteroides ovatus ATCC 8483', 'Alistipes putredinis DSM 17216', 'Odoribacter splanchnicus DSM 20712', 'Porphyromonas asaccharolytica DSM 20707', 'Porphyromonas endodontalis ATCC 35406', 'Prevotella bivia DNF00188', 'Prevotella buccae ATCC 33574', 'Prevotella buccalis ATCC 35310', 'Prevotella corporis DSM 18810 = JCM 8529', 'Prevotella denticola F0289', 'Prevotella disiens JCM 6334 = ATCC 29426', 'Prevotella intermedia 17', 'Prevotella melaninogenica ATCC 25845', 'Prevotella nigrescens ATCC 33563', 'Prevotella oralis ATCC 33269', 'Prevotella oris C735', 'Prevotella oulorum JCM 14966', 'Prevotella veroralis F0319', 'Rikenella microfusus DSM 15922', 'Cronobacter sakazakii ATCC BAA-894', 'Serratia proteamaculans 568', 'Yersinia kristensenii', 'Vibrio metschnikovii CIP 69.14', 'Vibrio nigripulchritudo SOn1', 'Vibrio orientalis CIP 102891 = ATCC 33934', 'Candidatus Photodesmus katoptron', 'Acetohalobium arabaticum DSM 5501', 'Capnocytophaga canimorsus Cc5', 'Capnocytophaga cynodegmi DSM 19736', 'Arcobacter butzleri RM4018', 'Arcobacter nitrofigilis DSM 7299', 'Sphingomonas parapaucimobilis NBRC 15100', 'Desulfobacula toluolica Tol2', 'Mycoplasma penetrans', 'Colwellia psychrerythraea', 'Carnobacterium alterfunditum DSM 5972', 'Geobacter metallireducens GS-15', 'Ornithobacterium rhinotracheale DSM 15997', 'Cobetia marina', 'Thermodesulfovibrio yellowstonii DSM 11347', 'Arcanobacterium haemolyticum DSM 20595', 'Anolis carolinensis', 'Herbidospora cretacea', 'Clavibacter michiganensis subsp. sepedonicus', 'Komagataeibacter xylinus E25', 'Neisseria subflava NJ9703', 'Burkholderia pseudomallei K96243', 'Tarenaya hassleriana', 'Talaromyces stipitatus ATCC 10500', 'Talaromyces islandicus', 'Allomyces macrogynus', 'Elephantulus edwardii', 'Cyprinodon variegatus', 'Thermoanaerobacterium saccharolyticum JW/SL-YS485', 'Salmonella enterica subsp. enterica serovar Typhimurium str. LT2', 'Mycoplasma bovis PG45', 'Kluyveromyces lactis', 'Alternaria brassicicola', 'Drosophila eugracilis', 'Drosophila takahashii', 'Phlebotomus papatasi', 'Panthera uncia', 'Ursus maritimus', 'Eptesicus fuscus', 'Vombatus ursinus', 'Mytilus galloprovincialis', 'Crassostrea gigas', 'Neospora caninum', 'Haloarcula japonica DSM 6131', 'Natronococcus occultus SP4', 'Methanococcoides burtonii DSM 6242', 'Pyrococcus abyssi GE5', 'Streptomyces cattleya NRRL 8057 = DSM 46488', 'Streptomyces griseoluteus', 'Paenarthrobacter nicotinovorans 231Sha2.1M6', 'Corynebacterium otitidis ATCC 51513', 'Thermoanaerobacter brockii subsp. finnii Ako-1', 'Thermoanaerobacterium xylanolyticum LX-11', 'Ruminiclostridium cellobioparum subsp. termitidis CT1112', 'Cellulosilyticum lentocellum DSM 5427', 'Tyzzerella nexilis DSM 1787', 'Ruminiclostridium papyrosolvens DSM 2782', 'Clostridium paraputrificum AGR2156', 'Staphylococcus caprae M23864:W1', 'Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292', 'Staphylococcus capitis C87', 'Gemella morbillorum M424', 'Dolosigranulum pigrum ATCC 51524', 'Microlunatus phosphovorus NM-1', 'Helicobacter canis NCTC 12740', 'Legionella oakridgensis ATCC 33761 = DSM 21215', 'Acinetobacter haemolyticus MTCC 9819', 'Psychrobacter phenylpyruvicus DSM 7000 = NBRC 102152', 'Pseudomonas savastanoi pv. phaseolicola 1448A', 'Xanthomonas albilineans GPE PC73', 'Bradyrhizobium elkanii WSM2783', 'Rhizobium etli CIAT 652', 'Rhizobium leucaenae USDA 9039', 'Brucella melitensis bv. 1 str. 16M', 'Brucella neotomae 5K33', 'Brucella suis 1330', 'Veillonella parvula DSM 2008', 'Pectobacterium atrosepticum SCRI1043', 'Yersinia aldovae ATCC 35236', 'Yersinia frederiksenii ATCC 33641', 'Yersinia rohdei', 'Yersinia ruckeri', 'Vibrio furnissii NCTC 11218', 'Vibrio navarrensis', 'Vibrio splendidus ZS-139', 'Vibrio tubiashii ATCC 19109', 'Mycoplasma haemofelis Ohio2', 'Turneriella parva DSM 21527', 'Borreliella afzelii PKo', 'Borreliella garinii BgVir', 'Borrelia crocidurae DOU', 'Cytophaga aurantiaca DSM 3654', 'Flavobacterium succinicans LMG 10402', 'Pelobacter propionicus DSM 2379', 'Lawsonia intracellularis PHE/MN1-00', 'Rhodothermus marinus DSM 4252', 'Acholeplasma axanthum ATCC 25176', 'Mycoplasma canadense', 'Mycoplasma canis PG 14', 'Mycoplasma meleagridis', 'Mycoplasma ovipneumoniae 14811', 'Taylorella equigenitalis MCE9', 'Janthinobacterium lividum', 'Dioscorea cayenensis subsp. rotundata', 'Gossypium raimondii', 'Vitis vinifera', 'Lipomyces starkeyi NRRL Y-11557', 'Lachancea cidri', 'Hanseniaspora uvarum DSM 2768', 'Penicillium vulpinum', 'Gaeumannomyces graminis', 'Trichoderma virens', 'Neurospora discreta FGSC 8579', 'Laccaria bicolor', 'Calocera cornea HHB12733', 'Rhodotorula graminis WP1', 'Sporothrix schenckii', 'Tolypocladium inflatum', 'Phytophthora cactorum', 'Drosophila elegans', 'Drosophila emarginata', 'Drosophila ficusphila', 'Drosophila kikkawai', 'Drosophila neocordata', 'Drosophila prosaltans', 'Drosophila sturtevanti', 'Anopheles merus', 'Anopheles stephensi', 'Bombus terrestris', 'Opisthocomus hoazin', 'Fulmarus glacialis', 'Bubo bubo', 'Nothoprocta perdicaria', 'Tinamus major', 'Bos grunniens', 'Bos indicus x Bos taurus', 'Vicugna pacos', 'Microcebus murinus', 'Otolemur garnettii', 'Oryzias melastigma', 'Takifugu rubripes', 'Caenorhabditis remanei', 'Perkinsus marinus ATCC 50983', 'Enterocytozoon bieneusi H348', 'Colletotrichum graminicola M1.001', 'Caldicellulosiruptor bescii DSM 6725', 'Halothermothrix orenii H 168', 'Amycolatopsis orientalis DSM 40040 = KCTC 9412', 'Amycolatopsis lurida NRRL 2430', 'Absiella dolichum DSM 3991', 'Eggerthia catenaformis OT 569 = DSM 20559', 'Methylobacterium radiotolerans JCM 2831', 'Helicobacter hepaticus ATCC 51449', 'Synechococcus elongatus', 'Synechococcus sp. PCC 7002', 'Synechococcus sp. WH 7803', 'Calothrix sp. PCC 6303', 'Calothrix sp. PCC 7103', 'Tetranychus urticae', 'Xiphophorus couchianus', 'Neolamprologus brichardi', 'Desulfurella acetivorans A63', 'Winkia neuii subsp. neuii DSM 8576', 'Cutibacterium avidum 44067', 'Cutibacterium granulosum TM11', 'Propionimicrobium lymphophilum ACS-093-V-SCH5', 'Sporolactobacillus laevolacticus DSM 442', 'Anaerococcus hydrogenalis DSM 7454', 'Peptoniphilus indolicus ATCC 29427', 'Peptoniphilus lacrimalis 315-B', 'Anaerococcus lactolyticus ATCC 51172', 'Parvimonas micra ATCC 33270', 'Anaerococcus prevotii DSM 20548', 'Blautia producta', 'Anaerococcus tetradius ATCC 35098', 'Anaerococcus vaginalis ATCC 51170', 'Coprococcus eutactus ATCC 27759', 'Bartonella doshiae NCTC 12862 = ATCC 700133', 'Bartonella grahamii as4aup', 'Bartonella taylorii 8TBB', 'Bartonella vinsonii subsp. arupensis Pm136co', 'Candidatus Kinetoplastibacterium crithidii TCC036E', 'Acidithiobacillus caldus ATCC 51756', 'Gloeobacter violaceus PCC 7421', 'Acidobacterium capsulatum ATCC 51196', 'Entamoeba invadens IP1', 'Eremothecium gossypii ATCC 10895', 'Aspergillus terreus', 'Uncinocarpus reesii 1704', 'Purpureocillium lilacinum', 'Gambusia affinis', 'Coriobacterium glomerans PW2', 'Catenuloplanes japonicus', 'Brevibacterium casei S18', 'Streptomyces galbus', 'Streptomyces avermitilis MA-4680 = NBRC 14893', 'Bifidobacterium thermophilum', 'Actinopolyspora mortivallis DSM 44261', 'Amycolatopsis mediterranei U32', 'Anoxybacillus flavithermus subsp. yunnanensis str. E13', 'Geobacillus thermodenitrificans NG80-2', 'Geobacillus thermoleovorans CCB_US3_UF5', 'Kyrpidia tusciae DSM 2912', 'Enterococcus avium ATCC 14025', 'Acetobacterium woodii DSM 1030', 'Lactobacillus johnsonii NCC 533', 'Leuconostoc citreum KM20', 'Leuconostoc pseudomesenteroides 4882', 'Melissococcus plutonius ATCC 35311', 'Rickettsia amblyommatis str. GAT-30V', 'Rickettsia bellii OSU 85-389', 'Rickettsia montanensis str. OSU 85-930', 'Rickettsia rhipicephali str. 3-7-female6-CWPP', 'Neorickettsia helminthoeca str. Oregon', 'Gluconacetobacter diazotrophicus PA1 5', 'Paracoccus aminophilus JCM 7686', 'Paracoccus versutus', 'Azospirillum halopraeferens DSM 3675', 'Rhodospirillum centenum SW', 'Candidatus Liberibacter asiaticus str. gxpsy', 'Leptothrix cholodnii SP-6', 'Rahnella aquatilis CIP 78.65 = ATCC 33071', 'Variovorax paradoxus 110B', 'Riemerella anatipestifer RA-GD', 'Pedobacter antarcticus 4BY', 'Pelodictyon phaeoclathratiforme BU-1', 'Sphaerotilus natans subsp. natans DSM 6575', 'Streptobacillus moniliformis DSM 12112', 'Lotus japonicus', 'Mixia osmundae', 'Blumeria graminis', 'Trichophyton tonsurans', 'Trichophyton violaceum', 'Conidiobolus coronatus NRRL 28638', 'Strongyloides ratti', 'Anopheles melas', 'Anopheles quadriannulatus', 'Heliconius melpomene plesseni', 'Chinchilla lanigera', 'Thalassiosira pseudonana', 'Nosema apis BRL 01', 'Eubacterium brachy ATCC 33089', 'Eubacterium nodatum ATCC 33099', 'Daphnia magna', 'Geobacter sulfurreducens PCA', 'Stomoxys calcitrans', 'Streptomyces griseoflavus Tu4000', 'Streptomyces mobaraensis NBRC 13819 = DSM 40847', 'Acholeplasma oculi', 'Naja naja', 'Heliobacterium modesticaldum Ice1', 'Citrobacter amalonaticus', 'Epichloe festucae', 'Macrophomina phaseolina MS6', 'Sporichthya polymorpha DSM 43042', 'Dactylosporangium aurantiacum', 'Corynebacterium kutscheri', 'Corynebacterium pilosum DSM 20521', 'Bifidobacterium choerinum', "Peanut witches'-broom phytoplasma NTU2011", 'Coprothermobacter proteolyticus DSM 5265', 'Rickettsia africae ESF-5', 'Rickettsia helvetica C9P9', 'Rickettsia japonica YH', 'Rickettsia massiliae str. AZT80', 'Rickettsia parkeri str. Portsmouth', 'Rickettsia sibirica 246', 'Rickettsia slovaca str. D-CWPP', 'Ehrlichia muris AS145', 'Nitrococcus mobilis Nb-231', 'Nitrosospira briensis C-128', 'Nitrospina gracilis 3/211', 'Rhodovulum sulfidophilum DSM 1374', 'Bordetella holmesii ATCC 51541', 'Helicobacter heilmannii ASB1.4', 'Helicobacter pullorum MIT 98-5489', 'Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933', 'Hungateiclostridium cellulolyticum CD2', 'Bilophila wadsworthia ATCC 49260', 'Holophaga foetida DSM 6591', 'Bacillus thermoamylovorans', 'Ipomoea triloba', 'Cyberlindnera fabianii', 'Vanderwaltozyma polyspora DSM 70294', 'Fusarium poae', 'Cantharellus cibarius var. cibarius', 'Ganoderma sinense ZZ0214-1', 'Mucor circinelloides', 'Megaselia scalaris', 'Pelecanus crispus', 'Plasmodium ovale curtisi', 'Globisporangium irregulare', 'Aspergillus fischeri NRRL 181', 'Penicillium coprophilum', 'Penicillium digitatum', 'Dermabacter hominis 1368', 'Clostridium saccharoperbutylacetonicum N1-4(HMT)', 'Pseudomonas cichorii JBC1', 'Gaeumannomyces tritici', 'Mycobacteroides abscessus', 'Mycobacterium genavense ATCC 51234', 'Mycolicibacterium rhodesiae JS60', 'Gordonia aichiensis NBRC 108223', 'Gordonia amarae NBRC 15530', 'Gordonia sputi NBRC 100414', 'Clostridium celatum DSM 1785', 'Clostridium intestinale URNW', 'Desulfitobacterium dehalogenans ATCC 51507', 'Brucella canis ATCC 23365', 'Thiobacillus denitrificans DSM 12475', 'Paraburkholderia xenovorans LB400', 'Porphyromonas cangingivalis', 'Porphyromonas canoris', 'Clavispora lusitaniae', 'Lodderomyces elongisporus', 'Glossina brevipalpis', 'Kryptolebias marmoratus', 'Suricata suricatta', 'Gavia stellata', 'Aotus nancymaae', 'Nocardia brasiliensis ATCC 700358', 'Nocardia brevicatena NBRC 12119', 'Nocardia carnea NBRC 14403', 'Nocardia farcinica IFM 10152', 'Nocardia nova SH22a', 'Nocardia transvalensis NBRC 15921', 'Tupaia belangeri', 'Plasmodiophora brassicae', 'Helicobacter bilis ATCC 43879', 'Pisolithus tinctorius Marx 270', 'Laceyella sacchari 1-1', 'Marichromatium purpuratum 984', 'Cavia aperea', 'Thermus scotoductus SA-01', 'Octopus bimaculoides', 'Clostridium algidicarnis', 'Aegilops tauschii', 'Candidatus Phytoplasma mali AT', 'Talaromyces marneffei ATCC 18224', 'Enterococcus casseliflavus EC20', 'Cryptococcus gattii EJB2', 'Heterorhabditis bacteriophora', 'Rhytidhysteron rufulum', 'Rhodococcus opacus', 'Methanosarcina siciliae C2J', 'Chaetomium globosum', 'Rhynchosporium secalis', 'Corynebacterium accolens ATCC 49725', 'Corynebacterium genitalium ATCC 33030', 'Corynebacterium jeikeium K411', 'Photobacterium damselae subsp. damselae CIP 102761', 'Streptomyces pristinaespiralis ATCC 25486', 'Corynebacterium pseudogenitalium ATCC 33035', 'Corynebacterium vitaeruminis DSM 20294', 'Gluconobacter frateurii NBRC 103465', 'Rhodococcus rhodnii LMG 5362', 'Shewanella algae JCM 14758', 'Bartonella henselae str. Houston-1', 'Erysipelothrix tonsillarum DSM 14972', 'Eragrostis curvula', 'Phascolarctos cinereus', 'Alligator sinensis', 'Panicum virgatum', 'Gopherus agassizii', 'Neolentinus lepideus HHB14362 ss-1', 'Micromonas pusilla', 'Fraxinus excelsior', 'Acholeplasma palmae J233', 'Methanococcus maripaludis C6', 'Tuber melanosporum Mel28', 'Faecalitalea cylindroides ATCC 27803', 'Agathobaculum desmolans ATCC 43058', 'Dorea formicigenerans 4_6_53AFAA', 'Anaerobutyricum hallii DSM 3353', 'Eubacterium ramulus ATCC 29099', 'Eubacterium ventriosum ATCC 27560', 'Eubacterium xylanophilum ATCC 35991', 'Mesorhizobium ciceri biovar biserrulae WSM1271', 'Cellvibrio mixtus subsp. mixtus J3-8', 'Methanosalsum zhilinae DSM 4017', 'Mayetiola destructor', 'Hydrogenovibrio crunogenus XCL-2', 'Sulfurimonas denitrificans DSM 1251', 'Blattabacterium sp. (Mastotermes darwiniensis) str. MADAR', 'Methylomicrobium album BG8', 'Veillonella atypica KON', 'Veillonella dispar ATCC 17748', 'Corynebacterium glucuronolyticum ATCC 51867', 'Erythrobacter litoralis HTCC2594', 'Legionella moravica DSM 19234', 'Hypsizygus marmoreus', 'Helcococcus kunzii ATCC 51366', 'Bipolaris victoriae FI3', 'Neurospora tetrasperma', 'Oligotropha carboxidovorans OM5', 'Oryza glumipatula', 'Oryza meridionalis', 'Monodon monoceros', 'Lonchura striata domestica', 'Fusarium avenaceum', 'Acinetobacter johnsonii SH046', 'Acinetobacter junii', 'Acinetobacter radioresistens SH164', 'Junco hyemalis', 'Aliivibrio salmonicida LFI1238', 'Penicillium italicum', 'Nosema ceranae BRL01', 'Streptomyces nodosus', 'Stenotrophomonas maltophilia K279a', 'Fonsecaea pedrosoi CBS 271.37', 'Acinetobacter sp. CIP-A165', 'Daedalea quercina L-15889', 'Fistulina hepatica ATCC 64428', 'Fomitopsis pinicola', 'Stereum hirsutum', 'Ruminococcus bromii L2-63', 'Ruminococcus callidus ATCC 27760', 'Blautia obeum ATCC 29174', 'Leptotrichia buccalis C-1013-b', 'Sutterella wadsworthensis HGA0223', 'Botrytis cinerea', 'Sporobolomyces roseus IAM 13481', 'Actinosynnema mirum DSM 43827', 'Lentzea albidocapillata', 'Xenorhabdus bovienii SS-2004', 'Xenorhabdus poinarii G6', 'Claviceps paspali', 'Claviceps fusiformis', 'Balansia obtecta', 'Thioploca ingrica', 'Borrelia duttonii Ly', 'Rhopalosiphum padi', 'Saccharomonospora azurea SZMC 14600', 'Saccharomonospora cyanea NA-134', 'Saccharomonospora glauca K62', 'Aspergillus carbonarius ITEM 5010', 'Elsinoe australis', 'Penicilliopsis zonata CBS 506.65', 'Ewingella americana ATCC 33852', 'Anopheles atroparvus', 'Seriola dumerili', 'Lomentospora prolificans', 'Bathycoccus prasinos', 'Candidatus Microthrix parvicella RN1', 'Amanita muscaria Koide BX008', 'Porphyromonas catoniae F0037', 'Enterococcus saccharolyticus subsp. saccharolyticus ATCC 43076', 'Drosophila bipectinata', 'Pneumocystis jirovecii SE8', 'Ureaplasma diversum NCTC 246', 'Phocoena sinus', 'Prunus avium', 'Streptomyces acidiscabies 84-104', 'Tuber magnatum', 'Tuber borchii', 'Desulfovibrio termitidis HI1', 'Sorex araneus', 'Rubrobacter radiotolerans', 'Phoenix dactylifera', 'Aciculosporium take MAFF-241224', 'Candida dubliniensis', 'Vittaforma corneae ATCC 50505', 'Halobacteroides halobius DSM 5150', 'Roseobacter litoralis Och 149', 'Lichtheimia corymbifera', 'Desulfofundulus thermocisternus DSM 10259', 'Pygocentrus nattereri', 'Halomonas salina', 'Streptomyces collinus Tu 365', 'Gelatoporia subvermispora B', 'Epichloe amarillans E57', 'Corynebacterium argentoratense DSM 44202', 'Ammonifex degensii KC4', 'Staphylococcus lentus F1142', 'Rickettsia felis URRWXCal2', 'Methanococcus aeolicus Nankai-3', 'Anopheles christyi', 'Tilletia indica', 'Sulfolobus islandicus REY15A', 'Rhopalosiphum maidis', 'Anopheles darlingi', 'Ictidomys tridecemlineatus', 'Capronia epimyces', 'Capronia coronata', 'Pseudomonas alcaligenes NBRC 14159', 'Butyrivibrio proteoclasticus P6B7', 'Prauserella rugosa', 'Kutzneria albida DSM 43870', 'Cathartes aura', 'Zosterops lateralis melanops', 'Halanaerobium saccharolyticum subsp. saccharolyticum DSM 6643', 'Pseudoalteromonas citrea DSM 8771', 'Pseudoalteromonas luteoviolacea B = ATCC 29581', 'Pseudoalteromonas rubra DSM 6842', 'Paenarthrobacter aurescens TC1', 'Brachybacterium faecium DSM 4810', 'Jonesia denitrificans DSM 20603', 'Rothia mucilaginosa DY-18', 'Metallosphaera sedula DSM 5348', 'Monopterus albus', 'Streptomyces wedmorensis', 'Corynebacterium amycolatum SK46', 'Rhodococcus hoagii 103S', 'Corynebacterium matruchotii ATCC 14266', 'Corynebacterium propinquum DSM 44285', 'Corynebacterium striatum ATCC 6940', 'Corynebacterium urealyticum DSM 7109', 'Tolumonas auensis DSM 9187', 'Johnsonella ignava ATCC 51276', 'Catonella morbi ATCC 51271', 'Caldicellulosiruptor saccharolyticus DSM 8903', 'Enterococcus cecorum DSM 20682 = ATCC 43198', 'Enterococcus dispar ATCC 51266', 'Ferrimonas balearica DSM 9799', 'Aureococcus anophagefferens', 'Streptomyces megasporus', 'Trichomonascus ciferrii', 'Paenibacillus alvei TS-15', 'Paenibacillus durus', 'Paenibacillus macerans', 'Bradyrhizobium oligotrophicum S58', 'Caldanaerobius polysaccharolyticus DSM 13641', 'Erythrura gouldiae', 'Zonotrichia albicollis', 'Eimeria mitis', 'Borrelia persica No12', 'Borrelia recurrentis A1', 'Natronococcus amylolyticus DSM 10524', 'Nitrosomonas cryotolerans ATCC 49181', 'Sulfurospirillum barnesii SES-3', 'Geothrix fermentans DSM 14018', 'Dictyostelium discoideum', 'Natronobacterium gregoryi SP2', 'Legionella fairfieldensis ATCC 49588', 'Legionella lansingensis DSM 19556 = ATCC 49751', 'Legionella shakespearei DSM 23087', 'Bipolaris sorokiniana', 'Pyrenophora tritici-repentis Pt-1C-BFP', 'Cyanidioschyzon merolae', 'Tolypocladium capitatum', 'Capnocytophaga granulosa ATCC 51502', 'Leucothrix mucor DSM 2157', 'Eremothecium cymbalariae', 'Eremothecium sinecaudum', 'Nematostella vectensis', 'Mycoplasma conjunctivae HRC/581', 'Mycoplasma bovoculi M165/69', 'Mycoplasma alkalescens 14918', 'Brevibacillus borstelensis 3096-7', 'Wickerhamiella sorbophila', 'Babjeviella inositovora NRRL Y-12698', 'Streptococcus cristatus AS 1.3089', 'Vibrio scophthalmi LMG 19158', 'Desulfohalobium retbaense DSM 5692', 'Nadsonia fulvescens', 'Butyrivibrio crossotus DSM 2876', 'Staphylococcus pasteuri SP1', 'Granulicatella adiacens ATCC 49175', 'Abiotrophia defectiva ATCC 49176', 'Staphylococcus chromogenes MU 970', 'Pseudobutyrivibrio ruminis CF1b', 'Anabaena sp. 90', 'Weissella hellenica', 'Pseudomonas avellanae BPIC 631', 'Mycolicibacterium hassiacum DSM 44199', 'Thermoanaerobacter wiegelii Rt8.B1', 'Spirochaeta africana DSM 8902', 'Sphingobium chlorophenolicum', 'Reticulomyxa filosa', 'Orenia marismortui DSM 5156', 'Parabacteroides merdae ATCC 43184', 'Bacteroides stercoris ATCC 43183', 'Thermosipho melanesiensis BI429', 'Suhomyces tanzawaensis', 'Aureobasidium melanogenum', 'Pseudomonas nitroreducens HBP1', 'Entamoeba dispar', 'Cenarchaeum symbiosum A', 'Dethiosulfovibrio peptidovorans DSM 11002', 'Desulfovibrio bastinii DSM 16055', 'Massilia timonae CCUG 45783', 'Neogobius melanostomus', 'Armillaria gallica', 'Armillaria ostoyae', 'Borrelia miyamotoi LB-2001', 'Rickettsia peacockii str. Rustic', 'Lautropia mirabilis ATCC 51599', 'Bacteroides caccae ATCC 43185', 'Mycoplasma alligatoris A21JP2', 'Lactobacillus rhamnosus GG', 'Streptomyces olivaceus', 'Bibersteinia trehalosi USDA-ARS-USMARC-189', 'Atkinsonella hypoxylon', 'Streptomyces sulphureus DSM 40104', 'Streptomyces lydicus', 'Lactobacillus crispatus ST1', 'Epichloe baconii ATCC 200745', 'Mycobacterium triplex', 'Micromonospora aurantiaca ATCC 27029', 'Pseudomonas amygdali pv. mori str. 301020', 'Pseudomonas corrugata CFBP 5454', 'Pseudomonas fulva 12-X', 'Pseudomonas synxantha BG33R', 'Pseudomonas luteola XLDN4-9', 'Serratia fonticola AU-AP2C', 'Vibrio cyclitrophicus FF75', 'Oreochromis aureus', 'Hyphomicrobium zavarzinii ATCC 27496', 'Acinetobacter pittii PHEA-2', 'Xanthomonas fragariae LMG 25863', 'Neolecta irregularis DAH-3', 'Penicillium freii', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Orchesella cincta', 'Geospiza fortis', 'Novosphingobium aromaticivorans DSM 12444', 'Sporisorium scitamineum', 'Candidatus Arthromitus sp. SFB-mouse-Japan', 'Kineosporia aurantiaca JCM 3230', 'Marinobacterium stanieri S30', 'Psychroserpens burtonensis DSM 12212', 'Rubrobacter xylanophilus DSM 9941', 'Desulfitobacterium hafniense Y51', 'Coffea canephora', 'Nicotiana attenuata', 'Holospora obtusa F1', 'Mycoplasma crocodyli MP145', 'Rhizobium sullae WSM1592', 'Thermoplasma volcanium GSS1', 'Charadrius vociferus', 'Pinctada fucata', 'Arabis alpina', 'Helicobacter trogontum', 'Actinobacillus minor NM305', 'Eubacterium saphenum ATCC 49989', 'Catagonus wagneri', 'Treponema maltophilum ATCC 51939', 'Ureibacillus thermosphaericus str. Thermo-BF', 'Syntrophobotulus glycolicus DSM 8271', 'Wigglesworthia glossinidia endosymbiont of Glossina morsitans morsitans (Yale colony)', 'Kluyvera ascorbata ATCC 33433', 'Eimeria brunetti', 'Eimeria praecox', 'Jaculus jaculus', 'Castor canadensis', 'Mycoplasma auris 15026', 'Mycoplasma yeatsii 13926', 'Trichoderma reesei', 'Ciona savignyi', 'Spraguea lophii 42_110', 'Haloarcula hispanica ATCC 33960', 'Kluyveromyces dobzhanskii CBS 2104', 'Nakaseomyces delphensis', 'Nakaseomyces bacillisporus', 'Tetragenococcus halophilus NBRC 12172', 'Tortispora caseinolytica', 'Meiothermus silvanus DSM 9946', 'Calidithermus chliarophilus DSM 9957', 'Acinetobacter venetianus RAG-1 = CIP 110063', 'Mitsuokella multacida DSM 20544', 'Prevotella dentalis DSM 3688', 'Lactobacillus gallinarum DSM 10532 = JCM 2011', 'Sarcoptes scabiei', 'Plasmodium inui San Antonio 1', 'Brachyspira pilosicoli 95/1000', 'Erysiphe necator', 'Sulfitobacter sp. EE-36', 'Sagittula stellata E-37', 'Haliaeetus leucocephalus', 'Bartonella alsatica IBS 382', 'Caldicellulosiruptor kristjanssonii I77R1B', 'Caldicellulosiruptor lactoaceticus 6A', 'Schaalia georgiae DSM 6843', 'Scophthalmus maximus', 'Desulfonatronovibrio hydrogenovorans DSM 9292', 'Desulfospira joergensenii DSM 10085', 'Enterococcus durans ATCC 6056', 'Enterococcus mundtii QU 25', 'Intrasporangium calvum DSM 43043', 'Brevibacterium mcbrellneri ATCC 49030', 'Hamadaea tsunoensis DSM 44101', 'Hyphomicrobium denitrificans 1NES1', 'Pseudomonas coronafaciens pv. oryzae str. 1_6', 'Pseudomonas resinovorans NBRC 106553', 'Xanthomonas axonopodis pv. vasculorum', 'Treponema lecithinolyticum ATCC 700332', 'Treponema socranskii subsp. socranskii VPI DR56BR1116 = ATCC 35536', 'Thermobrachium celere DSM 8682', 'Thermodesulfobacterium hveragerdense DSM 12571', 'Gordonia hirsuta DSM 44140 = NBRC 16056', 'Treponema paraluiscuniculi Cuniculi A', 'Nocardiopsis alba ATCC BAA-2165', 'Blautia hydrogenotrophica DSM 10507', 'Nakamurella multipartita DSM 44233', 'Mycolicibacterium mageritense DSM 44476 = CIP 104973', 'Pyrenophora teres', 'Sulfobacillus acidophilus TPY', 'Acidimicrobium ferrooxidans DSM 10331', 'Hanseniaspora valbyensis NRRL Y-1626', 'Octadecabacter arcticus 238', 'Pyrococcus horikoshii OT3', 'Peptoniphilus harei ACS-146-V-Sch2b', 'Pseudonocardia asaccharolytica DSM 44247 = NBRC 16224', 'Thermococcus zilligii AN1', 'Methanolacinia petrolearia DSM 11571', 'Pristionchus pacificus', 'Colobus angolensis palliatus', 'Ascoidea rubescens DSM 1968', 'Hyperthermus butylicus DSM 5456', 'Pyrolobus fumarii 1A', 'Thermosphaera aggregans DSM 11486', 'Ferroglobus placidus DSM 10642', 'Raoultella ornithinolytica B6', 'Chroococcidiopsis thermalis PCC 7203', 'Pleurocapsa sp. PCC 7327', 'Spirulina subsalsa PCC 9445', 'Mesitornis unicolor', 'Cariama cristata', 'Eurypyga helias', 'Streptomyces venezuelae ATCC 10712', 'Salmonella bongori N268-08', 'Streptococcus thoraltensis DSM 12221', 'Deinococcus proteolyticus MRP', 'Sciurus vulgaris', 'Flavobacterium branchiophilum FL-15', 'Epichloe elymi E56', 'Caldicellulosiruptor owensensis OL', 'Sediminispirochaeta smaragdinae DSM 11293', 'Pectobacterium betavasculorum', 'Ruegeria lacuscaerulensis ITI-1157', 'Thermonema rossianum DSM 10300', 'Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628', 'Pistacia vera', 'Magnetospirillum gryphiswaldense MSR-1 v2', 'Guillardia theta', 'Actinomyces graevenitzii C83', 'Dehalobacter restrictus DSM 9455', 'Vibrio anguillarum', 'Cuculus canorus', 'Thermococcus barophilus MP', 'Malurus cyaneus samueli', 'Streptomyces toyocaensis', 'Tyto alba', 'Hanseniaspora guilliermondii', 'Hanseniaspora osmophila', 'Bartonella clarridgeiae 73', 'Xanthomonas arboricola pv. celebensis', 'Xanthomonas cassavae CFBP 4642', 'Xanthomonas hortorum pv. carotae str. M081', 'Xanthomonas sacchari', 'Xanthomonas campestris pv. musacearum NCPPB 4379', 'Xanthomonas vesicatoria ATCC 35937', 'Protomyces lactucaedebilis', 'Aeropyrum pernix K1', 'Cottoperca gobio', 'Labrus bergylta', 'Rhizobium gallicum bv. gallicum R602sp', 'Rhizobium giardinii bv. giardinii H152', 'Eubacterium infirmum F0142', 'Glaciecola punicea ACAM 611', 'Shewanella frigidimarina NCIMB 400', 'Helicobacter bizzozeronii CIII-1', 'Afipia broomeae ATCC 49717', 'Thermus oshimai JL-2', 'Psychroflexus torquis ATCC 700755', 'Lactobacillus zeae DSM 20178 = KCTC 3804', 'Acanthisitta chloris', 'Mycoplasma suis str. Illinois', 'Apaloderma vittatum', 'Colius striatus', 'Merops nubicus', 'Trifolium pratense', 'Sulfurospirillum arcachonense DSM 9755', 'Rhizobium mongolense USDA 1844', 'Halomicrobium mukohataei DSM 12286', 'Enterococcus asini ATCC 700915', 'Fragaria vesca subsp. vesca', 'Burkholderia thailandensis MSMB43', 'Daktulosphaira vitifoliae', 'Spirillospora albida', 'Desulfofundulus kuznetsovii DSM 6115', 'Desulfofarcimen acetoxidans DSM 771', 'Desulfovibrio alaskensis G20', 'Treponema medium ATCC 700293', 'Archaeoglobus veneficus SNP6', 'Rhizopus microsporus', 'Streptomyces celluloflavus', 'Kitasatospora azatica KCTC 9699', 'Kitasatospora mediocidica KCTC 9733', 'Debaryomyces fabryi', 'Encephalitozoon intestinalis ATCC 50506', 'Trichoderma citrinoviride', 'Tilletiopsis washingtonensis', 'Rickettsiella grylli', 'Streptococcus macedonicus ACA-DC 198', 'Myotis lucifugus', 'Rhinolophus ferrumequinum', 'Actinotignum schaalii FB123-CNA-2', 'Pantholops hodgsonii', 'Corynespora cassiicola Philippines', 'Cellulophaga algicola DSM 14237', 'Desulfotomaculum reducens MI-1', 'Helicobacter rodentium ATCC 700285', 'Arabidopsis lyrata', 'Taeniopygia guttata', 'Candidatus Phytoplasma australiense', 'Alcanivorax borkumensis SK2', 'Angomonas deanei', 'Sphingomonas echinoides ATCC 14820', 'Paenibacillus alginolyticus DSM 5050 = NBRC 15375', 'Paenibacillus curdlanolyticus YK9', 'Paenibacillus peoriae KCTC 3763', 'Ficedula albicollis', 'Cyanobium gracile PCC 6307', 'Synechococcus sp. WH 7805', 'Prevotella pallens ATCC 700821', 'Penicillium polonicum', 'Penicillium solitum', 'Penicillium nalgiovense', 'Shewanella violacea DSS12', 'Shewanella amazonensis SB2B', 'Shewanella sp. MR-4', 'Shewanella sp. MR-7', 'Lactobacillus paraplantarum', 'Burkholderia vietnamiensis G4', 'Chlorocebus sabaeus', 'Halogeometricum borinquense DSM 11551', 'Phaeobacter gallaeciensis DSM 26640', 'Desulfobacca acetoxidans DSM 11109', 'Saccharopolyspora spinosa NRRL 18395', 'Sanguibacter keddieii DSM 10542', 'Shewanella woodyi ATCC 51908', 'Holdemania filiformis DSM 12042', 'Monilinia laxa', 'Varanus komodoensis', 'Ophiostoma piceae', 'Lynx canadensis', 'Dehalococcoides mccartyi 195', 'Coniosporium apollinis', 'Corynebacterium durum F0235', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Paenibacillus mucilaginosus KNP414', 'Acholeplasma brassicae', 'Enterobacter asburiae LF7a', 'Lelliottia amnigena CHS 78', 'Pluralibacter gergoviae', 'Amphilophus citrinellus', 'Nomascus leucogenys', 'Natronorubrum bangense JCM 10635', 'Hucho hucho', 'Borreliella valaisiana Tom4006', 'Acidiphilium multivorum AIU301', 'Haloterrigena turkmenica DSM 5511', 'Shewanella baltica OS117', 'Anopheles funestus', 'Saccharum spontaneum', 'Natronorubrum tibetense GA33', 'Calocera viscosa TUFC12733', 'Zobellia galactanivorans', 'Aquifex aeolicus VF5', 'Melanopsichium pennsylvanicum 4', 'Trichophyton benhamiae', 'Nannizzia gypsea CBS 118893', 'Microsporum canis CBS 113480', 'Trichophyton verrucosum', 'Trichophyton equinum', 'Desulfovibrio oxyclinae DSM 11498', 'Trichoderma atroviride', "Sodalis glossinidius str. 'morsitans'", 'Hydrogenovibrio kuenenii DSM 12350', 'Sideroxydans lithotrophicus ES-1', 'Demetria terragena DSM 11295', 'Nevskia ramosa DSM 11499', 'Bacillus pseudomycoides DSM 12442', 'Anabas testudineus', 'Desulfurobacterium thermolithotrophum DSM 11699', 'Podarcis muralis', 'Coleofasciculus chthonoplastes PCC 7420', 'Carnimonas nigrificans ATCC BAA-78', 'Dothistroma septosporum', 'Synechococcus sp. CC9311', 'Rhizopus oryzae', 'Mortierella alpina ATCC 32222', 'Lobosporangium transversale', 'Natrialba asiatica DSM 12278', 'Tetragenococcus muriaticus DSM 15685', 'Borreliella bissettii DN127', 'Terasakiella pusilla DSM 6293', 'Marinospirillum minutulum DSM 6287', 'Alcanivorax jadensis T9', 'Corynebacterium ulcerans BR-AD22', 'Pythium aphanidermatum DAOM BR444', 'Halothece sp. PCC 7418', 'Mycoplasma wenyonii str. Massachusetts', 'Oryza barthii', 'Actinoalloteichus cyanogriseus', 'Meiothermus cerbereus DSM 11376', 'Sulfurospirillum deleyianum DSM 6946', 'Desulfocapsa sulfexigens DSM 10523', 'Serendipita indica', 'Erwinia tracheiphila PSU-1', 'Pseudomonas knackmussii B13', 'Wolbachia sp. wRi', 'Lachnoclostridium phytofermentans ISDg', 'Gleimia europaea ACS-120-V-Col10b', 'Komagataeibacter intermedius AF2', 'Pantoea stewartii', 'Streptomyces niger', 'Streptomyces violens', 'Papilio xuthus', 'Streptomyces roseoverticillatus', 'Sulfurospirillum multivorans DSM 12446', 'Streptomyces afghaniensis 772', 'Streptomyces atroolivaceus', 'Streptomyces bicolor', 'Streptomyces catenulae', 'Streptomyces griseorubens', 'Trypanosoma theileri', 'Streptomyces alboflavus', 'Streptomyces aureocirculatus', 'Streptomyces filamentosus NRRL 15998', 'Streptomyces flavidovirens DSM 40150', 'Streptomyces lavenduligriseus', 'Streptomyces mutabilis', 'Kitasatospora purpeofusca', 'Streptomyces resistomycificus', 'Streptomyces varsoviensis', 'Rheinheimera baltica DSM 14885', 'Streptomyces viridosporus ATCC 14672', 'Phytophthora sojae', 'Methanocaldococcus infernus ME', 'Edwardsiella ictaluri 93-146', 'Citrobacter farmeri GTC 1319', 'Citrobacter rodentium ICC168', 'Citrobacter sedlakii NBRC 105722', 'Actinobacillus succinogenes 130Z', 'Lentzea aerocolonigenes', 'Streptomyces cyaneogriseus subsp. noncyanogenus', 'Streptomyces durhamensis', 'Streptomyces flavochromogenes', 'Streptomyces fulvissimus DSM 40593', 'Streptomyces griseoaurantiacus M045', 'Streptomyces iakyrus', 'Streptomyces katrae', 'Streptomyces pyridomyceticus', 'Streptomyces violaceusniger Tu 4113', 'Moschus moschiferus', 'Streptomyces albulus', 'Sphaerobolus stellatus SS14', 'Scleroderma citrinum Foug A', 'Rasamsonia emersonii CBS 393.64', 'Theileria orientalis', 'Streptococcus peroris ATCC 700780', 'Streptococcus infantis SK970', 'Deinococcus geothermalis DSM 11300', 'Anopheles farauti', 'Synechococcus sp. WH 5701', 'Enterobacter cancerogenus ATCC 35316', 'Dickeya paradisiaca Ech703', 'Aquamicrobium defluvii', 'Gasterosteus aculeatus', 'Microplitis demolitor', 'Pseudomonas sp. VLB120', 'Chara braunii', 'Caulobacter henricii', 'Petrotoga mobilis SJ95', 'Natrinema pellirubrum DSM 15624', 'Natrinema pallidum DSM 3751', 'Treponema vincentii ATCC 35580', 'Penicillium oxalicum 114-2', 'Selenomonas sputigena ATCC 35185', 'Trichophyton soudanense CBS 452.61', 'Macrococcus caseolyticus JCSC5402', 'Ostreococcus tauri', 'Edhazardia aedis USNM 41457', 'Pyrobaculum neutrophilum V24Sta', 'Pseudomonas plecoglossicida NB2011', 'Nodularia spumigena CCY9414', 'Shewanella oneidensis MR-1', 'Shewanella pealeana ATCC 700345', 'Flexithrix dorotheae DSM 6795', 'Lewinella cohaerens DSM 23179', 'Lewinella persica DSM 23188', 'Eucalyptus grandis', 'Paxillus involutus ATCC 200175', 'Staphylococcus vitulinus F1028', 'Vibrio halioticoli NBRC 102217', 'Mesorhizobium amorphae CCNWGS0123', 'Enterococcus malodoratus ATCC 43197', 'Enterococcus raffinosus ATCC 49464', 'Tolypocladium ophioglossoides CBS 100239', 'Lonsdalea quercina subsp. quercina', 'Waddlia chondrophila WSU 86-1044', 'Naematelia encephala', 'Hypholoma sublateritium FD-334 SS-4', 'Kocuria rhizophila P7-4', 'Bos mutus', 'Sphaeroforma arctica JP610', 'Thielaviopsis punctulata', 'Lepeophtheirus salmonis', 'Citromicrobium bathyomarinum JL354', 'Ophiocordyceps sinensis', 'Trachipleistophora hominis', 'Bacillus mojavensis RO-H-1 = KCTC 3706', 'Drosophila austrosaltans', 'Drosophila lusaltans', 'Drosophila milleri', 'Nannochloropsis gaditana CCMP526', 'Achromobacter piechaudii HLE', 'Sporisorium reilianum', 'Boechera stricta', 'Eutrema salsugineum', 'Dechloromonas agitata is5', 'Streptomyces seoulensis', 'Thiocystis violascens DSM 198', 'Emmonsia crescens UAMH 3008', 'Cordyceps militaris', 'Piromyces sp. E2', 'Methanocaldococcus vulcanius M7', 'Thermaerobacter marianensis DSM 12885', 'Photobacterium profundum SS9', 'Brevundimonas bacteroides DSM 4726', 'Brevundimonas subvibrioides ATCC 15264', 'Maricaulis maris MCS10', 'Hyphomonas polymorpha PS728', 'Sulfitobacter guttiformis KCTC 32187', 'Thraustotheca clavata', 'Rosa chinensis', 'Stachybotrys chartarum IBT 7711', 'Pseudomonas balearica DSM 6083', 'Anopheles maculatus', 'Anopheles sinensis', 'Oncorhynchus tshawytscha', 'Paraburkholderia caribensis MBA4', 'Saccharomonospora xinjiangensis XJ-54', 'Sinocyclocheilus grahami', 'Pseudomonas mandelii PD30', 'Castellaniella defragrans 65Phen', 'Anas zonorhyncha', 'Thermocrinis ruber DSM 12173', 'Mycolicibacterium tusciae JS617', 'Mannheimia haemolytica M42548', 'Thauera linaloolentis 47Lol = DSM 12138', 'Thauera terpenica 58Eu', 'Alloprevotella tannerae ATCC 51259', 'Prevotella enoeca JCM 12259', 'Vibrio rumoiensis 1S-45', 'Campylobacter hominis ATCC BAA-381', 'Cellulophaga baltica 13', 'Mycetocola saprophilus', 'Streptomyces vitaminophilus DSM 41686', 'Sinorhizobium arboris LMG 14919', 'Pseudomonas monteilii SB3078', 'Malassezia globosa CBS 7966', 'Malassezia sympodialis ATCC 42132', 'Myroides odoratimimus H1bi', 'Solibacillus silvestris StLB046', 'Streptococcus constellatus subsp. pharyngis SK1060 = CCUG 46377', 'Hebeloma cylindrosporum h7', 'Caldivirga maquilingensis IC-167', 'Asticcacaulis biprosthecum C19', 'Sphingobium herbicidovorans NBRC 16415', 'Malassezia pachydermatis', 'Cylindrospermopsis raciborskii CS-505', 'Wolbachia endosymbiont of Drosophila simulans wNo', 'Rosellinia necatrix', 'Sclerotinia borealis F-4128', 'Dendroctonus ponderosae', 'Plasmodium gonderi', 'Leersia perrieri', 'Bifidobacterium subtile', 'Prevotella albensis DSM 11370 = JCM 12258', 'Succinispira mobilis DSM 6222', 'Oidiodendron maius', 'Parascardovia denticolens DSM 10105 = JCM 12538', 'Scardovia inopinata F0304', 'Pseudomonas mosselii SJ10', 'Mycobacterium canettii CIPT 140070017', 'Bifidobacterium gallicum DSM 20093 = LMG 11596', 'Bifidobacterium gallinarum', 'Bifidobacterium merycicum', 'Bifidobacterium ruminantium', 'Streptomyces somaliensis DSM 40738', 'Pectobacterium odoriferum', 'Neonectria ditissima', 'Bifidobacterium pullorum DSM 20433', 'Rhizobium undicola ORS 992 = ATCC 700741', 'Thermothelomyces thermophilus', 'Asticcacaulis excentricus CB 48', 'Podila verticillata', 'Desulfosporosinus meridiei DSM 13257', 'Chitinophaga pinensis DSM 2588', 'Epichloe brachyelytri', 'Microtus ochrogaster', 'Cimex lectularius', 'Bacillus clausii KSM-K16', 'Bacillus pseudofirmus OF4', 'Erwinia pyrifoliae Ep1/96', 'Coniophora puteana', 'Piloderma croceum F 1598', 'Thioflavicoccus mobilis 8321', 'Aphis gossypii', 'Haliangium ochraceum DSM 14365', 'Wolbachia endosymbiont strain TRS of Brugia malayi', 'Aliivibrio wodanis', 'Moritella viscosa', 'Delftia acidovorans SPH-1', 'Acidovorax avenae subsp. avenae ATCC 19860', 'Acidovorax citrulli AAC00-1', 'Cryptosporangium arvum DSM 44712', 'Hylemonella gracilis str. Niagara R', 'Simplicispira psychrophila DSM 11588', 'Colletotrichum higginsianum', 'Acanthochromis polyacanthus', 'Amphiprion ocellaris', 'Treponema brennaborense DSM 12168', 'Hyphomonas adhaerens MHS-3', 'Hyphomonas johnsonii MHS-2', 'Hyphomonas neptunium ATCC 15444', 'Hyphomonas oceanitis SCH89', 'Wolfiporia cocos MD-104 SS10', 'Desulfovibrio alcoholivorans DSM 5433', 'Parageobacillus caldoxylosilyticus CIC9', 'Aminomonas paucivorans DSM 12260', 'Desulfovibrio aminophilus DSM 12254', 'Thermanaerovibrio acidaminovorans DSM 6589', 'Aminobacterium mobile DSM 12262', 'Aminobacterium colombiense DSM 12261', 'Frateuria aurantia DSM 6220', 'Monosiga brevicollis', 'Kitasatospora cheerisanensis KCTC 2395', 'Vagococcus lutrae LBD1', 'Arabidopsis halleri subsp. gemmifera', 'Capsella rubella', 'Picrophilus torridus DSM 9790', 'Atopobium vaginae DSM 15829', 'Centipeda periodontii DSM 2778', 'Phlebiopsis gigantea 11061_1 CR5-6', 'Facklamia languida CCUG 37842', 'Paracoccus pantotrophus J46', 'Anaerovibrio lipolyticus LB2005', 'Anaeroarcus burkinensis DSM 6283', 'Trichosporon asahii', 'Pseudanabaena sp. PCC 7367', 'Streptococcus ovis DSM 16829', 'Pythium arrhenomanes ATCC 12531', 'Buttiauxella agrestis ATCC 33320', 'Budvicia aquatica DSM 5075 = ATCC 35567', 'Leminorella grimontii ATCC 33999 = DSM 5078', 'Tatumella ptyseos ATCC 33301', 'Serratia grimesii', 'Serratia plymuthica', 'Methanocaldococcus fervens AG86', 'Sulfitobacter mediterraneus', 'Prevotella brevis P6B11', 'Gordonia rhizosphera NBRC 16068', 'Myxococcus stipitatus DSM 14675', 'Linepithema humile', 'Parachlamydia acanthamoebae UV-7', 'Chlamydia psittaci 10_1398_11', 'Chlamydia abortus S26/3', 'Chlamydia felis Fe/C-56', 'Chlamydia caviae GPIC', 'Chlamydia pneumoniae TW-183', 'Chlamydia suis MD56', 'Chlamydia muridarum str. Nigg', 'Simkania negevensis Z', 'Leclercia adecarboxylata ATCC 23216 = NBRC 102595', 'Lactobacillus amylolyticus DSM 11664', 'Succinimonas amylolytica DSM 2873', 'Succinivibrio dextrinosolvens H5', 'Methanobrevibacter ruminantium M1', 'Trypanosoma conorhini', 'Methanocorpusculum labreanum Z', 'Methanoculleus bourgensis MS2', 'Clostridium autoethanogenum DSM 10061', 'Clostridium haemolyticum NCTC 9693', 'Gordonia alkanivorans NBRC 16433', 'Slackia exigua ATCC 700122', 'Slackia heliotrinireducens DSM 20476', 'Eggerthella lenta DSM 2243', 'Gemella sanguinis M325', 'Gemella bergeri ATCC 700627', 'Archaeoglobus profundus DSM 5631', 'Magnetospirillum magneticum AMB-1', 'Cryptobacterium curtum DSM 15641', 'Brachyspira intermedia PWS/A', 'Brachyspira murdochii DSM 12563', 'Hippea maritima DSM 10411', 'Lysobacter antibioticus', 'Synechococcus sp. WH 8102', 'Taylorella asinigenitalis MCE3', 'Gordonia polyisoprenivorans VH2', 'Staphylothermus hellenicus DSM 12710', 'Candidatus Odyssella thessalonicensis L13', 'Anthracocystis flocculosa', 'Moesziomyces antarcticus', 'Moesziomyces aphidis DSM 70725', 'Beutenbergia cavernae DSM 12333', 'Desulfotalea psychrophila LSv54', 'Corvus brachyrhynchos', 'Pseudarthrobacter chlorophenolicus A6', 'Clogmia albipunctata', 'Mannheimia varigena USDA-ARS-USMARC-1296', 'Plasmodium relictum', 'Thauera sp. MZ1T', 'Citrus clementina', 'Triticum dicoccoides', 'Achromobacter xylosoxidans A8', 'Bartonella tribocorum CIP 105476', 'Thermacetogenium phaeum DSM 12270', 'Sphaerulina musiva', 'Serpula lacrymans', 'Chlamydia pecorum E58', 'Cladophialophora carrionii', 'Rhinocladiella mackenziei CBS 650.93', 'Arenibacter latericius DSM 15913', 'Syntrophothermus lipocalidus DSM 12680', 'Phaseolibacter flectens ATCC 12775', 'Saccharophagus degradans 2-40', 'Mycoplasma dispar', 'Bacillus flexus T6186-2', 'Bacillus halodurans C-125', 'Propionispira raffinosivorans DSM 20765', 'Camarhynchus parvulus', 'Facklamia sourekii ATCC 700629', 'Burkholderia multivorans ATCC 17616', 'Selaginella moellendorffii', 'Treponema primitia ZAS-2', 'Eremococcus coleocola DSM 15696', 'Thermus igniterrae ATCC 700962', 'Thermus antranikianii DSM 12462', 'Dorea longicatena AGR2136', 'Cyclospora cayetanensis', 'Megaselia abdita', 'Caulobacter segnis ATCC 21756', 'Ceratocystis platani', 'Borreliella spielmanii A14S', 'Streptomyces yeochonensis CN732', 'Gordonia amicalis CCMA-559', 'Corynebacterium terpenotabidum Y-11', 'Ruegeria pomeroyi DSS-3', 'Laccaria amethystina LaAM-08-1', 'Bubalus bubalis', 'Cladophialophora bantiana CBS 173.52', 'Moraxella caprae DSM 19149', 'Oligella ureolytica DSM 18253', 'Oligella urethralis DNF00040', 'Absidia repens', 'Camelina sativa', 'Moritella marina ATCC 15381', 'Hydrogenovibrio sp. Milos-T1', 'Thiomicrorhabdus sp. Milos-T2', 'Enterovibrio calviensis 1F-211', 'Polistes canadensis', 'Synechococcus sp. PCC 7335', 'Aspergillus udagawae', 'Candidatus Paracaedibacter acanthamoebae', 'Mucor ambiguus', 'Candidatus Portiera aleyrodidarum BT-QVLC', 'Exophiala spinifera', 'Hortaea werneckii', 'Catharus ustulatus', 'Bartonella koehlerae C-29', 'Thiomicrospira aerophila AL3', 'Metarhizium album ARSEF 1941', 'Metarhizium acridum CQMa 102', 'Herbaspirillum frisingense GSF30', 'Fischerella muscicola PCC 7414', 'Ketogulonicigenium vulgare WSH-001', 'Pandoraea apista', 'Pandoraea pnomenusa', 'Pandoraea pulmonicola', 'Pandoraea sputorum', 'Pseudaminobacter salicylatoxidans KCT001', 'Edwardsiella hoshinae NBRC 105699 = ATCC 33379', 'Fervidobacterium pennivorans DSM 9078', 'Exserohilum turcicum', 'Roseivivax halodurans JCM 10272', 'Myzus cerasi', 'Thermotoga petrophila RKU-1', 'Thermotoga naphthophila RKU-10', 'Coturnix japonica', 'Cryptosporidium meleagridis', 'Thermicanus aegyptius DSM 12793', 'Shewanella sp. ANA-3', 'Rhizophagus clarus', 'Ramlibacter tataouinensis TTB310', 'Tolypocladium paradoxum', 'Mola mola', 'Dyadobacter fermentans DSM 18053', 'Bordetella petrii', 'Ochrobactrum intermedium LMG 3301', 'Besnoitia besnoiti', 'Desulfurococcus amylolyticus 1221n', 'Gavialis gangeticus', 'Helicobacter pametensis ATCC 51478', 'Burkholderia cenocepacia J2315', 'Pseudomonas sp. M1', 'Legionella fallonii LLAP-10', 'Flavobacterium psychrophilum JIP02/86', 'Salvator merianae', 'Lactobacillus hamsteri DSM 5661 = JCM 6256', 'Halobacteriovorax marinus SJ', 'Eutypa lata', 'Phaethon lepturus', 'Lactobacillus sp. ASF360', 'Clostridium sp. MD294', 'Eubacterium plexicaudatum ASF492', 'Ferroplasma acidarmanus fer1', 'Acetomicrobium mobile DSM 13181', 'Lactobacillus mucosae LM1', 'Periconia macrospinosa', 'Bacillus sp. OxB-1', 'Drechmeria coniospora', 'Mycolicibacterium septicum DSM 44393', 'Phlebia centrifuga', 'Pyrobaculum oguniense TE7', 'Hammondia hammondi', 'Flavobacterium frigidarium DSM 17623', 'Calothrix sp. PCC 7507', 'Spermophilus dauricus', 'Tetraodon nigroviridis', 'Austwickia chelonae NBRC 105200', 'Onion yellows phytoplasma', 'Chloroherpeton thalassium ATCC 35110', 'Verticillium longisporum', 'Madurella mycetomatis', 'Falco tinnunculus', 'Wolbachia endosymbiont of Onchocerca ochengi', 'Fusarium pseudograminearum CS3096', 'Choanephora cucurbitarum', 'Hesseltinella vesiculosa', 'Bipolaris oryzae', 'Methanomethylovorans hollandica DSM 15978', 'Trichoderma asperellum CBS 433.97', 'Saprolegnia parasitica CBS 223.65', 'Aequorivita sublithincola DSM 14238', 'Trichophyton interdigitale H6', 'Candidatus Blochmannia pennsylvanicus str. BPEN', 'Burkholderia ubonensis MSMB22', 'Tetrasphaera elongata Lp2', 'Glarea lozoyensis ATCC 20868', 'Prunus mume', 'Stanieria cyanosphaera PCC 7437', 'Xenococcus sp. PCC 7305', 'Leptolyngbya sp. PCC 7375', 'Desulfallas gibsoniae DSM 7213', 'Solobacterium moorei DSM 22971', 'Gloeocapsa sp. PCC 73106', 'Cyanobacterium stanieri PCC 7202', 'Streptococcus infantarius subsp. infantarius CJ18', 'Proteus penneri ATCC 35198', 'Streptococcus didelphis DSM 15616', 'Acromyrmex echinatior', 'Vavraia culicis subsp. floridensis', 'Gleimia coleocanis DSM 15436', 'Actinomyces urogenitalis DSM 15434', 'Nostoc sp. PCC 7120 = FACHB-418', 'Pogona vitticeps', 'Saccharothrix espanaensis DSM 44229', 'Saccharothrix syringae', 'Riemerella columbina DSM 16469', 'Rhodococcus pyridinivorans SB3094', 'Bordetella hinzii ATCC 51730', 'Oscillochloris trichoides DG-6', 'Penicillium brasilianum', 'Postia placenta Mad-698-R', 'Gloeophyllum trabeum', 'Camponotus floridanus', 'Serratia sp. ATCC 39006', 'Helicobacter suis HS1', 'Cryptococcus amylolentus', 'Adineta vaga', 'Nothobranchius furzeri', 'Ralstonia mannitolilytica', 'Streptacidiphilus neutrinimicus', 'Streptacidiphilus carbonis', 'Streptacidiphilus albus', 'Desulfohalotomaculum alkaliphilum DSM 12257', 'Valsa mali var. pyri', 'Methylibium petroleiphilum PM1', 'Epicoccum nigrum', 'Cryptotermes secundus', 'Anaerostipes caccae DSM 14662', 'Leucosporidium creatinivorum', 'Frankia casuarinae', 'Thermoanaerobacter siderophilus SR4', 'Maylandia zebra', 'Pseudoflavonifractor capillosus ATCC 29799', 'Cupriavidus necator H16', 'Ensifer adhaerens OV14', 'Acinetobacter bereziniae', 'Acinetobacter guillouiae NIPH 991', 'Acinetobacter sp. RUH2624', 'Chelonoidis abingdonii', 'Tenacibaculum maritimum NCIMB 2154', 'Methylosinus sp. LW3', 'Methylosinus sp. PW1', 'Opitutus terrae PB90-1', 'Thermanaerovibrio velox DSM 12556', 'Thermoanaerobacter italicus Ab9', 'Corynebacterium falsenii DSM 44353', 'Coprothermobacter platensis DSM 11748', 'Acinetobacter ursingii DSM 16037 = CIP 107286', 'Acinetobacter schindleri NIPH 900', 'Rickettsia monacensis', 'Hippocampus comes', 'Anaerovorax odorimutans DSM 5092', 'Leptotrichia trevisanii DSM 22070', 'Varroa destructor', 'Myotis brandtii', 'Galerina marginata CBS 339.88', 'Spizellomyces punctatus', 'Lactobacillus jensenii 115-3-CHN', 'Batrachochytrium dendrobatidis JAM81', 'Catenaria anguillulae PL171', 'Serendipita vermifera MAFF 305830', 'Nocardioides sp. CF8', 'Sinorhizobium medicae WSM419', 'Gregarina niphandrodes', 'Pelotomaculum thermopropionicum SI', 'Mycolicibacterium vanbaalenii PYR-1', 'Synechococcus sp. CC9605', 'Synechococcus sp. CC9616', 'Eragrostis tef', 'Porphyromonas gulae', 'Muricauda ruestringensis DSM 13258', 'Bartonella birtlesii E11', 'Kineosphaera limosa NBRC 100340', 'Leptolyngbya sp. PCC 7376', 'Sulfurisphaera tokodaii str. 7', 'Ignatzschineria larvae DSM 13226', 'Aphanomyces astaci', 'Saprolegnia diclina', 'Anopheles minimus', 'Ramularia collo-cygni', 'Enterococcus villorum ATCC 700913', 'Streptococcus australis ATCC 700641', 'Pseudocercospora musae', 'Pseudoramibacter alactolyticus ATCC 23263', 'Melitaea cinxia', 'Bradyrhizobium sp. Tv2a-2', 'Scleropages formosus', 'Actinoplanes globisporus DSM 43857', 'Tetrapisispora phaffii CBS 4417', 'Geoglobus ahangari', 'Dichomitus squalens LYAD-421 SS1', 'Candidatus Carsonella ruddii DC', 'Cordyceps fumosorosea ARSEF 2679', 'Saccharomyces kudriavzevii', 'Saccharomyces mikatae', 'Bradyrhizobium sp. ORS 278', 'Methylobacterium nodulans ORS 2060', 'Alkaliphilus transvaalensis ATCC 700919', 'Streptococcus orisratti DSM 15617', 'Streptomyces auratus AGR0001', 'Mycoplasmopsis columbinum SF7', 'Phoronis australis', 'Globisporangium iwayamae', 'Coprococcus catus GD/7', 'Lactobacillus psittaci DSM 15354', 'Cryptosporidium andersoni', 'Tilletia walkeri', 'Fusarium verticillioides', 'Sphingopyxis alaskensis RB2256', 'Denitrovibrio acetiphilus DSM 12809', 'Pleurocapsa sp. PCC 7319', 'Pseudanabaena sp. PCC 6802', 'Picoides pubescens', 'Beauveria brongniartii RCEF 3172', 'Oscillatoria acuminata PCC 6304', 'Arthrospira platensis NIES-39', 'Nicotiana noctiflora var. noctiflora', 'Bulleidia extructa W1219', 'Lipotes vexillifer', 'Cupriavidus metallidurans CH34', 'Pseudothermotoga thermarum DSM 5069', 'Syntrophobacter fumaroxidans MPOB', 'Microcoleus vaginatus FGP-2', 'Bacillus sonorensis L12', 'Marinomonas mediterranea MMB-1', 'Ustilago hordei Uh4857-4', 'Brucella pinnipedialis B2/94', 'Brucella ceti M644/93/1', 'Roseiflexus castenholzii DSM 13941', 'Ferrimicrobium acidiphilum DSM 19497', 'Helicocarpus griseus UAMH5409', 'Schaalia suimastitidis DSM 15538', 'Pediculus humanus corporis', 'Pyrobaculum arsenaticum DSM 13514', 'Sphingobium xenophagum QYY', 'Tauraco erythrolophus', 'Pannonibacter phragmitetus DSM 14782', 'Photobacterium sp. SKA34', 'Paracoccidioides brasiliensis', 'Diaphorina citri', 'Pseudomonas psychrophila HA-4', 'Cercospora beticola', 'Alicyclobacillus herbarius DSM 13609', 'Oryzias javanicus', 'Helicobacter canadensis MIT 98-5491', 'Bordetella trematum', 'Nocardiopsis xinjiangensis YIM 90004', 'Thiolinea disciformis DSM 14473', 'Thiofilum flexile DSM 14609', 'Drosophila biarmipes', 'Halodesulfovibrio aestuarii DSM 10141', 'Providencia alcalifaciens DSM 30120', 'Thermotoga sp. RQ7', 'Thermotoga sp. RQ2', 'Strigamia maritima', 'Nipponia nippon', 'Catelliglobosispora koreensis DSM 44566', 'Drosophila santomea', 'Phytophthora lateralis MPF4', 'Arthrospira maxima CS-328', 'Carboxydothermus hydrogenoformans Z-2901', 'Halobiforma nitratireducens JCM 10879', 'Galdieria sulphuraria', 'Corynebacterium capitovis DSM 44611', 'Schaalia turicensis ACS-279-V-Col4', 'Thiomicrorhabdus arctica DSM 13458', 'Kineococcus radiotolerans SRS30216 = ATCC BAA-149', 'Bombus impatiens', 'Candidatus Glomeribacter gigasporarum BEG34', 'Nocardia veterana NBRC 100344', 'Anser brachyrhynchus', 'Pteropus vampyrus', 'Rhodococcus jostii RHA1', 'Exiguobacterium antarcticum B7', 'Citrobacter youngae ATCC 29220', 'Caldilinea aerophila DSM 14535 = NBRC 104270', 'Nitrosococcus halophilus Nc 4', 'Methylocapsa acidiphila B2', 'Frankliniella occidentalis', 'Leisingera methylohalidivorans DSM 14336', 'Olsenella uli DSM 7084', 'Phytomonas sp. isolate EM1', 'Phytomonas sp. isolate Hart1', 'Corynebacterium freneyi DNF00450', 'Acinetobacter parvus NIPH 1103', 'Acinetobacter gyllenbergii NIPH 230', 'Paraburkholderia fungorum', 'Ministeria vibrans', 'Actinoplanes sp. SE50/110', 'Ureaplasma parvum serovar 3 str. ATCC 27815', 'Selenomonas flueggei ATCC 43531', 'Selenomonas infelix ATCC 43532', 'Selenomonas noxia ATCC 43541', 'Paenibacillus daejeonensis DSM 15491', 'Nocardia cyriacigeorgica GUH-2', 'Geobacillus vulcani PSS1', 'Idiomarina loihiensis L2TR', 'Caenorhabditis brenneri', 'Bacillus endophyticus 2102', 'Zootermopsis nevadensis', 'Thermocrinis albus DSM 14484', 'Knoellia sinensis KCTC 19936', 'Mycoplasma haemocanis str. Illinois', 'Kocuria polaris', 'Atopobacter phocae ATCC BAA-285', 'Leuconostoc kimchii IMSNU 11154', 'Methylosinus sp. LW4', 'Weissella cibaria KACC 11862', 'Facklamia ignava CCUG 37419', 'Granulicatella elegans ATCC 700633', 'Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)', 'Candidatus Regiella insecticola LSR1', "Serratia symbiotica str. 'Cinara cedri'", 'Blastococcus saxobsidens DD2', 'Helicobacter cetorum MIT 00-7128', 'Olsenella profusa F0195', 'Sistotremastrum niveocremeum HHB9708', 'Isoptericola variabilis 225', 'Plicaturopsis crispa FD-325 SS-3', 'Teleopsis dalmanni', 'Anopheles culicifacies', 'Shimazuella kribbensis DSM 45090', 'Lachnobacterium bovis', 'Nicotiana cordifolia', 'Candidatus Mycoplasma haemolamae str. Purdue', 'Nocardiopsis kunsanensis DSM 44524', 'Cylindrospermum stagnale PCC 7417', 'Desulfitobacterium metallireducens DSM 15288', 'Zobellia uliginosa', 'Filifactor alocis ATCC 35896', 'Eubacterium sulci ATCC 35585', 'Diuraphis noxia', 'Sipha flava', 'Pogonomyrmex barbatus', 'Mobiluncus holmesii ATCC 35242', 'Leifsonia aquatica H1aii', 'Stegastes partitus', 'Methanothermobacter thermautotrophicus str. Delta H', 'Methanothermobacter marburgensis str. Marburg', 'Rathayibacter toxicus DSM 7488', 'Thermosynechococcus elongatus BP-1', 'Halorhabdus utahensis DSM 12940', 'Pseudoloma neurophilia', 'Salinibacter ruber DSM 13855', 'Streptomyces griseofuscus', 'Azovibrio restrictus DSM 23866', 'Azospira oryzae PS', 'Collinsella stercoris DSM 13279', 'Collinsella intestinalis DSM 13280', 'Agrobacterium albertimagni AOL15', 'Thiomicrospira cyclica ALM1', 'Limnospira indica PCC 8005', 'Paracoccus yeei ATCC BAA-599', 'Carnobacterium inhibens subsp. gilichinskyi', 'Lactobacillus iners AB-1', 'Magnaporthiopsis poae', 'Pyricularia grisea', 'Paraburkholderia phymatum STM815', 'Lactobacillus ingluviei str. Autruche 4', 'Sulfuricurvum kujiense DSM 16994', 'Lactobacillus kunkeei', 'Wallemia sebi', 'Streptococcus urinalis 2285-97', 'Phialocephala scopiformis', 'Marinitoga piezophila KA3', 'Streptococcus lutetiensis 033', 'Halonatronum saccharophilum DSM 13868', 'Gemella cuniculi DSM 15828', 'Sporothrix insectorum RCEF 264', 'Escovopsis weberi', 'Pseudomonas sp. MT-1', 'Treponema azotonutricium ZAS-9', 'Pseudoalteromonas ruthenica CP76', 'Bacteroides coprosuis DSM 18011', 'Afipia birgiae 34632', 'Xenophilus azovorans DSM 13620', 'Pseudopedobacter saltans DSM 12145', 'Chloroflexus aggregans DSM 9485', 'Lactobacillus suebicus DSM 5007 = KCTC 3549', 'Thioalkalivibrio thiocyanoxidans ARh 4', 'Burkholderia ambifaria AMMD', 'Burkholderia dolosa PC543', 'Sphingomonas melonis DAPP-PG 224', 'Corynebacterium efficiens YS-314', 'Desulforegula conservatrix Mb1Pa', 'Oceanicaulis alexandrii DSM 11625', 'Alysiella crassa DSM 2578', 'Conchiformibius steedae DSM 2580', 'Kozakia baliensis', 'Moniliophthora perniciosa FA553', 'Sporocytophaga myxococcoides', 'Nitrosomonas sp. AL212', 'Hungatella hathewayi DSM 13479', 'Turicibacter sanguinis PC909', 'Thiorhodospira sibirica ATCC 700588', 'Trametes pubescens', 'Enterococcus phoeniculicola ATCC BAA-412', 'Cellvibrio japonicus Ueda107', 'Bartonella bovis 91-4', 'Bacillus toyonensis BCT-7112', 'Gallibacterium genomosp. 1', 'Enterococcus moraviensis ATCC BAA-383', 'Enterococcus haemoperoxidus ATCC BAA-382', 'Streptococcus entericus DSM 14446', 'Methanothermococcus okinawensis IH1', 'Caulobacter vibrioides NA1000', 'Actinokineospora enzanensis DSM 44649', 'Acaryochloris marina MBIC11017', 'Anaeroglobus geminatus F0357', 'Tulasnella calospora MUT 4182', 'Cyanistes caeruleus', 'Alteromonadales bacterium TW-7', 'Flavobacteria bacterium BBFL7', 'Dysgonomonas gadei ATCC BAA-286', 'Corynebacterium imitans', 'Aphanomyces invadans', 'Jeotgalicoccus psychrophilus DSM 19085', 'Helicobacter winghamensis ATCC BAA-430', 'Leptomonas pyrrhocoris', 'Leptotrichia wadei F0279', 'Leptotrichia hofstadii F0254', 'Leptotrichia shahii DSM 19757', 'Leptotrichia goodfellowii F0264', 'Pseudomonas parafulva NBRC 16636 = DSM 17004', 'Pseudomonas cremoricolorata', 'Vigna radiata var. radiata', 'Phaeomoniella chlamydospora', 'Chromohalobacter salexigens DSM 3043', 'Hahella chejuensis KCTC 2396', 'Folsomia candida', 'Betta splendens', 'Cedecea davisae DSM 4568', 'Novosphingobium resinovorum', 'Trametes coccinea BRFM310', 'Diaporthe helianthi', 'Bifidobacterium scardovii', 'Terrapene carolina triunguis', 'Cedecea neteri', 'Enterobacter sp. MGH 2', 'Megamonas hypermegale DSM 1672', 'Providencia rustigianii DSM 4541', 'Trabulsiella guamensis ATCC 49490', 'Yokenella regensburgei ATCC 43003', 'Collimonas fungivorans Ter331', 'Roseibacterium elongatum DSM 19469', 'Embleya scabrispora DSM 41855', 'Paraburkholderia sacchari', 'Paenibacillus terrae HPL-003', 'Thalassiosira oceanica', 'Microbacterium gubbeenense DSM 15944', 'Nanoarchaeum equitans Kin4-M', 'Ignicoccus hospitalis KIN4/I', 'Corynebacterium casei LMG S-19264', 'Enterococcus gilvus ATCC BAA-350', 'Enterococcus pallens ATCC BAA-351', 'Sphingomonas wittichii RW1', 'Paenibacillus borealis', 'Acidithiobacillus ferrivorans SS3', 'Auricularia delicata', 'Thermodesulfobacterium hydrogeniphilum', 'Planococcus antarcticus DSM 14505', 'Anaeromyxobacter dehalogenans 2CP-C', 'Erythrobacter sp. SD-21', 'Amphiprion percula', 'Corynebacterium kroppenstedtii DSM 44385', 'Corynebacterium lipophiloflavum DSM 44291', 'Corynebacterium mastitidis DSM 44356', 'Corynebacterium camporealensis', 'Corynebacterium singulare', 'Beta vulgaris', 'Aspergillus nidulans FGSC A4', 'Thermococcus cleftensis', 'Wolbachia endosymbiont of Drosophila melanogaster', 'Dysgonomonas mossii DSM 22836', 'Algicola sagamiensis DSM 14643', 'Anabaena sp. PCC 7108', 'Phytophthora ramorum', 'Lactobacillus fuchuensis DSM 14340 = JCM 11249', 'Vulcanisaeta distributa DSM 14429', 'Blattabacterium sp. (Cryptocercus punctulatus) str. Cpu', 'Cupriavidus taiwanensis LMG 19424', 'Mycobacterium sp. MCS', 'Mycobacterium sp. JLS', 'Weissella koreensis KACC 15510', 'Prevotella copri DSM 18205', 'Bartonella schoenbuchensis m07a', 'Synechococcus sp. WH 8109', 'Synechococcus sp. WH 8016', 'Roseburia intestinalis L1-82', 'Thermobaculum terrenum ATCC BAA-798', 'Pseudoalteromonas translucida TAC125', 'Allofustis seminis DSM 15817', 'Ilyobacter polytropus DSM 2926', 'Anaerolinea thermophila UNI-1', 'Candidatus Ishikawaella capsulata Mpkobe', 'Marvinbryantia formatexigens DSM 14469', 'Laribacter hongkongensis HLHK9', 'Salinispora tropica CNB-440', 'Salinispora arenicola CNS-205', 'Legionella drancourtii LLAP12', 'Metarhizium guizhouense ARSEF 977', 'Gelidibacter mesophilus DSM 14095', 'Novosphingobium tardaugens NBRC 16725', 'Exiguobacterium undae DSM 14481', 'Corynebacterium aurimucosum ATCC 700975', 'Anaerotruncus colihominis DSM 17241', 'Saccharospirillum impatiens DSM 12546', 'Clostridium saccharobutylicum DSM 13864', 'Paenibacillus stellifer', 'Epichloe aotearoae', 'Staphylococcus pettenkoferi VCU012', 'Vibrio brasiliensis LMG 20546', 'Vibrio kanaloae 5S-149', 'Methanosarcina lacustris Z-7289', 'Sulfurihydrogenibium subterraneum DSM 15120', 'Halosimplex carlsbadense 2-9-1', 'Mycoplasma anatis 1340', 'Mycoplasma cynos C142', 'Tistrella mobilis KA081020-065', 'Mycoplasma ovis str. Michigan', 'Oceanobacillus picturae', 'Thermodesulfatator indicus DSM 15286', 'Rothia aeria F0184', 'Elizabethkingia miricola', 'Thermococcus sibiricus MM 739', 'Bradyrhizobium sp. th.b2', 'Meiothermus taiwanensis DSM 14542', 'Echeneis naucrates', 'Brachybacterium paraconglomeratum LC44', 'Methylobacter tundripaludum SV96', 'Gemmatimonas aurantiaca T-27', 'Gordonia sihwensis NBRC 108236', 'Ordospora colligata OC4', 'Allobaculum stercoricanis DSM 13633', 'Gordonia paraffinivorans NBRC 108238', 'Thermaerobacter subterraneus DSM 13965', 'Buceros rhinoceros', 'Nestor notabilis', 'Streptococcus sinensis', 'Pseudoalteromonas agarivorans S816', 'Beauveria bassiana', 'Halomonas halocynthiae DSM 14573', 'Lactobacillus malefermentans DSM 5705 = KCTC 3548', 'Python bivittatus', 'Coniochaeta ligniaria NRRL 30616', 'Anaerophaga thermohalophila DSM 12881', 'Pseudothermotoga lettingae TMO', 'Shuttleworthia satelles DSM 14600', 'Facklamia hominis ACS-120-V-Sch10', 'Leptospirillum ferriphilum ML-04', 'Pisolithus microcarpus 441', 'Acetobacter malorum', 'Clostridium colicanis 209318', 'Alicycliphilus denitrificans K601', 'Culicoides sonorensis', 'Sphingomonas elodea ATCC 31461', 'Rhizopogon vesiculosus', 'Cyanobium sp. PCC 7001', 'Robinsoniella peoriensis', 'Salinisphaera shabanensis E1L3A', 'Proteocatella sphenisci DSM 23131', 'Carnobacterium pleistocenium FTR1', 'Pseudopodoces humilis', 'Salarias fasciatus', 'Pyrobaculum calidifontis JCM 11548', 'Schaalia cardiffensis F0333', 'Cyanoderma ruficeps', 'Desulfococcus oleovorans Hxd3', 'Lactobacillus coleohominis 101-4-CHN', 'Pseudodesulfovibrio aespoeensis Aspo-2', 'Erwinia billingiae Eb661', 'Rubritepida flocculans DSM 14296', 'Kribbella flavida DSM 17836', 'Oceanobacillus iheyensis HTE831', 'Oryzias sinensis', 'Stemphylium lycopersici', 'Pseudo-nitzschia multistriata', 'Pseudomonas mediterranea CFBP 5447', 'Schaalia vaccimaxillae DSM 15804', 'Thermodesulfobium narugense DSM 14796', 'Thermoproteus uzoniensis 768-20', 'Crocinitomix catalasitica ATCC 23190', 'Varibaculum cambriense DORA_20', 'Knoellia subterranea KCTC 19937', 'Corallococcus coralloides DSM 2259', 'Desulfovibrio magneticus RS-1', 'Prevotella oryzae DSM 17970', 'Prevotella paludivivens DSM 17968 = JCM 13650', 'Paludibacter propionicigenes WB4', 'Chrysochloris asiatica', 'Fragilariopsis cylindrus CCMP1102', 'Xylanimonas cellulosilytica DSM 15894', 'Marinithermus hydrothermalis DSM 14884', 'Candidatus Baumannia cicadellinicola', 'Bartonella washoeensis Sb944nv', 'Thioalkalivibrio nitratireducens DSM 14787', 'Sneathia amnii', 'Oceanithermus profundus DSM 14977', 'Caldithrix abyssi DSM 13497', 'Methylocystis sp. SC2', 'Labrenzia aggregata IAM 12614', 'Megasphaera micronuciformis F0359', 'Acidaminococcus intestini RyC-MR95', 'Veillonella montpellierensis DNF00314', 'Chlamydotis macqueenii', 'Paracoccus zeaxanthinifaciens ATCC 21588', 'Pediococcus claussenii ATCC BAA-344', 'Thalassolituus oleivorans MIL-1', 'Thermococcus gammatolerans EJ3', 'Mitsuokella jalaludinii DSM 13811', 'Enterovibrio norvegicus FF-33', 'Leptosomus discolor', 'Egretta garzetta', 'Dermacoccus sp. Ellin185', 'Oleispira antarctica RB-8', 'Cetobacterium somerae ATCC BAA-474', 'Candidatus Tremblaya princeps PCIT', 'Paenibacillus graminis', 'Paenibacillus odorifer', 'Babesia ovata', 'Paenibacillus elgii B69', 'Prevotella marshii DSM 16973 = JCM 13450', 'Prevotella micans F0438', 'Bradyrhizobium sp. Ec3.3', 'Mycobacterium sp. KMS', 'Actinotignum urinale DSM 15805', 'Idiomarina baltica OS145', 'Vibrio coralliilyticus ATCC BAA-450', 'Desulfovibrio hydrothermalis AM13 = DSM 14728', 'Rhodococcus aetherivorans', 'Leifsonia rubra CMS 76R', 'Conexibacter woesei DSM 14684', 'Epilithonimonas tenax DSM 16811', 'Fluviicola taffensis DSM 16823', 'Corynebacterium atypicum', 'Plesiocystis pacifica SIR-1', 'Lynx pardinus', 'Chthoniobacter flavus Ellin428', 'Shewanella denitrificans OS217', 'Rhodoferax ferrireducens T118', 'Capsaspora owczarzaki ATCC 30864', 'Streptomyces niveus NCIMB 11891', 'Lactobacillus versmoldensis DSM 14857 = KCTC 3814', 'Athene cunicularia', 'Cardiobacterium valvarum F0432', 'Sphingomonas sp. ATCC 31555', 'Sinorhizobium americanum CCGM7', 'Chroomonas mesostigmatica CCMP1168', 'Haematobacter massiliensis', 'Synechococcus sp. PCC 7336', 'Synechococcus sp. PCC 6312', 'Thermococcus nautili', 'Gillisia limnaea DSM 15749', 'Caldimonas manganoxidans ATCC BAA-369', 'Microdochium bolleyi', 'Nocardioides sp. JS614', 'Caballeronia sordidicola', 'Bradyrhizobium sp. Ai1a-2', 'Porphyrobacter cryptus DSM 12079', 'Actinoplanes friuliensis DSM 7358', 'Deferribacter desulfuricans SSM1', 'Alkanindiges illinoisensis DSM 15370', 'Paraglaciecola mesophila KMM 241', 'Psychroflexus tropicus DSM 15496', 'Haemophilus aegyptius ATCC 11116', 'Streptococcus pasteurianus ATCC 43144', 'Candidatus Pelagibacter ubique HTCC7217', 'Anoxybacillus gonensis', 'Talaromyces verruculosus', 'Calidris pugnax', 'Candidatus Paraburkholderia kirkii UZHbot1', 'Coccidioides posadasii RMSCC 3488', 'Microbacterium paraoxydans 77MFTsu3.2', 'Methylocella silvestris BL2', 'Anopheles epiroticus', 'Nicotiana obtusifolia', 'Caldisphaera lagunensis DSM 15908', 'Pseudomonas poae RE*1-1-14', 'Strix occidentalis caurina', 'Lysinibacillus odysseyi 34hs-1 = NBRC 100172', 'Jaapia argillacea MUCL 33604', 'Punctularia strigosozonata', 'Sulfurimonas autotrophica DSM 16294', 'Actinobaculum massiliense ACS-171-V-Col2', 'Acinetobacter baylyi ADP1', 'Acinetobacter bouvetii DSM 14964 = CIP 107468', 'Acinetobacter gerneri', 'Acinetobacter tandoii', 'Acinetobacter tjernbergiae', 'Acinetobacter towneri', 'Tepidiphilus margaritifer DSM 15129', 'Longispora albida DSM 44784', 'Candidatus Blochmannia floridanus', 'Melampsora larici-populina 98AG31', 'Dickeya dadantii 3937', 'Dickeya zeae Ech586', 'Alicyclobacillus pomorum DSM 14955', 'Bacteroides massiliensis B84634 = Timone 84634 = DSM 17679 = JCM 13223', 'Roseomonas cervicalis ATCC 49957', 'Herminiimonas arsenicoxydans', 'Nitratireductor aquibiodomus NL21 = JCM 21793', 'Mastacembelus armatus', 'Novosphingobium pentaromativorans US6-1', 'Panicum hallii', 'Gymnopus luxurians FD-317 M1', 'Sulfurovum lithotrophicum', 'Bermanella marisrubri', 'Neptuniibacter caesariensis', 'Parvularcula bermudensis HTCC2503', 'Alkaliphilus metalliredigens QYMF', 'Puccinia triticina 1-1 BBBD Race 1', 'Amycolatopsis japonica', 'Amycolatopsis balhimycina FH 1894', 'Amycolatopsis vancoresmycina', 'Plasmodium coatneyi', 'Carnobacterium sp. 17-4', 'Fomitiporia mediterranea', 'Escherichia albertii KF1', 'Nocardia niigatensis NBRC 100131', 'Chaetomium thermophilum', "Candidatus Mycoplasma haemominutum 'Birmingham 1'", 'Marinobacter lipolyticus SM19', 'Afifella pfennigii DSM 17143', 'Corchorus capsularis', 'Nymphaea colorata', 'Thiorhodococcus drewsii AZ1', 'Sandarakinorhabdus limnophila DSM 17366', 'Parambassis ranga', 'Hanseniaspora opuntiae', 'Allokutzneria albata', 'Conchiformibius kuhniae DSM 17694', 'Accipiter nisus', 'Colwellia piezophila ATCC BAA-637', 'Mycobacterium sp. JS623', 'Exophiala mesophila', 'Halomonas campaniensis', 'Shewanella waksmanii ATCC BAA-643', 'Subdoligranulum variabile DSM 15176', 'Anaerofustis stercorihominis DSM 17244', 'Alistipes finegoldii DSM 17242', 'Komagataeibacter rhaeticus AF1', 'Exophiala oligosperma', 'Acaromyces ingoldii', 'Larimichthys crocea', 'Treponema caldarium DSM 7334', 'Erwinia sp. Ejp617', 'Thermomonas fusca DSM 15424', 'Roseovarius mucosus DSM 17069', 'Enhygromyxa salina', 'Dinoroseobacter shibae DFL 12 = DSM 16493', 'Pseudomonas rhizosphaerae', 'Polaromonas naphthalenivorans CJ2', 'Stenotrophomonas rhizophila', 'Bifidobacterium longum NCC2705', 'Spiroplasma chrysopicola DF-1', 'Spiroplasma culicicola AES-1', 'Spiroplasma diminutum CUAS-1', 'Spiroplasma sabaudiense Ar-1343', 'Spiroplasma syrphidicola EA-1', 'Clostridium carboxidivorans P7', 'Microvirga flocculans ATCC BAA-817', 'Marinospirillum insulare DSM 21763', 'Neomegalonema perideroedes DSM 15528', 'Fulvimarina pelagi HTCC2506', 'Anoplophora glabripennis', 'Bifidobacterium psychraerophilum', 'Bacillus vietnamensis', 'Dialister invisus DSM 15470', 'Aquilegia coerulea', 'Brachybacterium muris UCD-AY4', 'Micromonospora sp. ATCC 39149', 'Aeromicrobium marinum DSM 15272', 'Rhodanobacter fulvus Jip2', 'Gemmobacter nectariphilus DSM 15620', 'Bathymodiolus platifrons', 'Bacillus bataviensis LMG 21833', 'Bacillus vireti LMG 21834', 'Thalassospira xiamenensis M-5 = DSM 17429', 'Treponema putidum', 'Kordia algicida OT-1', 'Moniliophthora roreri', 'Mastigocladopsis repens PCC 10914', 'Synechococcus sp. RS9916', 'Synechococcus sp. RS9917', 'Polytolypa hystricis UAMH7299', 'Phaeobacter inhibens DSM 17395', 'Frankia elaeagni', 'Natrinema altunense', 'Kocuria marina', 'Phaeoacremonium minimum', 'Halomonas boliviensis LC1', 'Hymenobacter norwichensis DSM 15439', 'Exiguobacterium oxidotolerans JCM 12280', 'Methylorubrum populi BJ001', 'Buteo japonicus', 'Methanobrevibacter sp. AbM4', 'Pyrus x bretschneideri', 'Lottia gigantea', 'Geobacter bemidjiensis Bem', 'Geopsychrobacter electrodiphilus DSM 16401', 'Enhydrobacter aerosaccus SK60', 'Corynebacterium halotolerans YIM 70093 = DSM 44683', 'Erysiphe pulchra', 'Myotis davidii', 'Sulfitobacter indolifex HEL-45', 'Yaniella halotolerans DSM 15476', 'Paenibacillus sanguinis 2301083 = DSM 16941', 'Paenibacillus massiliensis 2301065 = DSM 16942', 'Fictibacillus gelatini DSM 15865', 'Comamonas aquatica NBRC 14918', 'Aestuariibacter salexigens DSM 15300', 'Salvia miltiorrhiza', 'Algoriphagus mannitolivorans DSM 15301', 'Rickettsia heilongjiangensis 054', 'Grosmannia clavigera kw1407', 'Bigelowiella natans', 'Corynebacterium ciconiae DSM 44920', 'Lactobacillus antri DSM 16041', 'Lactobacillus ultunensis DSM 16047', 'Paenibacillus lactis 154', 'Nocardia higoensis NBRC 100133', 'Nocardia pneumoniae NBRC 100136', 'Prevotella shahii DSM 15611 = JCM 12083', 'Prevotella salivae DSM 15606', 'Thermovibrio ammonificans HB-1', 'Arenibacter certesii DSM 19833', 'Flavobacterium frigoris PS1', 'Arsenicicoccus bolidensis DSM 15745', "Aster yellows witches'-broom phytoplasma AYWB", 'Streptococcus minor DSM 17118', 'Halobiforma lacisalsi AJ5', 'Aeropyrum camini SY1 = JCM 12091', 'Methylophaga aminisulfidivorans MP', 'Scardovia wiggsiae F0424', 'Lactobacillus rossiae DSM 15814', 'Saccharibacter floricola DSM 15669', 'Streptococcus devriesei DSM 19639', 'Beijerinckia mobilis', 'Desulfobulbus japonicus DSM 18378', 'Dyella japonica A8', 'Phanerochaete carnosa HHB-10118-sp', 'Belliella baltica DSM 15883', 'Effusibacillus pohliae DSM 22757', 'Halomonas alkaliantarctica', 'Synechococcus sp. CB0101', 'Acidovorax sp. JS42', 'Desulfitobacterium dichloroeliminans LMG P-21439', 'Candidatus Kinetoplastibacterium blastocrithidii (ex Strigomonas culicis)', 'Candidatus Midichloria mitochondrii IricVA', 'Corynebacterium caspium DSM 44850', 'Pseudoalteromonas sp. SM9913', 'Amanita thiersii Skay4041', 'Streptacidiphilus jiangxiensis', 'Alcanivorax sp. DG881', 'Marinobacter algicola DG893', 'Diplodia corticola', 'Chryseobacterium formosense', 'Candidatus Scalindua brodae', 'Lactobacillus kitasatonis DSM 16761 = JCM 1039', 'Oribacterium sinus F0268', 'Pseudomonas alkylphenolica', 'Pseudomonas psychrotolerans L19', 'Erythrobacter sp. NAP1', 'Lactobacillus vini DSM 20605', 'Akkermansia muciniphila ATCC BAA-835', 'Nocardiopsis valliformis DSM 45023', 'Nocardiopsis ganjiahuensis DSM 45031', 'Mycobacterium parascrofulaceum ATCC BAA-614', 'Pterocles gutturalis', 'Woodsholea maritima DSM 17123', 'Halobacillus dabanensis', 'Pseudonocardia dioxanivorans CB1190', 'Crinalium epipsammum PCC 9333', 'Helcococcus sueciensis DSM 17243', 'Amazona collaria', 'Ostreococcus lucimarinus CCE9901', 'Xenoturbella bocki', 'Acidilobus saccharovorans 345-15', 'Prevotella bergensis DSM 17361', 'Thioalkalivibrio thiocyanodenitrificans ARhD 1', 'Burkholderia sp. Ch1-1', 'Pseudomonas lutea', 'Methylohalobius crimeensis 10Ki', 'Klebsiella variicola UCI 18', 'Cynoglossus semilaevis', 'Thiocapsa marina 5811', 'Candidatus Paracaedimonas acanthamoebae', 'Candidatus Paracaedibacter symbiosus', 'Hoeflea phototrophica DFL-43', 'Nautilia profundicola AmH', 'Fictibacillus macauensis ZFHKF-1', 'Wallemia ichthyophaga', 'Yoonia vestfoldensis SKA53', "Acidomyces sp. 'richmondensis'", 'Enterococcus italicus DSM 15952', 'Bacillus bogoriensis ATCC BAA-922', 'Wolbachia endosymbiont of Cimex lectularius', 'Staphylococcus equorum subsp. equorum Mu2', 'Tupaia chinensis', 'Bacteroides cellulosilyticus WH2', 'Thermococcus sp. AM4', 'Serinicoccus marinus DSM 15273', 'Candidatus Jettenia caeni', 'Cupriavidus pinatubonensis JMP134', 'Mucispirillum schaedleri ASF457', 'Psychrobacter aquaticus CMS 56', 'Nocardia testacea NBRC 100365', 'Coccomyxa subellipsoidea', 'Cardinium endosymbiont cEper1 of Encarsia pergandiella', 'Deinococcus frigens DSM 12807', 'Deinococcus marmoris DSM 12784', 'Candidatus Blochmannia vafer str. BVAF', 'Candidatus Blochmannia chromaiodes str. 640', 'Pseudomonas syringae pv. tomato str. DC3000', 'Oceanicola granulosus HTCC2516', 'Robiginitalea biformata HTCC2501', 'Vibrio ezurae NBRC 102218', 'Saccharomyces boulardii (nom. inval.)', 'Clytia hemisphaerica', 'Mahella australiensis 50-1 BON', 'Paraburkholderia phenoliruptrix BR3459a', 'Natronolimnohabitans innermongolicus JCM 12255', 'Ethanoligenens harbinense YUAN-3', 'Owenweeksia hongkongensis DSM 17368', 'Verruconis gallopava', 'Streptomyces sp. C', 'Fonsecaea monophora', 'Solimonas variicoloris DSM 15731', 'Bacillus fordii DSM 16014 = CIP 108821', 'Streptococcus castoreus DSM 17536', 'Paeniglutamicibacter gangotriensis Lz1y', 'Arcobacter cibarius LMG 21996', 'Glycomyces arizonensis DSM 44726', 'Parvibaculum lavamentivorans DS-1', 'Glutamicibacter arilaitensis Re117', 'Gulosibacter molinativorax DSM 13485', 'Lentisphaera araneosa HTCC2155', 'Sphingomonas phyllosphaerae 5.2', 'Nocardia aobensis NBRC 100429', 'Nocardia concava NBRC 100430', 'Pleomorphomonas koreensis DSM 23070', 'Roseomonas gilardii subsp. rosea ATCC BAA-691', 'Streptococcus pseudopneumoniae IS7493', 'Otus sunia', 'Kitasatospora arboriphila', 'Corynebacterium resistens DSM 45100', 'Mycolicibacterium cosmeticum', 'Halomonas anticariensis FP35 = DSM 16096', 'Desulfatibacillum alkenivorans AK-01', 'Nocardia takedensis NBRC 100417', 'Dechloromonas aromatica RCB', 'Microbulbifer agarilyticus S89', 'Campylobacter insulaenigrae NCTC 12927', 'Nitrosomonas sp. Is79A3', 'Intestinibacter bartlettii DSM 16795', 'Paraburkholderia phytofirmans PsJN', 'Mycobacterium liflandii 128FXT', 'Cavenderia fasciculata', 'Thermosinus carboxydivorans Nor1', 'Pleomorphomonas oryzae DSM 16300', 'Kangiella koreensis DSM 16069', 'Kangiella aquimarina DSM 16071', 'Marinobacter daepoensis DSM 16072', 'Lysobacter concretionis Ko07 = DSM 16239', 'Acinetobacter beijerinckii CIP 110307', 'Jonesia quinghaiensis DSM 15701', 'Salipiger mucosus DSM 16094', 'Wolbachia endosymbiont of Culex quinquefasciatus Pel', 'Viridibacillus arenosi FSL R5-213', 'Crocosphaera watsonii WH 8501', 'Pneumocystis murina', 'Marinomonas ushuaiensis DSM 15871', 'Gordonia effusa NBRC 100432', 'Algoriphagus marincola DSM 16067', 'Botryobasidium botryosum', 'Capsella grandiflora', 'Oceanimonas smirnovii ATCC BAA-899', 'Acholeplasma equifetale ATCC 29724', 'Acholeplasma granularum ATCC 19168', 'Acholeplasma hippikon ATCC 29725', 'Trichormus variabilis ATCC 29413', 'Byssochlamys spectabilis No. 5', 'Salinimonas chungwhensis DSM 16280', 'Pontibacillus chungwhensis BH030062', 'Silanimonas lenta DSM 16282', 'Desulfurispora thermophila DSM 16022', 'Desulfallas alcoholivorax DSM 16058', 'Rhodopirellula baltica SH 1', 'Anoxybacillus tepidamans PS2', 'Methylovorus glucosetrophus SIP3-4', 'Pseudocohnilembus persalinus', 'Chryseobacterium antarcticum', 'Porphyromonas gingivicanis', 'Chelativorans sp. BNC1', 'Microbulbifer variabilis ATCC 700307', 'Thalassobacter stenotrophicus', 'Granulicoccus phenolivorans DSM 17626 = NBRC 107789 = JCM 15570', 'Neisseria bacilliformis ATCC BAA-1200', 'Lactobacillus kefiranofaciens ZW3', 'Paenibacillus wynnii', 'Nitratifractor salsuginis DSM 16511', 'Microbotryum intermedium', 'Streptococcus marimammalium DSM 18627', 'Sporolactobacillus terrae DSM 11697', 'Atopococcus tabaci DSM 17538', 'Bartonella rattimassiliensis 15908', 'Marinobacter sp. ELB17', 'Fangia hongkongensis FSC776 = DSM 21703', 'Methylomicrobium alcaliphilum 20Z', 'Shewanella sediminis HAW-EB3', 'Shewanella halifaxensis HAW-EB4', 'Flavobacterium antarcticum DSM 19726', 'Arthrobacter castelli DSM 16402', 'Nostoc punctiforme PCC 73102', 'Olleya marilimosa CAM030', 'Actinomyces dentalis DSM 19115', 'Hyaloperonospora arabidopsidis', 'Pontibacillus marinus BH030004 = DSM 16465', 'Candida orthopsilosis Co 90-125', 'Candida metapsilosis', 'Sphaerochaeta coccoides DSM 17374', 'Exiguobacterium marinum DSM 16307', 'Microbacterium oleivorans', 'Chlorobaculum parvum NCIB 8327', 'Limimaricola hongkongensis DSM 17492', 'Opitutaceae bacterium TAV1', 'Acidobacteriaceae bacterium TAA 166', 'Collimonas arenae', 'Aquimarina muelleri DSM 19832', 'Gramella echinicola DSM 19838', 'Novosphingopyxis baekryungensis DSM 16222', 'Agromyces italicus DSM 16388', 'Antrostomus carolinensis', 'Nocardiopsis baichengensis YIM 90130', 'Pochonia chlamydosporia 170', 'Azorhizobium doebereinerae UFLA1-100', 'Candidatus Amoebophilus asiaticus 5a2', 'Caenorhabditis japonica', 'Rozella allomycis CSF55', 'Porphyromonas uenonis 60-3', 'Prevotella multiformis DSM 16608', 'Nocardia jiangxiensis NBRC 101359', 'Sander lucioperca', 'Kosakonia radicincitans DSM 16656', 'Pseudoalteromonas sp. Bsw20308', 'Staphylococcus pseudintermedius ED99', 'Stackebrandtia nassauensis DSM 44728', 'Capitella teleta', 'Phenylobacterium zucineum HLK1', 'Streptomyces flavovariabilis', 'Alcanivorax dieselolei B5', 'Thioclava pacifica DSM 10166', 'Acetobacter nitrogenifigens DSM 23921 = LMG 23498', 'Streptomyces roseochromogenus subsp. oscitans DS 12.976', 'Streptomyces xylophagus', 'Streptomyces sviceus ATCC 29083', 'Streptomyces fulvoviolaceus', 'Streptomyces thermolilacinus SPC6', 'Micromonospora lupini str. Lupac 08', 'Hahella ganghwensis DSM 17046', 'Episyrphus balteatus', 'Alkaliflexus imshenetskii DSM 15055', 'Segniliparus rotundus DSM 44985', 'Segniliparus rugosus ATCC BAA-974', 'Hellea balneolensis DSM 19091', 'Haliea salexigens DSM 19537', 'Balneola vulgaris DSM 17893', 'Amycolatopsis rifamycinica', 'Bradyrhizobium sp. BTAi1', 'Kordiimonas gwangyangensis DSM 19435 = JCM 12864', 'Microbotryum lychnidis-dioicae p1A1 Lamole', 'Hungateiclostridium clariflavum DSM 19732', 'Microbotryum aff. violaceum TUB 011817', 'Bacteroides helcogenes P 36-108', 'Nocardia exalbida NBRC 100660', "Penicillium sp. 'occitanis'", 'Comamonas granuli NBRC 101663', 'Arthrobacter sp. FB24', 'Jannaschia sp. CCS1', 'Aminiphilus circumscriptus DSM 16581', 'Photorhabdus asymbiotica', 'Bartonella melophagi K-2C', 'Bacteroides salyersiae WAL 10018 = DSM 18765 = JCM 12988', 'Bacteroides nordii CL02T12C05', 'Acaricomes phytoseiuli DSM 14247', 'Erythrobacter vulgaris', 'Thermosediminibacter oceani DSM 16646', 'Ruegeria sp. TM1040', 'Dactylococcopsis salina PCC 8305', 'Flavonifractor plautii 1_3_50AFAA', 'Lysinibacillus massiliensis 4400831 = CIP 108448 = CCUG 49529', 'Martelella mediterranea DSM 17316', 'Haloquadratum walsbyi J07HQW2', 'Cyphellophora europaea', 'Desulfovibrio alkalitolerans DSM 16529', 'Agromyces subbeticus DSM 16689', 'Proteiniphilum acetatigenes DSM 18083', 'Rubellimicrobium thermophilum DSM 16684', 'Candidatus Hepatoplasma crinochetorum Av', 'Micromonas commoda', 'Polaromonas sp. JS666', 'Caldalkalibacillus thermarum TA2.A1', 'Patulibacter minatonensis DSM 18081', 'Frankia sp. EAN1pec', 'Frankia inefficax', 'Frankia saprophytica', 'Pseudoalteromonas spongiae UST010723-006', 'Denticeps clupeoides', 'Leptotrombidium deliense', 'Adhaeribacter aquaticus DSM 16391', 'Francisella orientalis str. Toba 04', 'Rhodococcus triatomae BKS 15-14', 'Glaciecola nitratireducens FR1064', 'Lachancea meyersii CBS 8951', 'Catellicoccus marimammalium M35/04/3', 'Bacillus lehensis G1', 'Roseburia hominis A2-183', 'Methanosaeta harundinacea 6Ac', 'Seriola lalandi dorsalis', 'Advenella mimigardefordensis DPN7', 'Corynebacterium tuscaniense DNF00037', 'Halobacillus kuroshimensis DSM 18393', 'Pundamilia nyererei', 'Lactobacillus apis', 'Lactobacillus harbinensis DSM 16991', 'Catenulispora acidiphila DSM 44928', 'Actinospica robiniae DSM 44927', 'Thauera sp. 27', 'Endozoicomonas elysicola', 'Pusillimonas noertemannii BS8', 'Marinimicrobium agarilyticum DSM 16975', 'Calidithermus timidus DSM 17022', 'Lactobacillus apodemi DSM 16634 = JCM 16172', 'Chryseobacterium vrystaatense', 'Aphis glycines', 'Gracilibacillus boraciitolerans JCM 21714', 'Sinocyclocheilus rhinocerous', 'Apteryx rowi', 'Bacillus boroniphilus JCM 21738', 'Dialister microaerophilus UPII 345-E', 'Chrysiogenes arsenatis DSM 11915', 'Persephonella marina EX-H1', 'Sulfurihydrogenibium azorense Az-Fu1', 'Candidatus Liberibacter americanus str. Sao Paulo', 'Deinococcus apachensis DSM 19763', 'Deinococcus maricopensis DSM 21211', 'Deinococcus pimensis DSM 21231', 'Bacteroides plebeius DSM 17135', 'Bacteroides coprocola DSM 17136', 'Bacteroides pyogenes JCM 10003', 'Neofusicoccum parvum', 'Prevotella multisaccharivorax DSM 17128', 'Advenella kashmirensis W13003', 'Deinococcus deserti VCD115', 'Modiolus philippinarum', 'Linnemannia elongata AG-77', 'Paraburkholderia terrae NBRC 100964', 'Thermococcus kodakarensis KOD1', 'Paraburkholderia mimosarum LMG 23256 = NBRC 106338', 'Flavobacterium indicum GPTSA100-9 = DSM 17447', 'Emticicia oligotrophica DSM 17448', 'Pseudomonas entomophila L48', 'Streptococcus massiliensis DSM 18628', 'Croceibacter atlanticus HTCC2559', 'Janibacter sp. HTCC2649', 'Dokdonia sp. MED134', 'Polaribacter sp. MED152', 'Maribacter sp. HTCC2170', 'Lyngbya sp. PCC 8106', 'Synechococcus sp. BL107', 'Bacillus sp. NRRL B-14911', 'Geobacter lovleyi SZ', 'Drechslerella stenobrocha 248', 'Nitrobacter sp. Nb-311A', 'Oceanicaulis sp. HTCC2633', 'Pseudooceanicola batsensis HTCC2597', 'Roseobacter sp. MED193', 'Roseovarius nubinhibens ISM', 'Roseovarius sp. 217', 'Sphingomonas sp. SKA58', 'Sulfitobacter sp. NAS-14.1', 'Rhodobacteraceae bacterium HTCC2083', 'Alteromonas mediterranea', 'Marinomonas sp. MED121', 'Pseudoalteromonas tunicata D2', 'Psychromonas sp. CNPT3', 'Vibrio sp. MED222', 'Prolixibacter bellariivorans ATCC BAA-1284', 'Mariprofundus ferrooxydans PV-1', 'Pseudoxanthomonas suwonensis 11-1', 'Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069', 'Belgica antarctica', 'Leadbetterella byssophila DSM 17132', 'Syntrophus aciditrophicus SB', 'Synechococcus sp. RCC307', 'Synechococcus sp. CC9902', 'Microbispora sp. ATCC PTA-5024', 'Rubrivivax benzoatilyticus JA2 = ATCC BAA-35', 'Kuraishia capsulata', 'Enterococcus caccae ATCC BAA-1240', 'Nostoc sp. PCC 7107', 'Mycolicibacterium rufum', 'Mycolicibacterium aromaticivorans JS19b1 = JCM 16368', 'Clostridium sulfidigenes', 'Pyricularia oryzae 70-15', 'Bradyrhizobium sp. WSM1743', 'Bradyrhizobium sp. WSM1253', 'Bradyrhizobium sp. WSM471', 'Nonlabens sediminis', 'Clostridium lundense DSM 17049', 'Formosa agariphila KMM 3901', 'Gordonia soli NBRC 108243', 'Pseudocercospora eumusae', 'Synechococcus sp. JA-3-3Ab', "Synechococcus sp. JA-2-3B'a(2-13)", 'Lepidothrix coronata', 'Pseudomonas moraviensis R28-S', 'Pseudomonas simiae', 'Wheat blue dwarf phytoplasma', 'Porphyromonas somerae DSM 23386', 'Sharpea azabuensis DSM 18934', 'Sphingomonas sp. BHC-A', 'Leptolyngbya valderiana BDU 20041', 'Paenibacillus sp. JDR-2', 'Bacillus infantis NRRL B-14911', 'Kwoniella bestiolae CBS 10118', 'Kwoniella dejecticola CBS 10117', 'Moelleriella libera RCEF 2490', 'Phytophthora kernoviae', 'Coxiella endosymbiont of Amblyomma americanum', 'Paraglaciecola psychrophila 170', 'Pseudozyma hubeiensis', 'Candidatus Accumulibacter phosphatis clade IIA str. UW-1', 'Bifidobacterium crudilactis', 'Syntrophorhabdus aromaticivorans UI', 'Nonlabens dokdonensis DSW-6', 'Parabacteroides goldsteinii dnLKV18', 'Alistipes onderdonkii WAL 8169 = DSM 19147', 'Alistipes shahii WAL 8301', 'Manacus vitellinus', 'Rhizoclosmatium globosum', 'Flavobacterium saliperosum S13', 'Bacteroides intestinalis DSM 17393', 'Amycolatopsis jejuensis', 'Nitrospira defluvii', 'Psychrobacter cryohalolentis K5', 'Kamptonema formosum PCC 6407', 'Sphingobium japonicum UT26S', 'Clostridium drakei', 'Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7', 'Candidatus Solibacter usitatus Ellin6076', 'Halococcus hamelinensis 100A6', 'Truepera radiovictrix DSM 17093', 'Exiguobacterium sibiricum 255-15', 'Hirsutella minnesotensis 3608', 'Alkalihalobacillus okhensis', 'Psychrobacter arcticus 273-4', 'Rickettsia tamurae', 'Ignisphaera aggregans DSM 17230', 'Methylobacterium oryzae CBMB20', 'Halococcus thailandensis JCM 13552', 'Thermovirga lienii DSM 17291', 'Candidatus Sulcia muelleri PSPU', 'Rhodonellum psychrophilum GCM71 = DSM 17998', 'Oenococcus kitaharae DSM 17330', 'Pyronema omphalodes', 'Chlorobium chlorochromatii CaD3', 'Gordonia sp. KTR9', 'Halorubrum ezzemoulense DSM 17463', 'Pseudodonghicola xiamenensis DSM 18339', 'Bacteroides finegoldii DSM 17565', 'Nitrosopumilus maritimus SCM1', 'Erwinia tasmaniensis Et1/99', 'Mycobacterium colombiense CECT 3035', 'Desulfosporosinus youngiae DSM 17734', 'Criblamydia sequanensis CRIB-18', 'Thermodesulfovibrio thiophilus DSM 17215', 'Tuberibacillus calidus DSM 17572', 'Spathaspora passalidarum NRRL Y-27907', 'Amorphus coralli DSM 19760', 'Desulfovibrio frigidus DSM 17176', 'Ascodesmis nigricans', 'Peptostreptococcus stomatis DSM 17678', 'Agrococcus lahaulensis DSM 17612', 'Methylophilaceae bacterium B1', 'Burkholderia oklahomensis', 'Thermococcus onnurineus NA1', 'Pyrococcus sp. NA2', 'Paenibacillus barengoltzii G22', 'Salipiger bermudensis HTCC2601', 'Flavobacterium soli DSM 19725', 'Kutzneria sp. 744', 'Podiceps cristatus', 'Geobacter pickeringii', 'Amycolatopsis benzoatilytica AK 16/65', 'Lysobacter daejeonensis GH1-9', 'Echinicola pacifica DSM 19836', 'Moraxella boevrei DSM 14165', 'Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896', 'Rhodanobacter spathiphylli B39', 'Streptomyces davaonensis JCM 4913', 'Exophiala xenobiotica', 'Streptacidiphilus oryzae TH49', 'Rhizobium favelukesii', 'Spironucleus salmonicida', 'Desulfovirgula thermocuniculi DSM 16036', 'Cercospora zeina', 'Psychrobacter sp. PRwf-1', 'Micavibrio aeruginosavorus ARL-13', 'Corynebacterium marinum DSM 44953', 'Flavobacterium daejeonense DSM 17708', 'Flavobacterium suncheonense GH29-5 = DSM 17707', 'Roseobacter sp. AzwK-3b', 'Alkalilimnicola ehrlichii MLHE-1', 'Oscillibacter valericigenes Sjm18-20', 'Salinispora pacifica CNT003', 'Geobacter uraniireducens Rf4', 'Xenorhabdus doucetiae', 'Shewanella sp. W3-18-1', 'Halostagnicola larsenii XH-48', 'Arenimonas malthae CC-JY-1', 'Niastella koreensis GR20-10', 'Streptomyces sp. Tu6071', 'Limnoperna fortunei', 'Alloscardovia criceti DSM 17774', 'Bifidobacterium tsurumiense', 'Micromonospora chokoriensis', 'Phocaeicola dorei', 'Lactobacillus parabrevis ATCC 53295', 'Cercospora berteroae', 'Psychromonas ingrahamii 37', 'Roseiflexus sp. RS-1', 'Microbacterium indicum DSM 19969', 'Acidovorax sp. KKS102', 'Methanoregula boonei 6A8', 'Streptomyces olindensis', 'Pseudomonas extremaustralis 14-3 substr. 14-3b', 'Shewanella loihica PV-4', 'Smaragdicoccus niigatensis DSM 44881 = NBRC 103563', 'Methylotenera mobilis 13', 'Bryobacter aggregatus MPL3', 'Zavarzinella formosa DSM 19928', 'Schlesneria paludicola DSM 18645', 'Leeuwenhoekiella blandensis MED217', 'Roseburia inulinivorans DSM 16841', 'Exiguobacterium sp. AT1b', 'Rubritalea marina DSM 17716', 'Tieghemostelium lacteum', 'Streptococcus pseudoporcinus SPIN 20026', 'Pseudarthrobacter phenanthrenivorans Sphe3', 'Streptomyces vietnamensis', 'Flavobacterium reichenbachii', 'Candidatus Protochlamydia amoebophila UWE25', 'Kaistia granuli DSM 23481', 'Prevotella stercorea DSM 18206', 'Ktedonobacter racemifer DSM 44963', 'Dyella ginsengisoli LA-4', 'Janibacter hoylei PVAS-1', 'Verminephrobacter eiseniae EF01-2', 'Granulibacter bethesdensis CGDNIH1', 'Endocarpon pusillum Z07020', 'Ferrimonas futtsuensis DSM 18154', 'Chryseobacterium caeni DSM 17710', 'Pelosinus fermentans DSM 17108', 'Frankia discariae', 'Belnapia moabensis DSM 16746', 'Paenibacillus sabinae T27', 'Ruania albidiflava DSM 18029', 'Caulobacter sp. K31', 'Haladaptatus paucihalophilus DX253', 'Yersinia similis', 'Phycicoccus jejuensis', 'Rhodobacterales bacterium HTCC2255', 'Pelusios castaneus', 'Blattabacterium sp. (Periplaneta americana) str. BPLAN', 'Blattabacterium sp. (Blatta orientalis) str. Tarazona', 'Rheinheimera perlucida DSM 18276', 'Paenibacillus terrigena DSM 21567', 'Mesonia mobilis DSM 19841', 'Haloterrigena limicola JCM 13563', 'Gallionella capsiferriformans ES-2', 'Arenimonas composti TR7-09 = DSM 18010', 'Flavobacterium filum DSM 17961', 'Brevundimonas aveniformis DSM 17977', 'Erwinia typographi', 'Bacteroides xylanisolvens XB1A', 'Rhodobacter sp. SW2', 'Fischerella thermalis PCC 7521', 'Bartonella tamiae Th239', 'Rivularia sp. PCC 7116', 'Campylobacter cuniculorum DSM 23162 = LMG 24588', 'Reinekea blandensis MED297', 'Janthinobacterium sp. Marseille', 'Pseudooceanicola nanhaiensis DSM 18065', 'Sphaeramia orbicularis', 'Natranaerobius thermophilus JW/NM-WN-LF', 'Haloplanus natans DSM 17983', 'Gordonia shandongensis DSM 45094', 'Olivibacter sitiensis DSM 17696', 'Zhouia amylolytica AD3', 'Paracoccus halophilus', 'Bacteroides barnesiae DSM 18169 = JCM 13652', 'Phocaeicola salanitronis DSM 18170', 'Thermobacillus composti KWC4', 'Methyloversatilis universalis FAM5', 'Novosphingobium nitrogenifigens DSM 19370', 'Cyanobacterium aponinum PCC 10605', 'Streptomyces bingchenggensis BCW-1', 'Vibrio sinaloensis DSM 21326', 'Propithecus coquereli', 'Aciduliprofundum boonei T469', 'Paenibacillus fonticola DSM 21315', 'Niabella aurantiaca DSM 17617', 'Pseudomonas protegens CHA0', 'Cohnella laeviribosi DSM 21336', 'Lactobacillus namurensis str. Chizuka 01', 'Streptococcus ictaluri 707-05', 'Hydrogenobaculum sp. Y04AAS1', 'Lachancea thermotolerans', 'Amycolatopsis nigrescens CSC17Ta-90', 'Algiphilus aromaticivorans DG1253', 'Verrucomicrobiae bacterium DG1235', 'Erythrobacter sp. JL475', 'Ornithinimicrobium pekingense DSM 21552', 'Bacillus aidingensis DSM 18341', 'Cycloclasticus sp. P1', 'Pseudophaeobacter arcticus DSM 23566', 'Thermophagus xiamenensis', 'Paraburkholderia ferrariae NBRC 106233', 'Prevotella timonensis 4401737 = DSM 22865 = JCM 15640', 'Methanobacterium arcticum', 'Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)', 'Moraxella bovoculi 237', 'Bacteroides coprophilus DSM 18228 = JCM 13818', 'Nitratiruptor sp. SB155-2', 'Sulfurovum sp. NBC37-1', 'Halovivax ruber XH-70', 'Halopiger xanaduensis SH-6', 'Parabacteroides johnsonii CL02T12C29', 'Cupriavidus sp. amp6', 'Natronorubrum sulfidifaciens JCM 14089', 'Rhodobacteraceae bacterium HTCC2150', 'Labrenzia alexandrii DFL-11', 'Algoriphagus machipongonensis', 'Bartonella australis Aust/NH1', 'Roseobacter sp. SK209-2-6', 'Hydnomerulius pinastri MD-312', 'Stachybotrys chlorohalonata IBT 40285', 'Wenxinia marina DSM 24838', 'Lactobacillus farraginis DSM 18382 = JCM 14108', 'Lactobacillus parafarraginis F0439', 'Echinicola vietnamensis DSM 17526', 'Actinocatenispora sera', 'Ehrlichia sp. HF', 'Vibrio sp. 16', 'Roseobacter sp. GAI101', 'Roseobacter sp. CCS2', 'Pedobacter sp. BAL39', 'Flavobacteria bacterium BAL38', 'Brevundimonas sp. BAL3', 'Stenotrophomonas sp. SKA14', 'Flavobacteriales bacterium ALC-1', 'Roseovarius sp. TM1035', 'Lysobacter defluvii IMMIB APB-9 = DSM 18482', 'Alicyclobacillus macrosporangiidus CPP55', 'Alicyclobacillus contaminans DSM 17975', 'Paraburkholderia nodosa DSM 21604', 'Sphingomonas jaspsi DSM 18422', 'Deinococcus misasensis DSM 22328', 'Methylophaga thiooxydans DMS010', 'Perlucidibaca piscinae DSM 21586', 'Terriglobus roseus DSM 18391', 'Uliginosibacterium gangwonense DSM 18521', 'Halalkalibacillus halophilus DSM 18494', 'Mesoflavibacter zeaxanthinifaciens S86', 'Gracilibacillus lacisalsi DSM 19029', 'Pestalotiopsis fici', 'Congregibacter litoralis KT71', 'Porphyromonas crevioricanis', 'Bhargavaea cecembensis DSE10', 'Cylindrobasidium torrendii FP15055 ss-10', 'Lactobacillus ceti DSM 22408', 'Coraliomargarita akajimensis DSM 45221', 'Bartonella rochalimae ATCC BAA-1498', 'Cyanothece sp. PCC 7425', 'Gilvimarinus chinensis DSM 19667', 'Brachybacterium phenoliresistens', 'Aspergillus ruber CBS 135680', 'Acinetobacter brisouii ANC 4119', 'Aestuariimicrobium kwangyangense DSM 21549', 'Thioalkalivibrio sp. K90mix', 'Lactobacillus hayakitensis DSM 18933 = JCM 14209', 'Andreprevotia chitinilytica DSM 18519', 'Sphingomonas sanxanigenens DSM 19645 = NX02', 'Marmoricola aequoreus', 'Lachnospiraceae bacterium 28-4', 'Lachnospiraceae bacterium 3-1', 'Lachnospiraceae bacterium A2', 'Lachnospiraceae bacterium A4', 'Barnesiella viscericola DSM 18177', 'Segetibacter koreensis DSM 18137', 'Proteiniclasticum ruminis DSM 24773', 'Agrilactobacillus composti DSM 18527 = JCM 14202', 'Helicobacter macacae MIT 99-5501', 'Trichoderma gamsii', 'Zunongwangia profunda SM-A87', 'Desulfocurvus vexinensis DSM 17965', 'Thermoanaerobacter sp. X514', 'Enterobacter sp. 638', 'Streptococcus merionis DSM 19192', 'Pontibacter korlensis', 'Marinomonas sp. MWYL1', 'Amphimedon queenslandica', 'Wohlfahrtiimonas chitiniclastica DSM 18708', 'Corynebacterium ureicelerivorans', 'Aureimonas ureilytica DSM 18598 = NBRC 106430', 'Candidatus Riesia pediculicola USDA', 'Actinomycetospora chiangmaiensis DSM 45062', 'Haloferax mucosum ATCC BAA-1512', 'Sphingobacterium sp. PM2-P1-29', 'Virgibacillus sp. SK37', 'Shewanella piezotolerans WP3', 'Maritimibacter alkaliphilus HTCC2654', 'Nonomuraea coxensis DSM 45129', 'Anaeromyxobacter sp. Fw109-5', 'Marinobacterium litorale DSM 23545', 'Geminicoccus roseus DSM 18922', 'Alicyclobacillus acidocaldarius subsp. acidocaldarius Tc-4-1', 'Leisingera daeponensis DSM 23529', 'Streptacidiphilus rugosus AM-16', 'Bacillus sp. m3-13', 'Natrinema sp. J7-2', 'Sphingomonas astaxanthinifaciens DSM 22298', 'Stegodyphus mimosarum', 'Prevotella pleuritidis JCM 14110', 'Streptomyces xiamenensis', 'Bacillus coahuilensis m4-4', 'Nocardioidaceae bacterium Broad-1', 'Clostridiisalibacter paucivorans DSM 22131', 'Treponema pedis str. T A4', 'Blastobotrys adeninivorans', 'Periophthalmus magnuspinnatus', 'Coprococcus comes ATCC 27758', 'Gordonia malaquae NBRC 108250', 'Gramella forsetii KT0803', 'Halogeometricum pallidum JCM 14848', 'Clostridium sp. SS2/1', 'Clostridium sp. M62/1', 'Clostridium sp. L2-50', 'Chryseobacterium daeguense DSM 19388', 'Entamoeba nuttalli P19', 'Paracoccus sp. TRP', 'Intrasporangium oryzae NRRL B-24470', 'Desulfotomaculum hydrothermale Lam5 = DSM 18033', 'Mycetohabitans rhizoxinica HKI 454', 'Candidatus Vesicomyosocius okutanii', 'Solimonas soli DSM 21787', 'Cronobacter turicensis z3032', 'Halalkalicoccus jeotgali B3', 'Halorubrum halophilum', 'Caldicellulosiruptor hydrothermalis 108', 'Caldicellulosiruptor kronotskyensis 2002', 'Lysobacter dokdonensis DS-58', 'Planococcus donghaensis MPA1U2', 'Actinopolyspora erythraea', 'Pseudoxanthomonas spadix BD-a59', 'Solimonas flava DSM 18980', 'Nodosilinea nodulosa PCC 7104', 'Rhodanobacter thiooxydans LCS2', 'Natronomonas moolapensis 8.8.11', 'Burkholderia sp. KJ006', 'Penicillium antarcticum', 'Selenomonas bovis DSM 23594', 'Notospermus geniculatus', 'Neptunomonas japonica DSM 18939', 'Methanosarcina horonobensis HB-1 = JCM 15518', 'Blautia wexlerae DSM 19850', 'Salinicoccus albus DSM 19776', 'Nevskia soli DSM 19509', 'Prevotella amnii CRIS 21A-A', 'Alloscardovia omnicolens DSM 21503', 'Yersinia massiliensis CCUG 53443', 'Microvirga lupini', 'Lactobacillus equicursoris DSM 19284 = JCM 14600 = CIP 110162', 'Diplodia seriata', 'Methanolobus psychrophilus R15', 'Paraburkholderia bryophila 376MFSha3.1', 'Sphingobium ummariense RL-3', 'Sulfitobacter donghicola DSW-25 = KCTC 12864 = JCM 14565', 'Chryseobacterium oranimense G311', 'Chryseobacterium halperniae', 'Chryseobacterium luteum', 'Stenoxybacter acetivorans DSM 19021', 'Mucilaginibacter paludis DSM 18603', 'Basidiobolus meristosporus CBS 931.73', 'Elusimicrobium minutum Pei191', 'Rhizobium sp. IRBG74', 'Helicobacter japonicus', 'Calidris pygmaea', 'Thiomonas arsenitoxydans', 'Methylobacterium sp. 4-46', 'Flavobacterium subsaxonicum WB 4.1-42 = DSM 21790', 'Algoriphagus vanfongensis DSM 17529', 'Nocardia rhamnosiphila', 'Bacillus chagannorensis DSM 18086', 'Salsuginibacillus kocurii DSM 18087', 'Humibacter albus DSM 18994', 'Desulfurivibrio alkaliphilus AHT 2', 'Dethiobacter alkaliphilus AHT 1', 'Moritella dasanensis ArB 0140', 'Candidatus Riesia pediculischaeffi PTSU', 'Jonquetella anthropi E3_33 E1', 'Dactylellina haptotyla', 'Halorhabdus tiamatea SARL4B', 'Baudoinia compniacensis', 'Spirosoma luteum DSM 19990', 'Spirosoma spitsbergense DSM 19989', 'Paenibacillus ginsengihumi DSM 21568', 'Kazachstania africana CBS 2517', 'Deinococcus peraridilitoris DSM 19664', 'Nocardioides halotolerans DSM 19273', 'Streptococcus sp. C150', 'Idiomarina salinarum', 'Fibularhizoctonia sp. CBS 109695', 'Sulfurihydrogenibium sp. YO3AOP1', 'Streptacidiphilus jeojiense', 'Robiginitomaculum antarcticum DSM 21748', 'Brucella sp. UK1/97', 'Brucella sp. F23/97', 'Brucella sp. F96/2', 'Brucella sp. UK40/99', 'Brucella sp. F8/99', 'Brucella sp. F5/99', 'Megamonas funiformis YIT 11815', 'Sutterella parvirubra YIT 11816', 'Ruminococcus gauvreauii DSM 19829', 'Streptococcus henryi DSM 19005', 'Streptococcus caballi DSM 19004', 'Candidatus Pelagibacter sp. HTCC7211', 'Pseudovibrio sp. JE062', 'Rhodobacterales bacterium Y4I', 'Ruegeria sp. R11', 'Prevotella maculosa DSM 19339 = JCM 15638', 'Promicromonospora kroppenstedtii DSM 19349', 'Pseudomonas sp. Chol1', 'Gouania willdenowi', 'Corynebacterium timonense 5401744', 'Corynebacterium massiliense DSM 45435', 'Hofstenia miamia', 'Knoellia aerolata DSM 18566', 'Geobacter sp. M18', 'Geobacter sp. M21', 'Bradyrhizobium sp. Cp5.3', 'Brucella microti CCM 4915', 'Sporolactobacillus vineae DSM 21990 = SL153', 'Maribacter forsetii DSM 18668', 'Gryllotalpicola ginsengisoli DSM 22003', 'Rickettsia endosymbiont of Ixodes scapularis', 'Psychromonas ossibalaenae ATCC BAA-1528', 'Reyranella massiliensis 521', 'Leptobrachium leishanense', 'Chryseobacterium soli', 'Adlercreutzia equolifaciens DSM 19450', 'Eudoraea adriatica DSM 19308', 'Niabella soli DSM 19437', 'Anaeromyxobacter sp. K', 'Epichloe gansuensis', 'Simiduia agarivorans SA1 = DSM 21679', 'Rhizobium selenitireducens ATCC BAA-1503', 'Microbacterium profundi', 'Propionibacterium sp. 5_U_42AFAA', 'Veillonella sp. 6_1_27', 'Rudanella lutea DSM 19387', 'Microbacterium luticocti DSM 19459', 'Streptomyces scopuliridis RB72', 'Pseudoclavibacter soli DSM 23366', 'Amphritea japonica ATCC BAA-1530', 'Neovison vison', 'Roseomonas aerilata DSM 19363', 'Desulfarculus baarsii DSM 2075', 'Kwoniella pini CBS 10737', 'Bdellovibrio exovorus JSS', 'Haladaptatus cibarius D43', 'Henriciella marina DSM 19595', 'Joostella marina DSM 19592', 'Halomonas lutea DSM 23508', 'Paraprevotella clara YIT 11840', 'Paraprevotella xylaniphila YIT 11841', 'Kiloniella laminariae DSM 19542', 'Chthonomonas calidirosea T49', 'Gracilimonas tropica DSM 19535', 'Spongiibacter tropicus DSM 19543', 'Glaciecola sp. HTCC2999', 'Chryseobacterium gregarium DSM 19109', 'Xanthomonas campestris pv. vesicatoria str. 85-10', 'Bizionia argentinensis JUB59', 'Saccharibacillus sacchari DSM 19268', 'Candidatus Cloacimonas acidaminovorans str. Evry', 'Streptococcus plurextorum DSM 22810', 'Rhizoctonia solani AG-8 WAC10335', 'Bacteroides sp. 1_1_30', 'Bacteroides sp. 3_1_23', 'Bacteroides sp. 3_1_33FAA', 'Bacteroides sp. 3_2_5', 'Bacteroides sp. 4_1_36', 'Bacteroides sp. 4_3_47FAA', 'Bacteroides sp. 9_1_42FAA', 'Clostridium sp. 7_2_43FAA', 'Desulfovibrio sp. 3_1_syn3', 'Escherichia sp. 1_1_43', 'Escherichia sp. 4_1_40B', 'Eubacterium sp. 3_1_31', 'Micromonospora sp. M42', 'Ruminococcus sp. 5_1_39BFAA', 'Synergistes sp. 3_1_syn1', 'Veillonella sp. 3_1_44', 'Clostridiales bacterium 1_7_47FAA', 'Erysipelotrichaceae bacterium 2_2_44A', 'Elioraea tepidiphila DSM 17972', 'Chloracidobacterium thermophilum B', 'Planomicrobium glaciei CHR43', 'Saccharibacillus kuerlensis DSM 22868', 'Kribbella catacumbae DSM 19601', 'Komagataella phaffii GS115', 'Ogataea polymorpha NCYC 495 leu1.1', 'Lactobacillus nodensis DSM 19682 = JCM 14932 = NBRC 107160', 'Actinomyces massiliensis F0489', 'Alkaliphilus oremlandii OhILAs', 'Babesia sp. Xinjiang', 'Pontibacillus yanchengensis Y32', 'Paxillus rubicundulus Ve08.2h10', 'Veillonella magna DSM 19857', 'Hemiselmis andersenii', 'Streptomyces sp. Mg1', 'Streptomyces sp. SPB074', 'Acinetobacter sp. Ver3', 'Singulisphaera acidiphila DSM 18658', 'Ilumatobacter coccineus YM16-304', 'Lachnoanaerobaculum saburreum F0468', 'Rhodobacteraceae bacterium KLH11', 'Sistotremastrum suecicum HHB10207 ss-3', 'Bacteroides sp. 1_1_14', 'Bacteroides sp. 2_1_22', 'Bacteroides sp. 2_1_33B', 'Bacteroides sp. 2_2_4', 'Parabacteroides sp. 20_3', 'Bacteroides sp. 3_1_19', 'Bacteroides sp. 3_1_40A', 'Coprobacillus sp. 8_2_54BFAA', 'Streptococcus sp. 2_1_36FAA', 'Burkholderiales bacterium 1_1_47', 'Erysipelotrichaceae bacterium 6_1_45', 'Prevotella histicola JCM 15637 = DNF00424', 'Cladophialophora yegresii', 'Gracilibacillus halophilus YIM-C55.5', 'Salinimicrobium terrae DSM 17865', 'Pantoea vagans C9-1', 'Gordonibacter pamelaeae 7-10-1-b', 'Geobacillus sp. WCH70', 'Dasania marina DSM 21967', 'Bifidobacterium bombi DSM 19703', 'Haloplasma contractile SSD-17B', 'Candidatus Desulforudis audaxviator MP104C', 'Nitratireductor basaltis', 'Nitrosococcus watsonii C-113', 'Colletotrichum gloeosporioides', 'Methanosphaerula palustris E1-9c', 'Pedobacter borealis DSM 19626', 'Pseudohaliea rubra DSM 19751', 'Leisingera aquimarina DSM 24565', 'Modestobacter marinus', 'Bacteroides graminisolvens DSM 19988 = JCM 15093', 'Aliiglaciecola lipolytica E3', 'Calditerrivibrio nitroreducens DSM 19672', 'Verrucomicrobia bacterium LP2A', 'Haematomicrobium sanguinis DSM 21259', 'Brevibacterium ravenspurgense 5401308 = CCUG 53855', 'Gluconobacter morbifer G707', 'Commensalibacter intestini A911', 'Myroides profundi', 'Bartonella rattaustraliani AUST/NH4', 'Lactobacillus otakiensis DSM 19908 = JCM 15040', 'Lactobacillus kisonensis F0435', 'Paenibacillus sp. Y412MC10', 'Galeopterus variegatus', 'Oscillatoria nigro-viridis PCC 7112', 'Burkholderia lata', 'Lactobacillus fabifermentans T30PCM01', 'Cystoisospora suis', 'Geoalkalibacter subterraneus', 'Paenibacillus riograndensis SBR5', 'Sphingobium sp. YBL2', 'Pelosinus sp. UFO1', 'Dialister succinatiphilus YIT 11850', 'Barnesiella intestinihominis YIT 11860', 'Parasutterella excrementihominis YIT 11859', 'Acinetobacter soli', 'Aequorivita capsosiphonis DSM 23843', 'Shewanella marina JCM 15074', 'Corynebacterium ulceribovis DSM 45146', 'Flavobacteria bacterium MS024-2A', 'Serratia sp. SCBI', 'Campylobacter peloridis LMG 23910', 'Desulfonatronospira thiodismutans ASO3-1', 'Halarchaeum acidiphilum MH1-52-1', 'Mesorhizobium metallidurans STM 2683', 'Corynebacterium sputi DSM 45148', 'Marinobacter sp. BSs20148', 'Litoreibacter arenae DSM 19593', 'Leucobacter chironomi DSM 19883', 'Brachymonas chironomi DSM 19884', 'Megamonas rupellensis DSM 19944', 'Bacillus velezensis FZB42', 'Dyadobacter alkalitolerans DSM 23607', 'Rhizobium alamii', 'Chryseobacterium palustre DSM 21579', 'Psychrobacter sp. TB15', 'Arthrobacter sp. TB 23', 'Spirosoma panaciterrae DSM 21099', 'Thermoanaerobacter pseudethanolicus ATCC 33223', 'Thauera sp. 63', 'Campylobacter subantarcticus LMG 24377', 'Candidatus Nitrososphaera gargensis Ga9.2', 'Brevibacillus panacihumi W25', 'Arenimonas oryziterrae DSM 21050 = YC6267', 'Flavobacterium rivuli WB 3.3-2 = DSM 21788', 'Borreliella finlandensis', 'Candidatus Korarchaeum cryptofilum OPF8', 'Tepidanaerobacter acetatoxydans Re1', 'Metarhizium brunneum ARSEF 3297', 'Streptomyces avicenniae', 'Glaciibacter superstes DSM 21135', 'Citreicella sp. SE45', 'Porphyromonas bennonis DSM 23058 = JCM 16335', 'Thermodesulfatator atlanticus DSM 21156', 'Butyricicoccus pullicaecorum 1.2', 'Thalassospira profundimaris WP0211', 'Deinococcus gobiensis I-0', 'Eggerthella sp. YY7918', 'Streptococcus porci DSM 23759', 'Aeromonas diversa CDC 2478-85', 'Salisaeta longa DSM 21114', 'Flavobacterium sasangense DSM 21067', 'Kushneria aurantia DSM 21353', 'Jejuia pallidilutea', 'Haloterrigena salina JCM 13891', 'Novosphingobium acidiphilum DSM 19966', 'Chromera velia CCMP2878', 'Rheinheimera sp. A13L', 'Leisingera caerulea DSM 24564', 'Cinara cedri', 'Peptoniphilus duerdenii ATCC BAA-1640', 'Cloacibacillus evryensis DSM 19522', 'Bradyrhizobium genosp. SA-4 str. CB756', 'Pedobacter sp. V48', 'Oceanimonas sp. GK1', 'Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2', 'Methylacidiphilum infernorum V4', 'Vibrio azureus NBRC 104587', 'Dictyoglomus turgidum DSM 6724', 'Caloramator australicus RC3', 'Lacticigenium naphtae DSM 19658', 'Prevotella falsenii DSM 22864 = JCM 15124', 'Nesterenkonia alba DSM 19423', 'Muricauda lutaonensis', 'Providencia burhodogranariea DSM 19968', 'Providencia sneebia DSM 19967', 'Jeotgalicoccus marinus DSM 19772', 'Pontibacillus litoralis JSM 072002', 'Pontibacillus halophilus JSM 076056 = DSM 19796', 'Pantoea sp. aB', 'Citromicrobium sp. JLT1363', 'Bifidobacterium mongoliense DSM 21395', 'Lactobacillus sucicola DSM 21376 = JCM 15457', 'Alcanivorax hongdengensis A-11-3', 'Deinococcus aquatilis DSM 23025', 'Elaphomyces granulatus', 'Ectothiorhodospira sp. PHS-1', 'Brucella sp. NVSL 07-0026', 'Brucella sp. 83/13', 'Acinetobacter sp. NIPH 817', 'Pseudomonas caeni DSM 24390', 'Sphingobium lactosutens DS20', 'Trichophyton mentagrophytes', 'Marinobacter santoriniensis NKSG1', 'Acinetobacter sp. ATCC 27244', 'Thiothrix lacustris DSM 21227', 'Haloglycomyces albus DSM 45210', 'Oceanibaculum indicum P24', 'Listeria marthii FSL S4-120', 'Thecamonas trahens', 'Rhodoluna lacicola', 'Pelagibacterium halotolerans B2', 'Flavobacteriaceae bacterium 3519-10', 'Actinopolymorpha alba DSM 45243', 'Mesorhizobium australicum WSM2073', 'Psychrobacter lutiphocae DSM 21542', 'Rudaea cellulosilytica DSM 22992', 'Thermus islandicus DSM 21543', 'Corynebacterium lubricantis DSM 45231', 'Peronospora effusa', 'Actinoplanes subtropicus', 'Geobacillus sp. Y412MC61', 'Actinomyces johnsonii F0510', 'Butyricimonas synergistica DSM 23225', 'Thioalkalivibrio sp. AKL11', 'Thioalkalivibrio sp. ALJ24', 'Alishewanella jeotgali KCTC 22429', 'Paraoerskovia marina DSM 21750', 'Sporothrix brasiliensis 5110', 'Hydrogenobaculum sp. 3684', 'Hydrogenobaculum sp. HO', 'Hydrogenobaculum sp. SN', 'Mycobacterium vulneris', 'Phycisphaera mikurensis NBRC 102666', 'Pseudogulbenkiania ferrooxidans 2002', 'Geobacillus sp. Y412MC52', 'Pseudonocardia acaciae DSM 45401', 'Aromatoleum aromaticum EbN1', 'Caldicoprobacter oshimai DSM 21659', 'Sediminimonas qiaohouensis DSM 21189', 'Salinarimonas rosea DSM 21201', 'Erysipelotrichaceae bacterium 5_2_54FAA', 'Ruminococcaceae bacterium D16', 'Cryptococcus gattii VGIII', 'Dehalogenimonas lykanthroporepellens BL-DC-9', 'Pseudomonas pelagia CL-AP6', 'Vibrio breoganii 1C10', 'Alishewanella agri BL06', 'Cobetia crustatorum', 'Halomonas jeotgali Hwa', 'Photobacterium leiognathi lrivu.4.1', 'Chlorella variabilis', 'Thiomonas sp. CB2', 'Flavobacterium chungangense LMG 26729', 'Galbibacter marinus', 'Staphylococcus massiliensis S46', 'Novosphingobium sp. Rr 2-17', 'Bacteroides sp. D1', 'Bacteroides sp. D2', 'Clostridium sp. D5', 'Coprobacillus sp. D7', 'Candidatus Liberibacter solanacearum CLso-ZC1', 'Propionibacterium acidifaciens DSM 21887', 'Corynebacterium freiburgense DSM 45254', 'Chryseobacterium piperi', 'Lentibacillus jeotgali', 'Salinicoccus carnicancri Crm', 'Aeromonas lacus', 'Aureobasidium namibiae CBS 147.97', 'Lysinibacillus sinduriensis BLB-1 = JCM 15800', 'Aliagarivorans taiwanensis DSM 22990', 'Prevotella sp. C561', 'Streptococcus sp. C300', 'Streptococcus sp. M143', 'Streptococcus sp. M334', 'Acidianus hospitalis W1', 'Salinisphaera hydrothermalis C41B8', 'Parabacteroides sp. D13', 'Scedosporium apiospermum', 'Geoglobus acetivorans', "Saccharomycetaceae sp. 'Ashbya aceri'", 'Metarhizium robertsii ARSEF 23', 'Dickeya poaceiphila', 'Cladophialophora immunda', 'Pseudoalteromonas lipolytica SCSIO 04301', 'Methanocella paludicola SANAE', 'Ochrobactrum rhizosphaerae SJY1', 'Psychrobacter sp. G', 'Encephalitozoon romaleae SJ-2008', 'Absidia idahoensis var. thermophila', 'Thermoanaerobacter sp. X513', 'Francisella salina', 'Candidatus Hodgkinia cicadicola Dsem', 'Pandoraea oxalativorans', 'Bacillus gaemokensis', 'Bacillus manliponensis', 'Parabacteroides gordonii MS-1 = DSM 23371', 'Pseudomonas taeanensis MS-3', 'Corynebacterium maris DSM 45190', 'Phialocephala subalpina', 'Polynucleobacter necessarius STIR1', 'Polynucleobacter asymbioticus QLW-P1DMWA-1', 'Streptomyces iranensis', 'Indibacter alkaliphilus LW1', 'Enterorhabdus mucosicola DSM 19490', 'Bacillus cytotoxicus NVH 391-98', 'Geobacillus sp. Y4.1MC1', 'Thermococcus paralvinellae', 'Rubidibacter lacunae KORDI 51-2', 'Thermoanaerobacter mathranii subsp. mathranii str. A3', 'Synechococcus sp. KORDI-49', 'Synechococcus sp. KORDI-52', 'Bacteroides sp. D20', 'Bacteroides sp. D22', 'Nematocida parisii', 'Oceanobacillus manasiensis', 'Terribacillus aidingensis', 'Myripristis murdjan', 'Pseudomonas chlororaphis', 'Rhizophagus irregularis', 'Patulibacter americanus DSM 16676', 'Kazachstania naganishii', 'Brevundimonas naejangsanensis', 'Prevotella fusca JCM 17724', 'Prevotella scopos JCM 17725', 'Alteromonas australica', 'Methylacidiphilum fumariolicum SolV', 'Streptomyces sp. SPB78', 'Streptomyces sp. AA4', 'Ignavibacterium album JCM 16511', 'Roseivivax isoporae LMG 25204', 'Piliocolobus tephrosceles', 'Pantoea sp. At-9b', 'Pantoea sp. Sc1', 'Mesorhizobium opportunistum WSM2075', 'Allofrancisella guangzhouensis', 'Rhodopirellula sp. SWK7', 'Prevotella aurantiaca JCM 15754', 'Desulfovibrio sp. U5L', 'Brenneria sp. EniD312', 'Corynebacterium pyruviciproducens ATCC BAA-1742', 'Fibroporia radiculosa', 'Meiothermus rufus DSM 22234', 'Neisseria wadsworthii 9715', 'Neisseria shayeganii 871', 'Dinoponera quadriceps', 'Asaia platycodi SF2.1', 'Harpegnathos saltator', 'Arenibacter algicola', 'Polycyclovorans algicola TG408', 'Methylocystis sp. ATCC 49242', 'Blattabacterium sp. (Blattella germanica) str. Bge', 'Bacteroides clarus YIT 12056', 'Bacteroides fluxus YIT 12057', 'Bacteroides oleiciplenus YIT 12058', 'Alistipes indistinctus YIT 12060', 'Odoribacter laneus YIT 12061', 'Slackia piriformis YIT 12062', 'Collinsella tanakaei YIT 12063', 'Succinatimonas hippei YIT 12066', 'Phascolarctobacterium succinatutens YIT 12067', 'Sphingobium sp. SYK-6', 'Sphingomonas sp. Mn802worker', 'Tomitella biformata AHU 1821', 'Thiorhodovibrio sp. 970', 'Saccharomonospora marina XMU15', 'Acinetobacter rudis CIP 110305', 'Thalassobium sp. R2A62', 'Prevotella saccharolytica F0055', 'Bifidobacterium bohemicum DSM 22767', 'Bifidobacterium actinocoloniiforme DSM 22766', 'Pyramidobacter piscolens W5455', 'Acidobacteriaceae bacterium KBS 146', 'Hoyosella subflava DQS3-9A1', 'Lactobacillus florum 2F', 'Burkholderia sp. CCGE1001', 'Burkholderia sp. CCGE1003', 'Clostridium sp. DL-VIII', 'Neisseria sp. oral taxon 014 str. F0314', 'Tatumella morbirosei', 'Silicibacter sp. TrichCH4B', 'Methanocaldococcus sp. FS406-22', 'Streptomyces sp. e14', 'Enterocytozoon hepatopenaei', 'Plasmodium gaboni', 'Methylobacterium sp. MB200', 'Micromonospora sp. L5', 'Cesiribacter andamanensis AMV16', 'Clostridium sp. ATCC BAA-442', 'Actinomyces sp. oral taxon 848 str. F0332', 'Acetomicrobium hydrogeniformans ATCC BAA-1850', 'Anaerostipes hadrus DSM 3319', 'Actinoplanes sp. N902-109', 'Sulfuricella denitrificans skB26', 'Fibrella aestuarina BUZ 2', 'Aurantimonas manganoxydans SI85-9A1', 'Kosmotoga olearia TBF 19.5.1', 'Actinomyces sp. oral taxon 180 str. F0310', 'Fretibacterium fastidiosum', 'Oribacterium sp. oral taxon 078 str. F0262', 'Bacteroidetes oral taxon 274 str. F0058', 'Peptoniphilus sp. oral taxon 386 str. F0131', 'Paenibacillus sp. oral taxon 786 str. D14', 'Prevotella sp. oral taxon 299 str. F0039', 'Prevotella sp. oral taxon 317 str. F0108', 'Actinomyces sp. oral taxon 849 str. F0330', 'Albugo laibachii', 'Prevotella sp. oral taxon 472 str. F0295', 'Pseudogymnoascus destructans 20631-21', 'Pandoraea vervacti', 'Halanaerobium hydrogeniformans', 'Ruminococcus sp. SR1/5', 'Flavobacterium beibuense F44-8', 'Candidatus Koribacter versatilis Ellin345', 'Ralstonia sp. 5_2_56FAA', 'Lachnospiraceae bacterium 1_1_57FAA', 'Lachnospiraceae bacterium 2_1_58FAA', 'Lachnospiraceae bacterium 6_1_63FAA', 'Lachnospiraceae bacterium 5_1_57FAA', 'Lachnospiraceae bacterium 3_1_57FAA_CT1', 'Lachnospiraceae bacterium 7_1_58FAA', 'Lachnospiraceae bacterium 9_1_43BFAA', 'Lachnospiraceae bacterium 5_1_63FAA', 'Pseudomonas sp. H2', 'Lachnospiraceae bacterium 1_4_56FAA', 'Lachnospiraceae bacterium 6_1_37FAA', 'Erysipelotrichaceae bacterium 21_3', 'Erysipelotrichaceae bacterium 3_1_53', 'Parabacteroides sp. D25', 'Porphyromonas sp. 31_2', 'Paraburkholderia acidipaludis NBRC 101816', 'Olsenella sp. oral taxon 809 str. F0356', 'Brachybacterium squillarum M-6-3', "Candidatus Parvarchaeum acidiphilum ARMAN-4_'5-way FS'", "Candidatus Parvarchaeum acidophilus ARMAN-5_'5-way FS'", 'Fibrisoma limi BUZ 3', 'Methylocapsa aurea', 'Leucobacter salsicius M1-8', 'Borreliella bavariensis PBi', 'Bacillus oceanisediminis 2691', 'Dietzia alimentaria 72', 'Campylobacter sp. 10_1_50', 'Clostridium sp. 7_3_54FAA', 'Coprobacillus sp. 3_3_56FAA', 'Desulfovibrio sp. 6_1_46AFAA', 'Eggerthella sp. 1_3_56FAA', 'Klebsiella sp. 4_1_44FAA', 'Neisseria sp. GT4A_CT1', 'Tannerella sp. 6_1_58FAA_CT1', 'Lachnospiraceae bacterium 3_1_46FAA', 'Lachnospiraceae bacterium 8_1_57FAA', 'Subdoligranulum sp. 4_3_54A2FAA', 'Bacillus sp. 7_6_55CFAA_CT2', 'Bacillus sp. BT1B_CT2', 'Bacillus sp. 2_A_57_CT2', 'Aquimarina macrocephali JAMB N27', 'Afipia sp. 1NLS2', 'Rhodanobacter denitrificans', 'Bacillus sp. 1NLA3E', 'Raphidiopsis brookii D9', 'Thelohanellus kitauei', 'Geminocystis herdmanii PCC 6308', 'Paenibacillus pini JCM 16418', 'Candidatus Profftella armatura', 'Microvirga aerilata', 'Candidatus Uzinura diaspidicola str. ASNER', 'Candidatus Methylomirabilis oxyfera', 'Leptotrichia sp. oral taxon 225 str. F0581', 'Alloprevotella rava F0323', 'Propionibacterium sp. oral taxon 192 str. F0372', 'Selenomonas artemidis F0399', 'Veillonella sp. oral taxon 158 str. F0412', 'Veillonella sp. oral taxon 780 str. F0422', 'Enterorhabdus caecimuris B7', 'Bacteroides sartorii dnLKV3', 'Microbacterium yannicii PS01', 'Cardinium endosymbiont cBtQ1 of Bemisia tabaci', 'Aciduliprofundum sp. MAR08-339', 'Candidatus Babela massiliensis', 'Bacteroides faecis MAJ27', 'Vibrio sp. RC586', 'Lachancea nothofagi', 'Fervidicoccus fontis Kam940', 'Sphingomonas sp. PR090111-T3T-6A', 'Pseudomonas sp. S9', 'Lichtheimia ramosa', 'Oribacterium sp. NK2B42', 'Colletotrichum fructicola Nara gc5', 'Rhizobium vignae', 'Geobacillus sp. C56-T3', 'Fonticula alba', 'Caldisericum exile AZM16c01', 'Vibrio atlanticus LGP32', 'Enterobacteriaceae bacterium strain FGI 57', 'Halogranum salarium B-1', 'Bilophila sp. 4_1_30', "Marssonina brunnea f. sp. 'multigermtubi' MB_m1", 'Virgibacillus alimentarius', 'Megasphaera genomosp. type_1 str. 28L', 'Vibrio caribbeanicus ATCC BAA-2122', 'Vibrio sp. N418', 'Novosphingobium sp. PP1Y', 'Saccharomyces arboricola H-6', 'Capnocytophaga sp. oral taxon 329 str. F0087', 'Actinomyces sp. oral taxon 171 str. F0337', 'Colletotrichum chlorophyti', 'Colletotrichum tofieldiae', 'Bradyrhizobiaceae bacterium SG-6C', 'Frankia sp. QA3', 'Actinomyces sp. oral taxon 178 str. F0338', 'Capnocytophaga sp. oral taxon 338 str. F0234', 'Colletotrichum fioriniae', 'Streptomyces sp. GXT6', 'Actinomyces sp. oral taxon 170 str. F0386', 'Actinomyces sp. oral taxon 172 str. F0311', 'Actinomyces sp. oral taxon 175 str. F0384', 'Actinomyces sp. oral taxon 181 str. F0379', 'Actinomyces sp. oral taxon 448 str. F0400', 'Aggregatibacter sp. oral taxon 458 str. W10330', 'Atopobium sp. oral taxon 199 str. F0494', 'Atopobium sp. oral taxon 810 str. F0209', 'Capnocytophaga sp. oral taxon 324 str. F0483', 'Capnocytophaga sp. oral taxon 326 str. F0382', 'Capnocytophaga sp. oral taxon 332 str. F0381', 'Capnocytophaga sp. oral taxon 336 str. F0502', 'Capnocytophaga sp. oral taxon 380 str. F0488', 'Fusobacterium sp. oral taxon 370 str. F0437', 'Leptotrichia sp. oral taxon 215 str. W9775', 'Microbacterium sp. oral taxon 186 str. F0373', 'Neisseria sp. oral taxon 020 str. F0370', 'Oribacterium sp. oral taxon 108 str. F0425', 'Peptoniphilus sp. oral taxon 375 str. F0436', 'Porphyromonas sp. oral taxon 278 str. W7784', 'Prevotella sp. oral taxon 306 str. F0472', 'Prevotella sp. oral taxon 473 str. F0040', 'Selenomonas sp. oral taxon 137 str. F0430', 'Selenomonas sp. oral taxon 138 str. F0429', 'Selenomonas sp. oral taxon 149 str. 67H29BP', 'Streptococcus sp. oral taxon 056 str. F0418', 'Streptococcus sp. oral taxon 058 str. F0407', 'Streptococcus sp. oral taxon 071 str. 73H25AP', 'Actinobaculum sp. oral taxon 183 str. F0552', 'Lachnospiraceae bacterium oral taxon 082 str. F0431', 'Lachnospiraceae oral taxon 107 str. F0167', 'Parvimonas sp. oral taxon 393 str. F0440', 'Candidatus Atelocyanobacterium thalassa isolate SIO64986', 'Alteromonas naphthalenivorans', 'Ensifer sojae CCBAU 05684', 'Caldicellulosiruptor obsidiansis OB47', 'Hyphopichia burtonii NRRL Y-1933', 'Hyphomicrobium sp. MC1', 'Plasmodium sp. DRC-Itaito', 'Nitratireductor indicus C115', 'Acidovorax ebreus TPSY', 'Vibrio genomosp. F10 str. ZF-129', 'Anncaliia algerae PRA109', 'Leptothrix ochracea L12', 'Rahnella sp. Y9602', 'Delftia sp. Cs1-4', 'Melanaphis sacchari', 'Collinsella sp. 4_8_47FAA', 'Lachnospiraceae bacterium 2_1_46FAA', 'Sphingobacterium sp. 21', 'Methylocystis sp. SB2', 'Ahrensia sp. R2A130', 'Roseibium sp. TrichSKD4', 'Sphingomonas sp. MM-1', 'Olleya sp. VCSM12', 'Mobilicoccus pelagius NBRC 104925', 'Aspergillus fumigatus Af293', 'Oceanobacillus kimchii X50', 'Azoarcus sp. KH32C', 'Pseudogulbenkiania sp. NH8B', 'Thioalkalivibrio sp. ALSr1', 'Sulfuritalea hydrogenivorans sk43H', 'Klebsiella sp. MS 92-3', 'Coprococcus sp. ART55/1', 'Halobacterium sp. DL1', 'Escherichia sp. TW09308', 'Winogradskyella sp. PG-2', 'Photobacterium aphoticum', 'Methylophaga nitratireducenticrescens', 'Methylophaga frappieri', 'Clostridium sp. BNL1100', 'Bacillus sp. WP8', 'Acinetobacter indicus CIP 110367', 'Burkholderia insecticola', 'Burkholderia sp. RPE67', 'Sporosarcina newyorkensis 2681', 'Massilia consociata', 'Bifidobacterium callitrichos DSM 23973', 'Bifidobacterium stellenboschense', 'Bifidobacterium biavatii DSM 23969', 'Siansivirga zeaxanthinifaciens CC-SAMT-1', 'Haemophilus sp. oral taxon 851 str. F0397', 'Paraburkholderia bannensis NBRC 103871', 'Moraxella macacae 0408225', 'Pyrenochaeta sp. DS3sAY3a', 'Stagonospora sp. SRC1lsM3a', 'Vibrio jasicida MWB 21', 'Citreicella sp. 357', 'Candidatus Puniceispirillum marinum IMCC1322', 'Serratia sp. AS12', 'Serratia sp. AS13', 'Sinorhizobium sp. CCBAU 05631', 'Opitutaceae bacterium TAV5', 'Burkholderiaceae bacterium PBA', 'Nesterenkonia sp. F', 'Sugiyamaella lignohabitans', 'Peptoanaerobacter stomatis', 'Stomatobaculum longum', 'Kipferlia bialata', 'Fonsecaea nubica', 'Cryptosporidium ubiquitum', 'Trichoderma parareesei', 'Caenispirillum salinarum AK4', 'Agrobacterium sp. H13-3', 'Gemmatirosa kalamazoonesis', 'Streptomyces sp. SirexAA-E', 'Thermincola potens JR', 'Burkholderiales bacterium JOSHI_001', 'Microvirga lotononidis', 'Oscillatoriales cyanobacterium C42_A2020_001', 'Schizosaccharomyces cryophilus', 'Methanothermobacter sp. CaT2', 'Chloroflexus sp. Y-396-1', 'Methanobacterium paludis', 'Ogataea angusta', 'Terriglobus saanensis SP1PR4', 'Bacteroides stercorirosoris JCM 17103', 'Lactobacillus pasteurii DSM 23907 = CRBIP 24.76', 'Celeribacter baekdonensis B30', 'Mycolicibacter sinensis', 'Peptoniphilus sp. 1-1', 'Methyloferula stellata AR4', 'Ruminococcus sp. NK3A76', 'Clostridiales bacterium NK3B98', 'Erysipelotrichaceae bacterium NK3D112', 'Lachnospiraceae bacterium NK4A136', 'Lachnospiraceae bacterium NK4A144', 'Lachnospiraceae bacterium NK4A179', 'Methanobacterium lacus', 'Chryseobacterium sp. StRB126', 'Pseudodesulfovibrio piezophilus C1TLV30', 'Cutaneotrichosporon oleaginosum', 'Plasmodium sp. gorilla clade G2', 'Fulvivirga imtechensis AK7', 'Methanoregula formicica SMSP', 'Schleiferia thermophila str. Yellowstone', 'Candidatus Zinderia insecticola CARI', 'Mageeibacillus indolicus UPII9-5', 'Fukomys damarensis', 'Desulfosporosinus acidiphilus SJ4', 'Methylovorus sp. MP688', 'Candidatus Nanosalina sp. J07AB43', 'Candidatus Nanosalinarum sp. J07AB56', 'Plautia stali symbiont', 'Nonlabens ulvanivorans', 'Phytopythium vexans DAOM BR484', 'Clostridium sp. HGF2', 'Alistipes sp. HGB5', 'Fusarium sp. FOSC 3-a', 'Actinokineospora spheciospongiae', 'SAR116 cluster alpha proteobacterium HIMB100', 'Pseudovibrio sp. FO-BEG1', 'Caldanaerobacter subterraneus subsp. tengcongensis MB4', 'Mycolicibacterium iranicum UM_TJL', 'Desulfosporosinus sp. OT', 'Knoellia flava TL1', 'Kangiella geojedonensis', 'Rhynchosporium commune', 'Rhynchosporium agropyri', 'Asinibacterium sp. OR53', 'Balearica regulorum', 'Synechocystis sp. PCC 7509', 'Bartonella florencae', 'Pseudomonas brassicacearum', 'Nonlabens marinus S1-08', 'Serratia sp. M24T3', 'Desulfosarcina sp. BuS5', 'Aminobacter sp. J41', 'Bacillus sp. J33', 'Bacillus sp. J37', 'Chelativorans sp. J32', 'Paenibacillus sp. J14', 'Paracoccus sp. J39', 'Luteimonas sp. J29', 'Nocardioides sp. J54', 'Rhizopus delemar', 'Mogibacterium sp. CM50', 'Desulfurispirillum indicum S5', 'Marinomonas posidonica IVIA-Po-181', 'Actinomyces sp. ICM47', 'Atopobium sp. BS2', 'Selenomonas sp. FOBRC6', 'Selenomonas sp. FOBRC9', 'Shuttleworthia sp. MSX8B', 'Streptococcus sp. CM6', 'Veillonella sp. AS16', 'Lachnoanaerobaculum sp. OBRC5-5', 'Lachnoanaerobaculum sp. MSX33', 'Casaltella massiliensis', 'Fenollaria massiliensis', 'Levyella massiliensis', 'Anaerococcus provencensis', 'Bacteroidetes bacterium SCGC AAA027-N21', 'Granulicella mallensis MP5ACTX8', 'Granulicella tundricola MP5ACTX9', 'Desulfovibrio sp. X2', 'Burkholderia sp. WSM2230', 'Hippea jasoniae', 'Hippea sp. KM1', 'Arcobacter sp. L', 'Gordonia neofelifaecis NRRL B-59395', 'Diplocarpon rosae', 'Salpingoeca rosetta', 'Arenimonas metalli CF5-1', 'Paraburkholderia dilworthii', 'Fusarium proliferatum', 'Palaeococcus pacificus DY20341', 'Bacillus sp. 17376', 'Fonsecaea multimorphosa CBS 102226', 'Leuconostoc sp. C2', 'Deinococcus wulumuqiensis R12', 'Aquimarina agarivorans', 'Morus notabilis', 'Ruegeria conchae', 'Lacinutrix sp. 5H-3-7-4', 'Glaciecola sp. 4H-3-7+YE-5', 'Dokdonia sp. 4H-3-7-5', 'Bifidobacterium reuteri DSM 23975', 'Heterobasidion irregulare', 'Mycoplasma parvum str. Indiana', 'Staphylococcus argenteus M21126', 'Vulcanisaeta moutnovskia 768-28', 'Ruegeria halocynthiae', 'Gillisia sp. CAL575', 'Staphylococcus agnetis', 'Lebetimonas sp. JS170', 'Polymorphum gilvum SL003B-26A1', 'Vibrio sp. HENC-03', 'Erosia sp. biolep03', 'Candidatus Kinetoplastibacterium desouzaii TCC079E', 'Candidatus Kinetoplastibacterium galatii TCC219', 'Candidatus Kinetoplastibacterium oncopeltii TCC290E', 'Desmospora sp. 8437', 'Porphyromonas sp. KLE 1280', 'Streptomyces himastatinicus ATCC 53653', 'Halomonas sp. TD01', 'Methylophaga lonarensis MPL', 'Selenomonas sp. F0473', 'Streptococcus sp. F0441', 'Streptococcus sp. F0442', 'Sedimentitalea nanhaiensis DSM 24252', 'Megasphaera sp. UPII 135-E', 'Cryobacterium roopkundense', 'Daldinia sp. EC12', 'Hypoxylon sp. CI-4A', 'Psychrobacter sp. 1501(2011)', 'Leisingera sp. ANG1', 'Candidatus Pelagibacter sp. IMCC9063', 'Verrucosispora maris AB-18-032', 'Fimbriimonas ginsengisoli Gsoil 348', 'Ogataea parapolymorpha DL-1', 'Metallosphaera cuprina Ar-4', 'Listeria weihenstephanensis FSL R9-0317', 'Defluviitoga tunisiensis', 'Candidatus Nitrosarchaeum limnium SFB1', 'Sphingomonas sp. S17', 'Pusillimonas sp. T7-7', 'Pyrococcus yayanosii CH1', 'Candidatus Tremblaya phenacola PAVE', 'Exophiala sideris', 'Nannospalax galili', 'Endozoicomonas montiporae', 'Pseudomonas sp. StFLB209', 'Acinetobacter sp. P8-3-8', 'Sphingomonas sp. KC8', 'Caloramator sp. ALD01', 'Campylobacter volucris LMG 24379', 'Corynebacterium nuruki S6-4', 'Bacillus timonensis', 'Brevibacterium senegalense', 'Kurthia sp. Dielmo', 'Kurthia massiliensis', 'Kurthia senegalensis', 'Exophiala aquamarina CBS 119918', 'Marinobacter adhaerens HP15', 'Thioalkalivibrio sulfidiphilus HL-EbGr7', 'Nitrososphaera viennensis EN76', 'Paenibacillus sp. HW567', 'Legionella massiliensis', 'Deferrisoma camini S3R1', 'Dehalobacter sp. FTH1', 'Idiomarina sp. A28L', 'Bradyrhizobium sp. WSM2793', 'Bradyrhizobium sp. WSM3983', 'Mesorhizobium sp. WSM3224', 'Mesorhizobium sp. WSM3626', 'Bradyrhizobium sp. ARR65', 'Drosophila rhopaloa', 'Ensifer sp. WSM1721', 'Candidatus Arthromitus sp. SFB-rat-Yit', 'Wickerhamomyces ciferrii', 'Aureobasidium subglaciale EXF-2481', 'Clostridium sp. SY8519', 'Rhizobium sp. IBUN', 'Ochrovirga pacifica', 'Thermococcus sp. 4557', 'Acidiphilium sp. PM', 'Demequina mangrovi', 'Citricoccus sp. CH26A', 'Oceaniovalibus guishaninsula JLT2003', 'Aminicenantes bacterium SCGC AAA252-A02', 'Zymoseptoria brevis', 'Zymoseptoria tritici', 'Candidatus Moranella endobia PCIT', 'Paracoccidioides lutzii', 'Anditalea andensis', 'Paenibacillus sp. Aloe-11', 'Verticillium alfalfae VaMs.102', 'Acetobacteraceae bacterium AT-5844', 'Thermoplasmatales archaeon BRNA1', 'Methylotenera versatilis 301', 'Psychrobacter sp. TB67', 'Grimontia indica', 'Nocardia sp. BMG51109', 'Ensifer sp. BR816', 'Azospirillum baldaniorum', 'Amycolatopsis halophila YIM 93223', 'Aspergillus luchuensis IFO 4308', 'Halonotius sp. J07HN4', 'Bacillus sp. NSP22.2', 'Tetrapisispora blattae', 'Caballeronia grimmiae', 'Lachancea dasiensis CBS 10888', 'Porticoccus hydrocarbonoclasticus MCTG13d', 'Armillaria solidipes', 'Pantoea rwandensis', 'Thiolapillus brandeum', 'Acetobacter okinawensis JCM 25146', 'Staphylococcus sp. HGB0015', 'Paenisporosarcina sp. HGH0030', 'Streptomyces sp. HGB0020', 'Parabacteroides sp. HGS0025', 'Bacteroides sp. HPS0048', 'Coprococcus sp. HPP0074', 'Coprococcus sp. HPP0048', 'Serinicoccus profundi MCCC 1A05965', 'Haemophilus sputorum CCUG 13788', 'Paenibacillus sp. HGH0039', 'Corynebacterium sp. HFH0082', 'Rhizobium mesoamericanum STM3625', 'Leucobacter chromiiresistens JG 31', 'Citrobacter sp. S-77', 'Saccharomyces eubayanus', 'Candidatus Aquiluna sp. IMCC13023', 'Hepatospora eriocheir', 'Enterospora canceri', 'Aquimarina agarilytica ZC1', 'Bartonella sp. DB5-6', 'Streptococcus sp. SK140', 'Streptococcus sp. SK643', 'Methylobacterium sp. GXF4', 'Arthrobacter sp. PAO19', 'Burkholderia sp. YI23', 'Coprobacter fastidiosus NSB1', 'Limnohabitans sp. Rim28', 'Limnohabitans sp. Rim47', 'Arthrobacter sp. MA-N2', 'Paracoccus sp. N5', 'Methylopila sp. M107', 'Methylobacterium sp. 10', 'Methylobacterium sp. 77', 'Methylophilaceae bacterium 11', 'Pyrobaculum ferrireducens', 'Actinomyces sp. ICM39', 'Clostridium sp. MSTE9', 'Rickettsia philipii str. 364D', 'Paenirhodobacter enshiensis', 'Penicillium rubens', 'Thermus sp. CCB_US3_UF1', 'Metallosphaera yellowstonensis MK1', 'Atopobium sp. BV3Ac4', 'Propionimicrobium sp. BV2F7', 'Peptoniphilus sp. BV3C26', 'Coriobacteriaceae bacterium BV3Ac1', 'Megasphaera sp. BV3C16-1', 'Psychrobacter sp. PAMC 21119', 'Sphingomonas sp. PAMC 26605', 'Sphingomonas sp. PAMC 26617', 'Methylophilus sp. 5', 'Arthrobacter sp. 31Y', 'Hoeflea sp. 108', 'Vibrio sp. EJY3', 'Elizabethkingia anophelis NUHP1', 'Brevibacillus massiliensis', 'Actinomyces sp. ph3', 'Halomonas sp. GFAJ-1', 'Arthrobacter sp. Rue61a', 'Rhizobium grahamii CCGE 502', 'Sphingopyxis sp. LC363', 'Methylopila sp. 73B', 'Mycobacterium sp. 141', 'Actinomadura flavalba DSM 45200', 'Corynebacterium doosanense CAU 212 = DSM 45436', 'Gordonia kroppenstedtii DSM 45133', 'Fodinicurvata fenggangensis DSM 21160', 'Fodinicurvata sediminis DSM 21159', 'Halomonas zhanjiangensis DSM 21076', 'Hirschia maritima DSM 19733', 'Pedobacter oryzae DSM 19973', 'Ponticaulis koreensis DSM 19734', 'Rubellimicrobium mesophilum DSM 19309', 'Thiomicrorhabdus sp. Kp2', 'Gonapodya prolifera JEL478', 'SAR86 cluster bacterium SAR86A', 'SAR86 cluster bacterium SAR86B', 'Magnetococcus marinus MC-1', 'Treponema sp. JC4', 'Pseudomonas sp. P179', 'Limimaricola cinnabarinus LL-001', 'Bosea sp. 117', 'Bradyrhizobium sp. DOA9', 'Paenibacillus beijingensis', 'Bacillus sp. JS', 'Paraglaciecola arctica BSs20135', 'Weissella oryzae SG25', 'Marine Group I thaumarchaeote SCGC AB-629-I23', 'Nitrospina sp. AB-629-B18', 'Dehalobacter sp. CF', 'Sphaerochaeta globosa str. Buddy', 'Sphaerochaeta pleomorpha str. Grapes', 'Flavobacterium sp. 83', 'Methylobacterium sp. 88A', 'Xanthobacter sp. 126', 'Arthrobacter sp. 35W', 'Bacillus sp. 37MA', 'Rhizobium sp. CCGE 510', 'Melioribacter roseus P3M-2', 'Alkalihalobacillus ligniniphilus', 'Cellvibrio sp. BR', 'Klebsiella michiganensis E718', 'Nocardiopsis sp. CNT312', 'Streptomyces sp. CNH099', 'Saccharomonospora sp. CNQ490', 'Xanthomarina gelatinilytica', 'Endozoicomonas numazuensis', 'Clostridium arbusti SL206', 'Mycobacterium paraintracellulare', 'Lactobacillus curieae', 'Pseudomassariella vexata', 'Homolaphlyctis polyrhiza', 'Novosphingobium sp. AP12', 'Sphingobium sp. AP49', 'Rhizobium sp. CF080', 'Rhizobium sp. CF122', 'Flavobacterium sp. CF136', 'Herbaspirillum sp. CF444', 'Pseudomonas sp. GM21', 'Herbaspirillum sp. YR522', 'Phyllobacterium sp. YR531', 'Tritrichomonas foetus', 'Acinetobacter sp. CIP 101934', 'Acinetobacter sp. CIP 101966', 'Acinetobacter sp. CIP 102082', 'Acinetobacter sp. CIP 102129', 'Acinetobacter sp. CIP 102136', 'Acinetobacter sp. CIP 102143', 'Acinetobacter sp. CIP 102159', 'Acinetobacter sp. CIP 102529', 'Acinetobacter sp. CIP 102637', 'Acinetobacter sp. CIP 51.11', 'Acinetobacter sp. CIP 53.82', 'Acinetobacter sp. CIP 56.2', 'Acinetobacter sp. CIP 64.7', 'Acinetobacter sp. CIP A162', 'Lysinibacillus varians', 'Dehalobacter sp. DCA', 'Ornithinibacillus scapharcae TW25', 'Achromobacter arsenitoxydans SY8', 'Acinetobacter oleivorans DR1', 'Geminisphaera colitermitum TAV2', 'Pseudomonas furukawaii', 'Arthrobacter sp. 9MFCol3.1', 'Leifsonia sp. 109', 'Tsukamurella sp. 1534', 'Arthrobacter sp. 161MFSha2.1', 'Arthrobacter sp. 162MFSha1.1', 'Microbacterium sp. 292MF', 'Nematocida sp. 1 ERTm2', 'Streptomyces sp. LaPpAH-108', 'Streptomyces sp. MspMP-M5', 'Moorea producens 3L', 'Streptococcus sp. I-G2', 'Streptococcus sp. I-P16', 'Streptomyces sp. HmicA12', 'Tumebacillus flagellatus', 'Streptomyces sp. LaPpAH-95', 'Streptomyces sp. Amel2xE9', 'Streptomyces sp. ATexAB-D23', 'Streptomyces sp. BoleA5', 'Streptomyces sp. PsTaAH-124', 'Streptomyces sp. FxanaC1', 'Mycobacterium sp. 155', 'Thermotoga sp. Cell2', 'Thermotoga sp. 2812B', 'Arthrobacter sp. 135MFCol5.1', 'Thioalkalivibrio sp. ALJT', 'Thioalkalivibrio sp. ALD1', 'Thioalkalivibrio sp. ALMg11', 'Thioalkalivibrio sp. ALE31', 'Thiomonas sp. FB-Cd', 'Prevotella sp. 10(H)', 'Desulfurobacterium sp. TC5-1', 'Persephonella sp. IF05-L8', 'Persephonella sp. KM09-Lau-8', 'Kosakonia sacchari SP1', 'Thioalkalivibrio sp. ALJ7', 'Thioalkalivibrio sp. ALJ11', 'Thioalkalivibrio sp. ALJ16', "Leptospirillum sp. Group II 'C75'", 'Ustilaginoidea virens', 'Bordetella sp. FB-8', 'Nocardia sp. BMG111209', 'Brucella sp. 63/311', 'Ruminococcus bicirculans', 'Candidatus Nasuia deltocephalinicola str. NAS-ALF', 'Euryhalocaulis caribicus', 'Streptococcus sp. ACC21', 'Ruminococcus champanellensis 18P13 = JCM 17042', 'Pseudomonas donghuensis', 'Clostridium sp. 12(A)', 'Cronobacter condimenti 1330', 'Richelia intracellularis HH01', 'Imtechella halotolerans K1', 'Methylotenera sp. 73s', 'Sulfurovum sp. AR', 'Enterobacter sp. R4-368', 'Halomonas xinjiangensis', 'Draconibacterium orientale', 'Xanthobacteraceae bacterium 501b', 'Mycobacterium sp. MOTT36Y', 'Mycobacterium sp. H4Y', 'Streptomyces pratensis ATCC 33331', 'Bacillus sp. 123MFChir2', 'Nocardia sp. CNY236', 'Streptomyces sp. CNT372', 'Streptomyces sp. CNY243', 'Brucella sp. F5/06', 'Brucella sp. 56/94', 'Citrobacter sp. KTE30', 'Escherichia sp. KTE114', 'Citrobacter sp. KTE151', 'Escherichia sp. KTE11', 'Escherichia sp. KTE31', 'Citrobacter sp. KTE32', 'Vitrella brassicaformis CCMP3155', 'Rhodobacteraceae bacterium PD-2', 'Streptomyces sp. 142MFCol3.1', 'Streptomyces sp. 351MFTsu5.1', 'Streptomyces sp. 303MFCol5.2', 'Nocardia sp. 348MFTsu5.1', 'Mycobacterium sp. 360MFTsu5.1', 'Terracoccus sp. 273MFTsu3.1', 'Oxytricha trifallax', 'Sulfurimonas hongkongensis', 'Catenovulum agarivorans DS-2', 'Fischerella sp. PCC 9431', 'Fischerella sp. PCC 9605', 'Geitlerinema sp. PCC 7407', 'Gloeocapsa sp. PCC 7428', 'Microcoleus sp. PCC 7113', 'Oscillatoria sp. PCC 10802', 'Chamaesiphon minutus PCC 6605', 'Synechococcus sp. PCC 7502', 'Leptolyngbya sp. PCC 6406', 'Colletotrichum sublineola', 'Fischerella sp. PCC 9339', 'Sphingopyxis sp. MC1', 'Herbaspirillum sp. GW103', 'Methanocella conradii HZ254', 'Methanocella arvoryzae MRE50', 'Peptoniphilus rhinitidis 1-13', 'Sulfurimonas gotlandica GD1', 'Agrobacterium fabrum str. C58', 'Alcanivorax nanhaiticus', 'Microbacterium sp. C448', 'Komagataeibacter medellinensis NBRC 3288', 'Halomonas huangheensis', 'Bacillus xiamenensis', 'Bacillus zhangzhouensis', 'Arenitalea lutea', 'Candidatus Photodesmus blepharus', 'Mycoplasma feriruminatoris', 'Pseudomonas sp. M47T1', 'Cladophialophora psammophila', 'Deinococcus swuensis', 'Escherichia sp. KTE52', 'Klebsiella sp. KTE92', 'Escherichia sp. KTE96', 'Escherichia sp. KTE159', 'Myroides injenensis M09-0166', 'Pyrococcus sp. ST04', 'Mesotoga prima MesG1.Ag.4.2', 'Thioclava dalianensis', 'Blattabacterium sp. (Blaberus giganteus)', 'Rhodovulum sp. PH10', 'Flavobacterium sp. ACAM 123', 'Burkholderia sp. lig30', 'Lactobacillus hokkaidonensis JCM 18461', 'Snodgrassella alvi', 'Gilliamella apicola', 'Corvus moneduloides', 'Clostridium sp. Maddingley MBC34-26', 'Paenibacillus sp. OSY-SE', 'Mangrovimonas yunxiaonensis', 'Arthrobacter sp. M2012083', 'Janthinobacterium sp. HH01', 'Thermogladius calderae 1633', 'Anaerovibrio sp. RM50', 'Ruminobacter sp. RM87', 'Bacteriovorax sp. Seq25_V', 'Bacteriovorax sp. BAL6_X', 'Flavobacterium sp. F52', 'Lactobacillus oryzae JCM 18671', 'Halopiger salifodinae', 'Achlya hypogyna', 'Lactobacillus hominis DSM 23910 = CRBIP 24.179', 'Geobacter daltonii FRC-32', 'Acidaminococcus sp. HPA0509', 'Actinomyces sp. HPA0247', 'Corynebacterium sp. KPL1814', 'Corynebacterium sp. KPL1817', 'Corynebacterium sp. KPL1818', 'Corynebacterium sp. KPL1821', 'Corynebacterium sp. KPL1824', 'Corynebacterium sp. KPL1855', 'Corynebacterium sp. KPL1856', 'Corynebacterium sp. KPL1857', 'Corynebacterium sp. KPL1859', 'Corynebacterium sp. KPL1860', 'Dermabacter sp. HFH0086', 'Propionibacterium sp. HGH0353', 'Propionibacterium sp. KPL1838', 'Propionibacterium sp. KPL1844', 'Propionibacterium sp. KPL1852', 'Pseudomonas sp. HPB0071', 'Streptococcus sp. HPH0090', 'Streptomyces sp. HPH0547', 'Veillonella sp. HPA0037', 'Corynebacterium sp. KPL1986', 'Corynebacterium sp. KPL1989', 'Corynebacterium sp. KPL1995', 'Corynebacterium sp. KPL1996', 'Corynebacterium sp. KPL1998', 'Corynebacterium sp. KPL2004', 'Propionibacterium sp. KPL2005', 'Propionibacterium sp. KPL2009', 'Streptomyces sp. CNR698', 'Novosphingobium sp. MBES04', 'Pseudomonas sp. Lz4W', 'Gallaecimonas xiamenensis 3-C-1', 'Idiomarina xiamenensis 10-D-4', 'Sphingobium sp. C100', 'Hyphomonas sp. L-53-1-40', 'Pseudomonas sp. UW4', 'Marinomonas profundimaris', 'Celeribacter indicus', 'Commensalibacter sp. MX01', 'Colletotrichum orchidophilum', 'Streptomyces sp. AA0539', 'Gemmata massiliana', 'Pseudoxanthomonas sp. GW2', 'Chelatococcus sp. GW1', 'Dyadobacter tibetensis Y620-1', 'Enterobacteriaceae bacterium B14', 'Acidocella sp. MX-AZ02', 'Diaporthe ampelina', 'Thermus tengchongensis YIM 77401', 'Amphibacillus jilinensis Y1', 'Clostridium bornimense', 'Acinetobacter sp. NIPH 542', 'Acinetobacter sp. NIPH 298', 'Acinetobacter sp. CIP 64.2', 'Acinetobacter sp. NIPH 1847', 'Acinetobacter sp. NIPH 3623', 'Acinetobacter sp. CIP 110321', 'Acinetobacter sp. CIP 70.18', 'Acinetobacter sp. ANC 3880', 'Acinetobacter sp. NIPH 1867', 'Acinetobacter sp. ANC 4105', 'Acinetobacter sp. NIPH 284', 'Acinetobacter sp. ANC 3862', 'Acinetobacter sp. NIPH 2168', 'Acinetobacter sp. ANC 3929', 'Acinetobacter sp. NIPH 2100', 'Acinetobacter sp. NIPH 713', 'Acinetobacter sp. NIPH 899', 'Acinetobacter sp. NIPH 236', 'Acinetobacter sp. NIPH 758', 'Acinetobacter sp. ANC 3789', 'Cupriavidus sp. BIS7', 'Roseomonas sp. B5', 'Xylona heveae TC161', 'Octadecabacter antarcticus 307', 'Streptomyces sp. GBA 94-10', 'Brucella inopinata BO1', 'Lactobacillus mellifer', 'Lactobacillus kullabergensis', 'Lactobacillus helsingborgensis', 'Lactobacillus kimbladii', 'Lactobacillus melliventris', 'Lactobacillus mellis', 'Acinetobacter nectaris CIP 110549', 'Actinomyces sp. S4-C9', 'Arcanobacterium sp. S3PF19', 'Peptostreptococcus sp. MV1', 'Methanobacterium sp. Maddingley MBC34', 'Altibacter lentus', 'Corynebacterium humireducens NBRC 106098 = DSM 45392', 'Enterobacteriaceae bacterium LSJC7', 'Mangrovibacter sp. MFB070', 'Pantoea sp. A4', 'Dickeya sp. DW 0440', 'Oscillibacter sp. KLE 1728', 'Oscillibacter sp. KLE 1745', 'Blautia sp. KLE 1732', 'Clostridium sp. KLE 1755', 'Streptomyces rapamycinicus NRRL 5491', 'Actinomyces sp. oral taxon 877 str. F0543', 'Capnocytophaga sp. oral taxon 863 str. F0517', 'Leptotrichia sp. oral taxon 879 str. F0557', 'Prevotella sp. F0091', 'Paenibacillus sp. FSL H7-689', 'Paenibacillus sp. FSL R7-277', 'Leptolyngbya sp. KIOST-1', 'Sphingobacterium deserti', 'Flavobacterium sp. WG21', 'Cupriavidus sp. GA3-3', 'Alkalibacterium sp. AK22', 'Candidatus Nitrosopumilus sediminis', 'Salimicrobium jeotgali', 'Bradyrhizobium sp. DFCI-1', 'Flaviramulus ichthyoenteri Th78', 'Lachancea sp. CBS 6924', 'Lachancea mirantina', 'Paenisporosarcina sp. TG-14', 'Nitratireductor pacificus pht-3B', 'Thermotoga sp. Mc24', 'Lactobacillus shenzhenensis LY-73', 'Clohesyomyces aquaticus', 'Desulfuromonas sp. TF', 'Corynebacterium ihumii', 'Megasphaera massiliensis', 'Nesterenkonia massiliensis', 'Nosocomiicoccus massiliensis', 'Enorma timonensis', 'Desulfobacula sp. TS', 'Clostridiales bacterium VE202-13', 'Clostridiales bacterium VE202-18', 'Clostridiales bacterium VE202-09', 'Clostridiales bacterium VE202-08', 'Clostridiales bacterium VE202-14', 'Clostridiales bacterium VE202-21', 'Marinobacterium sp. AK27', 'Geobacillus sp. GHH01', 'Chryseobacterium sp. JM1', 'Chryseobacterium sp. FH1', 'Staphylococcus sp. E463', 'Pacificimonas flava', 'Gayadomonas joobiniege G7', 'Ralstonia sp. AU12-08', 'Eubacterium sp. 14-2', 'Lachnospiraceae bacterium M18-1', 'Lachnospiraceae bacterium MD335', 'Firmicutes bacterium M10-2', 'Oscillibacter sp. 1-3', 'Dorea sp. 5-2', 'Lachnospiraceae bacterium MD308', 'Lachnospiraceae bacterium 10-1', 'Parabacteroides sp. ASF519', 'Anaerotruncus sp. G3(2012)', 'Candidatus Pantoea carbekii', 'Haloquadratum sp. J07HQX50', 'Halonotius sp. J07HN6', 'Halorubrum sp. J07HR59', 'Sodalis praecaptivus', 'Dokdonia sp. PRO95', 'Bacillus massiliogorillae', 'Luteimonas huabeiensis HB2', 'Campylobacter iguaniorum', 'Magnetospirillum caucaseum', 'Mariniradius saccharolyticus AK6', 'Lachancea lanzarotensis', 'Borreliella chilensis', 'Nocardiopsis potens DSM 45234', 'Rhizobium sp. 2MFCol3.1', 'Halobacillus sp. BAB-2008', 'Paramicrosporidium saccamoebae', 'Arsenophonus endosymbiont str. Hangzhou of Nilaparvata lugens', 'Microbacterium sp. UCD-TDU', 'Parvularcula oceani', 'Blastomonas sp. AAP53', 'Sandarakinorhabdus sp. AAP62', 'Porphyrobacter sp. AAP82', 'Candidatus Sulfuricurvum sp. RIFRC-1', 'Imhoffiella purpurea', 'Gillisia sp. Hel_I_29', 'Maribacter sp. Hel_I_7', 'Polaribacter sp. Hel1_85', 'Polaribacter sp. Hel_I_88', 'Muricauda sp. MAR_2010_75', 'Salegentibacter sp. Hel_I_6', 'Pseudomonas sp. FGI182', "Leptospirillum sp. Group IV 'UBA BS'", 'Streptomyces sp. 769', 'Phascolarctobacterium sp. CAG:207', 'Phascolarctobacterium sp. CAG:266', 'Oscillibacter ruminantium GH1', 'Edwardsiella piscicida C07-087', 'Candidatus Endolissoclinum faulkneri L2', 'Pseudomonas sp. URMO17WK12:I8', 'Streptomyces sp. PAMC 26508', 'Nafulsella turpanensis ZLM-10', 'Lysinibacillus manganicus DSM 26584', 'Thioalkalivibrio sp. ALE6', 'Thioalkalivibrio sp. ALE19', 'Thioalkalivibrio sp. AKL19', 'Frischella perrara', 'Sediminibacterium sp. C3', 'Acidobacteriaceae bacterium KBS 83', 'Acidobacteriaceae bacterium KBS 89', 'Pantoea sp. IMH', 'Pseudomonas sp. G5(2012)', 'Peptoniphilus timonensis JC401', 'Rhodococcus sp. AW25M09', 'Acidovorax sp. MR-S7', 'Thioalkalivibrio sp. ALR17-21', 'Flavobacterium sp. KJJ', 'Pedobacter sp. R20-19', 'Megasphaera sp. NM10', 'Liberibacter crescens BT-1', 'Mycobacterium sp. VKM Ac-1817D', 'Paenibacillus antibioticophila', 'Candidatus Hepatobacter penaei', 'Acidovorax sp. JHL-9', 'Escherichia sp. KTE172', 'Hippea alviniae EP5-r', 'Synechococcus sp. KORDI-100', 'Gorillibacterium massiliense', 'Butyrivibrio sp. AE2015', 'Butyrivibrio sp. VCD2006', 'Butyrivibrio sp. AE3009', 'Butyrivibrio sp. XPD2006', 'Butyrivibrio sp. FC2001', 'Butyrivibrio sp. AE3006', 'Prevotella sp. AGR2160', 'Butyrivibrio sp. WCD3002', 'Butyrivibrio sp. VCB2006', 'Butyrivibrio sp. LC3010', 'Butyrivibrio sp. WCD2001', 'Butyrivibrio sp. XBB1001', 'Butyrivibrio sp. NC3005', 'Butyrivibrio sp. MC2013', 'Meira miltonrushii', 'Hyphomonas pacifica', 'Hyphomonas sp. CY54-11-8', 'Hyphomonas beringensis', 'Hyphomonas chukchiensis', 'Hyphomonas atlantica', 'Asticcacaulis sp. AC460', 'Asticcacaulis sp. AC402', 'Asticcacaulis sp. AC466', 'Frankia sp. Iso899', 'Tolumonas lignilytica', 'Nocardioides sp. Iso805N', 'Paenibacillus sp. A9', 'Planktomarina temperata RCA23', 'Actinomyces sp. S6-Spd3', 'Tissierellia bacterium S7-1-4', 'Prevotella sp. S7-1-8', 'Pandoraea sp. SD6-2', 'Brachyspira hampsonii 30446', 'Mesorhizobium sp. L2C084A000', 'Mesorhizobium sp. LNJC398B00', 'Prevotella sp. S7 MS 2', 'Bacillus massiliosenegalensis JC6', 'Achromobacter insuavis AXX-A', 'Arcticibacter svalbardensis MN12-7', 'Streptomyces sp. CNT318', 'Streptomyces sp. TAA040', 'Anaerococcus senegalensis JC48', 'Alistipes senegalensis JC50', 'Actinomyces timonensis DSM 23838', 'Nitrosospira lacus', 'Magnetospira sp. QH-2', 'Streptomyces sp. TAA204', 'Candidatus Methanomethylophilus alvus Mx1201', 'Dietzia sp. UCD-THP', 'Kocuria sp. UCD-OTCP', 'Leucobacter sp. UCD-THU', 'Halopiger djelfimassiliensis', 'Halopiger goleimassiliensis', 'Pseudomonas sp. ATCC 13867', 'Photobacterium gaetbulicola Gung47', 'Thermodesulfobacterium geofontis OPF15', 'Parageobacillus genomosp. 1', 'Aquimarina pacifica', 'Mesorhizobium sp. STM 4661', 'Intestinimonas butyriciproducens', 'Myxococcus hansupus', 'Afipia sp. OHSU_I-C4', 'Bradyrhizobium sp. OHSU_III', 'Psychrobacter sp. JCM 18900', 'Mesorhizobium sp. URHA0056', 'Microbacterium sp. URHA0036', 'Marmoricola sp. URHB0036', 'Mycobacterium sp. URHD0025', 'Alteromonas sp. ALT199', 'Bradyrhizobium sp. URHA0002', 'Streptomyces sp. TAA486', 'Methanocaldococcus bathoardescens', 'Caldisalinibacter kiritimatiensis', 'Cellulomonas sp. KRMCY2', 'Clostridium sp. ASBs410', 'Geovibrio sp. L21-Ace-BES', 'Microbacterium sp. KROCY2', 'Oceanicola sp. HL-35', 'Marinobacter nanhaiticus D15-8W', 'Sporosarcina sp. EUR3 2.2.2', 'Alcanivorax pacificus W11-5', 'Termitomyces sp. J132', 'Streptomyces hokutonensis', 'Desulfohalovibrio reitneri', 'Salinispira pacifica', 'Arthrobacter sp. Br18', 'Arthrobacter sp. H14', 'Thermocrinis sp. GBS', 'Aureispira sp. CCB-QB1', 'Peniophora sp. CONT', 'Perkinsela sp. CCAP 1560/4', 'Streptococcus sp. HSISM1', 'Streptococcus sp. HSISB1', 'Streptococcus sp. HSISS1', 'Streptococcus sp. HSISS2', 'Streptococcus sp. HSISS3', 'Enterococcus sp. HSIEG1', 'Blattabacterium sp. (Nauphoeta cinerea)', 'Archaeoglobus sulfaticallidus PM70-1', 'Aquimarina atlantica', 'Thioclava atlantica', 'Candidatus Mycoplasma girerdii', 'Mesorhizobium sp. NBIMC_P2-C3', 'Clostridiales bacterium oral taxon 876 str. F0540', 'Mitsuokella sp. oral taxon 131 str. W9106', 'Peptostreptococcaceae bacterium oral taxon 113 str. W5053', 'Selenomonas sp. oral taxon 892 str. F0426', 'Rhodococcus defluvii', 'Mycobacterium sp. TKK-01-0059', 'Serratia sp. FS14', 'Prolemur simus', 'Thermoactinomyces daqus', 'Enterobacter sp. MGH 1', 'Enterobacter sp. MGH 3', 'Enterobacter sp. MGH 6', 'Enterobacter sp. MGH 7', 'Enterobacter sp. MGH 10', 'Enterobacter sp. MGH 15', 'Enterobacter sp. MGH 22', 'Enterobacter sp. MGH 23', 'Enterobacter sp. MGH 24', 'Enterobacter sp. MGH 25', 'Enterobacter sp. MGH 33', 'Enterobacter sp. MGH 37', 'Enterobacter sp. MGH 38', 'Enterobacter sp. BWH 37', 'Enterobacter sp. BIDMC 26', 'Enterobacter sp. BIDMC 27', 'Enterobacter sp. BIDMC 28', 'Enterobacter sp. BIDMC 29', 'Enterobacter sp. BIDMC 30', 'Novosphingobium lindaniclasticum LE124', 'Cycloclasticus zancles 78-ME', 'Thermus caliditerrae', 'Auricularia subglabra TFB-10046 SS5', 'Sphingobium baderi LL03', 'Candidatus Saccharimonas aalborgensis', 'Salinarchaeum sp. Harcht-Bsk1', 'Bifidobacterium moukalabense DSM 27321', 'Tepidicaulis marinus', 'Spiribacter salinus M19-40', 'Spiribacter curvatus', 'Sphingobium bisphenolivorans', 'Polaribacter sp. Hel1_33_49', 'Calothrix sp. 336/3', 'Bacillus sp. UNC438CL73TsuS30', 'Luminiphilus syltensis NOR5-1B', 'Flavobacterium enshiense DK69', 'Brucella sp. 04-5288', 'Sulfitobacter geojensis', 'Sulfitobacter noctilucicola', 'Sulfitobacter noctilucae', 'Saccharibacter sp. AM169', 'Epichloe mollis', 'Winogradskyella psychrotolerans RS-3', 'Halomonas sp. A3H3', 'Bacillus sp. EB01', 'Paucisalibacillus sp. EB02', 'Bacillus ndiopicus', 'Bacillus dielmoensis', 'Anaerosalibacter massiliensis', 'Bacteroides neonati', 'Pseudoalteromonas piratica', 'Arthrobacter sp. AK-YN10', 'Cyclobacterium qasimii M12-11B', 'Synechococcus sp. UTEX 2973', 'Thioclava indica', 'Bacteriovorax sp. BSW11_IV', 'Peptoniphilus mikwangii', 'Roseovarius sp. MCTG156(2b)', 'Arcobacter sp. AF1028', 'Arcobacter lanthieri', 'Bradyrhizobium diazoefficiens USDA 110', 'Rhodococcus sp. PML026', 'Hymenobacter sp. APR13', 'Batrachochytrium salamandrivorans', 'Lutibaculum baratangense AMV1', 'Thermofilum adornatum', 'Zygosaccharomyces parabailii', 'Rhodobacteraceae bacterium HIMB11', 'Fonsecaea erecta', 'Mycobacterium sp. UM_WGJ', 'Mycobacterium sp. UM_WWY', 'Firmicutes bacterium ASF500', 'Dyella jiangningensis', 'Gemmatimonas phototrophica', 'Desulfonauticus sp. A7A', 'Sphingomonas sp. FUKUSWIS1', 'Methanobacterium sp. MB1', 'Spirosoma radiotolerans', 'Streptomyces sp. URHA0041', 'Geodermatophilaceae bacterium URHB0048', 'Mesorhizobium sp. URHC0008', 'Cellulomonas sp. URHE0023', 'Bradyrhizobium sp. URHD0069', 'Blastococcus sp. URHD0036', 'Halomonas sp. 23_GOM-1509m', 'Sulfitobacter sp. 20_GPM-1509m', 'Intrasporangiaceae bacterium URHB0013', 'Ahrensia sp. 13_GOM-1096m', 'Tenacibaculum sp. 47A_GOM-205m', 'Mycobacterium sp. URHB0044', 'Alcanivorax sp. 43B_GOM-46m', 'Solirubrobacterales bacterium URHD0059', 'Dongia sp. URHE0060', 'Geodermatophilaceae bacterium URHA0031', 'Rhodospirillales bacterium URHD0088', 'Paenibacillus darwinianus', 'Streptomycetaceae bacterium MP113-05', 'Aliihoeflea sp. 2WW', 'Brevibacterium sp. VCM10', 'Caulobacteraceae bacterium PMMR1', 'Sporosarcina sp. D27', 'Thermogemmatispora carboxidivorans', 'Thermorudis peleae', 'Acidobacterium ailaaui', 'Methyloceanibacter caenitepidi', 'Francisella sp. W12-1067', 'Lysobacter arseniciresistens ZS79', 'Hymenobacter sp. DG25B', 'Leptolyngbya sp. Heron Island J', 'Exiguobacterium chiriqhucha RW-2', 'Sphingobacterium paucimobilis HER1398', 'Methylophilus sp. OH31', 'Staphylococcus sp. M0480', 'Clostridium sp. Ade.TY', 'Pseudogymnoascus sp. VKM F-3808', 'Kalmanozyma brasiliensis', 'Prevotella sp. HUN102', 'Eubacterium sp. AB3007', 'Flavimarina sp. Hel_I_48', 'Leeuwenhoekiella sp. MAR_2009_132', 'Sediminibacter sp. Hel_I_10', 'Ruminococcaceae bacterium AE2021', 'Lachnospiraceae bacterium AC2031', 'Bifidobacterium sp. 7101', 'Bifidobacterium sp. A11', 'Candidatus Saccharibacteria bacterium RAAC3_TM7_1', 'Thermosynechococcus sp. NK55a', 'Paenibacillus sp. MAEPY2', 'Haloferula sp. BvORR071', 'Verrucomicrobium sp. BvORR034', 'Marinobacter sp. ES-1', 'Leucobacter sp. PH1c', 'Serratia sp. H1n', 'Alcanivorax sp. P2S70', 'Halomonas sp. PBN3', 'Candidatus Micropelagos thuwalensis', 'Exiguobacterium sp. MH3', 'Ophiocordyceps australis', 'Bacteroidales bacterium CF', 'Flavobacterium limnosediminis JC2902', 'Sulfitobacter pseudonitzschiae', 'Streptomyces sp. A02', 'Verrucomicrobium sp. BvORR106', 'Corynebacterium glyciniphilum AJ 3170', 'Candidatus Methanomassiliicoccus intestinalis Issoire-Mx1', 'Synechococcus sp. NKBG15041c', 'Betaproteobacteria bacterium MOLA814', 'Bacillus sp. MB2021', 'Butyrivibrio sp. FCS014', 'Butyrivibrio sp. MC2021', 'Prevotella sp. MA2016', 'Oribacterium sp. FC2011', 'Pseudobutyrivibrio sp. LB2011', 'Lachnospiraceae bacterium AC2028', 'Lachnospiraceae bacterium AC3007', 'Lachnospiraceae bacterium MA2020', 'Lachnospiraceae bacterium MC2017', 'Youngiibacter fragilis 232.1', 'Candidatus Tachikawaea gelatinosa', 'Candidatus Nitrosopelagicus brevis', 'Bacteroides sp. Ga6A2', 'Treponema sp. C6A8', 'Oribacterium sp. P6A1', 'Prevotella sp. P6B1', 'Pseudobutyrivibrio sp. MD2005', 'Ruminococcus sp. FC2018', 'Selenomonas sp. ND2010', 'Serratia sp. DD3', 'Shinella sp. DD12', 'Lachnospiraceae bacterium C6A11', 'Lachnospiraceae bacterium FE2018', 'Lachnospiraceae bacterium MD2004', 'Lachnospiraceae bacterium NC2004', 'Lachnospiraceae bacterium ND2006', 'Lachnospiraceae bacterium P6A3', 'Lachnospiraceae bacterium P6B14', 'Lachnospiraceae bacterium V9D3004', 'Lachnospiraceae bacterium YSB2008', 'Propionibacteriaceae bacterium P6A17', 'Ruminococcaceae bacterium AB4001', 'Methyloglobulus morosus KoM1', 'Rhizobiales bacterium YIM 77505', 'Gammaproteobacteria bacterium MOLA455', 'Corynebacterium jeddahense', 'Clostridium saudiense', 'Pseudomonas sp. TKP', 'Candidatus Walczuchella monophlebidarum', 'Marinobacter sp. MCTG268', 'Halomonas sp. TG39a', 'Oceanicola sp. MCTG156(1a)', 'Gloeobacter kilaueensis JS1', 'Defluviimonas sp. 20V17', 'Streptococcus sp. VT 162', 'Pseudogymnoascus sp. VKM F-3775', 'Pseudogymnoascus sp. VKM F-4246', 'Pseudogymnoascus sp. VKM F-4281 (FW-2241)', 'Pseudogymnoascus sp. VKM F-4513 (FW-928)', 'Pseudogymnoascus sp. VKM F-4514 (FW-929)', 'Pseudogymnoascus sp. VKM F-4515 (FW-2607)', 'Pseudogymnoascus sp. VKM F-4516 (FW-969)', 'Pseudogymnoascus sp. VKM F-4517 (FW-2822)', 'Pseudogymnoascus sp. VKM F-103', 'Pseudogymnoascus sp. VKM F-4518 (FW-2643)', 'Pseudogymnoascus sp. VKM F-4519 (FW-2642)', 'Pseudogymnoascus sp. VKM F-4520 (FW-2644)', 'Marinobacter similis', 'Marinobacter salarius', 'Kurthia huakuii LAM0618', 'Bacillus sp. SJS', 'Hyphomicrobium nitrativorans NL23', 'Candidatus Entotheonella factor', 'Candidatus Entotheonella gemina', 'Afipia sp. P52-10', 'Geobacillus icigianus', 'Candidatus Halobonum tyrrellensis G22', 'Mannheimia sp. USDA-ARS-USMARC-1261', 'Mucinivorans hirudinis', 'Methanosarcina sp. Kolksee', 'Methanosarcina sp. MTP4', 'Methanosarcina sp. WH1', 'Methanosarcina sp. WWM596', 'Acinetobacter bohemicus ANC 3994', 'Alcanivorax sp. 97CO-5', 'Candidatus Symbiobacter mobilis CR', 'Pseudogymnoascus sp. VKM F-3557', 'Citrobacter sp. MGH 55', 'Pseudomonas sp. BAY1663', 'Talaromyces atroroseus', 'Clostridium sp. K25', 'Aquimarina megaterium XH134', 'Candidatus Protochlamydia massiliensis', 'Candidatus Rubidus massiliensis', 'Xylella taiwanensis', 'Gynuella sunshinyii YC6258', 'Sciscionella sp. SE31', 'Hymenobacter swuensis DY53', 'Bacillus sp. Pc3', 'Campylobacter corcagiensis', 'Halobellus rufus', 'Arthrobacter sp. UNC362MFTsu5.1', 'Mycobacterium sp. UNC280MFTsu5.1', 'Caulobacter sp. UNC358MFTsu5.1', 'Clostridium sp. KNHs205', 'Microbacterium sp. UNCCL10', 'Paenibacillus sp. UNC451MF', 'Phyllobacterium sp. UNC302MFCol5.2', 'Rhodococcus sp. UNC23MFCrub1.1', 'Rhodococcus sp. UNC363MFTsu5.1', 'Sphingomonas sp. UNC305MFCol5.2', 'Thermus amyloliquefaciens', 'Bacillus sp. TS-2', 'Microbacterium sp. MRS-1', 'Microbacterium sp. Cr-K32', 'Microbacterium sp. Cr-K20', 'Pseudomonas sp. RL', 'Chryseobacterium hispalense DSM 25574', 'Microbulbifer sp. HZ11', 'Candidatus Accumulibacter sp. BA-93', 'Cellulomonas sp. HZM', 'Chlamydia avium 10DC88', 'Chlamydia gallinacea 08-1274/3', 'Halapricum salinum', 'Caballeronia jiangsuensis', 'Serpentinomonas raichei', 'Serpentinomonas mccroryi', 'Candidatus Phaeomarinobacter ectocarpi', 'Lachnospiraceae bacterium AC2029', 'Candidatus Nitrososphaera evergladensis SR1', 'Geomicrobium sp. JCM 19037', 'Geomicrobium sp. JCM 19038', 'Bacillus sp. JCM 19046', 'Paraphaeosphaeria sporulosa', 'Weeksella massiliensis', 'Haemophilus massiliensis', 'Neobacillus jeddahensis', 'Jeotgalicoccus saudimassiliensis', 'Metalysinibacillus saudimassiliensis', 'Actibacterium atlanticum', 'Pseudooceanicola atlanticus', 'Pseudoalteromonas sp. SCSIO_11900', 'Virgibacillus massiliensis', 'Oceanobacillus jeddahense', 'Brucella papionis', 'Klebsiella quasipneumoniae subsp. quasipneumoniae UCICRE 14', 'Actinosporangium sp. NRRL B-3428', 'Glycomyces sp. NRRL B-16210', 'Saccharothrix sp. NRRL B-16314', 'Streptomyces sp. NRRL F-2580', 'Streptomyces sp. NRRL F-2890', 'Streptomyces sp. NRRL F-5008', 'Streptomyces sp. NRRL F-5053', 'Streptomyces sp. NRRL F-5065', 'Streptomyces sp. NRRL F-5123', 'Streptomyces sp. NRRL F-5126', 'Streptomyces sp. NRRL F-5135', 'Streptomyces sp. NRRL F-525', 'Streptomyces sp. NRRL F-5630', 'Streptomyces sp. NRRL F-6677', 'Streptomyces sp. NRRL S-118', 'Streptomyces sp. NRRL S-149', 'Streptomyces sp. NRRL S-1777', 'Streptomyces sp. NRRL S-237', 'Streptomyces sp. NRRL S-337', 'Streptomyces sp. NRRL S-340', 'Streptomyces sp. NRRL S-37', 'Streptomyces sp. NRRL S-474', 'Streptomyces sp. NRRL S-646', 'Streptomyces sp. NRRL S-87', 'Streptomyces sp. NRRL S-920', 'Streptomyces sp. NRRL WC-3626', 'Streptomyces sp. NRRL WC-3742', 'Streptomyces sp. NRRL WC-3773', 'Micromonospora parva', 'Aeromicrobium massiliense JC14', 'Peptoniphilus grossensis ph5', 'Peptoniphilus senegalensis JC140', "Oceanobacillus massiliensis str. N'diop", 'Paenibacillus senegalensis JC66', 'Clostridium senegalense JC122', 'Cellulomonas massiliensis JC225', 'Noviherbaspirillum massiliense JC206', 'Timonella senegalensis JC301', 'Burkholderia sp. 2002721687', 'Bacillus massilioanorexius AP8', 'Bartonella senegalensis OS02', 'Holdemania massiliensis AP2', 'Thioalkalivibrio sp. HK1', 'Burkholderiales bacterium GJ-E10', 'Lacinutrix jangbogonensis', 'Rhodovulum sp. NI22', 'Kineothrix alysoides', 'Alistipes ihumii AP11', 'Candidatus Stoquefichus massiliensis AP9', 'Clostridium ihumii AP5', 'Candidatus Blastococcus massiliensis AP3', 'Streptomyces sp. Tu 6176', 'Sphingomonas sp. RIT328', 'Pseudomonas sp. RIT357', 'Prochlorococcus sp. scB241_528O2', 'Prochlorococcus sp. scB245a_520K10', 'Talaromyces cellulolyticus', 'Basilea psittacipulmonis DSM 24701', 'Falsirhodobacter sp. alg1', 'Burkholderia sp. K24', 'Enorma massiliensis phI', 'Kallipyga massiliensis ph2', 'Senegalimassilia anaerobia JC110', 'Lysinibacillus sp. BF-4', 'Mizugakiibacter sediminis', 'Deinococcus phoenicis', 'Streptomyces sp. NRRL B-24720', 'Peptostreptococcaceae bacterium VA2', 'Halomonas sp. HL-48', 'Marinobacter sp. HL-58', 'Oceanicaulis sp. HL-87', 'Porphyrobacter sp. HL-46', 'Curtobacterium sp. S6', 'Spirochaeta lutea', 'Pantoea sp. PSNIH2', 'Pantoea sp. PSNIH1', 'Psychroserpens jangbogonensis', 'Exiguobacterium sp. AB2', 'Rhodoferax saidenbachensis ED16', 'Cadophora sp. DSE1049', 'Selenomonas sp. AE3005', 'Ferriphaselus sp. R-1', 'Ghiorsea bivora', 'Mitosporidium daphniae', 'Martelella endophytica', 'Candidatus Sodalis pierantonius str. SOPE', 'Clostridium sp. HMP27', 'Desulfosporosinus sp. HMP52', 'Corynebacterium sp. ATCC 6931', 'Pseudomonas sp. Ant30-3', 'Deinococcus sp. RL', 'Trichoderma guizhouense', 'Flavobacterium gilvum', 'Flavobacterium seoulense', 'Gammaproteobacteria bacterium MFB021', 'Arthrobacter sp. PAMC 25486', 'Mesoaciditoga lauensis cd-1655R = DSM 25116', 'Pseudomonas sp. WCS374', 'Penicillium cf. griseofulvum UFMGCB 6741', 'Candidatus Evansia muelleri', 'Cyanobium sp. CACIAM 14', 'Listeriaceae bacterium FSL A5-0209', 'Prochlorococcus sp. MIT 0601', 'Prochlorococcus sp. MIT 0602', 'Prochlorococcus sp. MIT 0701', 'Bacillus rubiinfantis', 'Clostridium sp. CL-6', 'Clostridium sp. CL-2', 'Bacillus andreraoultii', 'Pseudomonas saudiphocaensis', 'Clostridium amazonitimonense', 'Candidatus Moduliflexus flocculans', 'Candidatus Vecturithrix granuli', 'Paenibacillus sp. TCA20', 'Rhizobium sp. YR295', 'Rhizobium sp. YR519', 'Chryseobacterium sp. CF284', 'Rhizobium sp. CF097', 'Rhizobium sp. CF394', 'Rhizobium sp. OK494', 'Luteibacter sp. 9143', 'Luteibacter sp. 9135', 'Massilia sp. 9096', 'Burkholderia sp. 9120', 'Campylobacter sp. RM16704', 'Paenibacillus tyrfis', 'Prochlorococcus sp. MIT 0604', 'Prochlorococcus sp. MIT 0801', 'Oribacterium parvum ACB8', 'Oribacterium asaccharolyticum ACB7', 'Alistipes inops', 'Devosia sp. LC5', 'Methylotenera sp. L2L1', 'Pseudomonas sp. AAC', 'Sphingopyxis sp. LC81', 'Bosea sp. LC85', 'Massilia sp. LC238', 'Veillonella seminalis ACS-216-V-Col6b', 'Polaromonas sp. CG9_12', 'Halomonas sp. KO116', 'Chitinivibrio alkaliphilus ACht1', 'Blochmannia endosymbiont of Polyrhachis (Hedomyrma) turneri', 'Blochmannia endosymbiont of Camponotus (Colobopsis) obliquus', 'Candidatus Schmidhempelia bombi str. Bimp', 'Thermococcus eurythermalis', 'Flavobacterium sp. Fl', 'Butyrivibrio sp. AE3004', 'Rachicladosporium antarcticum', 'Jeotgalibacillus malaysiensis', 'Candidatus Arthromitus sp. SFB-mouse-NL', 'Acinetobacter sp. HR7', 'Pseudorhizobium pelagicum', 'Candidatus Nitrosopumilus koreensis AR1', 'Bosea sp. UNC402CLCol', 'Ruminococcus sp. HUN007', 'Sphingopyxis fribergensis', 'Porphyromonas sp. COT-239 OH1446', 'Porphyromonas sp. COT-290 OH860', 'Shewanella mangrovi', 'Idiomarina atlantica', 'Vibrio sp. ER1A', 'Porphyromonadaceae bacterium COT-184 OH4590', 'Anopheles coluzzii', 'Oscillibacter sp. ER4', 'Candidatus Thermochlorobacteriaceae bacterium GBChlB', 'Chloroflexus sp. MS-G', 'Sphingobium sp. ba1', 'Ceraceosorus guamensis', 'Pseudomonas sp. ML96', 'Serratia sp. Ag1', 'Planococcus sp. PAMC 21323', 'Rickettsiales bacterium Ac37b', 'Thalassospira australica', 'Acinetobacter seifertii', 'Palleronia rufa', 'Coriobacteriaceae bacterium 68-1-3', 'Torrubiella hemipterigena', 'Achromobacter sp. RTa', 'Rhizobium sp. YS-1r', 'Devosia sp. 17-2-E-8', 'Thalassotalea sp. ND16A', 'Paenibacillus sp. FSL P4-0081', 'Paenibacillus sp. FSL R5-0345', 'Paenibacillus sp. FSL R5-0912', 'Paenibacillus sp. FSL R7-0273', 'Paenibacillus sp. FSL R7-0331', 'Paenibacillus sp. FSL H7-0357', 'Paenibacillus sp. FSL H7-0737', 'Sphingopyxis sp. MWB1', 'Sulfurospirillum sp. SCADC', 'Sulfuricurvum sp. MLSB', 'Alteromonas sp. LOR', 'Micromonospora sp. HK10', 'Aquabacterium sp. NJ1', 'Sphingobacterium sp. ML3W', 'Treponema sp. OMZ 838', 'Deinococcus sp. YIM 77859', 'Clostridium sp. KNHs214', 'Myxosarcina sp. GI1', 'Candidatus Izimaplasma sp. HR1', 'Candidatus Izimaplasma sp. HR2', 'Oleiagrimonas soli', 'Lactobacillus sp. wkB10', 'Lactobacillus sp. wkB8', 'Sphingomonas sp. 35-24ZXX', 'Hoeflea sp. BAL378', 'Francisella sp. FSC1006', 'Helicobacter sp. MIT 11-5569', 'Campylobacter sp. MIT 97-5078', 'Sphingomonas taxi', 'Sphingomonas sp. 37zxx', 'Sphingobacteriaceae bacterium DW12', 'Thermofilum uzonense', 'Listeria booriae', 'Caenorhabditis tropicalis', 'Fermentimonas caenicola', 'Rhodococcus sp. B7740', 'Shewanella sp. ECSMB14101', 'Sulfurospirillum sp. MES', 'Rugosibacter aromaticivorans', 'Bacillus sp. X1(2014)', 'Paenibacillus sp. IHBB 10380', 'Paracoccus sp. PAMC 22219', 'Phaeobacter sp. S60', 'Jaminaea rosea', 'Bacillus sp. BH072', 'Bacillus sp. YP1', 'Candidatus Methanoplasma termitum', 'Dickeya undicola', 'Nitrosopumilus adriaticus', 'Pseudomonas sp. HMSC05H02', 'Neisseria sp. HMSC06F02', 'Candidatus Methylopumilus planktonicus', 'Nitrosopumilus piranensis', 'Fusobacterium hwasookii ChDC F128', 'Myroides sp. A21', 'Agrobacterium arsenijevicii', 'Pseudomonas sp. 10B238', 'Haloarcula sp. CBA1115', 'Enterobacteriaceae bacterium ATCC 29904', 'Candidatus Nitrosotenuis cloacae', 'Halanaeroarchaeum sulfurireducens', 'Sinocyclocheilus anshuiensis', 'Candidatus Filomicrobium marinum', 'Sphingomonas hengshuiensis', 'Pseudomonas sp. MRSN12121', 'Vibrio sp. S234-5', 'Psychromicrobium lacuslunae', 'Bacillus sp. LM 4-2', 'Sulfuricella sp. T08', 'Verrucomicrobia bacterium IMCC26134', 'Chania multitudinisentens RB-25', 'Bacillus paralicheniformis ATCC 9945a', 'Metarhizium rileyi RCEF 4871', 'Metarhizium majus ARSEF 297', 'Blattabacterium cuenoti BPAA', 'Lachancea quebecensis', 'Emmonsia sp. CAC-2015a', 'Blastomyces percursus', 'Phialophora attinorum', 'Violaceomyces palustris', 'Paramormyrops kingsleyae', 'Blastomyces gilchristii SLH14081', 'Pseudomicrostroma glucosiphilum', 'Wallemia mellicola CBS 633.66', 'Baudoinia panamericana UAMH 10762', 'Leucoagaricus sp. SymC.cos', 'Pezoloma ericae', 'Neocallimastix californiae', 'Piromyces finnis', 'Anaeromyces robustus', 'Mesorhizobium erdmanii USDA 3471', 'Nematocida displodere', 'Enterobacter roggenkampii EC_38VIM1', 'Edwardsiella anguillarum ET080813', 'Gopherus evgoodei', 'Dacryopinax primogenitus', 'Cryptococcus gattii VGII LA55', 'Cryptococcus gattii VGIV IND107', 'Amphiamblys sp. WSBS2006', 'Carlito syrichta', 'Pseudocercospora fijiensis CIRAD86', 'Testicularia cyperi', 'Xanthomonas cannabis pv. phaseoli', 'Planoprotostelium fungivorum', 'Fortiea contorta PCC 7126', 'Pectobacterium parmentieri WPP163', 'Geobacillus genomosp. 3', 'Bifiguratus adelaidae', 'Emergomyces pasteurianus Ep9510', 'Dinothrombium tinctorium', 'Rachicladosporium sp. CCFEE 5018', 'Xanthomonas phaseoli pv. phaseoli', 'Cordyceps sp. RAO-2017', 'Ophiocordyceps camponoti-rufipedis', 'Ooceraea biroi', 'Malassezia vespertilionis', 'Coniella lustricola', 'Globisporangium ultimum DAOM BR144', 'Blastomyces silverae', 'Mesorhizobium japonicum MAFF 303099', 'Rutstroemia sp. NJR-2017a WRK4', 'Rutstroemia sp. NJR-2017a BVV2', 'Rutstroemia sp. NJR-2017a BBW', 'Cervus hanglu yarkandensis', 'Lactobacillus paragasseri JV-V03', 'Photorhabdus laumondii subsp. laumondii TTO1', 'Pyrrhoderma noxium', 'Hondaea fermentalgiana', 'Yamadazyma tenuis ATCC 10573', 'Hyaloscypha bicolor E', 'Hyaloscypha variabilis F', 'Nothophytophthora sp. Chile5', 'Strigops habroptila', 'Fusarium odoratissimum NRRL 54006', 'Gloeothece citriformis PCC 7424', 'Gloeothece verrucosa PCC 7822', 'Crocosphaera subtropica ATCC 51142', 'Crocosphaera chwakensis CCY0110', 'Rippkaea orientalis PCC 8802', 'Thermothielavioides terrestris NRRL 8126', 'Podospora anserina S mat+', 'Dacryopinax sp. DJM 731 SSP-1', 'Akanthomyces lecanii RCEF 1005', 'Fusarium vanettenii 77-13-4']], map_from_organism: Union[Literal['auto'], str, int, Literal['Azorhizobium caulinodans ORS 571', 'Buchnera aphidicola str. G002 (Myzus persicae)', 'Cellulomonas gilvus ATCC 13127', 'Dictyoglomus thermophilum H-6-12', 'Methylophilus methylotrophus DSM 46235 = ATCC 53528', 'Pelobacter carbinolicus DSM 2380', 'Shewanella putrefaciens CN-32', 'Myxococcus fulvus HW-1', 'Myxococcus xanthus DK 1622', 'Stigmatella aurantiaca DW4/3-1', 'Cystobacter fuscus DSM 2262', 'Chondromyces apiculatus DSM 436', 'Sorangium cellulosum So0157-2', 'Vitreoscilla stercoraria DSM 513', 'Herpetosiphon aurantiacus DSM 785', 'Simonsiella muelleri ATCC 29453', 'Hyphomonas jannaschiana VP2', 'Flectobacillus major DSM 103', 'Cyclobacterium marinum DSM 745', 'Runella slithyformis DSM 19594', 'Spirosoma linguale DSM 74', 'Rubinisphaera brasiliensis DSM 5305', 'Planctopirus limnophila DSM 3776', 'Gimesia maris DSM 8797', 'Blastopirellula marina DSM 3645', 'Pirellula staleyi DSM 6068', 'Isosphaera pallida ATCC 43644', 'Methylocystis parvus OBBP', 'Borreliella burgdorferi B31', 'Borrelia hermsii DAH', 'Borrelia parkeri SLO', 'Borrelia turicatae 91E135', 'Borrelia anserina BA2', 'Sediminispirochaeta bajacaliforniensis DSM 16054', 'Spirochaeta thermophila DSM 6192', 'Treponema denticola ATCC 35405', 'Brachyspira hyodysenteriae WA1', 'Treponema pallidum subsp. pallidum str. Nichols', 'Treponema phagedenis F0421', 'Treponema bryantii NK4A124', 'Treponema saccharophilum DSM 2985', 'Treponema succinifaciens DSM 2489', "Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'", 'Leptospira interrogans serovar Lai str. 56601', 'Leptospira borgpetersenii serovar Hardjo-bovis str. L550', 'Leptospirillum ferrooxidans C2-3', 'Leptonema illini DSM 21528', 'Novispirillum itersonii subsp. itersonii ATCC 12639', 'Aquaspirillum serpens DSM 68', 'Azospirillum sp. B510', 'Campylobacter coli 76339', 'Campylobacter fetus subsp. venerealis NCTC 10354', 'Campylobacter jejuni subsp. jejuni 414', 'Campylobacter concisus 13826', 'Campylobacter curvus 525.92', 'Campylobacter lari RM2100', 'Campylobacter rectus RM3267', 'Campylobacter showae CSUNSWCD', 'Campylobacter sputorum biovar sputorum', 'Helicobacter pylori 26695', 'Helicobacter acinonychis str. Sheeba', 'Helicobacter cinaedi CCUG 18818 = ATCC BAA-847', 'Helicobacter felis ATCC 49179', 'Helicobacter fennelliae MRY12-0050', 'Helicobacter mustelae 12198', 'Pseudoalteromonas haloplanktis ATCC 14393', 'Brucella abortus 2308', 'Brucella ovis ATCC 25840', 'Elizabethkingia meningoseptica ATCC 13253 = NBRC 12535', 'Flavobacterium aquatile LMG 4008 = ATCC 11947', 'Empedobacter brevis NBRC 14943 = ATCC 43319', 'Chryseobacterium gleum ATCC 35910', 'Psychroflexus gondwanensis ACAM 44', 'Chryseobacterium indologenes NBRC 14944', 'Myroides odoratus DSM 2801', 'Sphingobacterium spiritivorum ATCC 33861', 'Francisella cf. tularensis subsp. novicida 3523', 'Paracoccus denitrificans PD1222', 'Thermus aquaticus Y51MC23', 'Thermus thermophilus HB8', 'Meiothermus ruber DSM 1279', 'Xanthobacter autotrophicus Py2', 'Comamonas testosteroni KF-1', 'Pseudomonas aeruginosa PAO1', 'Pseudoalteromonas atlantica T6c', 'Burkholderia cepacia', 'Brevundimonas diminuta 470-4', 'Pseudomonas fluorescens NCIMB 11764', 'Pseudomonas fragi B25', 'Pseudomonas mendocina NK-01', 'Pseudomonas pseudoalcaligenes AD6', 'Pseudomonas putida KT2440', 'Ralstonia solanacearum GMI1000', 'Pseudomonas stutzeri MF28', 'Pseudomonas syringae pv. syringae B728a', 'Ralstonia pickettii DTP0602', 'Burkholderia glumae BGR1', 'Xanthomonas campestris pv. campestris', 'Xanthomonas translucens DAR61454', 'Xanthomonas citri pv. citri str. 306', 'Xanthomonas oryzae pv. oryzae PXO99A', 'Azotobacter chroococcum NCIMB 8003', 'Azotobacter vinelandii DJ', 'Agrobacterium radiobacter K84', 'Agrobacterium rhizogenes', 'Agrobacterium vitis S4', 'Bradyrhizobium japonicum', 'Sinorhizobium fredii USDA 257', 'Mesorhizobium loti CJ3sym', 'Sinorhizobium meliloti 1021', 'Rhizobium leguminosarum bv. viciae GB30', 'Rhizobium tropici CIAT 899', 'Neorhizobium galegae bv. orientalis str. HAMBI 540', 'Methylobacillus flagellatus KT', 'Methylobacillus glycogenes JCM 2850', 'Methylorubrum extorquens AM1', 'Methylococcus capsulatus str. Bath', 'Methylomonas methanica MC09', 'Methylosinus trichosporium OB3b', 'Acetobacter aceti ATCC 23746', 'Komagataeibacter hansenii ATCC 23769', 'Acetobacter pasteurianus 3P3', 'Gluconobacter oxydans H24', 'Legionella pneumophila str. Paris', 'Legionella hackeliae', 'Legionella longbeachae NSW150', 'Tatlockia micdadei', 'Fluoribacter dumoffii NY 23', 'Acinetobacter baumannii', 'Acinetobacter calcoaceticus ANC 3680', 'Moraxella catarrhalis O35E', 'Neisseria cinerea ATCC 14685', 'Neisseria flavescens NRL30031/H210', 'Neisseria gonorrhoeae NCCP11945', 'Neisseria lactamica 020-06', 'Neisseria meningitidis MC58', 'Neisseria mucosa ATCC 25996', 'Neisseria polysaccharea ATCC 43768', 'Neisseria sicca ATCC 29256', 'Neisseria elongata subsp. glycolytica ATCC 29315', 'Neisseria macacae ATCC 33926', 'Thermomicrobium roseum DSM 5159', 'Kingella denitrificans ATCC 33394', 'Kingella kingae ATCC 23330', 'Kingella oralis ATCC 51147', 'Alcaligenes faecalis', 'Bordetella bronchiseptica RB50', 'Bordetella parapertussis Bpp5', 'Bordetella pertussis Tohama I', 'Bordetella avium 197N', 'Acidiphilium angustum ATCC 35903', 'Acidiphilium cryptum JF-5', 'Acidocella facilis ATCC 35904', 'Ochrobactrum anthropi ATCC 49188', 'Polaribacter irgensii 23-P', 'Beijerinckia indica subsp. indica ATCC 9039', 'Chromobacterium violaceum ATCC 12472', 'Eikenella corrodens ATCC 23834', 'Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821', 'Citrobacter koseri ATCC BAA-895', 'Citrobacter freundii MGH 56', 'Klebsiella aerogenes KCTC 2190', 'Pantoea agglomerans', 'Enterobacter cloacae subsp. cloacae ATCC 13047', 'Erwinia amylovora CFBP1430', 'Pantoea ananatis LMG 20103', 'Pectobacterium carotovorum subsp. carotovorum PC1', 'Dickeya chrysanthemi Ech1591', 'Escherichia coli K-12', 'Shimwellia blattae DSM 4481 = NBRC 105725', 'Escherichia fergusonii B253', 'Atlantibacter hermannii NBRC 105704', 'Pseudescherichia vulneris NBRC 102420', 'Hafnia alvei FB1', 'Klebsiella oxytoca', 'Klebsiella pneumoniae', 'Morganella morganii subsp. morganii KT', 'Proteus mirabilis HI4320', 'Proteus vulgaris', 'Providencia rettgeri DSM 1131', 'Providencia stuartii ATCC 25827', 'Serratia liquefaciens ATCC 27592', 'Serratia marcescens subsp. marcescens Db11', 'Serratia odorifera DSM 4582', 'Shigella boydii CDC 3083-94', 'Shigella dysenteriae 1617', 'Shigella flexneri 2a str. 301', 'Shigella sonnei Ss046', 'Xenorhabdus nematophila ATCC 19061', 'Yersinia enterocolitica LC20', 'Yersinia intermedia ATCC 29909', 'Yersinia pestis CO92', 'Yersinia pseudotuberculosis', 'Edwardsiella tarda ATCC 15947 = NBRC 105688', 'Aeromonas hydrophila subsp. hydrophila ATCC 7966', 'Aeromonas salmonicida subsp. salmonicida A449', 'Aeromonas media WS', 'Aeromonas veronii B565', 'Photobacterium phosphoreum ANT-2200', 'Photobacterium angustum S14', 'Vibrio alginolyticus NBRC 15630 = ATCC 17749', 'Vibrio cholerae O395', 'Aliivibrio fischeri ES114', 'Vibrio parahaemolyticus RIMD 2210633', 'Vibrio proteolyticus NBRC 13287', 'Vibrio vulnificus', 'Grimontia hollisae CIP 101886', 'Vibrio mimicus MB451', 'Vibrio campbellii ATCC BAA-1116', 'Vibrio diazotrophicus NBRC 103148', 'Plesiomonas shigelloides 302-73', 'Aggregatibacter actinomycetemcomitans HK1651', 'Actinobacillus pleuropneumoniae serovar 1 str. 4074', 'Actinobacillus suis H91-0380', 'Actinobacillus capsulatus DSM 19761', 'Actinobacillus equuli subsp. equuli', 'Actinobacillus ureae ATCC 25976', 'Haemophilus haemolyticus M21639', 'Haemophilus influenzae Rd KW20', 'Avibacterium paragallinarum 221', 'Haemophilus parainfluenzae T3T1', 'Histophilus somni 129PT', 'Aggregatibacter aphrophilus NJ8700', 'Haemophilus paraphrohaemolyticus HK411', 'Glaesserella parasuis ZJ0906', 'Aggregatibacter segnis ATCC 33393', 'Pasteurella multocida', 'Gallibacterium anatis UMN179', 'Pasteurella bettyae CCUG 2042', 'Pasteurella dagmatis ATCC 43325', 'Rodentibacter pneumotropicus', 'Anaplasma centrale str. Israel', 'Anaplasma marginale str. St. Maries', 'Bartonella bacilliformis KC583', 'Coxiella burnetii RSA 493', 'Ehrlichia ruminantium str. Welgevonden', 'Rickettsia conorii str. Malish 7', 'Rickettsia prowazekii str. Madrid E', 'Rickettsia rickettsii str. Iowa', 'Orientia tsutsugamushi str. Boryong', 'Rickettsia typhi str. Wilmington', 'Rickettsia akari str. Hartford', 'Rickettsia australis str. Cutlack', 'Rickettsia canadensis str. McKiel', 'Bartonella quintana str. Toulouse', 'Bartonella elizabethae F9251 = ATCC 49927', 'Chlamydia trachomatis D/UW-3/CX', 'Bacteroides fragilis 3_1_12', 'Bacteroides thetaiotaomicron VPI-5482', 'Bacteroides uniformis ATCC 8492', 'Bacteroides vulgatus ATCC 8482', 'Parabacteroides distasonis ATCC 8503', 'Campylobacter gracilis RM3268', 'Sebaldella termitidis ATCC 33386', 'Campylobacter ureolyticus', 'Butyrivibrio fibrisolvens ND3005', 'Fibrobacter succinogenes subsp. succinogenes S85', 'Porphyromonas gingivalis ATCC 33277', 'Prevotella ruminicola 23', 'Prevotella loescheii DSM 19665 = JCM 12249 = ATCC 15930', 'Wolinella succinogenes DSM 1740', 'Oxalobacter formigenes HOxBLS', 'Fusobacterium gonidiaformans ATCC 25563', 'Fusobacterium mortiferum ATCC 9817', 'Fusobacterium nucleatum subsp. nucleatum ATCC 25586', 'Fusobacterium perfoetens ATCC 29250', 'Faecalibacterium prausnitzii A2-165', 'Fusobacterium russii ATCC 25533', 'Fusobacterium varium ATCC 27725', 'Fusobacterium necrophorum subsp. funduliforme ATCC 51357', 'Fusobacterium periodonticum ATCC 33693', 'Fusobacterium ulcerans ATCC 49185', 'Syntrophomonas wolfei subsp. wolfei str. Goettingen G311', 'Dichelobacter nodosus VCS1703A', 'Desulfocurvibacter africanus subsp. africanus str. Walvis Bay', 'Desulfovibrio desulfuricans ND132', 'Desulfovibrio fructosivorans JJ', 'Desulfovibrio gigas DSM 1382 = ATCC 19364', 'Desulfovibrio salexigens DSM 2638', 'Desulfovibrio vulgaris str. Hildenborough', 'Thermodesulfobacterium thermophilum DSM 1276', 'Desulfovibrio longus DSM 6739', 'Desulfobulbus propionicus DSM 2032', 'Desulfococcus multivorans DSM 2059', 'Desulfomicrobium baculatum DSM 4028', 'Desulfovibrio piger ATCC 29098', 'Acidaminococcus fermentans DSM 20731', 'Megasphaera elsdenii DSM 20460', 'Nitrobacter hamburgensis X14', 'Nitrobacter winogradskyi Nb-255', 'Nitrosomonas europaea ATCC 19718', 'Nitrosomonas eutropha C91', 'Acidithiobacillus ferrooxidans ATCC 23270', 'Starkeya novella DSM 506', 'Thiomonas intermedia K12', 'Halothiobacillus neapolitanus c2', 'Thermithiobacillus tepidarius DSM 3134', 'Acidithiobacillus thiooxidans ATCC 19377', 'Thiobacillus thioparus DSM 505', 'Thiomicrospira pelophila DSM 1534', 'Hydrogenobacter thermophilus TK-6', 'Ehrlichia canis str. Jake', 'Ehrlichia chaffeensis str. Arkansas', 'Anaplasma phagocytophilum str. HZ', 'Neorickettsia risticii str. Illinois', 'Neorickettsia sennetsu str. Miyayama', 'Bdellovibrio bacteriovorus HD100', 'Herbaspirillum seropedicae SmR1', 'Selenomonas ruminantium AB3002', 'Cellulophaga lytica DSM 7489', 'Saccharicrinis fermentans DSM 9555 = JCM 21142', 'Pedobacter heparinus DSM 2366', 'Cytophaga hutchinsonii ATCC 33406', 'Flavobacterium johnsoniae UW101', 'Marinilabilia salmonicolor JCM 21150', 'Flavobacterium hydatis', 'Solitalea canadensis DSM 3403', 'Flavobacterium columnare ATCC 49512', 'Bernardetia litoralis DSM 6794', 'Marivirga tractuosa DSM 4126', 'Saprospira grandis str. Lewin', 'Weeksella virosa DSM 16922', 'Bergeyella zoohelcum ATCC 43767', 'Capnocytophaga gingivalis ATCC 33624', 'Capnocytophaga ochracea F0287', 'Capnocytophaga sputigena ATCC 33612', 'Beggiatoa alba B18LD', 'Microscilla marina ATCC 23134', 'Thiothrix nivea DSM 5205', 'Afipia clevelandensis ATCC 49720', 'Afipia felis ATCC 53690', 'Erythrobacter longus', 'Allochromatium vinosum DSM 180', 'Halorhodospira halochloris str. A', 'Halorhodospira halophila SL1', 'Rhodobacter capsulatus SB 1003', 'Rhodobacter sphaeroides 2.4.1', 'Rhodomicrobium vannielii ATCC 17100', 'Rhodopseudomonas palustris CGA009', 'Phaeospirillum fulvum MGU-K5', 'Phaeospirillum molischianum DSM 120', 'Pararhodospirillum photometricum DSM 122', 'Rhodospirillum rubrum ATCC 11170', 'Rhodovibrio salinarum DSM 9154', 'Chlorobium limicola DSM 245', 'Chlorobium phaeovibrioides DSM 265', 'Chlorobium phaeobacteroides DSM 266', 'Chlorobaculum tepidum TLS', 'Pelodictyon luteolum DSM 273', 'Prosthecochloris aestuarii DSM 271', 'Chloroflexus aurantiacus J-10-fl', 'Chlorogloeopsis fritschii PCC 6912', 'Microcystis aeruginosa NIES-843', 'Synechocystis sp. PCC 6714', 'Synechocystis sp. PCC 6803 substr. Kazusa', 'Planktothrix agardhii NIVA-CYA 126/8', 'Anabaena cylindrica PCC 7122', 'Leptolyngbya boryana PCC 6306', 'Tolypothrix sp. PCC 7601', 'Trichodesmium erythraeum IMS101', 'Prochlorococcus marinus str. AS9601', 'Prochlorothrix hollandica PCC 9006 = CALU 1027', 'Nitrosococcus oceani ATCC 19707', 'Nitrosospira multiformis ATCC 25196', 'Leuconostoc gelidum subsp. gasicomitatum LMG 18811', 'Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293', 'Leuconostoc lactis', 'Oenococcus oeni PSU-1', 'Weissella paramesenteroides ATCC 33313', 'Leuconostoc fallax KCTC 3537', 'Leuconostoc carnosum JB16', 'Pediococcus acidilactici DSM 20284', 'Pediococcus pentosaceus ATCC 25745', 'Finegoldia magna ATCC 53516', 'Peptostreptococcus anaerobius VPI 4330 = DSM 2949', 'Ruminococcus albus 8', 'Ruminococcus flavefaciens FD-1', 'Micrococcus luteus NCTC 2665', 'Dermacoccus nishinomiyaensis', 'Kytococcus sedentarius DSM 20547', 'Staphylococcus aureus subsp. aureus Mu50', 'Staphylococcus carnosus subsp. carnosus TM300', 'Staphylococcus epidermidis RP62A', 'Staphylococcus haemolyticus JCSC1435', 'Staphylococcus hyicus', 'Staphylococcus intermedius NCTC 11048', 'Staphylococcus simulans UMC-CNS-990', 'Staphylococcus xylosus', 'Staphylococcus hominis SK119', 'Staphylococcus warneri L37603', 'Staphylococcus sciuri subsp. sciuri Z8', 'Deinococcus radiodurans R1', 'Streptococcus gordonii str. Challis substr. CH1', 'Streptococcus oralis subsp. tigurinus AZ_3a', 'Streptococcus salivarius 57.I', 'Streptococcus sanguinis SK1057', 'Streptococcus suis R61', 'Streptococcus thermophilus LMG 18311', 'Streptococcus mutans UA159', 'Streptococcus sobrinus W1703', 'Streptococcus agalactiae LMG 14747', 'Streptococcus pneumoniae R6', 'Streptococcus pyogenes', 'Streptococcus downei F0415', 'Streptococcus parasanguinis ATCC 903', 'Blautia hansenii DSM 20583', 'Faecalicoccus pleomorphus DSM 20574', 'Streptococcus anginosus DORA_7', 'Streptococcus canis FSL Z3-227', 'Streptococcus criceti HS-6', 'Streptococcus dysgalactiae subsp. equisimilis AC-2713', 'Streptococcus equinus ATCC 9812', 'Streptococcus equi subsp. zooepidemicus', 'Streptococcus intermedius B196', 'Streptococcus macacae NCTC 11558', 'Streptococcus porcinus str. Jelinkova 176', 'Streptococcus ratti FA-1 = DSM 20564', 'Streptococcus vestibularis F0396', 'Streptococcus ferus DSM 20646', 'Streptococcus iniae', 'Streptococcus parauberis NCFD 2020', 'Streptococcus uberis 0140J', 'Enterococcus faecalis V583', 'Enterococcus faecium C68', 'Enterococcus gallinarum EG2', 'Enterococcus hirae ATCC 9790', 'Enterococcus columbae DSM 7374 = ATCC 51263', 'Enterococcus sulfureus ATCC 49903', 'Lactococcus lactis subsp. cremoris SK11', 'Lactococcus garvieae DCC43', 'Lactococcus piscium MKFS47', 'Lactococcus raffinolactis 4877', 'Aerococcus urinae ACS-120-V-Col10a', 'Aerococcus viridans ATCC 11563 = CCUG 4311', 'Gemella haemolysans M341', 'Atopobium minutum 10063974', 'Atopobium parvulum DSM 20469', 'Atopobium rimae ATCC 49626', 'Bacillus amyloliquefaciens Y2', 'Aneurinibacillus aneurinilyticus ATCC 12856', 'Bacillus anthracis str. Ames', 'Brevibacillus brevis X23', 'Bacillus cereus', 'Bacillus coagulans 36D1', 'Bacillus firmus DS1', 'Bacillus licheniformis DSM 13 = ATCC 14580', 'Bacillus megaterium QM B1551', 'Bacillus mycoides KBAB4', 'Paenibacillus polymyxa SC2', 'Bacillus psychrosaccharolyticus ATCC 23296', 'Bacillus pumilus SAFR-032', 'Bacillus sp. (in: Bacteria)', 'Bacillus akibai JCM 9157', 'Bacillus cellulosilyticus DSM 2522', 'Lysinibacillus sphaericus OT4b.31', 'Bacillus subtilis subsp. subtilis str. 168', 'Parageobacillus thermoglucosidasius C56-YS93', 'Bacillus thuringiensis serovar kurstaki', 'Bacillus alcalophilus ATCC 27647 = CGMCC 1.3604', 'Amphibacillus xylanus NBRC 15112', 'Alicyclobacillus acidoterrestris ATCC 49025', 'Bacillus atrophaeus 1942', 'Geobacillus kaustophilus HTA426', 'Paenibacillus larvae subsp. larvae DSM 25430', 'Brevibacillus laterosporus DSM 25', 'Bacillus methanolicus PB1', 'Peribacillus simplex BA2H3', 'Bacillus smithii 7_3_47FAA', 'Virgibacillus halodenitrificans 1806', 'Clostridium acetobutylicum ATCC 824', 'Paraclostridium bifermentans WYM', 'Clostridium botulinum A2 str. Kyoto', 'Clostridium butyricum E4 str. BoNT E BL5262', 'Clostridium cellulovorans 743B', 'Clostridioides difficile', 'Ruminiclostridium josui JCM 17888', 'Clostridium pasteurianum BC1', 'Clostridium perfringens ATCC 13124', 'Paeniclostridium sordellii VPI 9048', 'Clostridium sp. ATCC 29733', 'Clostridium sporogenes PA 3679', 'Thermoclostridium stercorarium subsp. stercorarium DSM 8532', 'Acetoanaerobium sticklandii', 'Clostridium tetani 12124569', 'Hungateiclostridium thermocellum ATCC 27405', 'Thermoanaerobacter thermohydrosulfuricus WC1', 'Thermoanaerobacterium thermosaccharolyticum DSM 571', 'Clostridium tyrobutyricum DSM 2637 = ATCC 25755 = JCM 11008', 'Clostridium beijerinckii NCIMB 8052', 'Ruminiclostridium cellulolyticum H10', 'Moorella thermoacetica ATCC 39073', 'Clostridium cadaveris AGR2141', 'Clostridium kluyveri DSM 555', 'Clostridium ljungdahlii DSM 13528', 'Clostridioides mangenotii TR', 'Clostridium novyi B str. NCTC 9691', 'Erysipelatoclostridium ramosum DSM 1402', 'Clostridium scatologenes', 'Clostridium tetanomorphum DSM 665', 'Gottschalkia acidurici 9a', 'Peptoclostridium litorale DSM 5388', 'Clostridium baratii str. Sullivan', 'Desulfosporosinus orientis DSM 765', 'Desulfotomaculum ruminis DSM 2154', 'Desulfotomaculum nigrificans DSM 574', 'Halobacillus halophilus DSM 2266', 'Sporosarcina ureae DSM 2281', 'Leifsonia xyli subsp. cynodontis DSM 46306', 'Lactobacillus acidophilus 30SC', 'Lactobacillus brevis ATCC 367', 'Lactobacillus buchneri ATCC 11577', 'Lactobacillus casei BL23', 'Weissella confusa LBAE C39-2', 'Lactobacillus delbrueckii subsp. bulgaricus 2038', 'Lactobacillus helveticus CNRZ32', 'Lactobacillus hilgardii DSM 20176 = ATCC 8290', 'Lactobacillus pentosus KCA1', 'Lactobacillus plantarum WCFS1', 'Lactobacillus gasseri ATCC 33323 = JCM 1131', 'Lactobacillus paracasei subsp. paracasei ATCC 25302', 'Lactobacillus reuteri 100-23', 'Lactobacillus sakei subsp. sakei 23K', 'Lactobacillus amylovorus GRL 1112', 'Lactobacillus animalis', 'Lactobacillus coryniformis subsp. coryniformis KCTC 3167 = DSM 20001', 'Lactobacillus farciminis KCTC 3681 = DSM 20184', 'Lactobacillus fermentum IFO 3956', 'Lactobacillus fructivorans KCTC 3543 = DSM 20203', 'Weissella halotolerans DSM 20190', 'Lactobacillus murinus ASF361', 'Lactobacillus ruminis ATCC 27782', 'Lactobacillus salivarius UCC118', 'Lactobacillus sanfranciscensis TMW 1.1304', 'Kandleria vitulina MC3001', 'Fructobacillus fructosus KCTC 3544', 'Lactobacillus oris F0423', 'Lactobacillus vaginalis DSM 5837 = ATCC 49540', 'Listeria ivanovii subsp. londoniensis', 'Listeria monocytogenes EGD-e', 'Listeria seeligeri serovar 1/2b str. SLCC3954', 'Listeria grayi DSM 20601', 'Listeria innocua Clip11262', 'Listeria welshimeri serovar 6b str. SLCC5334', 'Renibacterium salmoninarum ATCC 33209', 'Erysipelothrix rhusiopathiae str. Fujisawa', 'Alloiococcus otitis ATCC 51267', 'Actinomyces naeslundii str. Howell 279', 'Actinomyces viscosus C505', 'Actinomyces israelii DSM 43320', 'Schaalia odontolytica ATCC 17982', 'Trueperella pyogenes TP8', 'Arthrobacter globiformis NBRC 12137', 'Bifidobacterium adolescentis', 'Bifidobacterium bifidum NCIMB 41171', 'Bifidobacterium angulatum DSM 20098 = JCM 7096', 'Bifidobacterium asteroides PRL2011', 'Bifidobacterium breve UCC2003', 'Bifidobacterium catenulatum DSM 16992 = JCM 1194 = LMG 11043', 'Bifidobacterium coryneforme', 'Bifidobacterium cuniculi', 'Bifidobacterium dentium Bd1', 'Bifidobacterium indicum LMG 11587 = DSM 20214', 'Bifidobacterium magnum', 'Bifidobacterium minimum', 'Bifidobacterium pseudolongum subsp. globosum', 'Corynebacterium ammoniagenes DSM 20306', 'Brevibacterium linens BL2', 'Cellulomonas fimi ATCC 484', 'Cellulosimicrobium cellulans J36', 'Cellulomonas flavigena DSM 20109', 'Oerskovia turbata', 'Corynebacterium diphtheriae PW8', 'Corynebacterium glutamicum', 'Corynebacterium pseudotuberculosis', 'Corynebacterium callunae DSM 20147', 'Corynebacterium variabile DSM 44702', 'Peptoclostridium acidaminophilum DSM 3953', 'Holdemanella biformis DSM 3989', 'Eubacterium limosum KIST612', 'Thermodesulfobacterium commune DSM 2178', 'Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1', 'Cutibacterium acnes KPA171202', 'Acidipropionibacterium acidipropionici ATCC 4875', 'Acidipropionibacterium jensenii DSM 20535', 'Pseudopropionibacterium propionicum F0230a', 'Acidipropionibacterium thoenii DSM 20276', 'Mycobacterium avium subsp. avium', 'Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841', 'Mycobacterium intracellulare ATCC 13950', 'Mycobacterium kansasii 732', 'Mycobacterium leprae TN', 'Mycolicibacterium phlei RIVM601174', 'Mycolicibacterium smegmatis MC2 155', 'Mycobacterium tuberculosis H37Rv', 'Mycobacteroides chelonae', 'Mycobacterium marinum M', 'Mycobacterium asiaticum DSM 44297', 'Mycolicibacterium neoaurum VKM Ac-1815D', 'Mycolicibacterium thermoresistibile ATCC 19527', 'Mycolicibacterium chubuense NBB4', 'Mycolicibacterium farcinogenes', 'Mycolicibacterium gilvum PYR-GCK', 'Mycobacterium ulcerans Agy99', 'Mycolicibacterium vaccae ATCC 25954', 'Amycolatopsis methanolica 239', 'Nocardia otitidiscaviarum NBRC 14405', 'Nocardia asteroides NBRC 15531', 'Rhodococcus fascians', 'Rhodococcus rhodochrous ATCC 21198', 'Rhodococcus ruber Chol-4', 'Rhodococcus erythropolis PR4', 'Saccharopolyspora erythraea NRRL 2338', 'Actinopolyspora halophila DSM 43834', 'Saccharomonospora viridis DSM 43017', 'Frankia alni ACN14a', 'Geodermatophilus obscurus DSM 43160', 'Actinoplanes missouriensis 431', 'Actinoplanes utahensis', 'Streptomyces albus subsp. albus', 'Kitasatospora aureofaciens', 'Streptomyces bikiniensis', 'Streptomyces coelicolor A3(2)', 'Streptomyces fradiae', 'Streptomyces glaucescens', 'Streptomyces griseus subsp. griseus NBRC 13350', 'Streptomyces hygroscopicus subsp. jinggangensis 5008', 'Streptomyces lividans 1326', 'Streptomyces scabiei 87.22', 'Streptomyces viridochromogenes DSM 40736', 'Streptomyces halstedii', 'Streptomyces purpureus KA281', 'Streptomyces sclerotialus', 'Streptomyces virginiae', 'Streptomyces cellulosae', 'Streptomyces chartreusis NRRL 12338', 'Actinomadura atramentaria DSM 43919', 'Actinomadura madurae LIID-AJ290', 'Microtetraspora glauca', 'Streptosporangium roseum DSM 43021', 'Streptosporangium amethystogenes', 'Thermobispora bispora DSM 43833', 'Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111', 'Nocardiopsis prasina DSM 43845', 'Thermomonospora curvata DSM 43183', 'Thermobifida fusca YX', 'Microbacterium testaceum StLB037', 'Curtobacterium flaccumfaciens UCD-AKU', 'Tropheryma whipplei str. Twist', 'Pimelobacter simplex', 'Rothia dentocariosa ATCC 17931', 'Mobiluncus curtisii ATCC 43063', 'Mobiluncus mulieris 28-1', 'Gordonia bronchialis DSM 43247', 'Gordonia terrae', 'Sphaerobacter thermophilus DSM 20745', 'Tsukamurella paurometabola DSM 20162', 'Kitasatospora setae KM-6054', 'Pseudonocardia autotrophica', 'Mycoplasma arginini 7264', 'Mycoplasma capricolum subsp. capricolum ATCC 27343', 'Mycoplasma gallisepticum', 'Mycoplasma genitalium G37', 'Mycoplasma hominis', 'Mycoplasma hyopneumoniae J', 'Mycoplasma hyorhinis SK76', 'Mycoplasma mycoides subsp. mycoides SC str. PG1', 'Mycoplasma pneumoniae', 'Mycoplasma leachii PG50', 'Mycoplasma pulmonis', 'Mycoplasma synoviae 53', 'Mycoplasma agalactiae PG2', 'Mycoplasma arthritidis 158L3-1', 'Mycoplasma bovigenitalium 51080', 'Mycoplasmopsis californica', 'Mycoplasma fermentans PG18', 'Mycoplasma iowae 695', 'Mycoplasma mobile', 'Mycoplasma putrefaciens Mput9231', 'Mycoplasma flocculare ATCC 27399', 'Ureaplasma urealyticum serovar 7 str. ATCC 27819', 'Spiroplasma melliferum IPMB4A', 'Spiroplasma apis B31', 'Spiroplasma mirum ATCC 29335', 'Spiroplasma taiwanense CT-1', 'Acholeplasma laidlawii PG-8A', 'Acholeplasma modicum ATCC 29102', 'Mesoplasma florum L1', 'Methanobrevibacter smithii ATCC 35061', 'Methanohalophilus mahii DSM 5219', 'Methanothermus fervidus DSM 2088', 'Methanothermococcus thermolithotrophicus DSM 2095', 'Methanococcus vannielii SB', 'Methanococcus voltae A3', 'Methanotorris igneus Kol 5', 'Methanocaldococcus jannaschii DSM 2661', 'Methanoculleus marisnigri JR1', 'Methanofollis liminatans DSM 4140', 'Methanospirillum hungatei JF-1', 'Methanomicrobium mobile BP', 'Methanosarcina barkeri str. Fusaro', 'Methanosarcina mazei Go1', 'Methanosarcina thermophila TM-1', 'Methanosarcina acetivorans C2A', 'Methanosarcina vacuolata Z-761', 'Methanothrix soehngenii GP6', 'Methanothrix thermoacetophila PT', 'Methanococcoides methylutens MM1', 'Archaeoglobus fulgidus DSM 4304', 'Haloarcula marismortui ATCC 43049', 'Halobacterium salinarum NRC-1', 'Haloferax volcanii DS2', 'Halorubrum lacusprofundi ATCC 49239', 'Halorubrum saccharovorum DSM 1137', 'Halococcus morrhuae DSM 1307', 'Haloferax mediterranei ATCC 33500', 'Natronomonas pharaonis DSM 2160', 'Pyrococcus furiosus DSM 3638', 'Thermococcus litoralis DSM 5473', 'Thermofilum pendens Hrk 5', 'Thermoproteus tenax Kra 1', 'Desulfurococcus mucosus DSM 2162', 'Pyrobaculum islandicum DSM 4184', 'Staphylothermus marinus F1', 'Sulfolobus acidocaldarius DSM 639', 'Saccharolobus solfataricus P2', 'Desulfobacter curvatus DSM 3379', 'Desulfobacter postgatei 2ac9', 'Desulfobacterium autotrophicum HRM2', 'Thermoplasma acidophilum DSM 1728', 'Methanoplanus limicola DSM 2279', 'Methanosphaera stadtmanae DSM 3091', 'Methanopyrus kandleri AV19', 'Methanohalobium evestigatum Z-7303', 'Thermoanaerobacter kivui', 'Halanaerobium praevalens DSM 2228', 'Thermotoga maritima MSB8', 'Thermotoga neapolitana DSM 4359', 'Solemya velum gill symbiont', 'Haliscomenobacter hydrossis DSM 1100', 'Flexistipes sinusarabici DSM 4947', 'Desulfomonile tiedjei DSM 6799', 'Xylella fastidiosa 9a5c', 'Acetonema longum DSM 6540', 'Sporomusa ovata DSM 2662', 'Thermosipho africanus TCF52B', 'Fervidobacterium islandicum', 'Fervidobacterium nodosum Rt17-B1', 'Teredinibacter turnerae T7901', 'Roseobacter denitrificans OCh 114', 'Gardnerella vaginalis 6119V5', 'Citrus sinensis', 'Cardiobacterium hominis ATCC 15826', 'Hirschia baltica ATCC 49814', 'Symbiobacterium thermophilum IAM 14863', 'Verrucomicrobium spinosum DSM 4136 = JCM 18804', 'Marinobacter hydrocarbonoclasticus VT8', 'Halomonas elongata DSM 2581', 'Carnobacterium divergens DSM 20623', 'Carnobacterium gallinarum DSM 4847', 'Carnobacterium mobile DSM 4848', 'Carnobacterium maltaromaticum LMA28', 'Carnobacterium funditum DSM 5970', 'Synergistes jonesii', 'Chondrus crispus', 'Phaeodactylum tricornutum', 'Ectocarpus siliculosus', 'Cryptomonas paramecium', 'Emiliania huxleyi', 'Symbiodinium microadriaticum', 'Chlamydomonas reinhardtii', 'Volvox carteri', 'Auxenochlorella protothecoides', 'Marchantia polymorpha', 'Physcomitrium patens', 'Cannabis sativa', 'Actinidia chinensis var. chinensis', 'Theobroma cacao', 'Carica papaya', 'Citrullus lanatus', 'Cucumis melo', 'Cucumis sativus', 'Populus trichocarpa', 'Arabidopsis thaliana', 'Brassica napus', 'Brassica rapa', 'Brassica oleracea', 'Malus domestica', 'Prunus dulcis', 'Prunus persica', 'Cajanus cajan', 'Cicer arietinum', 'Glycine max', 'Glycine soja', 'Lupinus angustifolius', 'Medicago truncatula', 'Phaseolus vulgaris', 'Vigna angularis', 'Manihot esculenta', 'Ricinus communis', 'Linum usitatissimum', 'Daucus carota subsp. sativus', 'Capsicum annuum', 'Solanum lycopersicum', 'Nicotiana sylvestris', 'Nicotiana tabacum', 'Nicotiana tomentosiformis', 'Nicotiana benthamiana', 'Solanum commersonii', 'Solanum tuberosum', 'Olea europaea', 'Erythranthe guttata', 'Sesamum indicum', 'Helianthus annuus', 'Cynara cardunculus var. scolymus', 'Nelumbo nucifera', 'Hordeum vulgare', 'Oryza longistaminata', 'Oryza rufipogon', 'Oryza sativa Japonica Group', 'Oryza brachyantha', 'Oryza nivara', 'Oryza punctata', 'Oryza glaberrima', 'Setaria italica', 'Setaria viridis', 'Sorghum bicolor', 'Triticum aestivum', 'Triticum turgidum subsp. durum', 'Triticum urartu', 'Zea mays', 'Ananas comosus', 'Musa acuminata', 'Pneumocystis carinii', 'Plasmopara halstedii', 'Phytophthora infestans', 'Phytophthora nicotianae', 'Phytophthora parasitica', 'Phytophthora megakarya', 'Phytophthora palmivora var. palmivora', 'Phycomyces blakesleeanus', 'Schizosaccharomyces pombe 972h-', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces octosporus', 'Cyberlindnera jadinii', 'Pichia kudriavzevii', 'Kluyveromyces marxianus DMKU3-1042', 'Lachancea waltii', 'Pachysolen tannophilus NRRL Y-2460', 'Millerozyma farinosa', 'Komagataella pastoris', 'Scheffersomyces stipitis', 'Pichia membranifaciens NRRL Y-2026', 'Wickerhamomyces anomalus', 'Meyerozyma guilliermondii', 'Saccharomyces bayanus', 'Saccharomyces cerevisiae S288C', 'Lachancea kluyveri', 'Torulaspora delbrueckii CBS 1146', 'Yarrowia lipolytica CLIB122', 'Zygosaccharomyces bailii CLIB 213', 'Lachancea fermentati', 'Zygosaccharomyces rouxii', 'Debaryomyces hansenii', 'Kockovaella imperatae', 'Brettanomyces bruxellensis', 'Taphrina deformans PYCC 5710', 'Bipolaris maydis', 'Bipolaris zeicola', 'Leptosphaeria maculans', 'Histoplasma capsulatum', 'Blastomyces dermatitidis', 'Acremonium chrysogenum ATCC 11550', 'Aspergillus aculeatus', 'Aspergillus clavatus', 'Aspergillus flavus', 'Aspergillus niger', 'Aspergillus oryzae', 'Penicillium camemberti', 'Penicillium chrysogenum', 'Penicillium roqueforti', 'Amorphotheca resinae ATCC 22711', 'Ascosphaera apis ARSEF 7405', 'Claviceps purpurea 20.1', 'Epichloe typhina E8', 'Cryphonectria parasitica', 'Fusarium fujikuroi', 'Neurospora crassa OR74A', 'Sordaria macrospora k-hell', 'Ophiostoma ulmi', 'Sclerotinia sclerotiorum 1980 UF-70', 'Cryptococcus neoformans var. neoformans JEC21', 'Cryptococcus depauperatus CBS 7841', 'Tremella mesenterica', 'Exidia glandulosa HHB12029', 'Ustilago maydis 521', 'Microbotryum violaceum', 'Tilletiaria anomala UBC 951', 'Rhodotorula toruloides', 'Puccinia graminis f. sp. tritici CRL 75-36-700-3', 'Phanerochaete chrysosporium', 'Pleurotus ostreatus var. ostreatus', 'Trametes versicolor FP-101664 SS1', 'Schizophyllum commune', 'Agaricus bisporus', 'Coprinopsis cinerea', 'Lentinula edodes', 'Suillus luteus UH-Slu-Lm8-n1', 'Ascochyta rabiei', 'Colletotrichum orbiculare', 'Candida albicans SC5314', 'Candida maltosa', 'Candida parapsilosis', 'Diutina rugosa', 'Candida tropicalis', 'Coccidioides immitis', 'Fusarium oxysporum', 'Fusarium culmorum CS7071', 'Fusarium graminearum', 'Metarhizium anisopliae ARSEF 549', 'Rhodotorula glutinis', 'Trichoderma harzianum', 'Trichoderma longibrachiatum ATCC 18648', 'Trichophyton rubrum', 'Aureobasidium pullulans EXF-150', 'Alternaria alternata', 'Phialophora americana', 'Saitoella complicata NRRL Y-17804', 'Cryptococcus wingfieldii CBS 7118', 'Grifola frondosa', 'Laetiporus sulphureus 93-53', 'Trametes cinnabarina', 'Leishmania braziliensis MHOM/BR/75/M2904', 'Leishmania donovani BPK282A1', 'Leishmania major', 'Leishmania mexicana MHOM/GT/2001/U1103', 'Leishmania infantum JPCM5', 'Leishmania panamensis', 'Leptomonas seymouri', 'Leishmania tarentolae', 'Trypanosoma brucei brucei', 'Trypanosoma cruzi', 'Trypanosoma equiperdum', 'Trypanosoma rangeli SC58', 'Trichomonas vaginalis', 'Giardia lamblia ATCC 50803', 'Acanthamoeba castellanii str. Neff', 'Entamoeba histolytica', 'Naegleria gruberi', 'Dictyostelium purpureum', 'Eimeria acervulina', 'Eimeria tenella', 'Eimeria maxima', 'Cryptosporidium parvum Iowa II', 'Cryptosporidium muris', 'Toxoplasma gondii ME49', 'Plasmodium berghei', 'Plasmodium chabaudi', 'Plasmodium cynomolgi strain B', 'Plasmodium falciparum 3D7', 'Plasmodium gallinaceum', 'Plasmodium knowlesi strain H', 'Plasmodium reichenowi', 'Plasmodium vivax Sal-1', 'Plasmodium fragile', 'Plasmodium malariae', 'Plasmodium vinckei', 'Plasmodium yoelii yoelii', 'Babesia bovis T2Bo', 'Babesia bigemina', 'Theileria equi', 'Theileria annulata', 'Theileria parva', 'Paramecium tetraurelia', 'Tetrahymena thermophila', 'Ichthyophthirius multifiliis', 'Stylonychia lemnae', 'Stentor coeruleus', 'Exophiala dermatitidis', 'Encephalitozoon cuniculi', 'Hydra vulgaris', 'Schistosoma japonicum', 'Schistosoma mansoni', 'Schistosoma haematobium', 'Echinococcus multilocularis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Ascaris suum', 'Brugia malayi', 'Onchocerca volvulus', 'Meloidogyne hapla', 'Bursaphelenchus xylophilus', 'Trichinella spiralis', 'Helobdella robusta', 'Aplysia californica', 'Biomphalaria glabrata', 'Crassostrea virginica', 'Mizuhopecten yessoensis', 'Daphnia pulex', 'Tigriopus californicus', 'Ixodes scapularis', 'Blattella germanica', 'Acyrthosiphon pisum', 'Bemisia tabaci', 'Tribolium castaneum', 'Bombyx mori', 'Aedes aegypti', 'Aedes albopictus', 'Anopheles gambiae', 'Anopheles albimanus', 'Anopheles dirus', 'Anopheles arabiensis', 'Culex pipiens', 'Culex quinquefasciatus', 'Lutzomyia longipalpis', 'Loa loa', 'Ceratitis capitata', 'Drosophila ananassae', 'Drosophila erecta', 'Drosophila grimshawi', 'Drosophila melanogaster', 'Drosophila mojavensis', 'Drosophila persimilis', 'Drosophila pseudoobscura pseudoobscura', 'Drosophila sechellia', 'Drosophila simulans', 'Drosophila virilis', 'Drosophila yakuba', 'Drosophila willistoni', 'Drosophila saltans', 'Musca domestica', 'Lucilia cuprina', 'Glossina morsitans morsitans', 'Glossina austeni', 'Glossina fuscipes fuscipes', 'Glossina palpalis gambiensis', 'Glossina pallidipes', 'Nasonia vitripennis', 'Apis mellifera', 'Lingula anatina', 'Strongylocentrotus purpuratus', 'Ciona intestinalis', 'Branchiostoma floridae', 'Branchiostoma lanceolatum', 'Petromyzon marinus', 'Eptatretus burgeri', 'Callorhinchus milii', 'Latimeria chalumnae', 'Lepisosteus oculatus', 'Clupea harengus', 'Danio rerio', 'Carassius auratus', 'Cyprinus carpio', 'Astyanax mexicanus', 'Ictalurus punctatus', 'Electrophorus electricus', 'Esox lucius', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Salmo salar', 'Salmo trutta', 'Gadus morhua', 'Fundulus heteroclitus', 'Poecilia reticulata', 'Xiphophorus maculatus', 'Oryzias latipes', 'Cyclopterus lumpus', 'Oreochromis niloticus', 'Haplochromis burtoni', 'Astatotilapia calliptera', 'Sparus aurata', 'Lates calcarifer', 'Xenopus tropicalis', 'Chelonia mydas', 'Chelydra serpentina', 'Chrysemys picta', 'Alligator mississippiensis', 'Crocodylus porosus', 'Sphenodon punctatus', 'Laticauda laticaudata', 'Notechis scutatus', 'Pseudonaja textilis', 'Dromaius novaehollandiae', 'Struthio camelus', 'Apteryx haastii', 'Apteryx owenii', 'Anas platyrhynchos', 'Anser cygnoides', 'Cairina moschata domestica', 'Chaetura pelagica', 'Columba livia', 'Falco peregrinus', 'Aquila chrysaetos chrysaetos', 'Haliaeetus albicilla', 'Numida meleagris', 'Gallus gallus', 'Pavo cristatus', 'Phasianus colchicus', 'Chrysolophus pictus', 'Meleagris gallopavo', 'Serinus canaria', 'Parus major', 'Phalacrocorax carbo', 'Phoenicopterus ruber ruber', 'Aptenodytes forsteri', 'Pygoscelis adeliae', 'Calypte anna', 'Ornithorhynchus anatinus', 'Sarcophilus harrisii', 'Notamacropus eugenii', 'Choloepus hoffmanni', 'Dasypus novemcinctus', 'Erinaceus europaeus', 'Echinops telfairi', 'Pteropus alecto', 'Callithrix jacchus', 'Cercocebus atys', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Papio anubis', 'Theropithecus gelada', 'Mandrillus leucophaeus', 'Gorilla gorilla gorilla', 'Pan paniscus', 'Pan troglodytes', 'Pongo abelii', 'Homo sapiens', 'Canis lupus familiaris', 'Vulpes vulpes', 'Ursus thibetanus thibetanus', 'Ursus americanus', 'Ailuropoda melanoleuca', 'Mustela putorius', 'Felis catus', 'Panthera leo', 'Panthera onca', 'Panthera pardus', 'Panthera tigris', 'Zalophus californianus', 'Odobenus rosmarus', 'Leptonychotes weddellii', 'Orcinus orca', 'Tursiops truncatus', 'Delphinapterus leucas', 'Physeter catodon', 'Balaenoptera acutorostrata', 'Balaenoptera musculus', 'Trichechus manatus', 'Loxodonta africana', 'Equus asinus asinus', 'Equus caballus', 'Procavia capensis', 'Orycteropus afer', 'Sus scrofa', 'Camelus dromedarius', 'Bison bison bison', 'Bos taurus', 'Capra hircus', 'Ovis aries', 'Ochotona princeps', 'Oryctolagus cuniculus', 'Marmota marmota marmota', 'Urocitellus parryii', 'Dipodomys ordii', 'Cricetulus griseus', 'Mesocricetus auratus', 'Peromyscus maniculatus', 'Meriones unguiculatus', 'Mus caroli', 'Mus musculus', 'Mus pahari', 'Mus spretus', 'Mus spicilegus', 'Rattus norvegicus', 'Cavia porcellus', 'Octodon degus', 'Heterocephalus glaber', 'Saccoglossus kowalevskii', 'Trichoplax adhaerens', 'Sagitta elegans', 'Atta cephalotes', 'Blastocystis hominis', 'Danaus plexippus', 'Lynx lynx', 'Melopsittacus undulatus', 'Myzus persicae', 'Rhodnius prolixus', 'Tilletia caries', 'Tilletia controversa', 'Amborella trichopoda', 'Anaerobiospirillum succiniciproducens DSM 6400', 'Arthrobotrys oligospora ATCC 24927', 'Burkholderia mallei ATCC 23344', 'Dicentrarchus labrax', 'Monodelphis domestica', 'Parastagonospora nodorum SN15', 'Solenopsis invicta', 'Sphingomonas paucimobilis', 'Sphingobium yanoikuyae', 'Syncephalastrum racemosum', 'Pelodiscus sinensis', 'Utricularia gibba', 'Natrialba magadii ATCC 43099', 'Pyrobaculum aerophilum str. IM2', 'Brachypodium distachyon', 'Naumovozyma castellii', 'Naumovozyma dairenensis CBS 421', 'Saccharomyces paradoxus', 'Saccharomyces pastorianus Weihenstephan 34/70', 'Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993', 'Penicillium expansum', 'Verticillium dahliae VdLs.17', 'Schizopora paradoxa', 'Puccinia coronata var. avenae f. sp. avenae', 'Puccinia sorghi', 'Puccinia striiformis', 'Saimiri boliviensis', 'Erpetoichthys calabaricus', 'Mnemiopsis leidyi', 'Encephalitozoon hellem ATCC 50504', 'Nosema bombycis CQ1', 'Strigomonas culicis', 'Bifidobacterium animalis subsp. lactis BB-12', 'Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505', 'Lysinibacillus fusiformis ZC1', 'Staphylococcus lugdunensis HKU09-01', 'Streptococcus mitis B6', 'Lactobacillus curvatus CRL 705', 'Saccharopolyspora rectivirgula', 'Acidothermus cellulolyticus 11B', 'Lachnospira multipara ATCC 19207', 'Rubrivivax gelatinosus IL144', 'Nostoc sp. PCC 7524', 'Campylobacter upsaliensis RM3195', 'Legionella anisa str. Linanisette', 'Legionella sainthelensi ATCC 35248 = DSM 19231', 'Acinetobacter lwoffii SH145', 'Neisseria weaveri LMG 5135', 'Burkholderia gladioli BSR3', 'Mesorhizobium huakuii 7653R', "Alteromonas macleodii str. 'Black Sea 11'", 'Francisella philomiragia subsp. philomiragia ATCC 25017', 'Bacteroides eggerthii DSM 20697', 'Tannerella forsythia 92A2', 'Porphyromonas levii DSM 23370', 'Porphyromonas macacae', 'Bacteroides ovatus ATCC 8483', 'Alistipes putredinis DSM 17216', 'Odoribacter splanchnicus DSM 20712', 'Porphyromonas asaccharolytica DSM 20707', 'Porphyromonas endodontalis ATCC 35406', 'Prevotella bivia DNF00188', 'Prevotella buccae ATCC 33574', 'Prevotella buccalis ATCC 35310', 'Prevotella corporis DSM 18810 = JCM 8529', 'Prevotella denticola F0289', 'Prevotella disiens JCM 6334 = ATCC 29426', 'Prevotella intermedia 17', 'Prevotella melaninogenica ATCC 25845', 'Prevotella nigrescens ATCC 33563', 'Prevotella oralis ATCC 33269', 'Prevotella oris C735', 'Prevotella oulorum JCM 14966', 'Prevotella veroralis F0319', 'Rikenella microfusus DSM 15922', 'Cronobacter sakazakii ATCC BAA-894', 'Serratia proteamaculans 568', 'Yersinia kristensenii', 'Vibrio metschnikovii CIP 69.14', 'Vibrio nigripulchritudo SOn1', 'Vibrio orientalis CIP 102891 = ATCC 33934', 'Candidatus Photodesmus katoptron', 'Acetohalobium arabaticum DSM 5501', 'Capnocytophaga canimorsus Cc5', 'Capnocytophaga cynodegmi DSM 19736', 'Arcobacter butzleri RM4018', 'Arcobacter nitrofigilis DSM 7299', 'Sphingomonas parapaucimobilis NBRC 15100', 'Desulfobacula toluolica Tol2', 'Mycoplasma penetrans', 'Colwellia psychrerythraea', 'Carnobacterium alterfunditum DSM 5972', 'Geobacter metallireducens GS-15', 'Ornithobacterium rhinotracheale DSM 15997', 'Cobetia marina', 'Thermodesulfovibrio yellowstonii DSM 11347', 'Arcanobacterium haemolyticum DSM 20595', 'Anolis carolinensis', 'Herbidospora cretacea', 'Clavibacter michiganensis subsp. sepedonicus', 'Komagataeibacter xylinus E25', 'Neisseria subflava NJ9703', 'Burkholderia pseudomallei K96243', 'Tarenaya hassleriana', 'Talaromyces stipitatus ATCC 10500', 'Talaromyces islandicus', 'Allomyces macrogynus', 'Elephantulus edwardii', 'Cyprinodon variegatus', 'Thermoanaerobacterium saccharolyticum JW/SL-YS485', 'Salmonella enterica subsp. enterica serovar Typhimurium str. LT2', 'Mycoplasma bovis PG45', 'Kluyveromyces lactis', 'Alternaria brassicicola', 'Drosophila eugracilis', 'Drosophila takahashii', 'Phlebotomus papatasi', 'Panthera uncia', 'Ursus maritimus', 'Eptesicus fuscus', 'Vombatus ursinus', 'Mytilus galloprovincialis', 'Crassostrea gigas', 'Neospora caninum', 'Haloarcula japonica DSM 6131', 'Natronococcus occultus SP4', 'Methanococcoides burtonii DSM 6242', 'Pyrococcus abyssi GE5', 'Streptomyces cattleya NRRL 8057 = DSM 46488', 'Streptomyces griseoluteus', 'Paenarthrobacter nicotinovorans 231Sha2.1M6', 'Corynebacterium otitidis ATCC 51513', 'Thermoanaerobacter brockii subsp. finnii Ako-1', 'Thermoanaerobacterium xylanolyticum LX-11', 'Ruminiclostridium cellobioparum subsp. termitidis CT1112', 'Cellulosilyticum lentocellum DSM 5427', 'Tyzzerella nexilis DSM 1787', 'Ruminiclostridium papyrosolvens DSM 2782', 'Clostridium paraputrificum AGR2156', 'Staphylococcus caprae M23864:W1', 'Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292', 'Staphylococcus capitis C87', 'Gemella morbillorum M424', 'Dolosigranulum pigrum ATCC 51524', 'Microlunatus phosphovorus NM-1', 'Helicobacter canis NCTC 12740', 'Legionella oakridgensis ATCC 33761 = DSM 21215', 'Acinetobacter haemolyticus MTCC 9819', 'Psychrobacter phenylpyruvicus DSM 7000 = NBRC 102152', 'Pseudomonas savastanoi pv. phaseolicola 1448A', 'Xanthomonas albilineans GPE PC73', 'Bradyrhizobium elkanii WSM2783', 'Rhizobium etli CIAT 652', 'Rhizobium leucaenae USDA 9039', 'Brucella melitensis bv. 1 str. 16M', 'Brucella neotomae 5K33', 'Brucella suis 1330', 'Veillonella parvula DSM 2008', 'Pectobacterium atrosepticum SCRI1043', 'Yersinia aldovae ATCC 35236', 'Yersinia frederiksenii ATCC 33641', 'Yersinia rohdei', 'Yersinia ruckeri', 'Vibrio furnissii NCTC 11218', 'Vibrio navarrensis', 'Vibrio splendidus ZS-139', 'Vibrio tubiashii ATCC 19109', 'Mycoplasma haemofelis Ohio2', 'Turneriella parva DSM 21527', 'Borreliella afzelii PKo', 'Borreliella garinii BgVir', 'Borrelia crocidurae DOU', 'Cytophaga aurantiaca DSM 3654', 'Flavobacterium succinicans LMG 10402', 'Pelobacter propionicus DSM 2379', 'Lawsonia intracellularis PHE/MN1-00', 'Rhodothermus marinus DSM 4252', 'Acholeplasma axanthum ATCC 25176', 'Mycoplasma canadense', 'Mycoplasma canis PG 14', 'Mycoplasma meleagridis', 'Mycoplasma ovipneumoniae 14811', 'Taylorella equigenitalis MCE9', 'Janthinobacterium lividum', 'Dioscorea cayenensis subsp. rotundata', 'Gossypium raimondii', 'Vitis vinifera', 'Lipomyces starkeyi NRRL Y-11557', 'Lachancea cidri', 'Hanseniaspora uvarum DSM 2768', 'Penicillium vulpinum', 'Gaeumannomyces graminis', 'Trichoderma virens', 'Neurospora discreta FGSC 8579', 'Laccaria bicolor', 'Calocera cornea HHB12733', 'Rhodotorula graminis WP1', 'Sporothrix schenckii', 'Tolypocladium inflatum', 'Phytophthora cactorum', 'Drosophila elegans', 'Drosophila emarginata', 'Drosophila ficusphila', 'Drosophila kikkawai', 'Drosophila neocordata', 'Drosophila prosaltans', 'Drosophila sturtevanti', 'Anopheles merus', 'Anopheles stephensi', 'Bombus terrestris', 'Opisthocomus hoazin', 'Fulmarus glacialis', 'Bubo bubo', 'Nothoprocta perdicaria', 'Tinamus major', 'Bos grunniens', 'Bos indicus x Bos taurus', 'Vicugna pacos', 'Microcebus murinus', 'Otolemur garnettii', 'Oryzias melastigma', 'Takifugu rubripes', 'Caenorhabditis remanei', 'Perkinsus marinus ATCC 50983', 'Enterocytozoon bieneusi H348', 'Colletotrichum graminicola M1.001', 'Caldicellulosiruptor bescii DSM 6725', 'Halothermothrix orenii H 168', 'Amycolatopsis orientalis DSM 40040 = KCTC 9412', 'Amycolatopsis lurida NRRL 2430', 'Absiella dolichum DSM 3991', 'Eggerthia catenaformis OT 569 = DSM 20559', 'Methylobacterium radiotolerans JCM 2831', 'Helicobacter hepaticus ATCC 51449', 'Synechococcus elongatus', 'Synechococcus sp. PCC 7002', 'Synechococcus sp. WH 7803', 'Calothrix sp. PCC 6303', 'Calothrix sp. PCC 7103', 'Tetranychus urticae', 'Xiphophorus couchianus', 'Neolamprologus brichardi', 'Desulfurella acetivorans A63', 'Winkia neuii subsp. neuii DSM 8576', 'Cutibacterium avidum 44067', 'Cutibacterium granulosum TM11', 'Propionimicrobium lymphophilum ACS-093-V-SCH5', 'Sporolactobacillus laevolacticus DSM 442', 'Anaerococcus hydrogenalis DSM 7454', 'Peptoniphilus indolicus ATCC 29427', 'Peptoniphilus lacrimalis 315-B', 'Anaerococcus lactolyticus ATCC 51172', 'Parvimonas micra ATCC 33270', 'Anaerococcus prevotii DSM 20548', 'Blautia producta', 'Anaerococcus tetradius ATCC 35098', 'Anaerococcus vaginalis ATCC 51170', 'Coprococcus eutactus ATCC 27759', 'Bartonella doshiae NCTC 12862 = ATCC 700133', 'Bartonella grahamii as4aup', 'Bartonella taylorii 8TBB', 'Bartonella vinsonii subsp. arupensis Pm136co', 'Candidatus Kinetoplastibacterium crithidii TCC036E', 'Acidithiobacillus caldus ATCC 51756', 'Gloeobacter violaceus PCC 7421', 'Acidobacterium capsulatum ATCC 51196', 'Entamoeba invadens IP1', 'Eremothecium gossypii ATCC 10895', 'Aspergillus terreus', 'Uncinocarpus reesii 1704', 'Purpureocillium lilacinum', 'Gambusia affinis', 'Coriobacterium glomerans PW2', 'Catenuloplanes japonicus', 'Brevibacterium casei S18', 'Streptomyces galbus', 'Streptomyces avermitilis MA-4680 = NBRC 14893', 'Bifidobacterium thermophilum', 'Actinopolyspora mortivallis DSM 44261', 'Amycolatopsis mediterranei U32', 'Anoxybacillus flavithermus subsp. yunnanensis str. E13', 'Geobacillus thermodenitrificans NG80-2', 'Geobacillus thermoleovorans CCB_US3_UF5', 'Kyrpidia tusciae DSM 2912', 'Enterococcus avium ATCC 14025', 'Acetobacterium woodii DSM 1030', 'Lactobacillus johnsonii NCC 533', 'Leuconostoc citreum KM20', 'Leuconostoc pseudomesenteroides 4882', 'Melissococcus plutonius ATCC 35311', 'Rickettsia amblyommatis str. GAT-30V', 'Rickettsia bellii OSU 85-389', 'Rickettsia montanensis str. OSU 85-930', 'Rickettsia rhipicephali str. 3-7-female6-CWPP', 'Neorickettsia helminthoeca str. Oregon', 'Gluconacetobacter diazotrophicus PA1 5', 'Paracoccus aminophilus JCM 7686', 'Paracoccus versutus', 'Azospirillum halopraeferens DSM 3675', 'Rhodospirillum centenum SW', 'Candidatus Liberibacter asiaticus str. gxpsy', 'Leptothrix cholodnii SP-6', 'Rahnella aquatilis CIP 78.65 = ATCC 33071', 'Variovorax paradoxus 110B', 'Riemerella anatipestifer RA-GD', 'Pedobacter antarcticus 4BY', 'Pelodictyon phaeoclathratiforme BU-1', 'Sphaerotilus natans subsp. natans DSM 6575', 'Streptobacillus moniliformis DSM 12112', 'Lotus japonicus', 'Mixia osmundae', 'Blumeria graminis', 'Trichophyton tonsurans', 'Trichophyton violaceum', 'Conidiobolus coronatus NRRL 28638', 'Strongyloides ratti', 'Anopheles melas', 'Anopheles quadriannulatus', 'Heliconius melpomene plesseni', 'Chinchilla lanigera', 'Thalassiosira pseudonana', 'Nosema apis BRL 01', 'Eubacterium brachy ATCC 33089', 'Eubacterium nodatum ATCC 33099', 'Daphnia magna', 'Geobacter sulfurreducens PCA', 'Stomoxys calcitrans', 'Streptomyces griseoflavus Tu4000', 'Streptomyces mobaraensis NBRC 13819 = DSM 40847', 'Acholeplasma oculi', 'Naja naja', 'Heliobacterium modesticaldum Ice1', 'Citrobacter amalonaticus', 'Epichloe festucae', 'Macrophomina phaseolina MS6', 'Sporichthya polymorpha DSM 43042', 'Dactylosporangium aurantiacum', 'Corynebacterium kutscheri', 'Corynebacterium pilosum DSM 20521', 'Bifidobacterium choerinum', "Peanut witches'-broom phytoplasma NTU2011", 'Coprothermobacter proteolyticus DSM 5265', 'Rickettsia africae ESF-5', 'Rickettsia helvetica C9P9', 'Rickettsia japonica YH', 'Rickettsia massiliae str. AZT80', 'Rickettsia parkeri str. Portsmouth', 'Rickettsia sibirica 246', 'Rickettsia slovaca str. D-CWPP', 'Ehrlichia muris AS145', 'Nitrococcus mobilis Nb-231', 'Nitrosospira briensis C-128', 'Nitrospina gracilis 3/211', 'Rhodovulum sulfidophilum DSM 1374', 'Bordetella holmesii ATCC 51541', 'Helicobacter heilmannii ASB1.4', 'Helicobacter pullorum MIT 98-5489', 'Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933', 'Hungateiclostridium cellulolyticum CD2', 'Bilophila wadsworthia ATCC 49260', 'Holophaga foetida DSM 6591', 'Bacillus thermoamylovorans', 'Ipomoea triloba', 'Cyberlindnera fabianii', 'Vanderwaltozyma polyspora DSM 70294', 'Fusarium poae', 'Cantharellus cibarius var. cibarius', 'Ganoderma sinense ZZ0214-1', 'Mucor circinelloides', 'Megaselia scalaris', 'Pelecanus crispus', 'Plasmodium ovale curtisi', 'Globisporangium irregulare', 'Aspergillus fischeri NRRL 181', 'Penicillium coprophilum', 'Penicillium digitatum', 'Dermabacter hominis 1368', 'Clostridium saccharoperbutylacetonicum N1-4(HMT)', 'Pseudomonas cichorii JBC1', 'Gaeumannomyces tritici', 'Mycobacteroides abscessus', 'Mycobacterium genavense ATCC 51234', 'Mycolicibacterium rhodesiae JS60', 'Gordonia aichiensis NBRC 108223', 'Gordonia amarae NBRC 15530', 'Gordonia sputi NBRC 100414', 'Clostridium celatum DSM 1785', 'Clostridium intestinale URNW', 'Desulfitobacterium dehalogenans ATCC 51507', 'Brucella canis ATCC 23365', 'Thiobacillus denitrificans DSM 12475', 'Paraburkholderia xenovorans LB400', 'Porphyromonas cangingivalis', 'Porphyromonas canoris', 'Clavispora lusitaniae', 'Lodderomyces elongisporus', 'Glossina brevipalpis', 'Kryptolebias marmoratus', 'Suricata suricatta', 'Gavia stellata', 'Aotus nancymaae', 'Nocardia brasiliensis ATCC 700358', 'Nocardia brevicatena NBRC 12119', 'Nocardia carnea NBRC 14403', 'Nocardia farcinica IFM 10152', 'Nocardia nova SH22a', 'Nocardia transvalensis NBRC 15921', 'Tupaia belangeri', 'Plasmodiophora brassicae', 'Helicobacter bilis ATCC 43879', 'Pisolithus tinctorius Marx 270', 'Laceyella sacchari 1-1', 'Marichromatium purpuratum 984', 'Cavia aperea', 'Thermus scotoductus SA-01', 'Octopus bimaculoides', 'Clostridium algidicarnis', 'Aegilops tauschii', 'Candidatus Phytoplasma mali AT', 'Talaromyces marneffei ATCC 18224', 'Enterococcus casseliflavus EC20', 'Cryptococcus gattii EJB2', 'Heterorhabditis bacteriophora', 'Rhytidhysteron rufulum', 'Rhodococcus opacus', 'Methanosarcina siciliae C2J', 'Chaetomium globosum', 'Rhynchosporium secalis', 'Corynebacterium accolens ATCC 49725', 'Corynebacterium genitalium ATCC 33030', 'Corynebacterium jeikeium K411', 'Photobacterium damselae subsp. damselae CIP 102761', 'Streptomyces pristinaespiralis ATCC 25486', 'Corynebacterium pseudogenitalium ATCC 33035', 'Corynebacterium vitaeruminis DSM 20294', 'Gluconobacter frateurii NBRC 103465', 'Rhodococcus rhodnii LMG 5362', 'Shewanella algae JCM 14758', 'Bartonella henselae str. Houston-1', 'Erysipelothrix tonsillarum DSM 14972', 'Eragrostis curvula', 'Phascolarctos cinereus', 'Alligator sinensis', 'Panicum virgatum', 'Gopherus agassizii', 'Neolentinus lepideus HHB14362 ss-1', 'Micromonas pusilla', 'Fraxinus excelsior', 'Acholeplasma palmae J233', 'Methanococcus maripaludis C6', 'Tuber melanosporum Mel28', 'Faecalitalea cylindroides ATCC 27803', 'Agathobaculum desmolans ATCC 43058', 'Dorea formicigenerans 4_6_53AFAA', 'Anaerobutyricum hallii DSM 3353', 'Eubacterium ramulus ATCC 29099', 'Eubacterium ventriosum ATCC 27560', 'Eubacterium xylanophilum ATCC 35991', 'Mesorhizobium ciceri biovar biserrulae WSM1271', 'Cellvibrio mixtus subsp. mixtus J3-8', 'Methanosalsum zhilinae DSM 4017', 'Mayetiola destructor', 'Hydrogenovibrio crunogenus XCL-2', 'Sulfurimonas denitrificans DSM 1251', 'Blattabacterium sp. (Mastotermes darwiniensis) str. MADAR', 'Methylomicrobium album BG8', 'Veillonella atypica KON', 'Veillonella dispar ATCC 17748', 'Corynebacterium glucuronolyticum ATCC 51867', 'Erythrobacter litoralis HTCC2594', 'Legionella moravica DSM 19234', 'Hypsizygus marmoreus', 'Helcococcus kunzii ATCC 51366', 'Bipolaris victoriae FI3', 'Neurospora tetrasperma', 'Oligotropha carboxidovorans OM5', 'Oryza glumipatula', 'Oryza meridionalis', 'Monodon monoceros', 'Lonchura striata domestica', 'Fusarium avenaceum', 'Acinetobacter johnsonii SH046', 'Acinetobacter junii', 'Acinetobacter radioresistens SH164', 'Junco hyemalis', 'Aliivibrio salmonicida LFI1238', 'Penicillium italicum', 'Nosema ceranae BRL01', 'Streptomyces nodosus', 'Stenotrophomonas maltophilia K279a', 'Fonsecaea pedrosoi CBS 271.37', 'Acinetobacter sp. CIP-A165', 'Daedalea quercina L-15889', 'Fistulina hepatica ATCC 64428', 'Fomitopsis pinicola', 'Stereum hirsutum', 'Ruminococcus bromii L2-63', 'Ruminococcus callidus ATCC 27760', 'Blautia obeum ATCC 29174', 'Leptotrichia buccalis C-1013-b', 'Sutterella wadsworthensis HGA0223', 'Botrytis cinerea', 'Sporobolomyces roseus IAM 13481', 'Actinosynnema mirum DSM 43827', 'Lentzea albidocapillata', 'Xenorhabdus bovienii SS-2004', 'Xenorhabdus poinarii G6', 'Claviceps paspali', 'Claviceps fusiformis', 'Balansia obtecta', 'Thioploca ingrica', 'Borrelia duttonii Ly', 'Rhopalosiphum padi', 'Saccharomonospora azurea SZMC 14600', 'Saccharomonospora cyanea NA-134', 'Saccharomonospora glauca K62', 'Aspergillus carbonarius ITEM 5010', 'Elsinoe australis', 'Penicilliopsis zonata CBS 506.65', 'Ewingella americana ATCC 33852', 'Anopheles atroparvus', 'Seriola dumerili', 'Lomentospora prolificans', 'Bathycoccus prasinos', 'Candidatus Microthrix parvicella RN1', 'Amanita muscaria Koide BX008', 'Porphyromonas catoniae F0037', 'Enterococcus saccharolyticus subsp. saccharolyticus ATCC 43076', 'Drosophila bipectinata', 'Pneumocystis jirovecii SE8', 'Ureaplasma diversum NCTC 246', 'Phocoena sinus', 'Prunus avium', 'Streptomyces acidiscabies 84-104', 'Tuber magnatum', 'Tuber borchii', 'Desulfovibrio termitidis HI1', 'Sorex araneus', 'Rubrobacter radiotolerans', 'Phoenix dactylifera', 'Aciculosporium take MAFF-241224', 'Candida dubliniensis', 'Vittaforma corneae ATCC 50505', 'Halobacteroides halobius DSM 5150', 'Roseobacter litoralis Och 149', 'Lichtheimia corymbifera', 'Desulfofundulus thermocisternus DSM 10259', 'Pygocentrus nattereri', 'Halomonas salina', 'Streptomyces collinus Tu 365', 'Gelatoporia subvermispora B', 'Epichloe amarillans E57', 'Corynebacterium argentoratense DSM 44202', 'Ammonifex degensii KC4', 'Staphylococcus lentus F1142', 'Rickettsia felis URRWXCal2', 'Methanococcus aeolicus Nankai-3', 'Anopheles christyi', 'Tilletia indica', 'Sulfolobus islandicus REY15A', 'Rhopalosiphum maidis', 'Anopheles darlingi', 'Ictidomys tridecemlineatus', 'Capronia epimyces', 'Capronia coronata', 'Pseudomonas alcaligenes NBRC 14159', 'Butyrivibrio proteoclasticus P6B7', 'Prauserella rugosa', 'Kutzneria albida DSM 43870', 'Cathartes aura', 'Zosterops lateralis melanops', 'Halanaerobium saccharolyticum subsp. saccharolyticum DSM 6643', 'Pseudoalteromonas citrea DSM 8771', 'Pseudoalteromonas luteoviolacea B = ATCC 29581', 'Pseudoalteromonas rubra DSM 6842', 'Paenarthrobacter aurescens TC1', 'Brachybacterium faecium DSM 4810', 'Jonesia denitrificans DSM 20603', 'Rothia mucilaginosa DY-18', 'Metallosphaera sedula DSM 5348', 'Monopterus albus', 'Streptomyces wedmorensis', 'Corynebacterium amycolatum SK46', 'Rhodococcus hoagii 103S', 'Corynebacterium matruchotii ATCC 14266', 'Corynebacterium propinquum DSM 44285', 'Corynebacterium striatum ATCC 6940', 'Corynebacterium urealyticum DSM 7109', 'Tolumonas auensis DSM 9187', 'Johnsonella ignava ATCC 51276', 'Catonella morbi ATCC 51271', 'Caldicellulosiruptor saccharolyticus DSM 8903', 'Enterococcus cecorum DSM 20682 = ATCC 43198', 'Enterococcus dispar ATCC 51266', 'Ferrimonas balearica DSM 9799', 'Aureococcus anophagefferens', 'Streptomyces megasporus', 'Trichomonascus ciferrii', 'Paenibacillus alvei TS-15', 'Paenibacillus durus', 'Paenibacillus macerans', 'Bradyrhizobium oligotrophicum S58', 'Caldanaerobius polysaccharolyticus DSM 13641', 'Erythrura gouldiae', 'Zonotrichia albicollis', 'Eimeria mitis', 'Borrelia persica No12', 'Borrelia recurrentis A1', 'Natronococcus amylolyticus DSM 10524', 'Nitrosomonas cryotolerans ATCC 49181', 'Sulfurospirillum barnesii SES-3', 'Geothrix fermentans DSM 14018', 'Dictyostelium discoideum', 'Natronobacterium gregoryi SP2', 'Legionella fairfieldensis ATCC 49588', 'Legionella lansingensis DSM 19556 = ATCC 49751', 'Legionella shakespearei DSM 23087', 'Bipolaris sorokiniana', 'Pyrenophora tritici-repentis Pt-1C-BFP', 'Cyanidioschyzon merolae', 'Tolypocladium capitatum', 'Capnocytophaga granulosa ATCC 51502', 'Leucothrix mucor DSM 2157', 'Eremothecium cymbalariae', 'Eremothecium sinecaudum', 'Nematostella vectensis', 'Mycoplasma conjunctivae HRC/581', 'Mycoplasma bovoculi M165/69', 'Mycoplasma alkalescens 14918', 'Brevibacillus borstelensis 3096-7', 'Wickerhamiella sorbophila', 'Babjeviella inositovora NRRL Y-12698', 'Streptococcus cristatus AS 1.3089', 'Vibrio scophthalmi LMG 19158', 'Desulfohalobium retbaense DSM 5692', 'Nadsonia fulvescens', 'Butyrivibrio crossotus DSM 2876', 'Staphylococcus pasteuri SP1', 'Granulicatella adiacens ATCC 49175', 'Abiotrophia defectiva ATCC 49176', 'Staphylococcus chromogenes MU 970', 'Pseudobutyrivibrio ruminis CF1b', 'Anabaena sp. 90', 'Weissella hellenica', 'Pseudomonas avellanae BPIC 631', 'Mycolicibacterium hassiacum DSM 44199', 'Thermoanaerobacter wiegelii Rt8.B1', 'Spirochaeta africana DSM 8902', 'Sphingobium chlorophenolicum', 'Reticulomyxa filosa', 'Orenia marismortui DSM 5156', 'Parabacteroides merdae ATCC 43184', 'Bacteroides stercoris ATCC 43183', 'Thermosipho melanesiensis BI429', 'Suhomyces tanzawaensis', 'Aureobasidium melanogenum', 'Pseudomonas nitroreducens HBP1', 'Entamoeba dispar', 'Cenarchaeum symbiosum A', 'Dethiosulfovibrio peptidovorans DSM 11002', 'Desulfovibrio bastinii DSM 16055', 'Massilia timonae CCUG 45783', 'Neogobius melanostomus', 'Armillaria gallica', 'Armillaria ostoyae', 'Borrelia miyamotoi LB-2001', 'Rickettsia peacockii str. Rustic', 'Lautropia mirabilis ATCC 51599', 'Bacteroides caccae ATCC 43185', 'Mycoplasma alligatoris A21JP2', 'Lactobacillus rhamnosus GG', 'Streptomyces olivaceus', 'Bibersteinia trehalosi USDA-ARS-USMARC-189', 'Atkinsonella hypoxylon', 'Streptomyces sulphureus DSM 40104', 'Streptomyces lydicus', 'Lactobacillus crispatus ST1', 'Epichloe baconii ATCC 200745', 'Mycobacterium triplex', 'Micromonospora aurantiaca ATCC 27029', 'Pseudomonas amygdali pv. mori str. 301020', 'Pseudomonas corrugata CFBP 5454', 'Pseudomonas fulva 12-X', 'Pseudomonas synxantha BG33R', 'Pseudomonas luteola XLDN4-9', 'Serratia fonticola AU-AP2C', 'Vibrio cyclitrophicus FF75', 'Oreochromis aureus', 'Hyphomicrobium zavarzinii ATCC 27496', 'Acinetobacter pittii PHEA-2', 'Xanthomonas fragariae LMG 25863', 'Neolecta irregularis DAH-3', 'Penicillium freii', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Orchesella cincta', 'Geospiza fortis', 'Novosphingobium aromaticivorans DSM 12444', 'Sporisorium scitamineum', 'Candidatus Arthromitus sp. SFB-mouse-Japan', 'Kineosporia aurantiaca JCM 3230', 'Marinobacterium stanieri S30', 'Psychroserpens burtonensis DSM 12212', 'Rubrobacter xylanophilus DSM 9941', 'Desulfitobacterium hafniense Y51', 'Coffea canephora', 'Nicotiana attenuata', 'Holospora obtusa F1', 'Mycoplasma crocodyli MP145', 'Rhizobium sullae WSM1592', 'Thermoplasma volcanium GSS1', 'Charadrius vociferus', 'Pinctada fucata', 'Arabis alpina', 'Helicobacter trogontum', 'Actinobacillus minor NM305', 'Eubacterium saphenum ATCC 49989', 'Catagonus wagneri', 'Treponema maltophilum ATCC 51939', 'Ureibacillus thermosphaericus str. Thermo-BF', 'Syntrophobotulus glycolicus DSM 8271', 'Wigglesworthia glossinidia endosymbiont of Glossina morsitans morsitans (Yale colony)', 'Kluyvera ascorbata ATCC 33433', 'Eimeria brunetti', 'Eimeria praecox', 'Jaculus jaculus', 'Castor canadensis', 'Mycoplasma auris 15026', 'Mycoplasma yeatsii 13926', 'Trichoderma reesei', 'Ciona savignyi', 'Spraguea lophii 42_110', 'Haloarcula hispanica ATCC 33960', 'Kluyveromyces dobzhanskii CBS 2104', 'Nakaseomyces delphensis', 'Nakaseomyces bacillisporus', 'Tetragenococcus halophilus NBRC 12172', 'Tortispora caseinolytica', 'Meiothermus silvanus DSM 9946', 'Calidithermus chliarophilus DSM 9957', 'Acinetobacter venetianus RAG-1 = CIP 110063', 'Mitsuokella multacida DSM 20544', 'Prevotella dentalis DSM 3688', 'Lactobacillus gallinarum DSM 10532 = JCM 2011', 'Sarcoptes scabiei', 'Plasmodium inui San Antonio 1', 'Brachyspira pilosicoli 95/1000', 'Erysiphe necator', 'Sulfitobacter sp. EE-36', 'Sagittula stellata E-37', 'Haliaeetus leucocephalus', 'Bartonella alsatica IBS 382', 'Caldicellulosiruptor kristjanssonii I77R1B', 'Caldicellulosiruptor lactoaceticus 6A', 'Schaalia georgiae DSM 6843', 'Scophthalmus maximus', 'Desulfonatronovibrio hydrogenovorans DSM 9292', 'Desulfospira joergensenii DSM 10085', 'Enterococcus durans ATCC 6056', 'Enterococcus mundtii QU 25', 'Intrasporangium calvum DSM 43043', 'Brevibacterium mcbrellneri ATCC 49030', 'Hamadaea tsunoensis DSM 44101', 'Hyphomicrobium denitrificans 1NES1', 'Pseudomonas coronafaciens pv. oryzae str. 1_6', 'Pseudomonas resinovorans NBRC 106553', 'Xanthomonas axonopodis pv. vasculorum', 'Treponema lecithinolyticum ATCC 700332', 'Treponema socranskii subsp. socranskii VPI DR56BR1116 = ATCC 35536', 'Thermobrachium celere DSM 8682', 'Thermodesulfobacterium hveragerdense DSM 12571', 'Gordonia hirsuta DSM 44140 = NBRC 16056', 'Treponema paraluiscuniculi Cuniculi A', 'Nocardiopsis alba ATCC BAA-2165', 'Blautia hydrogenotrophica DSM 10507', 'Nakamurella multipartita DSM 44233', 'Mycolicibacterium mageritense DSM 44476 = CIP 104973', 'Pyrenophora teres', 'Sulfobacillus acidophilus TPY', 'Acidimicrobium ferrooxidans DSM 10331', 'Hanseniaspora valbyensis NRRL Y-1626', 'Octadecabacter arcticus 238', 'Pyrococcus horikoshii OT3', 'Peptoniphilus harei ACS-146-V-Sch2b', 'Pseudonocardia asaccharolytica DSM 44247 = NBRC 16224', 'Thermococcus zilligii AN1', 'Methanolacinia petrolearia DSM 11571', 'Pristionchus pacificus', 'Colobus angolensis palliatus', 'Ascoidea rubescens DSM 1968', 'Hyperthermus butylicus DSM 5456', 'Pyrolobus fumarii 1A', 'Thermosphaera aggregans DSM 11486', 'Ferroglobus placidus DSM 10642', 'Raoultella ornithinolytica B6', 'Chroococcidiopsis thermalis PCC 7203', 'Pleurocapsa sp. PCC 7327', 'Spirulina subsalsa PCC 9445', 'Mesitornis unicolor', 'Cariama cristata', 'Eurypyga helias', 'Streptomyces venezuelae ATCC 10712', 'Salmonella bongori N268-08', 'Streptococcus thoraltensis DSM 12221', 'Deinococcus proteolyticus MRP', 'Sciurus vulgaris', 'Flavobacterium branchiophilum FL-15', 'Epichloe elymi E56', 'Caldicellulosiruptor owensensis OL', 'Sediminispirochaeta smaragdinae DSM 11293', 'Pectobacterium betavasculorum', 'Ruegeria lacuscaerulensis ITI-1157', 'Thermonema rossianum DSM 10300', 'Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628', 'Pistacia vera', 'Magnetospirillum gryphiswaldense MSR-1 v2', 'Guillardia theta', 'Actinomyces graevenitzii C83', 'Dehalobacter restrictus DSM 9455', 'Vibrio anguillarum', 'Cuculus canorus', 'Thermococcus barophilus MP', 'Malurus cyaneus samueli', 'Streptomyces toyocaensis', 'Tyto alba', 'Hanseniaspora guilliermondii', 'Hanseniaspora osmophila', 'Bartonella clarridgeiae 73', 'Xanthomonas arboricola pv. celebensis', 'Xanthomonas cassavae CFBP 4642', 'Xanthomonas hortorum pv. carotae str. M081', 'Xanthomonas sacchari', 'Xanthomonas campestris pv. musacearum NCPPB 4379', 'Xanthomonas vesicatoria ATCC 35937', 'Protomyces lactucaedebilis', 'Aeropyrum pernix K1', 'Cottoperca gobio', 'Labrus bergylta', 'Rhizobium gallicum bv. gallicum R602sp', 'Rhizobium giardinii bv. giardinii H152', 'Eubacterium infirmum F0142', 'Glaciecola punicea ACAM 611', 'Shewanella frigidimarina NCIMB 400', 'Helicobacter bizzozeronii CIII-1', 'Afipia broomeae ATCC 49717', 'Thermus oshimai JL-2', 'Psychroflexus torquis ATCC 700755', 'Lactobacillus zeae DSM 20178 = KCTC 3804', 'Acanthisitta chloris', 'Mycoplasma suis str. Illinois', 'Apaloderma vittatum', 'Colius striatus', 'Merops nubicus', 'Trifolium pratense', 'Sulfurospirillum arcachonense DSM 9755', 'Rhizobium mongolense USDA 1844', 'Halomicrobium mukohataei DSM 12286', 'Enterococcus asini ATCC 700915', 'Fragaria vesca subsp. vesca', 'Burkholderia thailandensis MSMB43', 'Daktulosphaira vitifoliae', 'Spirillospora albida', 'Desulfofundulus kuznetsovii DSM 6115', 'Desulfofarcimen acetoxidans DSM 771', 'Desulfovibrio alaskensis G20', 'Treponema medium ATCC 700293', 'Archaeoglobus veneficus SNP6', 'Rhizopus microsporus', 'Streptomyces celluloflavus', 'Kitasatospora azatica KCTC 9699', 'Kitasatospora mediocidica KCTC 9733', 'Debaryomyces fabryi', 'Encephalitozoon intestinalis ATCC 50506', 'Trichoderma citrinoviride', 'Tilletiopsis washingtonensis', 'Rickettsiella grylli', 'Streptococcus macedonicus ACA-DC 198', 'Myotis lucifugus', 'Rhinolophus ferrumequinum', 'Actinotignum schaalii FB123-CNA-2', 'Pantholops hodgsonii', 'Corynespora cassiicola Philippines', 'Cellulophaga algicola DSM 14237', 'Desulfotomaculum reducens MI-1', 'Helicobacter rodentium ATCC 700285', 'Arabidopsis lyrata', 'Taeniopygia guttata', 'Candidatus Phytoplasma australiense', 'Alcanivorax borkumensis SK2', 'Angomonas deanei', 'Sphingomonas echinoides ATCC 14820', 'Paenibacillus alginolyticus DSM 5050 = NBRC 15375', 'Paenibacillus curdlanolyticus YK9', 'Paenibacillus peoriae KCTC 3763', 'Ficedula albicollis', 'Cyanobium gracile PCC 6307', 'Synechococcus sp. WH 7805', 'Prevotella pallens ATCC 700821', 'Penicillium polonicum', 'Penicillium solitum', 'Penicillium nalgiovense', 'Shewanella violacea DSS12', 'Shewanella amazonensis SB2B', 'Shewanella sp. MR-4', 'Shewanella sp. MR-7', 'Lactobacillus paraplantarum', 'Burkholderia vietnamiensis G4', 'Chlorocebus sabaeus', 'Halogeometricum borinquense DSM 11551', 'Phaeobacter gallaeciensis DSM 26640', 'Desulfobacca acetoxidans DSM 11109', 'Saccharopolyspora spinosa NRRL 18395', 'Sanguibacter keddieii DSM 10542', 'Shewanella woodyi ATCC 51908', 'Holdemania filiformis DSM 12042', 'Monilinia laxa', 'Varanus komodoensis', 'Ophiostoma piceae', 'Lynx canadensis', 'Dehalococcoides mccartyi 195', 'Coniosporium apollinis', 'Corynebacterium durum F0235', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Paenibacillus mucilaginosus KNP414', 'Acholeplasma brassicae', 'Enterobacter asburiae LF7a', 'Lelliottia amnigena CHS 78', 'Pluralibacter gergoviae', 'Amphilophus citrinellus', 'Nomascus leucogenys', 'Natronorubrum bangense JCM 10635', 'Hucho hucho', 'Borreliella valaisiana Tom4006', 'Acidiphilium multivorum AIU301', 'Haloterrigena turkmenica DSM 5511', 'Shewanella baltica OS117', 'Anopheles funestus', 'Saccharum spontaneum', 'Natronorubrum tibetense GA33', 'Calocera viscosa TUFC12733', 'Zobellia galactanivorans', 'Aquifex aeolicus VF5', 'Melanopsichium pennsylvanicum 4', 'Trichophyton benhamiae', 'Nannizzia gypsea CBS 118893', 'Microsporum canis CBS 113480', 'Trichophyton verrucosum', 'Trichophyton equinum', 'Desulfovibrio oxyclinae DSM 11498', 'Trichoderma atroviride', "Sodalis glossinidius str. 'morsitans'", 'Hydrogenovibrio kuenenii DSM 12350', 'Sideroxydans lithotrophicus ES-1', 'Demetria terragena DSM 11295', 'Nevskia ramosa DSM 11499', 'Bacillus pseudomycoides DSM 12442', 'Anabas testudineus', 'Desulfurobacterium thermolithotrophum DSM 11699', 'Podarcis muralis', 'Coleofasciculus chthonoplastes PCC 7420', 'Carnimonas nigrificans ATCC BAA-78', 'Dothistroma septosporum', 'Synechococcus sp. CC9311', 'Rhizopus oryzae', 'Mortierella alpina ATCC 32222', 'Lobosporangium transversale', 'Natrialba asiatica DSM 12278', 'Tetragenococcus muriaticus DSM 15685', 'Borreliella bissettii DN127', 'Terasakiella pusilla DSM 6293', 'Marinospirillum minutulum DSM 6287', 'Alcanivorax jadensis T9', 'Corynebacterium ulcerans BR-AD22', 'Pythium aphanidermatum DAOM BR444', 'Halothece sp. PCC 7418', 'Mycoplasma wenyonii str. Massachusetts', 'Oryza barthii', 'Actinoalloteichus cyanogriseus', 'Meiothermus cerbereus DSM 11376', 'Sulfurospirillum deleyianum DSM 6946', 'Desulfocapsa sulfexigens DSM 10523', 'Serendipita indica', 'Erwinia tracheiphila PSU-1', 'Pseudomonas knackmussii B13', 'Wolbachia sp. wRi', 'Lachnoclostridium phytofermentans ISDg', 'Gleimia europaea ACS-120-V-Col10b', 'Komagataeibacter intermedius AF2', 'Pantoea stewartii', 'Streptomyces niger', 'Streptomyces violens', 'Papilio xuthus', 'Streptomyces roseoverticillatus', 'Sulfurospirillum multivorans DSM 12446', 'Streptomyces afghaniensis 772', 'Streptomyces atroolivaceus', 'Streptomyces bicolor', 'Streptomyces catenulae', 'Streptomyces griseorubens', 'Trypanosoma theileri', 'Streptomyces alboflavus', 'Streptomyces aureocirculatus', 'Streptomyces filamentosus NRRL 15998', 'Streptomyces flavidovirens DSM 40150', 'Streptomyces lavenduligriseus', 'Streptomyces mutabilis', 'Kitasatospora purpeofusca', 'Streptomyces resistomycificus', 'Streptomyces varsoviensis', 'Rheinheimera baltica DSM 14885', 'Streptomyces viridosporus ATCC 14672', 'Phytophthora sojae', 'Methanocaldococcus infernus ME', 'Edwardsiella ictaluri 93-146', 'Citrobacter farmeri GTC 1319', 'Citrobacter rodentium ICC168', 'Citrobacter sedlakii NBRC 105722', 'Actinobacillus succinogenes 130Z', 'Lentzea aerocolonigenes', 'Streptomyces cyaneogriseus subsp. noncyanogenus', 'Streptomyces durhamensis', 'Streptomyces flavochromogenes', 'Streptomyces fulvissimus DSM 40593', 'Streptomyces griseoaurantiacus M045', 'Streptomyces iakyrus', 'Streptomyces katrae', 'Streptomyces pyridomyceticus', 'Streptomyces violaceusniger Tu 4113', 'Moschus moschiferus', 'Streptomyces albulus', 'Sphaerobolus stellatus SS14', 'Scleroderma citrinum Foug A', 'Rasamsonia emersonii CBS 393.64', 'Theileria orientalis', 'Streptococcus peroris ATCC 700780', 'Streptococcus infantis SK970', 'Deinococcus geothermalis DSM 11300', 'Anopheles farauti', 'Synechococcus sp. WH 5701', 'Enterobacter cancerogenus ATCC 35316', 'Dickeya paradisiaca Ech703', 'Aquamicrobium defluvii', 'Gasterosteus aculeatus', 'Microplitis demolitor', 'Pseudomonas sp. VLB120', 'Chara braunii', 'Caulobacter henricii', 'Petrotoga mobilis SJ95', 'Natrinema pellirubrum DSM 15624', 'Natrinema pallidum DSM 3751', 'Treponema vincentii ATCC 35580', 'Penicillium oxalicum 114-2', 'Selenomonas sputigena ATCC 35185', 'Trichophyton soudanense CBS 452.61', 'Macrococcus caseolyticus JCSC5402', 'Ostreococcus tauri', 'Edhazardia aedis USNM 41457', 'Pyrobaculum neutrophilum V24Sta', 'Pseudomonas plecoglossicida NB2011', 'Nodularia spumigena CCY9414', 'Shewanella oneidensis MR-1', 'Shewanella pealeana ATCC 700345', 'Flexithrix dorotheae DSM 6795', 'Lewinella cohaerens DSM 23179', 'Lewinella persica DSM 23188', 'Eucalyptus grandis', 'Paxillus involutus ATCC 200175', 'Staphylococcus vitulinus F1028', 'Vibrio halioticoli NBRC 102217', 'Mesorhizobium amorphae CCNWGS0123', 'Enterococcus malodoratus ATCC 43197', 'Enterococcus raffinosus ATCC 49464', 'Tolypocladium ophioglossoides CBS 100239', 'Lonsdalea quercina subsp. quercina', 'Waddlia chondrophila WSU 86-1044', 'Naematelia encephala', 'Hypholoma sublateritium FD-334 SS-4', 'Kocuria rhizophila P7-4', 'Bos mutus', 'Sphaeroforma arctica JP610', 'Thielaviopsis punctulata', 'Lepeophtheirus salmonis', 'Citromicrobium bathyomarinum JL354', 'Ophiocordyceps sinensis', 'Trachipleistophora hominis', 'Bacillus mojavensis RO-H-1 = KCTC 3706', 'Drosophila austrosaltans', 'Drosophila lusaltans', 'Drosophila milleri', 'Nannochloropsis gaditana CCMP526', 'Achromobacter piechaudii HLE', 'Sporisorium reilianum', 'Boechera stricta', 'Eutrema salsugineum', 'Dechloromonas agitata is5', 'Streptomyces seoulensis', 'Thiocystis violascens DSM 198', 'Emmonsia crescens UAMH 3008', 'Cordyceps militaris', 'Piromyces sp. E2', 'Methanocaldococcus vulcanius M7', 'Thermaerobacter marianensis DSM 12885', 'Photobacterium profundum SS9', 'Brevundimonas bacteroides DSM 4726', 'Brevundimonas subvibrioides ATCC 15264', 'Maricaulis maris MCS10', 'Hyphomonas polymorpha PS728', 'Sulfitobacter guttiformis KCTC 32187', 'Thraustotheca clavata', 'Rosa chinensis', 'Stachybotrys chartarum IBT 7711', 'Pseudomonas balearica DSM 6083', 'Anopheles maculatus', 'Anopheles sinensis', 'Oncorhynchus tshawytscha', 'Paraburkholderia caribensis MBA4', 'Saccharomonospora xinjiangensis XJ-54', 'Sinocyclocheilus grahami', 'Pseudomonas mandelii PD30', 'Castellaniella defragrans 65Phen', 'Anas zonorhyncha', 'Thermocrinis ruber DSM 12173', 'Mycolicibacterium tusciae JS617', 'Mannheimia haemolytica M42548', 'Thauera linaloolentis 47Lol = DSM 12138', 'Thauera terpenica 58Eu', 'Alloprevotella tannerae ATCC 51259', 'Prevotella enoeca JCM 12259', 'Vibrio rumoiensis 1S-45', 'Campylobacter hominis ATCC BAA-381', 'Cellulophaga baltica 13', 'Mycetocola saprophilus', 'Streptomyces vitaminophilus DSM 41686', 'Sinorhizobium arboris LMG 14919', 'Pseudomonas monteilii SB3078', 'Malassezia globosa CBS 7966', 'Malassezia sympodialis ATCC 42132', 'Myroides odoratimimus H1bi', 'Solibacillus silvestris StLB046', 'Streptococcus constellatus subsp. pharyngis SK1060 = CCUG 46377', 'Hebeloma cylindrosporum h7', 'Caldivirga maquilingensis IC-167', 'Asticcacaulis biprosthecum C19', 'Sphingobium herbicidovorans NBRC 16415', 'Malassezia pachydermatis', 'Cylindrospermopsis raciborskii CS-505', 'Wolbachia endosymbiont of Drosophila simulans wNo', 'Rosellinia necatrix', 'Sclerotinia borealis F-4128', 'Dendroctonus ponderosae', 'Plasmodium gonderi', 'Leersia perrieri', 'Bifidobacterium subtile', 'Prevotella albensis DSM 11370 = JCM 12258', 'Succinispira mobilis DSM 6222', 'Oidiodendron maius', 'Parascardovia denticolens DSM 10105 = JCM 12538', 'Scardovia inopinata F0304', 'Pseudomonas mosselii SJ10', 'Mycobacterium canettii CIPT 140070017', 'Bifidobacterium gallicum DSM 20093 = LMG 11596', 'Bifidobacterium gallinarum', 'Bifidobacterium merycicum', 'Bifidobacterium ruminantium', 'Streptomyces somaliensis DSM 40738', 'Pectobacterium odoriferum', 'Neonectria ditissima', 'Bifidobacterium pullorum DSM 20433', 'Rhizobium undicola ORS 992 = ATCC 700741', 'Thermothelomyces thermophilus', 'Asticcacaulis excentricus CB 48', 'Podila verticillata', 'Desulfosporosinus meridiei DSM 13257', 'Chitinophaga pinensis DSM 2588', 'Epichloe brachyelytri', 'Microtus ochrogaster', 'Cimex lectularius', 'Bacillus clausii KSM-K16', 'Bacillus pseudofirmus OF4', 'Erwinia pyrifoliae Ep1/96', 'Coniophora puteana', 'Piloderma croceum F 1598', 'Thioflavicoccus mobilis 8321', 'Aphis gossypii', 'Haliangium ochraceum DSM 14365', 'Wolbachia endosymbiont strain TRS of Brugia malayi', 'Aliivibrio wodanis', 'Moritella viscosa', 'Delftia acidovorans SPH-1', 'Acidovorax avenae subsp. avenae ATCC 19860', 'Acidovorax citrulli AAC00-1', 'Cryptosporangium arvum DSM 44712', 'Hylemonella gracilis str. Niagara R', 'Simplicispira psychrophila DSM 11588', 'Colletotrichum higginsianum', 'Acanthochromis polyacanthus', 'Amphiprion ocellaris', 'Treponema brennaborense DSM 12168', 'Hyphomonas adhaerens MHS-3', 'Hyphomonas johnsonii MHS-2', 'Hyphomonas neptunium ATCC 15444', 'Hyphomonas oceanitis SCH89', 'Wolfiporia cocos MD-104 SS10', 'Desulfovibrio alcoholivorans DSM 5433', 'Parageobacillus caldoxylosilyticus CIC9', 'Aminomonas paucivorans DSM 12260', 'Desulfovibrio aminophilus DSM 12254', 'Thermanaerovibrio acidaminovorans DSM 6589', 'Aminobacterium mobile DSM 12262', 'Aminobacterium colombiense DSM 12261', 'Frateuria aurantia DSM 6220', 'Monosiga brevicollis', 'Kitasatospora cheerisanensis KCTC 2395', 'Vagococcus lutrae LBD1', 'Arabidopsis halleri subsp. gemmifera', 'Capsella rubella', 'Picrophilus torridus DSM 9790', 'Atopobium vaginae DSM 15829', 'Centipeda periodontii DSM 2778', 'Phlebiopsis gigantea 11061_1 CR5-6', 'Facklamia languida CCUG 37842', 'Paracoccus pantotrophus J46', 'Anaerovibrio lipolyticus LB2005', 'Anaeroarcus burkinensis DSM 6283', 'Trichosporon asahii', 'Pseudanabaena sp. PCC 7367', 'Streptococcus ovis DSM 16829', 'Pythium arrhenomanes ATCC 12531', 'Buttiauxella agrestis ATCC 33320', 'Budvicia aquatica DSM 5075 = ATCC 35567', 'Leminorella grimontii ATCC 33999 = DSM 5078', 'Tatumella ptyseos ATCC 33301', 'Serratia grimesii', 'Serratia plymuthica', 'Methanocaldococcus fervens AG86', 'Sulfitobacter mediterraneus', 'Prevotella brevis P6B11', 'Gordonia rhizosphera NBRC 16068', 'Myxococcus stipitatus DSM 14675', 'Linepithema humile', 'Parachlamydia acanthamoebae UV-7', 'Chlamydia psittaci 10_1398_11', 'Chlamydia abortus S26/3', 'Chlamydia felis Fe/C-56', 'Chlamydia caviae GPIC', 'Chlamydia pneumoniae TW-183', 'Chlamydia suis MD56', 'Chlamydia muridarum str. Nigg', 'Simkania negevensis Z', 'Leclercia adecarboxylata ATCC 23216 = NBRC 102595', 'Lactobacillus amylolyticus DSM 11664', 'Succinimonas amylolytica DSM 2873', 'Succinivibrio dextrinosolvens H5', 'Methanobrevibacter ruminantium M1', 'Trypanosoma conorhini', 'Methanocorpusculum labreanum Z', 'Methanoculleus bourgensis MS2', 'Clostridium autoethanogenum DSM 10061', 'Clostridium haemolyticum NCTC 9693', 'Gordonia alkanivorans NBRC 16433', 'Slackia exigua ATCC 700122', 'Slackia heliotrinireducens DSM 20476', 'Eggerthella lenta DSM 2243', 'Gemella sanguinis M325', 'Gemella bergeri ATCC 700627', 'Archaeoglobus profundus DSM 5631', 'Magnetospirillum magneticum AMB-1', 'Cryptobacterium curtum DSM 15641', 'Brachyspira intermedia PWS/A', 'Brachyspira murdochii DSM 12563', 'Hippea maritima DSM 10411', 'Lysobacter antibioticus', 'Synechococcus sp. WH 8102', 'Taylorella asinigenitalis MCE3', 'Gordonia polyisoprenivorans VH2', 'Staphylothermus hellenicus DSM 12710', 'Candidatus Odyssella thessalonicensis L13', 'Anthracocystis flocculosa', 'Moesziomyces antarcticus', 'Moesziomyces aphidis DSM 70725', 'Beutenbergia cavernae DSM 12333', 'Desulfotalea psychrophila LSv54', 'Corvus brachyrhynchos', 'Pseudarthrobacter chlorophenolicus A6', 'Clogmia albipunctata', 'Mannheimia varigena USDA-ARS-USMARC-1296', 'Plasmodium relictum', 'Thauera sp. MZ1T', 'Citrus clementina', 'Triticum dicoccoides', 'Achromobacter xylosoxidans A8', 'Bartonella tribocorum CIP 105476', 'Thermacetogenium phaeum DSM 12270', 'Sphaerulina musiva', 'Serpula lacrymans', 'Chlamydia pecorum E58', 'Cladophialophora carrionii', 'Rhinocladiella mackenziei CBS 650.93', 'Arenibacter latericius DSM 15913', 'Syntrophothermus lipocalidus DSM 12680', 'Phaseolibacter flectens ATCC 12775', 'Saccharophagus degradans 2-40', 'Mycoplasma dispar', 'Bacillus flexus T6186-2', 'Bacillus halodurans C-125', 'Propionispira raffinosivorans DSM 20765', 'Camarhynchus parvulus', 'Facklamia sourekii ATCC 700629', 'Burkholderia multivorans ATCC 17616', 'Selaginella moellendorffii', 'Treponema primitia ZAS-2', 'Eremococcus coleocola DSM 15696', 'Thermus igniterrae ATCC 700962', 'Thermus antranikianii DSM 12462', 'Dorea longicatena AGR2136', 'Cyclospora cayetanensis', 'Megaselia abdita', 'Caulobacter segnis ATCC 21756', 'Ceratocystis platani', 'Borreliella spielmanii A14S', 'Streptomyces yeochonensis CN732', 'Gordonia amicalis CCMA-559', 'Corynebacterium terpenotabidum Y-11', 'Ruegeria pomeroyi DSS-3', 'Laccaria amethystina LaAM-08-1', 'Bubalus bubalis', 'Cladophialophora bantiana CBS 173.52', 'Moraxella caprae DSM 19149', 'Oligella ureolytica DSM 18253', 'Oligella urethralis DNF00040', 'Absidia repens', 'Camelina sativa', 'Moritella marina ATCC 15381', 'Hydrogenovibrio sp. Milos-T1', 'Thiomicrorhabdus sp. Milos-T2', 'Enterovibrio calviensis 1F-211', 'Polistes canadensis', 'Synechococcus sp. PCC 7335', 'Aspergillus udagawae', 'Candidatus Paracaedibacter acanthamoebae', 'Mucor ambiguus', 'Candidatus Portiera aleyrodidarum BT-QVLC', 'Exophiala spinifera', 'Hortaea werneckii', 'Catharus ustulatus', 'Bartonella koehlerae C-29', 'Thiomicrospira aerophila AL3', 'Metarhizium album ARSEF 1941', 'Metarhizium acridum CQMa 102', 'Herbaspirillum frisingense GSF30', 'Fischerella muscicola PCC 7414', 'Ketogulonicigenium vulgare WSH-001', 'Pandoraea apista', 'Pandoraea pnomenusa', 'Pandoraea pulmonicola', 'Pandoraea sputorum', 'Pseudaminobacter salicylatoxidans KCT001', 'Edwardsiella hoshinae NBRC 105699 = ATCC 33379', 'Fervidobacterium pennivorans DSM 9078', 'Exserohilum turcicum', 'Roseivivax halodurans JCM 10272', 'Myzus cerasi', 'Thermotoga petrophila RKU-1', 'Thermotoga naphthophila RKU-10', 'Coturnix japonica', 'Cryptosporidium meleagridis', 'Thermicanus aegyptius DSM 12793', 'Shewanella sp. ANA-3', 'Rhizophagus clarus', 'Ramlibacter tataouinensis TTB310', 'Tolypocladium paradoxum', 'Mola mola', 'Dyadobacter fermentans DSM 18053', 'Bordetella petrii', 'Ochrobactrum intermedium LMG 3301', 'Besnoitia besnoiti', 'Desulfurococcus amylolyticus 1221n', 'Gavialis gangeticus', 'Helicobacter pametensis ATCC 51478', 'Burkholderia cenocepacia J2315', 'Pseudomonas sp. M1', 'Legionella fallonii LLAP-10', 'Flavobacterium psychrophilum JIP02/86', 'Salvator merianae', 'Lactobacillus hamsteri DSM 5661 = JCM 6256', 'Halobacteriovorax marinus SJ', 'Eutypa lata', 'Phaethon lepturus', 'Lactobacillus sp. ASF360', 'Clostridium sp. MD294', 'Eubacterium plexicaudatum ASF492', 'Ferroplasma acidarmanus fer1', 'Acetomicrobium mobile DSM 13181', 'Lactobacillus mucosae LM1', 'Periconia macrospinosa', 'Bacillus sp. OxB-1', 'Drechmeria coniospora', 'Mycolicibacterium septicum DSM 44393', 'Phlebia centrifuga', 'Pyrobaculum oguniense TE7', 'Hammondia hammondi', 'Flavobacterium frigidarium DSM 17623', 'Calothrix sp. PCC 7507', 'Spermophilus dauricus', 'Tetraodon nigroviridis', 'Austwickia chelonae NBRC 105200', 'Onion yellows phytoplasma', 'Chloroherpeton thalassium ATCC 35110', 'Verticillium longisporum', 'Madurella mycetomatis', 'Falco tinnunculus', 'Wolbachia endosymbiont of Onchocerca ochengi', 'Fusarium pseudograminearum CS3096', 'Choanephora cucurbitarum', 'Hesseltinella vesiculosa', 'Bipolaris oryzae', 'Methanomethylovorans hollandica DSM 15978', 'Trichoderma asperellum CBS 433.97', 'Saprolegnia parasitica CBS 223.65', 'Aequorivita sublithincola DSM 14238', 'Trichophyton interdigitale H6', 'Candidatus Blochmannia pennsylvanicus str. BPEN', 'Burkholderia ubonensis MSMB22', 'Tetrasphaera elongata Lp2', 'Glarea lozoyensis ATCC 20868', 'Prunus mume', 'Stanieria cyanosphaera PCC 7437', 'Xenococcus sp. PCC 7305', 'Leptolyngbya sp. PCC 7375', 'Desulfallas gibsoniae DSM 7213', 'Solobacterium moorei DSM 22971', 'Gloeocapsa sp. PCC 73106', 'Cyanobacterium stanieri PCC 7202', 'Streptococcus infantarius subsp. infantarius CJ18', 'Proteus penneri ATCC 35198', 'Streptococcus didelphis DSM 15616', 'Acromyrmex echinatior', 'Vavraia culicis subsp. floridensis', 'Gleimia coleocanis DSM 15436', 'Actinomyces urogenitalis DSM 15434', 'Nostoc sp. PCC 7120 = FACHB-418', 'Pogona vitticeps', 'Saccharothrix espanaensis DSM 44229', 'Saccharothrix syringae', 'Riemerella columbina DSM 16469', 'Rhodococcus pyridinivorans SB3094', 'Bordetella hinzii ATCC 51730', 'Oscillochloris trichoides DG-6', 'Penicillium brasilianum', 'Postia placenta Mad-698-R', 'Gloeophyllum trabeum', 'Camponotus floridanus', 'Serratia sp. ATCC 39006', 'Helicobacter suis HS1', 'Cryptococcus amylolentus', 'Adineta vaga', 'Nothobranchius furzeri', 'Ralstonia mannitolilytica', 'Streptacidiphilus neutrinimicus', 'Streptacidiphilus carbonis', 'Streptacidiphilus albus', 'Desulfohalotomaculum alkaliphilum DSM 12257', 'Valsa mali var. pyri', 'Methylibium petroleiphilum PM1', 'Epicoccum nigrum', 'Cryptotermes secundus', 'Anaerostipes caccae DSM 14662', 'Leucosporidium creatinivorum', 'Frankia casuarinae', 'Thermoanaerobacter siderophilus SR4', 'Maylandia zebra', 'Pseudoflavonifractor capillosus ATCC 29799', 'Cupriavidus necator H16', 'Ensifer adhaerens OV14', 'Acinetobacter bereziniae', 'Acinetobacter guillouiae NIPH 991', 'Acinetobacter sp. RUH2624', 'Chelonoidis abingdonii', 'Tenacibaculum maritimum NCIMB 2154', 'Methylosinus sp. LW3', 'Methylosinus sp. PW1', 'Opitutus terrae PB90-1', 'Thermanaerovibrio velox DSM 12556', 'Thermoanaerobacter italicus Ab9', 'Corynebacterium falsenii DSM 44353', 'Coprothermobacter platensis DSM 11748', 'Acinetobacter ursingii DSM 16037 = CIP 107286', 'Acinetobacter schindleri NIPH 900', 'Rickettsia monacensis', 'Hippocampus comes', 'Anaerovorax odorimutans DSM 5092', 'Leptotrichia trevisanii DSM 22070', 'Varroa destructor', 'Myotis brandtii', 'Galerina marginata CBS 339.88', 'Spizellomyces punctatus', 'Lactobacillus jensenii 115-3-CHN', 'Batrachochytrium dendrobatidis JAM81', 'Catenaria anguillulae PL171', 'Serendipita vermifera MAFF 305830', 'Nocardioides sp. CF8', 'Sinorhizobium medicae WSM419', 'Gregarina niphandrodes', 'Pelotomaculum thermopropionicum SI', 'Mycolicibacterium vanbaalenii PYR-1', 'Synechococcus sp. CC9605', 'Synechococcus sp. CC9616', 'Eragrostis tef', 'Porphyromonas gulae', 'Muricauda ruestringensis DSM 13258', 'Bartonella birtlesii E11', 'Kineosphaera limosa NBRC 100340', 'Leptolyngbya sp. PCC 7376', 'Sulfurisphaera tokodaii str. 7', 'Ignatzschineria larvae DSM 13226', 'Aphanomyces astaci', 'Saprolegnia diclina', 'Anopheles minimus', 'Ramularia collo-cygni', 'Enterococcus villorum ATCC 700913', 'Streptococcus australis ATCC 700641', 'Pseudocercospora musae', 'Pseudoramibacter alactolyticus ATCC 23263', 'Melitaea cinxia', 'Bradyrhizobium sp. Tv2a-2', 'Scleropages formosus', 'Actinoplanes globisporus DSM 43857', 'Tetrapisispora phaffii CBS 4417', 'Geoglobus ahangari', 'Dichomitus squalens LYAD-421 SS1', 'Candidatus Carsonella ruddii DC', 'Cordyceps fumosorosea ARSEF 2679', 'Saccharomyces kudriavzevii', 'Saccharomyces mikatae', 'Bradyrhizobium sp. ORS 278', 'Methylobacterium nodulans ORS 2060', 'Alkaliphilus transvaalensis ATCC 700919', 'Streptococcus orisratti DSM 15617', 'Streptomyces auratus AGR0001', 'Mycoplasmopsis columbinum SF7', 'Phoronis australis', 'Globisporangium iwayamae', 'Coprococcus catus GD/7', 'Lactobacillus psittaci DSM 15354', 'Cryptosporidium andersoni', 'Tilletia walkeri', 'Fusarium verticillioides', 'Sphingopyxis alaskensis RB2256', 'Denitrovibrio acetiphilus DSM 12809', 'Pleurocapsa sp. PCC 7319', 'Pseudanabaena sp. PCC 6802', 'Picoides pubescens', 'Beauveria brongniartii RCEF 3172', 'Oscillatoria acuminata PCC 6304', 'Arthrospira platensis NIES-39', 'Nicotiana noctiflora var. noctiflora', 'Bulleidia extructa W1219', 'Lipotes vexillifer', 'Cupriavidus metallidurans CH34', 'Pseudothermotoga thermarum DSM 5069', 'Syntrophobacter fumaroxidans MPOB', 'Microcoleus vaginatus FGP-2', 'Bacillus sonorensis L12', 'Marinomonas mediterranea MMB-1', 'Ustilago hordei Uh4857-4', 'Brucella pinnipedialis B2/94', 'Brucella ceti M644/93/1', 'Roseiflexus castenholzii DSM 13941', 'Ferrimicrobium acidiphilum DSM 19497', 'Helicocarpus griseus UAMH5409', 'Schaalia suimastitidis DSM 15538', 'Pediculus humanus corporis', 'Pyrobaculum arsenaticum DSM 13514', 'Sphingobium xenophagum QYY', 'Tauraco erythrolophus', 'Pannonibacter phragmitetus DSM 14782', 'Photobacterium sp. SKA34', 'Paracoccidioides brasiliensis', 'Diaphorina citri', 'Pseudomonas psychrophila HA-4', 'Cercospora beticola', 'Alicyclobacillus herbarius DSM 13609', 'Oryzias javanicus', 'Helicobacter canadensis MIT 98-5491', 'Bordetella trematum', 'Nocardiopsis xinjiangensis YIM 90004', 'Thiolinea disciformis DSM 14473', 'Thiofilum flexile DSM 14609', 'Drosophila biarmipes', 'Halodesulfovibrio aestuarii DSM 10141', 'Providencia alcalifaciens DSM 30120', 'Thermotoga sp. RQ7', 'Thermotoga sp. RQ2', 'Strigamia maritima', 'Nipponia nippon', 'Catelliglobosispora koreensis DSM 44566', 'Drosophila santomea', 'Phytophthora lateralis MPF4', 'Arthrospira maxima CS-328', 'Carboxydothermus hydrogenoformans Z-2901', 'Halobiforma nitratireducens JCM 10879', 'Galdieria sulphuraria', 'Corynebacterium capitovis DSM 44611', 'Schaalia turicensis ACS-279-V-Col4', 'Thiomicrorhabdus arctica DSM 13458', 'Kineococcus radiotolerans SRS30216 = ATCC BAA-149', 'Bombus impatiens', 'Candidatus Glomeribacter gigasporarum BEG34', 'Nocardia veterana NBRC 100344', 'Anser brachyrhynchus', 'Pteropus vampyrus', 'Rhodococcus jostii RHA1', 'Exiguobacterium antarcticum B7', 'Citrobacter youngae ATCC 29220', 'Caldilinea aerophila DSM 14535 = NBRC 104270', 'Nitrosococcus halophilus Nc 4', 'Methylocapsa acidiphila B2', 'Frankliniella occidentalis', 'Leisingera methylohalidivorans DSM 14336', 'Olsenella uli DSM 7084', 'Phytomonas sp. isolate EM1', 'Phytomonas sp. isolate Hart1', 'Corynebacterium freneyi DNF00450', 'Acinetobacter parvus NIPH 1103', 'Acinetobacter gyllenbergii NIPH 230', 'Paraburkholderia fungorum', 'Ministeria vibrans', 'Actinoplanes sp. SE50/110', 'Ureaplasma parvum serovar 3 str. ATCC 27815', 'Selenomonas flueggei ATCC 43531', 'Selenomonas infelix ATCC 43532', 'Selenomonas noxia ATCC 43541', 'Paenibacillus daejeonensis DSM 15491', 'Nocardia cyriacigeorgica GUH-2', 'Geobacillus vulcani PSS1', 'Idiomarina loihiensis L2TR', 'Caenorhabditis brenneri', 'Bacillus endophyticus 2102', 'Zootermopsis nevadensis', 'Thermocrinis albus DSM 14484', 'Knoellia sinensis KCTC 19936', 'Mycoplasma haemocanis str. Illinois', 'Kocuria polaris', 'Atopobacter phocae ATCC BAA-285', 'Leuconostoc kimchii IMSNU 11154', 'Methylosinus sp. LW4', 'Weissella cibaria KACC 11862', 'Facklamia ignava CCUG 37419', 'Granulicatella elegans ATCC 700633', 'Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)', 'Candidatus Regiella insecticola LSR1', "Serratia symbiotica str. 'Cinara cedri'", 'Blastococcus saxobsidens DD2', 'Helicobacter cetorum MIT 00-7128', 'Olsenella profusa F0195', 'Sistotremastrum niveocremeum HHB9708', 'Isoptericola variabilis 225', 'Plicaturopsis crispa FD-325 SS-3', 'Teleopsis dalmanni', 'Anopheles culicifacies', 'Shimazuella kribbensis DSM 45090', 'Lachnobacterium bovis', 'Nicotiana cordifolia', 'Candidatus Mycoplasma haemolamae str. Purdue', 'Nocardiopsis kunsanensis DSM 44524', 'Cylindrospermum stagnale PCC 7417', 'Desulfitobacterium metallireducens DSM 15288', 'Zobellia uliginosa', 'Filifactor alocis ATCC 35896', 'Eubacterium sulci ATCC 35585', 'Diuraphis noxia', 'Sipha flava', 'Pogonomyrmex barbatus', 'Mobiluncus holmesii ATCC 35242', 'Leifsonia aquatica H1aii', 'Stegastes partitus', 'Methanothermobacter thermautotrophicus str. Delta H', 'Methanothermobacter marburgensis str. Marburg', 'Rathayibacter toxicus DSM 7488', 'Thermosynechococcus elongatus BP-1', 'Halorhabdus utahensis DSM 12940', 'Pseudoloma neurophilia', 'Salinibacter ruber DSM 13855', 'Streptomyces griseofuscus', 'Azovibrio restrictus DSM 23866', 'Azospira oryzae PS', 'Collinsella stercoris DSM 13279', 'Collinsella intestinalis DSM 13280', 'Agrobacterium albertimagni AOL15', 'Thiomicrospira cyclica ALM1', 'Limnospira indica PCC 8005', 'Paracoccus yeei ATCC BAA-599', 'Carnobacterium inhibens subsp. gilichinskyi', 'Lactobacillus iners AB-1', 'Magnaporthiopsis poae', 'Pyricularia grisea', 'Paraburkholderia phymatum STM815', 'Lactobacillus ingluviei str. Autruche 4', 'Sulfuricurvum kujiense DSM 16994', 'Lactobacillus kunkeei', 'Wallemia sebi', 'Streptococcus urinalis 2285-97', 'Phialocephala scopiformis', 'Marinitoga piezophila KA3', 'Streptococcus lutetiensis 033', 'Halonatronum saccharophilum DSM 13868', 'Gemella cuniculi DSM 15828', 'Sporothrix insectorum RCEF 264', 'Escovopsis weberi', 'Pseudomonas sp. MT-1', 'Treponema azotonutricium ZAS-9', 'Pseudoalteromonas ruthenica CP76', 'Bacteroides coprosuis DSM 18011', 'Afipia birgiae 34632', 'Xenophilus azovorans DSM 13620', 'Pseudopedobacter saltans DSM 12145', 'Chloroflexus aggregans DSM 9485', 'Lactobacillus suebicus DSM 5007 = KCTC 3549', 'Thioalkalivibrio thiocyanoxidans ARh 4', 'Burkholderia ambifaria AMMD', 'Burkholderia dolosa PC543', 'Sphingomonas melonis DAPP-PG 224', 'Corynebacterium efficiens YS-314', 'Desulforegula conservatrix Mb1Pa', 'Oceanicaulis alexandrii DSM 11625', 'Alysiella crassa DSM 2578', 'Conchiformibius steedae DSM 2580', 'Kozakia baliensis', 'Moniliophthora perniciosa FA553', 'Sporocytophaga myxococcoides', 'Nitrosomonas sp. AL212', 'Hungatella hathewayi DSM 13479', 'Turicibacter sanguinis PC909', 'Thiorhodospira sibirica ATCC 700588', 'Trametes pubescens', 'Enterococcus phoeniculicola ATCC BAA-412', 'Cellvibrio japonicus Ueda107', 'Bartonella bovis 91-4', 'Bacillus toyonensis BCT-7112', 'Gallibacterium genomosp. 1', 'Enterococcus moraviensis ATCC BAA-383', 'Enterococcus haemoperoxidus ATCC BAA-382', 'Streptococcus entericus DSM 14446', 'Methanothermococcus okinawensis IH1', 'Caulobacter vibrioides NA1000', 'Actinokineospora enzanensis DSM 44649', 'Acaryochloris marina MBIC11017', 'Anaeroglobus geminatus F0357', 'Tulasnella calospora MUT 4182', 'Cyanistes caeruleus', 'Alteromonadales bacterium TW-7', 'Flavobacteria bacterium BBFL7', 'Dysgonomonas gadei ATCC BAA-286', 'Corynebacterium imitans', 'Aphanomyces invadans', 'Jeotgalicoccus psychrophilus DSM 19085', 'Helicobacter winghamensis ATCC BAA-430', 'Leptomonas pyrrhocoris', 'Leptotrichia wadei F0279', 'Leptotrichia hofstadii F0254', 'Leptotrichia shahii DSM 19757', 'Leptotrichia goodfellowii F0264', 'Pseudomonas parafulva NBRC 16636 = DSM 17004', 'Pseudomonas cremoricolorata', 'Vigna radiata var. radiata', 'Phaeomoniella chlamydospora', 'Chromohalobacter salexigens DSM 3043', 'Hahella chejuensis KCTC 2396', 'Folsomia candida', 'Betta splendens', 'Cedecea davisae DSM 4568', 'Novosphingobium resinovorum', 'Trametes coccinea BRFM310', 'Diaporthe helianthi', 'Bifidobacterium scardovii', 'Terrapene carolina triunguis', 'Cedecea neteri', 'Enterobacter sp. MGH 2', 'Megamonas hypermegale DSM 1672', 'Providencia rustigianii DSM 4541', 'Trabulsiella guamensis ATCC 49490', 'Yokenella regensburgei ATCC 43003', 'Collimonas fungivorans Ter331', 'Roseibacterium elongatum DSM 19469', 'Embleya scabrispora DSM 41855', 'Paraburkholderia sacchari', 'Paenibacillus terrae HPL-003', 'Thalassiosira oceanica', 'Microbacterium gubbeenense DSM 15944', 'Nanoarchaeum equitans Kin4-M', 'Ignicoccus hospitalis KIN4/I', 'Corynebacterium casei LMG S-19264', 'Enterococcus gilvus ATCC BAA-350', 'Enterococcus pallens ATCC BAA-351', 'Sphingomonas wittichii RW1', 'Paenibacillus borealis', 'Acidithiobacillus ferrivorans SS3', 'Auricularia delicata', 'Thermodesulfobacterium hydrogeniphilum', 'Planococcus antarcticus DSM 14505', 'Anaeromyxobacter dehalogenans 2CP-C', 'Erythrobacter sp. SD-21', 'Amphiprion percula', 'Corynebacterium kroppenstedtii DSM 44385', 'Corynebacterium lipophiloflavum DSM 44291', 'Corynebacterium mastitidis DSM 44356', 'Corynebacterium camporealensis', 'Corynebacterium singulare', 'Beta vulgaris', 'Aspergillus nidulans FGSC A4', 'Thermococcus cleftensis', 'Wolbachia endosymbiont of Drosophila melanogaster', 'Dysgonomonas mossii DSM 22836', 'Algicola sagamiensis DSM 14643', 'Anabaena sp. PCC 7108', 'Phytophthora ramorum', 'Lactobacillus fuchuensis DSM 14340 = JCM 11249', 'Vulcanisaeta distributa DSM 14429', 'Blattabacterium sp. (Cryptocercus punctulatus) str. Cpu', 'Cupriavidus taiwanensis LMG 19424', 'Mycobacterium sp. MCS', 'Mycobacterium sp. JLS', 'Weissella koreensis KACC 15510', 'Prevotella copri DSM 18205', 'Bartonella schoenbuchensis m07a', 'Synechococcus sp. WH 8109', 'Synechococcus sp. WH 8016', 'Roseburia intestinalis L1-82', 'Thermobaculum terrenum ATCC BAA-798', 'Pseudoalteromonas translucida TAC125', 'Allofustis seminis DSM 15817', 'Ilyobacter polytropus DSM 2926', 'Anaerolinea thermophila UNI-1', 'Candidatus Ishikawaella capsulata Mpkobe', 'Marvinbryantia formatexigens DSM 14469', 'Laribacter hongkongensis HLHK9', 'Salinispora tropica CNB-440', 'Salinispora arenicola CNS-205', 'Legionella drancourtii LLAP12', 'Metarhizium guizhouense ARSEF 977', 'Gelidibacter mesophilus DSM 14095', 'Novosphingobium tardaugens NBRC 16725', 'Exiguobacterium undae DSM 14481', 'Corynebacterium aurimucosum ATCC 700975', 'Anaerotruncus colihominis DSM 17241', 'Saccharospirillum impatiens DSM 12546', 'Clostridium saccharobutylicum DSM 13864', 'Paenibacillus stellifer', 'Epichloe aotearoae', 'Staphylococcus pettenkoferi VCU012', 'Vibrio brasiliensis LMG 20546', 'Vibrio kanaloae 5S-149', 'Methanosarcina lacustris Z-7289', 'Sulfurihydrogenibium subterraneum DSM 15120', 'Halosimplex carlsbadense 2-9-1', 'Mycoplasma anatis 1340', 'Mycoplasma cynos C142', 'Tistrella mobilis KA081020-065', 'Mycoplasma ovis str. Michigan', 'Oceanobacillus picturae', 'Thermodesulfatator indicus DSM 15286', 'Rothia aeria F0184', 'Elizabethkingia miricola', 'Thermococcus sibiricus MM 739', 'Bradyrhizobium sp. th.b2', 'Meiothermus taiwanensis DSM 14542', 'Echeneis naucrates', 'Brachybacterium paraconglomeratum LC44', 'Methylobacter tundripaludum SV96', 'Gemmatimonas aurantiaca T-27', 'Gordonia sihwensis NBRC 108236', 'Ordospora colligata OC4', 'Allobaculum stercoricanis DSM 13633', 'Gordonia paraffinivorans NBRC 108238', 'Thermaerobacter subterraneus DSM 13965', 'Buceros rhinoceros', 'Nestor notabilis', 'Streptococcus sinensis', 'Pseudoalteromonas agarivorans S816', 'Beauveria bassiana', 'Halomonas halocynthiae DSM 14573', 'Lactobacillus malefermentans DSM 5705 = KCTC 3548', 'Python bivittatus', 'Coniochaeta ligniaria NRRL 30616', 'Anaerophaga thermohalophila DSM 12881', 'Pseudothermotoga lettingae TMO', 'Shuttleworthia satelles DSM 14600', 'Facklamia hominis ACS-120-V-Sch10', 'Leptospirillum ferriphilum ML-04', 'Pisolithus microcarpus 441', 'Acetobacter malorum', 'Clostridium colicanis 209318', 'Alicycliphilus denitrificans K601', 'Culicoides sonorensis', 'Sphingomonas elodea ATCC 31461', 'Rhizopogon vesiculosus', 'Cyanobium sp. PCC 7001', 'Robinsoniella peoriensis', 'Salinisphaera shabanensis E1L3A', 'Proteocatella sphenisci DSM 23131', 'Carnobacterium pleistocenium FTR1', 'Pseudopodoces humilis', 'Salarias fasciatus', 'Pyrobaculum calidifontis JCM 11548', 'Schaalia cardiffensis F0333', 'Cyanoderma ruficeps', 'Desulfococcus oleovorans Hxd3', 'Lactobacillus coleohominis 101-4-CHN', 'Pseudodesulfovibrio aespoeensis Aspo-2', 'Erwinia billingiae Eb661', 'Rubritepida flocculans DSM 14296', 'Kribbella flavida DSM 17836', 'Oceanobacillus iheyensis HTE831', 'Oryzias sinensis', 'Stemphylium lycopersici', 'Pseudo-nitzschia multistriata', 'Pseudomonas mediterranea CFBP 5447', 'Schaalia vaccimaxillae DSM 15804', 'Thermodesulfobium narugense DSM 14796', 'Thermoproteus uzoniensis 768-20', 'Crocinitomix catalasitica ATCC 23190', 'Varibaculum cambriense DORA_20', 'Knoellia subterranea KCTC 19937', 'Corallococcus coralloides DSM 2259', 'Desulfovibrio magneticus RS-1', 'Prevotella oryzae DSM 17970', 'Prevotella paludivivens DSM 17968 = JCM 13650', 'Paludibacter propionicigenes WB4', 'Chrysochloris asiatica', 'Fragilariopsis cylindrus CCMP1102', 'Xylanimonas cellulosilytica DSM 15894', 'Marinithermus hydrothermalis DSM 14884', 'Candidatus Baumannia cicadellinicola', 'Bartonella washoeensis Sb944nv', 'Thioalkalivibrio nitratireducens DSM 14787', 'Sneathia amnii', 'Oceanithermus profundus DSM 14977', 'Caldithrix abyssi DSM 13497', 'Methylocystis sp. SC2', 'Labrenzia aggregata IAM 12614', 'Megasphaera micronuciformis F0359', 'Acidaminococcus intestini RyC-MR95', 'Veillonella montpellierensis DNF00314', 'Chlamydotis macqueenii', 'Paracoccus zeaxanthinifaciens ATCC 21588', 'Pediococcus claussenii ATCC BAA-344', 'Thalassolituus oleivorans MIL-1', 'Thermococcus gammatolerans EJ3', 'Mitsuokella jalaludinii DSM 13811', 'Enterovibrio norvegicus FF-33', 'Leptosomus discolor', 'Egretta garzetta', 'Dermacoccus sp. Ellin185', 'Oleispira antarctica RB-8', 'Cetobacterium somerae ATCC BAA-474', 'Candidatus Tremblaya princeps PCIT', 'Paenibacillus graminis', 'Paenibacillus odorifer', 'Babesia ovata', 'Paenibacillus elgii B69', 'Prevotella marshii DSM 16973 = JCM 13450', 'Prevotella micans F0438', 'Bradyrhizobium sp. Ec3.3', 'Mycobacterium sp. KMS', 'Actinotignum urinale DSM 15805', 'Idiomarina baltica OS145', 'Vibrio coralliilyticus ATCC BAA-450', 'Desulfovibrio hydrothermalis AM13 = DSM 14728', 'Rhodococcus aetherivorans', 'Leifsonia rubra CMS 76R', 'Conexibacter woesei DSM 14684', 'Epilithonimonas tenax DSM 16811', 'Fluviicola taffensis DSM 16823', 'Corynebacterium atypicum', 'Plesiocystis pacifica SIR-1', 'Lynx pardinus', 'Chthoniobacter flavus Ellin428', 'Shewanella denitrificans OS217', 'Rhodoferax ferrireducens T118', 'Capsaspora owczarzaki ATCC 30864', 'Streptomyces niveus NCIMB 11891', 'Lactobacillus versmoldensis DSM 14857 = KCTC 3814', 'Athene cunicularia', 'Cardiobacterium valvarum F0432', 'Sphingomonas sp. ATCC 31555', 'Sinorhizobium americanum CCGM7', 'Chroomonas mesostigmatica CCMP1168', 'Haematobacter massiliensis', 'Synechococcus sp. PCC 7336', 'Synechococcus sp. PCC 6312', 'Thermococcus nautili', 'Gillisia limnaea DSM 15749', 'Caldimonas manganoxidans ATCC BAA-369', 'Microdochium bolleyi', 'Nocardioides sp. JS614', 'Caballeronia sordidicola', 'Bradyrhizobium sp. Ai1a-2', 'Porphyrobacter cryptus DSM 12079', 'Actinoplanes friuliensis DSM 7358', 'Deferribacter desulfuricans SSM1', 'Alkanindiges illinoisensis DSM 15370', 'Paraglaciecola mesophila KMM 241', 'Psychroflexus tropicus DSM 15496', 'Haemophilus aegyptius ATCC 11116', 'Streptococcus pasteurianus ATCC 43144', 'Candidatus Pelagibacter ubique HTCC7217', 'Anoxybacillus gonensis', 'Talaromyces verruculosus', 'Calidris pugnax', 'Candidatus Paraburkholderia kirkii UZHbot1', 'Coccidioides posadasii RMSCC 3488', 'Microbacterium paraoxydans 77MFTsu3.2', 'Methylocella silvestris BL2', 'Anopheles epiroticus', 'Nicotiana obtusifolia', 'Caldisphaera lagunensis DSM 15908', 'Pseudomonas poae RE*1-1-14', 'Strix occidentalis caurina', 'Lysinibacillus odysseyi 34hs-1 = NBRC 100172', 'Jaapia argillacea MUCL 33604', 'Punctularia strigosozonata', 'Sulfurimonas autotrophica DSM 16294', 'Actinobaculum massiliense ACS-171-V-Col2', 'Acinetobacter baylyi ADP1', 'Acinetobacter bouvetii DSM 14964 = CIP 107468', 'Acinetobacter gerneri', 'Acinetobacter tandoii', 'Acinetobacter tjernbergiae', 'Acinetobacter towneri', 'Tepidiphilus margaritifer DSM 15129', 'Longispora albida DSM 44784', 'Candidatus Blochmannia floridanus', 'Melampsora larici-populina 98AG31', 'Dickeya dadantii 3937', 'Dickeya zeae Ech586', 'Alicyclobacillus pomorum DSM 14955', 'Bacteroides massiliensis B84634 = Timone 84634 = DSM 17679 = JCM 13223', 'Roseomonas cervicalis ATCC 49957', 'Herminiimonas arsenicoxydans', 'Nitratireductor aquibiodomus NL21 = JCM 21793', 'Mastacembelus armatus', 'Novosphingobium pentaromativorans US6-1', 'Panicum hallii', 'Gymnopus luxurians FD-317 M1', 'Sulfurovum lithotrophicum', 'Bermanella marisrubri', 'Neptuniibacter caesariensis', 'Parvularcula bermudensis HTCC2503', 'Alkaliphilus metalliredigens QYMF', 'Puccinia triticina 1-1 BBBD Race 1', 'Amycolatopsis japonica', 'Amycolatopsis balhimycina FH 1894', 'Amycolatopsis vancoresmycina', 'Plasmodium coatneyi', 'Carnobacterium sp. 17-4', 'Fomitiporia mediterranea', 'Escherichia albertii KF1', 'Nocardia niigatensis NBRC 100131', 'Chaetomium thermophilum', "Candidatus Mycoplasma haemominutum 'Birmingham 1'", 'Marinobacter lipolyticus SM19', 'Afifella pfennigii DSM 17143', 'Corchorus capsularis', 'Nymphaea colorata', 'Thiorhodococcus drewsii AZ1', 'Sandarakinorhabdus limnophila DSM 17366', 'Parambassis ranga', 'Hanseniaspora opuntiae', 'Allokutzneria albata', 'Conchiformibius kuhniae DSM 17694', 'Accipiter nisus', 'Colwellia piezophila ATCC BAA-637', 'Mycobacterium sp. JS623', 'Exophiala mesophila', 'Halomonas campaniensis', 'Shewanella waksmanii ATCC BAA-643', 'Subdoligranulum variabile DSM 15176', 'Anaerofustis stercorihominis DSM 17244', 'Alistipes finegoldii DSM 17242', 'Komagataeibacter rhaeticus AF1', 'Exophiala oligosperma', 'Acaromyces ingoldii', 'Larimichthys crocea', 'Treponema caldarium DSM 7334', 'Erwinia sp. Ejp617', 'Thermomonas fusca DSM 15424', 'Roseovarius mucosus DSM 17069', 'Enhygromyxa salina', 'Dinoroseobacter shibae DFL 12 = DSM 16493', 'Pseudomonas rhizosphaerae', 'Polaromonas naphthalenivorans CJ2', 'Stenotrophomonas rhizophila', 'Bifidobacterium longum NCC2705', 'Spiroplasma chrysopicola DF-1', 'Spiroplasma culicicola AES-1', 'Spiroplasma diminutum CUAS-1', 'Spiroplasma sabaudiense Ar-1343', 'Spiroplasma syrphidicola EA-1', 'Clostridium carboxidivorans P7', 'Microvirga flocculans ATCC BAA-817', 'Marinospirillum insulare DSM 21763', 'Neomegalonema perideroedes DSM 15528', 'Fulvimarina pelagi HTCC2506', 'Anoplophora glabripennis', 'Bifidobacterium psychraerophilum', 'Bacillus vietnamensis', 'Dialister invisus DSM 15470', 'Aquilegia coerulea', 'Brachybacterium muris UCD-AY4', 'Micromonospora sp. ATCC 39149', 'Aeromicrobium marinum DSM 15272', 'Rhodanobacter fulvus Jip2', 'Gemmobacter nectariphilus DSM 15620', 'Bathymodiolus platifrons', 'Bacillus bataviensis LMG 21833', 'Bacillus vireti LMG 21834', 'Thalassospira xiamenensis M-5 = DSM 17429', 'Treponema putidum', 'Kordia algicida OT-1', 'Moniliophthora roreri', 'Mastigocladopsis repens PCC 10914', 'Synechococcus sp. RS9916', 'Synechococcus sp. RS9917', 'Polytolypa hystricis UAMH7299', 'Phaeobacter inhibens DSM 17395', 'Frankia elaeagni', 'Natrinema altunense', 'Kocuria marina', 'Phaeoacremonium minimum', 'Halomonas boliviensis LC1', 'Hymenobacter norwichensis DSM 15439', 'Exiguobacterium oxidotolerans JCM 12280', 'Methylorubrum populi BJ001', 'Buteo japonicus', 'Methanobrevibacter sp. AbM4', 'Pyrus x bretschneideri', 'Lottia gigantea', 'Geobacter bemidjiensis Bem', 'Geopsychrobacter electrodiphilus DSM 16401', 'Enhydrobacter aerosaccus SK60', 'Corynebacterium halotolerans YIM 70093 = DSM 44683', 'Erysiphe pulchra', 'Myotis davidii', 'Sulfitobacter indolifex HEL-45', 'Yaniella halotolerans DSM 15476', 'Paenibacillus sanguinis 2301083 = DSM 16941', 'Paenibacillus massiliensis 2301065 = DSM 16942', 'Fictibacillus gelatini DSM 15865', 'Comamonas aquatica NBRC 14918', 'Aestuariibacter salexigens DSM 15300', 'Salvia miltiorrhiza', 'Algoriphagus mannitolivorans DSM 15301', 'Rickettsia heilongjiangensis 054', 'Grosmannia clavigera kw1407', 'Bigelowiella natans', 'Corynebacterium ciconiae DSM 44920', 'Lactobacillus antri DSM 16041', 'Lactobacillus ultunensis DSM 16047', 'Paenibacillus lactis 154', 'Nocardia higoensis NBRC 100133', 'Nocardia pneumoniae NBRC 100136', 'Prevotella shahii DSM 15611 = JCM 12083', 'Prevotella salivae DSM 15606', 'Thermovibrio ammonificans HB-1', 'Arenibacter certesii DSM 19833', 'Flavobacterium frigoris PS1', 'Arsenicicoccus bolidensis DSM 15745', "Aster yellows witches'-broom phytoplasma AYWB", 'Streptococcus minor DSM 17118', 'Halobiforma lacisalsi AJ5', 'Aeropyrum camini SY1 = JCM 12091', 'Methylophaga aminisulfidivorans MP', 'Scardovia wiggsiae F0424', 'Lactobacillus rossiae DSM 15814', 'Saccharibacter floricola DSM 15669', 'Streptococcus devriesei DSM 19639', 'Beijerinckia mobilis', 'Desulfobulbus japonicus DSM 18378', 'Dyella japonica A8', 'Phanerochaete carnosa HHB-10118-sp', 'Belliella baltica DSM 15883', 'Effusibacillus pohliae DSM 22757', 'Halomonas alkaliantarctica', 'Synechococcus sp. CB0101', 'Acidovorax sp. JS42', 'Desulfitobacterium dichloroeliminans LMG P-21439', 'Candidatus Kinetoplastibacterium blastocrithidii (ex Strigomonas culicis)', 'Candidatus Midichloria mitochondrii IricVA', 'Corynebacterium caspium DSM 44850', 'Pseudoalteromonas sp. SM9913', 'Amanita thiersii Skay4041', 'Streptacidiphilus jiangxiensis', 'Alcanivorax sp. DG881', 'Marinobacter algicola DG893', 'Diplodia corticola', 'Chryseobacterium formosense', 'Candidatus Scalindua brodae', 'Lactobacillus kitasatonis DSM 16761 = JCM 1039', 'Oribacterium sinus F0268', 'Pseudomonas alkylphenolica', 'Pseudomonas psychrotolerans L19', 'Erythrobacter sp. NAP1', 'Lactobacillus vini DSM 20605', 'Akkermansia muciniphila ATCC BAA-835', 'Nocardiopsis valliformis DSM 45023', 'Nocardiopsis ganjiahuensis DSM 45031', 'Mycobacterium parascrofulaceum ATCC BAA-614', 'Pterocles gutturalis', 'Woodsholea maritima DSM 17123', 'Halobacillus dabanensis', 'Pseudonocardia dioxanivorans CB1190', 'Crinalium epipsammum PCC 9333', 'Helcococcus sueciensis DSM 17243', 'Amazona collaria', 'Ostreococcus lucimarinus CCE9901', 'Xenoturbella bocki', 'Acidilobus saccharovorans 345-15', 'Prevotella bergensis DSM 17361', 'Thioalkalivibrio thiocyanodenitrificans ARhD 1', 'Burkholderia sp. Ch1-1', 'Pseudomonas lutea', 'Methylohalobius crimeensis 10Ki', 'Klebsiella variicola UCI 18', 'Cynoglossus semilaevis', 'Thiocapsa marina 5811', 'Candidatus Paracaedimonas acanthamoebae', 'Candidatus Paracaedibacter symbiosus', 'Hoeflea phototrophica DFL-43', 'Nautilia profundicola AmH', 'Fictibacillus macauensis ZFHKF-1', 'Wallemia ichthyophaga', 'Yoonia vestfoldensis SKA53', "Acidomyces sp. 'richmondensis'", 'Enterococcus italicus DSM 15952', 'Bacillus bogoriensis ATCC BAA-922', 'Wolbachia endosymbiont of Cimex lectularius', 'Staphylococcus equorum subsp. equorum Mu2', 'Tupaia chinensis', 'Bacteroides cellulosilyticus WH2', 'Thermococcus sp. AM4', 'Serinicoccus marinus DSM 15273', 'Candidatus Jettenia caeni', 'Cupriavidus pinatubonensis JMP134', 'Mucispirillum schaedleri ASF457', 'Psychrobacter aquaticus CMS 56', 'Nocardia testacea NBRC 100365', 'Coccomyxa subellipsoidea', 'Cardinium endosymbiont cEper1 of Encarsia pergandiella', 'Deinococcus frigens DSM 12807', 'Deinococcus marmoris DSM 12784', 'Candidatus Blochmannia vafer str. BVAF', 'Candidatus Blochmannia chromaiodes str. 640', 'Pseudomonas syringae pv. tomato str. DC3000', 'Oceanicola granulosus HTCC2516', 'Robiginitalea biformata HTCC2501', 'Vibrio ezurae NBRC 102218', 'Saccharomyces boulardii (nom. inval.)', 'Clytia hemisphaerica', 'Mahella australiensis 50-1 BON', 'Paraburkholderia phenoliruptrix BR3459a', 'Natronolimnohabitans innermongolicus JCM 12255', 'Ethanoligenens harbinense YUAN-3', 'Owenweeksia hongkongensis DSM 17368', 'Verruconis gallopava', 'Streptomyces sp. C', 'Fonsecaea monophora', 'Solimonas variicoloris DSM 15731', 'Bacillus fordii DSM 16014 = CIP 108821', 'Streptococcus castoreus DSM 17536', 'Paeniglutamicibacter gangotriensis Lz1y', 'Arcobacter cibarius LMG 21996', 'Glycomyces arizonensis DSM 44726', 'Parvibaculum lavamentivorans DS-1', 'Glutamicibacter arilaitensis Re117', 'Gulosibacter molinativorax DSM 13485', 'Lentisphaera araneosa HTCC2155', 'Sphingomonas phyllosphaerae 5.2', 'Nocardia aobensis NBRC 100429', 'Nocardia concava NBRC 100430', 'Pleomorphomonas koreensis DSM 23070', 'Roseomonas gilardii subsp. rosea ATCC BAA-691', 'Streptococcus pseudopneumoniae IS7493', 'Otus sunia', 'Kitasatospora arboriphila', 'Corynebacterium resistens DSM 45100', 'Mycolicibacterium cosmeticum', 'Halomonas anticariensis FP35 = DSM 16096', 'Desulfatibacillum alkenivorans AK-01', 'Nocardia takedensis NBRC 100417', 'Dechloromonas aromatica RCB', 'Microbulbifer agarilyticus S89', 'Campylobacter insulaenigrae NCTC 12927', 'Nitrosomonas sp. Is79A3', 'Intestinibacter bartlettii DSM 16795', 'Paraburkholderia phytofirmans PsJN', 'Mycobacterium liflandii 128FXT', 'Cavenderia fasciculata', 'Thermosinus carboxydivorans Nor1', 'Pleomorphomonas oryzae DSM 16300', 'Kangiella koreensis DSM 16069', 'Kangiella aquimarina DSM 16071', 'Marinobacter daepoensis DSM 16072', 'Lysobacter concretionis Ko07 = DSM 16239', 'Acinetobacter beijerinckii CIP 110307', 'Jonesia quinghaiensis DSM 15701', 'Salipiger mucosus DSM 16094', 'Wolbachia endosymbiont of Culex quinquefasciatus Pel', 'Viridibacillus arenosi FSL R5-213', 'Crocosphaera watsonii WH 8501', 'Pneumocystis murina', 'Marinomonas ushuaiensis DSM 15871', 'Gordonia effusa NBRC 100432', 'Algoriphagus marincola DSM 16067', 'Botryobasidium botryosum', 'Capsella grandiflora', 'Oceanimonas smirnovii ATCC BAA-899', 'Acholeplasma equifetale ATCC 29724', 'Acholeplasma granularum ATCC 19168', 'Acholeplasma hippikon ATCC 29725', 'Trichormus variabilis ATCC 29413', 'Byssochlamys spectabilis No. 5', 'Salinimonas chungwhensis DSM 16280', 'Pontibacillus chungwhensis BH030062', 'Silanimonas lenta DSM 16282', 'Desulfurispora thermophila DSM 16022', 'Desulfallas alcoholivorax DSM 16058', 'Rhodopirellula baltica SH 1', 'Anoxybacillus tepidamans PS2', 'Methylovorus glucosetrophus SIP3-4', 'Pseudocohnilembus persalinus', 'Chryseobacterium antarcticum', 'Porphyromonas gingivicanis', 'Chelativorans sp. BNC1', 'Microbulbifer variabilis ATCC 700307', 'Thalassobacter stenotrophicus', 'Granulicoccus phenolivorans DSM 17626 = NBRC 107789 = JCM 15570', 'Neisseria bacilliformis ATCC BAA-1200', 'Lactobacillus kefiranofaciens ZW3', 'Paenibacillus wynnii', 'Nitratifractor salsuginis DSM 16511', 'Microbotryum intermedium', 'Streptococcus marimammalium DSM 18627', 'Sporolactobacillus terrae DSM 11697', 'Atopococcus tabaci DSM 17538', 'Bartonella rattimassiliensis 15908', 'Marinobacter sp. ELB17', 'Fangia hongkongensis FSC776 = DSM 21703', 'Methylomicrobium alcaliphilum 20Z', 'Shewanella sediminis HAW-EB3', 'Shewanella halifaxensis HAW-EB4', 'Flavobacterium antarcticum DSM 19726', 'Arthrobacter castelli DSM 16402', 'Nostoc punctiforme PCC 73102', 'Olleya marilimosa CAM030', 'Actinomyces dentalis DSM 19115', 'Hyaloperonospora arabidopsidis', 'Pontibacillus marinus BH030004 = DSM 16465', 'Candida orthopsilosis Co 90-125', 'Candida metapsilosis', 'Sphaerochaeta coccoides DSM 17374', 'Exiguobacterium marinum DSM 16307', 'Microbacterium oleivorans', 'Chlorobaculum parvum NCIB 8327', 'Limimaricola hongkongensis DSM 17492', 'Opitutaceae bacterium TAV1', 'Acidobacteriaceae bacterium TAA 166', 'Collimonas arenae', 'Aquimarina muelleri DSM 19832', 'Gramella echinicola DSM 19838', 'Novosphingopyxis baekryungensis DSM 16222', 'Agromyces italicus DSM 16388', 'Antrostomus carolinensis', 'Nocardiopsis baichengensis YIM 90130', 'Pochonia chlamydosporia 170', 'Azorhizobium doebereinerae UFLA1-100', 'Candidatus Amoebophilus asiaticus 5a2', 'Caenorhabditis japonica', 'Rozella allomycis CSF55', 'Porphyromonas uenonis 60-3', 'Prevotella multiformis DSM 16608', 'Nocardia jiangxiensis NBRC 101359', 'Sander lucioperca', 'Kosakonia radicincitans DSM 16656', 'Pseudoalteromonas sp. Bsw20308', 'Staphylococcus pseudintermedius ED99', 'Stackebrandtia nassauensis DSM 44728', 'Capitella teleta', 'Phenylobacterium zucineum HLK1', 'Streptomyces flavovariabilis', 'Alcanivorax dieselolei B5', 'Thioclava pacifica DSM 10166', 'Acetobacter nitrogenifigens DSM 23921 = LMG 23498', 'Streptomyces roseochromogenus subsp. oscitans DS 12.976', 'Streptomyces xylophagus', 'Streptomyces sviceus ATCC 29083', 'Streptomyces fulvoviolaceus', 'Streptomyces thermolilacinus SPC6', 'Micromonospora lupini str. Lupac 08', 'Hahella ganghwensis DSM 17046', 'Episyrphus balteatus', 'Alkaliflexus imshenetskii DSM 15055', 'Segniliparus rotundus DSM 44985', 'Segniliparus rugosus ATCC BAA-974', 'Hellea balneolensis DSM 19091', 'Haliea salexigens DSM 19537', 'Balneola vulgaris DSM 17893', 'Amycolatopsis rifamycinica', 'Bradyrhizobium sp. BTAi1', 'Kordiimonas gwangyangensis DSM 19435 = JCM 12864', 'Microbotryum lychnidis-dioicae p1A1 Lamole', 'Hungateiclostridium clariflavum DSM 19732', 'Microbotryum aff. violaceum TUB 011817', 'Bacteroides helcogenes P 36-108', 'Nocardia exalbida NBRC 100660', "Penicillium sp. 'occitanis'", 'Comamonas granuli NBRC 101663', 'Arthrobacter sp. FB24', 'Jannaschia sp. CCS1', 'Aminiphilus circumscriptus DSM 16581', 'Photorhabdus asymbiotica', 'Bartonella melophagi K-2C', 'Bacteroides salyersiae WAL 10018 = DSM 18765 = JCM 12988', 'Bacteroides nordii CL02T12C05', 'Acaricomes phytoseiuli DSM 14247', 'Erythrobacter vulgaris', 'Thermosediminibacter oceani DSM 16646', 'Ruegeria sp. TM1040', 'Dactylococcopsis salina PCC 8305', 'Flavonifractor plautii 1_3_50AFAA', 'Lysinibacillus massiliensis 4400831 = CIP 108448 = CCUG 49529', 'Martelella mediterranea DSM 17316', 'Haloquadratum walsbyi J07HQW2', 'Cyphellophora europaea', 'Desulfovibrio alkalitolerans DSM 16529', 'Agromyces subbeticus DSM 16689', 'Proteiniphilum acetatigenes DSM 18083', 'Rubellimicrobium thermophilum DSM 16684', 'Candidatus Hepatoplasma crinochetorum Av', 'Micromonas commoda', 'Polaromonas sp. JS666', 'Caldalkalibacillus thermarum TA2.A1', 'Patulibacter minatonensis DSM 18081', 'Frankia sp. EAN1pec', 'Frankia inefficax', 'Frankia saprophytica', 'Pseudoalteromonas spongiae UST010723-006', 'Denticeps clupeoides', 'Leptotrombidium deliense', 'Adhaeribacter aquaticus DSM 16391', 'Francisella orientalis str. Toba 04', 'Rhodococcus triatomae BKS 15-14', 'Glaciecola nitratireducens FR1064', 'Lachancea meyersii CBS 8951', 'Catellicoccus marimammalium M35/04/3', 'Bacillus lehensis G1', 'Roseburia hominis A2-183', 'Methanosaeta harundinacea 6Ac', 'Seriola lalandi dorsalis', 'Advenella mimigardefordensis DPN7', 'Corynebacterium tuscaniense DNF00037', 'Halobacillus kuroshimensis DSM 18393', 'Pundamilia nyererei', 'Lactobacillus apis', 'Lactobacillus harbinensis DSM 16991', 'Catenulispora acidiphila DSM 44928', 'Actinospica robiniae DSM 44927', 'Thauera sp. 27', 'Endozoicomonas elysicola', 'Pusillimonas noertemannii BS8', 'Marinimicrobium agarilyticum DSM 16975', 'Calidithermus timidus DSM 17022', 'Lactobacillus apodemi DSM 16634 = JCM 16172', 'Chryseobacterium vrystaatense', 'Aphis glycines', 'Gracilibacillus boraciitolerans JCM 21714', 'Sinocyclocheilus rhinocerous', 'Apteryx rowi', 'Bacillus boroniphilus JCM 21738', 'Dialister microaerophilus UPII 345-E', 'Chrysiogenes arsenatis DSM 11915', 'Persephonella marina EX-H1', 'Sulfurihydrogenibium azorense Az-Fu1', 'Candidatus Liberibacter americanus str. Sao Paulo', 'Deinococcus apachensis DSM 19763', 'Deinococcus maricopensis DSM 21211', 'Deinococcus pimensis DSM 21231', 'Bacteroides plebeius DSM 17135', 'Bacteroides coprocola DSM 17136', 'Bacteroides pyogenes JCM 10003', 'Neofusicoccum parvum', 'Prevotella multisaccharivorax DSM 17128', 'Advenella kashmirensis W13003', 'Deinococcus deserti VCD115', 'Modiolus philippinarum', 'Linnemannia elongata AG-77', 'Paraburkholderia terrae NBRC 100964', 'Thermococcus kodakarensis KOD1', 'Paraburkholderia mimosarum LMG 23256 = NBRC 106338', 'Flavobacterium indicum GPTSA100-9 = DSM 17447', 'Emticicia oligotrophica DSM 17448', 'Pseudomonas entomophila L48', 'Streptococcus massiliensis DSM 18628', 'Croceibacter atlanticus HTCC2559', 'Janibacter sp. HTCC2649', 'Dokdonia sp. MED134', 'Polaribacter sp. MED152', 'Maribacter sp. HTCC2170', 'Lyngbya sp. PCC 8106', 'Synechococcus sp. BL107', 'Bacillus sp. NRRL B-14911', 'Geobacter lovleyi SZ', 'Drechslerella stenobrocha 248', 'Nitrobacter sp. Nb-311A', 'Oceanicaulis sp. HTCC2633', 'Pseudooceanicola batsensis HTCC2597', 'Roseobacter sp. MED193', 'Roseovarius nubinhibens ISM', 'Roseovarius sp. 217', 'Sphingomonas sp. SKA58', 'Sulfitobacter sp. NAS-14.1', 'Rhodobacteraceae bacterium HTCC2083', 'Alteromonas mediterranea', 'Marinomonas sp. MED121', 'Pseudoalteromonas tunicata D2', 'Psychromonas sp. CNPT3', 'Vibrio sp. MED222', 'Prolixibacter bellariivorans ATCC BAA-1284', 'Mariprofundus ferrooxydans PV-1', 'Pseudoxanthomonas suwonensis 11-1', 'Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069', 'Belgica antarctica', 'Leadbetterella byssophila DSM 17132', 'Syntrophus aciditrophicus SB', 'Synechococcus sp. RCC307', 'Synechococcus sp. CC9902', 'Microbispora sp. ATCC PTA-5024', 'Rubrivivax benzoatilyticus JA2 = ATCC BAA-35', 'Kuraishia capsulata', 'Enterococcus caccae ATCC BAA-1240', 'Nostoc sp. PCC 7107', 'Mycolicibacterium rufum', 'Mycolicibacterium aromaticivorans JS19b1 = JCM 16368', 'Clostridium sulfidigenes', 'Pyricularia oryzae 70-15', 'Bradyrhizobium sp. WSM1743', 'Bradyrhizobium sp. WSM1253', 'Bradyrhizobium sp. WSM471', 'Nonlabens sediminis', 'Clostridium lundense DSM 17049', 'Formosa agariphila KMM 3901', 'Gordonia soli NBRC 108243', 'Pseudocercospora eumusae', 'Synechococcus sp. JA-3-3Ab', "Synechococcus sp. JA-2-3B'a(2-13)", 'Lepidothrix coronata', 'Pseudomonas moraviensis R28-S', 'Pseudomonas simiae', 'Wheat blue dwarf phytoplasma', 'Porphyromonas somerae DSM 23386', 'Sharpea azabuensis DSM 18934', 'Sphingomonas sp. BHC-A', 'Leptolyngbya valderiana BDU 20041', 'Paenibacillus sp. JDR-2', 'Bacillus infantis NRRL B-14911', 'Kwoniella bestiolae CBS 10118', 'Kwoniella dejecticola CBS 10117', 'Moelleriella libera RCEF 2490', 'Phytophthora kernoviae', 'Coxiella endosymbiont of Amblyomma americanum', 'Paraglaciecola psychrophila 170', 'Pseudozyma hubeiensis', 'Candidatus Accumulibacter phosphatis clade IIA str. UW-1', 'Bifidobacterium crudilactis', 'Syntrophorhabdus aromaticivorans UI', 'Nonlabens dokdonensis DSW-6', 'Parabacteroides goldsteinii dnLKV18', 'Alistipes onderdonkii WAL 8169 = DSM 19147', 'Alistipes shahii WAL 8301', 'Manacus vitellinus', 'Rhizoclosmatium globosum', 'Flavobacterium saliperosum S13', 'Bacteroides intestinalis DSM 17393', 'Amycolatopsis jejuensis', 'Nitrospira defluvii', 'Psychrobacter cryohalolentis K5', 'Kamptonema formosum PCC 6407', 'Sphingobium japonicum UT26S', 'Clostridium drakei', 'Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7', 'Candidatus Solibacter usitatus Ellin6076', 'Halococcus hamelinensis 100A6', 'Truepera radiovictrix DSM 17093', 'Exiguobacterium sibiricum 255-15', 'Hirsutella minnesotensis 3608', 'Alkalihalobacillus okhensis', 'Psychrobacter arcticus 273-4', 'Rickettsia tamurae', 'Ignisphaera aggregans DSM 17230', 'Methylobacterium oryzae CBMB20', 'Halococcus thailandensis JCM 13552', 'Thermovirga lienii DSM 17291', 'Candidatus Sulcia muelleri PSPU', 'Rhodonellum psychrophilum GCM71 = DSM 17998', 'Oenococcus kitaharae DSM 17330', 'Pyronema omphalodes', 'Chlorobium chlorochromatii CaD3', 'Gordonia sp. KTR9', 'Halorubrum ezzemoulense DSM 17463', 'Pseudodonghicola xiamenensis DSM 18339', 'Bacteroides finegoldii DSM 17565', 'Nitrosopumilus maritimus SCM1', 'Erwinia tasmaniensis Et1/99', 'Mycobacterium colombiense CECT 3035', 'Desulfosporosinus youngiae DSM 17734', 'Criblamydia sequanensis CRIB-18', 'Thermodesulfovibrio thiophilus DSM 17215', 'Tuberibacillus calidus DSM 17572', 'Spathaspora passalidarum NRRL Y-27907', 'Amorphus coralli DSM 19760', 'Desulfovibrio frigidus DSM 17176', 'Ascodesmis nigricans', 'Peptostreptococcus stomatis DSM 17678', 'Agrococcus lahaulensis DSM 17612', 'Methylophilaceae bacterium B1', 'Burkholderia oklahomensis', 'Thermococcus onnurineus NA1', 'Pyrococcus sp. NA2', 'Paenibacillus barengoltzii G22', 'Salipiger bermudensis HTCC2601', 'Flavobacterium soli DSM 19725', 'Kutzneria sp. 744', 'Podiceps cristatus', 'Geobacter pickeringii', 'Amycolatopsis benzoatilytica AK 16/65', 'Lysobacter daejeonensis GH1-9', 'Echinicola pacifica DSM 19836', 'Moraxella boevrei DSM 14165', 'Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896', 'Rhodanobacter spathiphylli B39', 'Streptomyces davaonensis JCM 4913', 'Exophiala xenobiotica', 'Streptacidiphilus oryzae TH49', 'Rhizobium favelukesii', 'Spironucleus salmonicida', 'Desulfovirgula thermocuniculi DSM 16036', 'Cercospora zeina', 'Psychrobacter sp. PRwf-1', 'Micavibrio aeruginosavorus ARL-13', 'Corynebacterium marinum DSM 44953', 'Flavobacterium daejeonense DSM 17708', 'Flavobacterium suncheonense GH29-5 = DSM 17707', 'Roseobacter sp. AzwK-3b', 'Alkalilimnicola ehrlichii MLHE-1', 'Oscillibacter valericigenes Sjm18-20', 'Salinispora pacifica CNT003', 'Geobacter uraniireducens Rf4', 'Xenorhabdus doucetiae', 'Shewanella sp. W3-18-1', 'Halostagnicola larsenii XH-48', 'Arenimonas malthae CC-JY-1', 'Niastella koreensis GR20-10', 'Streptomyces sp. Tu6071', 'Limnoperna fortunei', 'Alloscardovia criceti DSM 17774', 'Bifidobacterium tsurumiense', 'Micromonospora chokoriensis', 'Phocaeicola dorei', 'Lactobacillus parabrevis ATCC 53295', 'Cercospora berteroae', 'Psychromonas ingrahamii 37', 'Roseiflexus sp. RS-1', 'Microbacterium indicum DSM 19969', 'Acidovorax sp. KKS102', 'Methanoregula boonei 6A8', 'Streptomyces olindensis', 'Pseudomonas extremaustralis 14-3 substr. 14-3b', 'Shewanella loihica PV-4', 'Smaragdicoccus niigatensis DSM 44881 = NBRC 103563', 'Methylotenera mobilis 13', 'Bryobacter aggregatus MPL3', 'Zavarzinella formosa DSM 19928', 'Schlesneria paludicola DSM 18645', 'Leeuwenhoekiella blandensis MED217', 'Roseburia inulinivorans DSM 16841', 'Exiguobacterium sp. AT1b', 'Rubritalea marina DSM 17716', 'Tieghemostelium lacteum', 'Streptococcus pseudoporcinus SPIN 20026', 'Pseudarthrobacter phenanthrenivorans Sphe3', 'Streptomyces vietnamensis', 'Flavobacterium reichenbachii', 'Candidatus Protochlamydia amoebophila UWE25', 'Kaistia granuli DSM 23481', 'Prevotella stercorea DSM 18206', 'Ktedonobacter racemifer DSM 44963', 'Dyella ginsengisoli LA-4', 'Janibacter hoylei PVAS-1', 'Verminephrobacter eiseniae EF01-2', 'Granulibacter bethesdensis CGDNIH1', 'Endocarpon pusillum Z07020', 'Ferrimonas futtsuensis DSM 18154', 'Chryseobacterium caeni DSM 17710', 'Pelosinus fermentans DSM 17108', 'Frankia discariae', 'Belnapia moabensis DSM 16746', 'Paenibacillus sabinae T27', 'Ruania albidiflava DSM 18029', 'Caulobacter sp. K31', 'Haladaptatus paucihalophilus DX253', 'Yersinia similis', 'Phycicoccus jejuensis', 'Rhodobacterales bacterium HTCC2255', 'Pelusios castaneus', 'Blattabacterium sp. (Periplaneta americana) str. BPLAN', 'Blattabacterium sp. (Blatta orientalis) str. Tarazona', 'Rheinheimera perlucida DSM 18276', 'Paenibacillus terrigena DSM 21567', 'Mesonia mobilis DSM 19841', 'Haloterrigena limicola JCM 13563', 'Gallionella capsiferriformans ES-2', 'Arenimonas composti TR7-09 = DSM 18010', 'Flavobacterium filum DSM 17961', 'Brevundimonas aveniformis DSM 17977', 'Erwinia typographi', 'Bacteroides xylanisolvens XB1A', 'Rhodobacter sp. SW2', 'Fischerella thermalis PCC 7521', 'Bartonella tamiae Th239', 'Rivularia sp. PCC 7116', 'Campylobacter cuniculorum DSM 23162 = LMG 24588', 'Reinekea blandensis MED297', 'Janthinobacterium sp. Marseille', 'Pseudooceanicola nanhaiensis DSM 18065', 'Sphaeramia orbicularis', 'Natranaerobius thermophilus JW/NM-WN-LF', 'Haloplanus natans DSM 17983', 'Gordonia shandongensis DSM 45094', 'Olivibacter sitiensis DSM 17696', 'Zhouia amylolytica AD3', 'Paracoccus halophilus', 'Bacteroides barnesiae DSM 18169 = JCM 13652', 'Phocaeicola salanitronis DSM 18170', 'Thermobacillus composti KWC4', 'Methyloversatilis universalis FAM5', 'Novosphingobium nitrogenifigens DSM 19370', 'Cyanobacterium aponinum PCC 10605', 'Streptomyces bingchenggensis BCW-1', 'Vibrio sinaloensis DSM 21326', 'Propithecus coquereli', 'Aciduliprofundum boonei T469', 'Paenibacillus fonticola DSM 21315', 'Niabella aurantiaca DSM 17617', 'Pseudomonas protegens CHA0', 'Cohnella laeviribosi DSM 21336', 'Lactobacillus namurensis str. Chizuka 01', 'Streptococcus ictaluri 707-05', 'Hydrogenobaculum sp. Y04AAS1', 'Lachancea thermotolerans', 'Amycolatopsis nigrescens CSC17Ta-90', 'Algiphilus aromaticivorans DG1253', 'Verrucomicrobiae bacterium DG1235', 'Erythrobacter sp. JL475', 'Ornithinimicrobium pekingense DSM 21552', 'Bacillus aidingensis DSM 18341', 'Cycloclasticus sp. P1', 'Pseudophaeobacter arcticus DSM 23566', 'Thermophagus xiamenensis', 'Paraburkholderia ferrariae NBRC 106233', 'Prevotella timonensis 4401737 = DSM 22865 = JCM 15640', 'Methanobacterium arcticum', 'Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)', 'Moraxella bovoculi 237', 'Bacteroides coprophilus DSM 18228 = JCM 13818', 'Nitratiruptor sp. SB155-2', 'Sulfurovum sp. NBC37-1', 'Halovivax ruber XH-70', 'Halopiger xanaduensis SH-6', 'Parabacteroides johnsonii CL02T12C29', 'Cupriavidus sp. amp6', 'Natronorubrum sulfidifaciens JCM 14089', 'Rhodobacteraceae bacterium HTCC2150', 'Labrenzia alexandrii DFL-11', 'Algoriphagus machipongonensis', 'Bartonella australis Aust/NH1', 'Roseobacter sp. SK209-2-6', 'Hydnomerulius pinastri MD-312', 'Stachybotrys chlorohalonata IBT 40285', 'Wenxinia marina DSM 24838', 'Lactobacillus farraginis DSM 18382 = JCM 14108', 'Lactobacillus parafarraginis F0439', 'Echinicola vietnamensis DSM 17526', 'Actinocatenispora sera', 'Ehrlichia sp. HF', 'Vibrio sp. 16', 'Roseobacter sp. GAI101', 'Roseobacter sp. CCS2', 'Pedobacter sp. BAL39', 'Flavobacteria bacterium BAL38', 'Brevundimonas sp. BAL3', 'Stenotrophomonas sp. SKA14', 'Flavobacteriales bacterium ALC-1', 'Roseovarius sp. TM1035', 'Lysobacter defluvii IMMIB APB-9 = DSM 18482', 'Alicyclobacillus macrosporangiidus CPP55', 'Alicyclobacillus contaminans DSM 17975', 'Paraburkholderia nodosa DSM 21604', 'Sphingomonas jaspsi DSM 18422', 'Deinococcus misasensis DSM 22328', 'Methylophaga thiooxydans DMS010', 'Perlucidibaca piscinae DSM 21586', 'Terriglobus roseus DSM 18391', 'Uliginosibacterium gangwonense DSM 18521', 'Halalkalibacillus halophilus DSM 18494', 'Mesoflavibacter zeaxanthinifaciens S86', 'Gracilibacillus lacisalsi DSM 19029', 'Pestalotiopsis fici', 'Congregibacter litoralis KT71', 'Porphyromonas crevioricanis', 'Bhargavaea cecembensis DSE10', 'Cylindrobasidium torrendii FP15055 ss-10', 'Lactobacillus ceti DSM 22408', 'Coraliomargarita akajimensis DSM 45221', 'Bartonella rochalimae ATCC BAA-1498', 'Cyanothece sp. PCC 7425', 'Gilvimarinus chinensis DSM 19667', 'Brachybacterium phenoliresistens', 'Aspergillus ruber CBS 135680', 'Acinetobacter brisouii ANC 4119', 'Aestuariimicrobium kwangyangense DSM 21549', 'Thioalkalivibrio sp. K90mix', 'Lactobacillus hayakitensis DSM 18933 = JCM 14209', 'Andreprevotia chitinilytica DSM 18519', 'Sphingomonas sanxanigenens DSM 19645 = NX02', 'Marmoricola aequoreus', 'Lachnospiraceae bacterium 28-4', 'Lachnospiraceae bacterium 3-1', 'Lachnospiraceae bacterium A2', 'Lachnospiraceae bacterium A4', 'Barnesiella viscericola DSM 18177', 'Segetibacter koreensis DSM 18137', 'Proteiniclasticum ruminis DSM 24773', 'Agrilactobacillus composti DSM 18527 = JCM 14202', 'Helicobacter macacae MIT 99-5501', 'Trichoderma gamsii', 'Zunongwangia profunda SM-A87', 'Desulfocurvus vexinensis DSM 17965', 'Thermoanaerobacter sp. X514', 'Enterobacter sp. 638', 'Streptococcus merionis DSM 19192', 'Pontibacter korlensis', 'Marinomonas sp. MWYL1', 'Amphimedon queenslandica', 'Wohlfahrtiimonas chitiniclastica DSM 18708', 'Corynebacterium ureicelerivorans', 'Aureimonas ureilytica DSM 18598 = NBRC 106430', 'Candidatus Riesia pediculicola USDA', 'Actinomycetospora chiangmaiensis DSM 45062', 'Haloferax mucosum ATCC BAA-1512', 'Sphingobacterium sp. PM2-P1-29', 'Virgibacillus sp. SK37', 'Shewanella piezotolerans WP3', 'Maritimibacter alkaliphilus HTCC2654', 'Nonomuraea coxensis DSM 45129', 'Anaeromyxobacter sp. Fw109-5', 'Marinobacterium litorale DSM 23545', 'Geminicoccus roseus DSM 18922', 'Alicyclobacillus acidocaldarius subsp. acidocaldarius Tc-4-1', 'Leisingera daeponensis DSM 23529', 'Streptacidiphilus rugosus AM-16', 'Bacillus sp. m3-13', 'Natrinema sp. J7-2', 'Sphingomonas astaxanthinifaciens DSM 22298', 'Stegodyphus mimosarum', 'Prevotella pleuritidis JCM 14110', 'Streptomyces xiamenensis', 'Bacillus coahuilensis m4-4', 'Nocardioidaceae bacterium Broad-1', 'Clostridiisalibacter paucivorans DSM 22131', 'Treponema pedis str. T A4', 'Blastobotrys adeninivorans', 'Periophthalmus magnuspinnatus', 'Coprococcus comes ATCC 27758', 'Gordonia malaquae NBRC 108250', 'Gramella forsetii KT0803', 'Halogeometricum pallidum JCM 14848', 'Clostridium sp. SS2/1', 'Clostridium sp. M62/1', 'Clostridium sp. L2-50', 'Chryseobacterium daeguense DSM 19388', 'Entamoeba nuttalli P19', 'Paracoccus sp. TRP', 'Intrasporangium oryzae NRRL B-24470', 'Desulfotomaculum hydrothermale Lam5 = DSM 18033', 'Mycetohabitans rhizoxinica HKI 454', 'Candidatus Vesicomyosocius okutanii', 'Solimonas soli DSM 21787', 'Cronobacter turicensis z3032', 'Halalkalicoccus jeotgali B3', 'Halorubrum halophilum', 'Caldicellulosiruptor hydrothermalis 108', 'Caldicellulosiruptor kronotskyensis 2002', 'Lysobacter dokdonensis DS-58', 'Planococcus donghaensis MPA1U2', 'Actinopolyspora erythraea', 'Pseudoxanthomonas spadix BD-a59', 'Solimonas flava DSM 18980', 'Nodosilinea nodulosa PCC 7104', 'Rhodanobacter thiooxydans LCS2', 'Natronomonas moolapensis 8.8.11', 'Burkholderia sp. KJ006', 'Penicillium antarcticum', 'Selenomonas bovis DSM 23594', 'Notospermus geniculatus', 'Neptunomonas japonica DSM 18939', 'Methanosarcina horonobensis HB-1 = JCM 15518', 'Blautia wexlerae DSM 19850', 'Salinicoccus albus DSM 19776', 'Nevskia soli DSM 19509', 'Prevotella amnii CRIS 21A-A', 'Alloscardovia omnicolens DSM 21503', 'Yersinia massiliensis CCUG 53443', 'Microvirga lupini', 'Lactobacillus equicursoris DSM 19284 = JCM 14600 = CIP 110162', 'Diplodia seriata', 'Methanolobus psychrophilus R15', 'Paraburkholderia bryophila 376MFSha3.1', 'Sphingobium ummariense RL-3', 'Sulfitobacter donghicola DSW-25 = KCTC 12864 = JCM 14565', 'Chryseobacterium oranimense G311', 'Chryseobacterium halperniae', 'Chryseobacterium luteum', 'Stenoxybacter acetivorans DSM 19021', 'Mucilaginibacter paludis DSM 18603', 'Basidiobolus meristosporus CBS 931.73', 'Elusimicrobium minutum Pei191', 'Rhizobium sp. IRBG74', 'Helicobacter japonicus', 'Calidris pygmaea', 'Thiomonas arsenitoxydans', 'Methylobacterium sp. 4-46', 'Flavobacterium subsaxonicum WB 4.1-42 = DSM 21790', 'Algoriphagus vanfongensis DSM 17529', 'Nocardia rhamnosiphila', 'Bacillus chagannorensis DSM 18086', 'Salsuginibacillus kocurii DSM 18087', 'Humibacter albus DSM 18994', 'Desulfurivibrio alkaliphilus AHT 2', 'Dethiobacter alkaliphilus AHT 1', 'Moritella dasanensis ArB 0140', 'Candidatus Riesia pediculischaeffi PTSU', 'Jonquetella anthropi E3_33 E1', 'Dactylellina haptotyla', 'Halorhabdus tiamatea SARL4B', 'Baudoinia compniacensis', 'Spirosoma luteum DSM 19990', 'Spirosoma spitsbergense DSM 19989', 'Paenibacillus ginsengihumi DSM 21568', 'Kazachstania africana CBS 2517', 'Deinococcus peraridilitoris DSM 19664', 'Nocardioides halotolerans DSM 19273', 'Streptococcus sp. C150', 'Idiomarina salinarum', 'Fibularhizoctonia sp. CBS 109695', 'Sulfurihydrogenibium sp. YO3AOP1', 'Streptacidiphilus jeojiense', 'Robiginitomaculum antarcticum DSM 21748', 'Brucella sp. UK1/97', 'Brucella sp. F23/97', 'Brucella sp. F96/2', 'Brucella sp. UK40/99', 'Brucella sp. F8/99', 'Brucella sp. F5/99', 'Megamonas funiformis YIT 11815', 'Sutterella parvirubra YIT 11816', 'Ruminococcus gauvreauii DSM 19829', 'Streptococcus henryi DSM 19005', 'Streptococcus caballi DSM 19004', 'Candidatus Pelagibacter sp. HTCC7211', 'Pseudovibrio sp. JE062', 'Rhodobacterales bacterium Y4I', 'Ruegeria sp. R11', 'Prevotella maculosa DSM 19339 = JCM 15638', 'Promicromonospora kroppenstedtii DSM 19349', 'Pseudomonas sp. Chol1', 'Gouania willdenowi', 'Corynebacterium timonense 5401744', 'Corynebacterium massiliense DSM 45435', 'Hofstenia miamia', 'Knoellia aerolata DSM 18566', 'Geobacter sp. M18', 'Geobacter sp. M21', 'Bradyrhizobium sp. Cp5.3', 'Brucella microti CCM 4915', 'Sporolactobacillus vineae DSM 21990 = SL153', 'Maribacter forsetii DSM 18668', 'Gryllotalpicola ginsengisoli DSM 22003', 'Rickettsia endosymbiont of Ixodes scapularis', 'Psychromonas ossibalaenae ATCC BAA-1528', 'Reyranella massiliensis 521', 'Leptobrachium leishanense', 'Chryseobacterium soli', 'Adlercreutzia equolifaciens DSM 19450', 'Eudoraea adriatica DSM 19308', 'Niabella soli DSM 19437', 'Anaeromyxobacter sp. K', 'Epichloe gansuensis', 'Simiduia agarivorans SA1 = DSM 21679', 'Rhizobium selenitireducens ATCC BAA-1503', 'Microbacterium profundi', 'Propionibacterium sp. 5_U_42AFAA', 'Veillonella sp. 6_1_27', 'Rudanella lutea DSM 19387', 'Microbacterium luticocti DSM 19459', 'Streptomyces scopuliridis RB72', 'Pseudoclavibacter soli DSM 23366', 'Amphritea japonica ATCC BAA-1530', 'Neovison vison', 'Roseomonas aerilata DSM 19363', 'Desulfarculus baarsii DSM 2075', 'Kwoniella pini CBS 10737', 'Bdellovibrio exovorus JSS', 'Haladaptatus cibarius D43', 'Henriciella marina DSM 19595', 'Joostella marina DSM 19592', 'Halomonas lutea DSM 23508', 'Paraprevotella clara YIT 11840', 'Paraprevotella xylaniphila YIT 11841', 'Kiloniella laminariae DSM 19542', 'Chthonomonas calidirosea T49', 'Gracilimonas tropica DSM 19535', 'Spongiibacter tropicus DSM 19543', 'Glaciecola sp. HTCC2999', 'Chryseobacterium gregarium DSM 19109', 'Xanthomonas campestris pv. vesicatoria str. 85-10', 'Bizionia argentinensis JUB59', 'Saccharibacillus sacchari DSM 19268', 'Candidatus Cloacimonas acidaminovorans str. Evry', 'Streptococcus plurextorum DSM 22810', 'Rhizoctonia solani AG-8 WAC10335', 'Bacteroides sp. 1_1_30', 'Bacteroides sp. 3_1_23', 'Bacteroides sp. 3_1_33FAA', 'Bacteroides sp. 3_2_5', 'Bacteroides sp. 4_1_36', 'Bacteroides sp. 4_3_47FAA', 'Bacteroides sp. 9_1_42FAA', 'Clostridium sp. 7_2_43FAA', 'Desulfovibrio sp. 3_1_syn3', 'Escherichia sp. 1_1_43', 'Escherichia sp. 4_1_40B', 'Eubacterium sp. 3_1_31', 'Micromonospora sp. M42', 'Ruminococcus sp. 5_1_39BFAA', 'Synergistes sp. 3_1_syn1', 'Veillonella sp. 3_1_44', 'Clostridiales bacterium 1_7_47FAA', 'Erysipelotrichaceae bacterium 2_2_44A', 'Elioraea tepidiphila DSM 17972', 'Chloracidobacterium thermophilum B', 'Planomicrobium glaciei CHR43', 'Saccharibacillus kuerlensis DSM 22868', 'Kribbella catacumbae DSM 19601', 'Komagataella phaffii GS115', 'Ogataea polymorpha NCYC 495 leu1.1', 'Lactobacillus nodensis DSM 19682 = JCM 14932 = NBRC 107160', 'Actinomyces massiliensis F0489', 'Alkaliphilus oremlandii OhILAs', 'Babesia sp. Xinjiang', 'Pontibacillus yanchengensis Y32', 'Paxillus rubicundulus Ve08.2h10', 'Veillonella magna DSM 19857', 'Hemiselmis andersenii', 'Streptomyces sp. Mg1', 'Streptomyces sp. SPB074', 'Acinetobacter sp. Ver3', 'Singulisphaera acidiphila DSM 18658', 'Ilumatobacter coccineus YM16-304', 'Lachnoanaerobaculum saburreum F0468', 'Rhodobacteraceae bacterium KLH11', 'Sistotremastrum suecicum HHB10207 ss-3', 'Bacteroides sp. 1_1_14', 'Bacteroides sp. 2_1_22', 'Bacteroides sp. 2_1_33B', 'Bacteroides sp. 2_2_4', 'Parabacteroides sp. 20_3', 'Bacteroides sp. 3_1_19', 'Bacteroides sp. 3_1_40A', 'Coprobacillus sp. 8_2_54BFAA', 'Streptococcus sp. 2_1_36FAA', 'Burkholderiales bacterium 1_1_47', 'Erysipelotrichaceae bacterium 6_1_45', 'Prevotella histicola JCM 15637 = DNF00424', 'Cladophialophora yegresii', 'Gracilibacillus halophilus YIM-C55.5', 'Salinimicrobium terrae DSM 17865', 'Pantoea vagans C9-1', 'Gordonibacter pamelaeae 7-10-1-b', 'Geobacillus sp. WCH70', 'Dasania marina DSM 21967', 'Bifidobacterium bombi DSM 19703', 'Haloplasma contractile SSD-17B', 'Candidatus Desulforudis audaxviator MP104C', 'Nitratireductor basaltis', 'Nitrosococcus watsonii C-113', 'Colletotrichum gloeosporioides', 'Methanosphaerula palustris E1-9c', 'Pedobacter borealis DSM 19626', 'Pseudohaliea rubra DSM 19751', 'Leisingera aquimarina DSM 24565', 'Modestobacter marinus', 'Bacteroides graminisolvens DSM 19988 = JCM 15093', 'Aliiglaciecola lipolytica E3', 'Calditerrivibrio nitroreducens DSM 19672', 'Verrucomicrobia bacterium LP2A', 'Haematomicrobium sanguinis DSM 21259', 'Brevibacterium ravenspurgense 5401308 = CCUG 53855', 'Gluconobacter morbifer G707', 'Commensalibacter intestini A911', 'Myroides profundi', 'Bartonella rattaustraliani AUST/NH4', 'Lactobacillus otakiensis DSM 19908 = JCM 15040', 'Lactobacillus kisonensis F0435', 'Paenibacillus sp. Y412MC10', 'Galeopterus variegatus', 'Oscillatoria nigro-viridis PCC 7112', 'Burkholderia lata', 'Lactobacillus fabifermentans T30PCM01', 'Cystoisospora suis', 'Geoalkalibacter subterraneus', 'Paenibacillus riograndensis SBR5', 'Sphingobium sp. YBL2', 'Pelosinus sp. UFO1', 'Dialister succinatiphilus YIT 11850', 'Barnesiella intestinihominis YIT 11860', 'Parasutterella excrementihominis YIT 11859', 'Acinetobacter soli', 'Aequorivita capsosiphonis DSM 23843', 'Shewanella marina JCM 15074', 'Corynebacterium ulceribovis DSM 45146', 'Flavobacteria bacterium MS024-2A', 'Serratia sp. SCBI', 'Campylobacter peloridis LMG 23910', 'Desulfonatronospira thiodismutans ASO3-1', 'Halarchaeum acidiphilum MH1-52-1', 'Mesorhizobium metallidurans STM 2683', 'Corynebacterium sputi DSM 45148', 'Marinobacter sp. BSs20148', 'Litoreibacter arenae DSM 19593', 'Leucobacter chironomi DSM 19883', 'Brachymonas chironomi DSM 19884', 'Megamonas rupellensis DSM 19944', 'Bacillus velezensis FZB42', 'Dyadobacter alkalitolerans DSM 23607', 'Rhizobium alamii', 'Chryseobacterium palustre DSM 21579', 'Psychrobacter sp. TB15', 'Arthrobacter sp. TB 23', 'Spirosoma panaciterrae DSM 21099', 'Thermoanaerobacter pseudethanolicus ATCC 33223', 'Thauera sp. 63', 'Campylobacter subantarcticus LMG 24377', 'Candidatus Nitrososphaera gargensis Ga9.2', 'Brevibacillus panacihumi W25', 'Arenimonas oryziterrae DSM 21050 = YC6267', 'Flavobacterium rivuli WB 3.3-2 = DSM 21788', 'Borreliella finlandensis', 'Candidatus Korarchaeum cryptofilum OPF8', 'Tepidanaerobacter acetatoxydans Re1', 'Metarhizium brunneum ARSEF 3297', 'Streptomyces avicenniae', 'Glaciibacter superstes DSM 21135', 'Citreicella sp. SE45', 'Porphyromonas bennonis DSM 23058 = JCM 16335', 'Thermodesulfatator atlanticus DSM 21156', 'Butyricicoccus pullicaecorum 1.2', 'Thalassospira profundimaris WP0211', 'Deinococcus gobiensis I-0', 'Eggerthella sp. YY7918', 'Streptococcus porci DSM 23759', 'Aeromonas diversa CDC 2478-85', 'Salisaeta longa DSM 21114', 'Flavobacterium sasangense DSM 21067', 'Kushneria aurantia DSM 21353', 'Jejuia pallidilutea', 'Haloterrigena salina JCM 13891', 'Novosphingobium acidiphilum DSM 19966', 'Chromera velia CCMP2878', 'Rheinheimera sp. A13L', 'Leisingera caerulea DSM 24564', 'Cinara cedri', 'Peptoniphilus duerdenii ATCC BAA-1640', 'Cloacibacillus evryensis DSM 19522', 'Bradyrhizobium genosp. SA-4 str. CB756', 'Pedobacter sp. V48', 'Oceanimonas sp. GK1', 'Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2', 'Methylacidiphilum infernorum V4', 'Vibrio azureus NBRC 104587', 'Dictyoglomus turgidum DSM 6724', 'Caloramator australicus RC3', 'Lacticigenium naphtae DSM 19658', 'Prevotella falsenii DSM 22864 = JCM 15124', 'Nesterenkonia alba DSM 19423', 'Muricauda lutaonensis', 'Providencia burhodogranariea DSM 19968', 'Providencia sneebia DSM 19967', 'Jeotgalicoccus marinus DSM 19772', 'Pontibacillus litoralis JSM 072002', 'Pontibacillus halophilus JSM 076056 = DSM 19796', 'Pantoea sp. aB', 'Citromicrobium sp. JLT1363', 'Bifidobacterium mongoliense DSM 21395', 'Lactobacillus sucicola DSM 21376 = JCM 15457', 'Alcanivorax hongdengensis A-11-3', 'Deinococcus aquatilis DSM 23025', 'Elaphomyces granulatus', 'Ectothiorhodospira sp. PHS-1', 'Brucella sp. NVSL 07-0026', 'Brucella sp. 83/13', 'Acinetobacter sp. NIPH 817', 'Pseudomonas caeni DSM 24390', 'Sphingobium lactosutens DS20', 'Trichophyton mentagrophytes', 'Marinobacter santoriniensis NKSG1', 'Acinetobacter sp. ATCC 27244', 'Thiothrix lacustris DSM 21227', 'Haloglycomyces albus DSM 45210', 'Oceanibaculum indicum P24', 'Listeria marthii FSL S4-120', 'Thecamonas trahens', 'Rhodoluna lacicola', 'Pelagibacterium halotolerans B2', 'Flavobacteriaceae bacterium 3519-10', 'Actinopolymorpha alba DSM 45243', 'Mesorhizobium australicum WSM2073', 'Psychrobacter lutiphocae DSM 21542', 'Rudaea cellulosilytica DSM 22992', 'Thermus islandicus DSM 21543', 'Corynebacterium lubricantis DSM 45231', 'Peronospora effusa', 'Actinoplanes subtropicus', 'Geobacillus sp. Y412MC61', 'Actinomyces johnsonii F0510', 'Butyricimonas synergistica DSM 23225', 'Thioalkalivibrio sp. AKL11', 'Thioalkalivibrio sp. ALJ24', 'Alishewanella jeotgali KCTC 22429', 'Paraoerskovia marina DSM 21750', 'Sporothrix brasiliensis 5110', 'Hydrogenobaculum sp. 3684', 'Hydrogenobaculum sp. HO', 'Hydrogenobaculum sp. SN', 'Mycobacterium vulneris', 'Phycisphaera mikurensis NBRC 102666', 'Pseudogulbenkiania ferrooxidans 2002', 'Geobacillus sp. Y412MC52', 'Pseudonocardia acaciae DSM 45401', 'Aromatoleum aromaticum EbN1', 'Caldicoprobacter oshimai DSM 21659', 'Sediminimonas qiaohouensis DSM 21189', 'Salinarimonas rosea DSM 21201', 'Erysipelotrichaceae bacterium 5_2_54FAA', 'Ruminococcaceae bacterium D16', 'Cryptococcus gattii VGIII', 'Dehalogenimonas lykanthroporepellens BL-DC-9', 'Pseudomonas pelagia CL-AP6', 'Vibrio breoganii 1C10', 'Alishewanella agri BL06', 'Cobetia crustatorum', 'Halomonas jeotgali Hwa', 'Photobacterium leiognathi lrivu.4.1', 'Chlorella variabilis', 'Thiomonas sp. CB2', 'Flavobacterium chungangense LMG 26729', 'Galbibacter marinus', 'Staphylococcus massiliensis S46', 'Novosphingobium sp. Rr 2-17', 'Bacteroides sp. D1', 'Bacteroides sp. D2', 'Clostridium sp. D5', 'Coprobacillus sp. D7', 'Candidatus Liberibacter solanacearum CLso-ZC1', 'Propionibacterium acidifaciens DSM 21887', 'Corynebacterium freiburgense DSM 45254', 'Chryseobacterium piperi', 'Lentibacillus jeotgali', 'Salinicoccus carnicancri Crm', 'Aeromonas lacus', 'Aureobasidium namibiae CBS 147.97', 'Lysinibacillus sinduriensis BLB-1 = JCM 15800', 'Aliagarivorans taiwanensis DSM 22990', 'Prevotella sp. C561', 'Streptococcus sp. C300', 'Streptococcus sp. M143', 'Streptococcus sp. M334', 'Acidianus hospitalis W1', 'Salinisphaera hydrothermalis C41B8', 'Parabacteroides sp. D13', 'Scedosporium apiospermum', 'Geoglobus acetivorans', "Saccharomycetaceae sp. 'Ashbya aceri'", 'Metarhizium robertsii ARSEF 23', 'Dickeya poaceiphila', 'Cladophialophora immunda', 'Pseudoalteromonas lipolytica SCSIO 04301', 'Methanocella paludicola SANAE', 'Ochrobactrum rhizosphaerae SJY1', 'Psychrobacter sp. G', 'Encephalitozoon romaleae SJ-2008', 'Absidia idahoensis var. thermophila', 'Thermoanaerobacter sp. X513', 'Francisella salina', 'Candidatus Hodgkinia cicadicola Dsem', 'Pandoraea oxalativorans', 'Bacillus gaemokensis', 'Bacillus manliponensis', 'Parabacteroides gordonii MS-1 = DSM 23371', 'Pseudomonas taeanensis MS-3', 'Corynebacterium maris DSM 45190', 'Phialocephala subalpina', 'Polynucleobacter necessarius STIR1', 'Polynucleobacter asymbioticus QLW-P1DMWA-1', 'Streptomyces iranensis', 'Indibacter alkaliphilus LW1', 'Enterorhabdus mucosicola DSM 19490', 'Bacillus cytotoxicus NVH 391-98', 'Geobacillus sp. Y4.1MC1', 'Thermococcus paralvinellae', 'Rubidibacter lacunae KORDI 51-2', 'Thermoanaerobacter mathranii subsp. mathranii str. A3', 'Synechococcus sp. KORDI-49', 'Synechococcus sp. KORDI-52', 'Bacteroides sp. D20', 'Bacteroides sp. D22', 'Nematocida parisii', 'Oceanobacillus manasiensis', 'Terribacillus aidingensis', 'Myripristis murdjan', 'Pseudomonas chlororaphis', 'Rhizophagus irregularis', 'Patulibacter americanus DSM 16676', 'Kazachstania naganishii', 'Brevundimonas naejangsanensis', 'Prevotella fusca JCM 17724', 'Prevotella scopos JCM 17725', 'Alteromonas australica', 'Methylacidiphilum fumariolicum SolV', 'Streptomyces sp. SPB78', 'Streptomyces sp. AA4', 'Ignavibacterium album JCM 16511', 'Roseivivax isoporae LMG 25204', 'Piliocolobus tephrosceles', 'Pantoea sp. At-9b', 'Pantoea sp. Sc1', 'Mesorhizobium opportunistum WSM2075', 'Allofrancisella guangzhouensis', 'Rhodopirellula sp. SWK7', 'Prevotella aurantiaca JCM 15754', 'Desulfovibrio sp. U5L', 'Brenneria sp. EniD312', 'Corynebacterium pyruviciproducens ATCC BAA-1742', 'Fibroporia radiculosa', 'Meiothermus rufus DSM 22234', 'Neisseria wadsworthii 9715', 'Neisseria shayeganii 871', 'Dinoponera quadriceps', 'Asaia platycodi SF2.1', 'Harpegnathos saltator', 'Arenibacter algicola', 'Polycyclovorans algicola TG408', 'Methylocystis sp. ATCC 49242', 'Blattabacterium sp. (Blattella germanica) str. Bge', 'Bacteroides clarus YIT 12056', 'Bacteroides fluxus YIT 12057', 'Bacteroides oleiciplenus YIT 12058', 'Alistipes indistinctus YIT 12060', 'Odoribacter laneus YIT 12061', 'Slackia piriformis YIT 12062', 'Collinsella tanakaei YIT 12063', 'Succinatimonas hippei YIT 12066', 'Phascolarctobacterium succinatutens YIT 12067', 'Sphingobium sp. SYK-6', 'Sphingomonas sp. Mn802worker', 'Tomitella biformata AHU 1821', 'Thiorhodovibrio sp. 970', 'Saccharomonospora marina XMU15', 'Acinetobacter rudis CIP 110305', 'Thalassobium sp. R2A62', 'Prevotella saccharolytica F0055', 'Bifidobacterium bohemicum DSM 22767', 'Bifidobacterium actinocoloniiforme DSM 22766', 'Pyramidobacter piscolens W5455', 'Acidobacteriaceae bacterium KBS 146', 'Hoyosella subflava DQS3-9A1', 'Lactobacillus florum 2F', 'Burkholderia sp. CCGE1001', 'Burkholderia sp. CCGE1003', 'Clostridium sp. DL-VIII', 'Neisseria sp. oral taxon 014 str. F0314', 'Tatumella morbirosei', 'Silicibacter sp. TrichCH4B', 'Methanocaldococcus sp. FS406-22', 'Streptomyces sp. e14', 'Enterocytozoon hepatopenaei', 'Plasmodium gaboni', 'Methylobacterium sp. MB200', 'Micromonospora sp. L5', 'Cesiribacter andamanensis AMV16', 'Clostridium sp. ATCC BAA-442', 'Actinomyces sp. oral taxon 848 str. F0332', 'Acetomicrobium hydrogeniformans ATCC BAA-1850', 'Anaerostipes hadrus DSM 3319', 'Actinoplanes sp. N902-109', 'Sulfuricella denitrificans skB26', 'Fibrella aestuarina BUZ 2', 'Aurantimonas manganoxydans SI85-9A1', 'Kosmotoga olearia TBF 19.5.1', 'Actinomyces sp. oral taxon 180 str. F0310', 'Fretibacterium fastidiosum', 'Oribacterium sp. oral taxon 078 str. F0262', 'Bacteroidetes oral taxon 274 str. F0058', 'Peptoniphilus sp. oral taxon 386 str. F0131', 'Paenibacillus sp. oral taxon 786 str. D14', 'Prevotella sp. oral taxon 299 str. F0039', 'Prevotella sp. oral taxon 317 str. F0108', 'Actinomyces sp. oral taxon 849 str. F0330', 'Albugo laibachii', 'Prevotella sp. oral taxon 472 str. F0295', 'Pseudogymnoascus destructans 20631-21', 'Pandoraea vervacti', 'Halanaerobium hydrogeniformans', 'Ruminococcus sp. SR1/5', 'Flavobacterium beibuense F44-8', 'Candidatus Koribacter versatilis Ellin345', 'Ralstonia sp. 5_2_56FAA', 'Lachnospiraceae bacterium 1_1_57FAA', 'Lachnospiraceae bacterium 2_1_58FAA', 'Lachnospiraceae bacterium 6_1_63FAA', 'Lachnospiraceae bacterium 5_1_57FAA', 'Lachnospiraceae bacterium 3_1_57FAA_CT1', 'Lachnospiraceae bacterium 7_1_58FAA', 'Lachnospiraceae bacterium 9_1_43BFAA', 'Lachnospiraceae bacterium 5_1_63FAA', 'Pseudomonas sp. H2', 'Lachnospiraceae bacterium 1_4_56FAA', 'Lachnospiraceae bacterium 6_1_37FAA', 'Erysipelotrichaceae bacterium 21_3', 'Erysipelotrichaceae bacterium 3_1_53', 'Parabacteroides sp. D25', 'Porphyromonas sp. 31_2', 'Paraburkholderia acidipaludis NBRC 101816', 'Olsenella sp. oral taxon 809 str. F0356', 'Brachybacterium squillarum M-6-3', "Candidatus Parvarchaeum acidiphilum ARMAN-4_'5-way FS'", "Candidatus Parvarchaeum acidophilus ARMAN-5_'5-way FS'", 'Fibrisoma limi BUZ 3', 'Methylocapsa aurea', 'Leucobacter salsicius M1-8', 'Borreliella bavariensis PBi', 'Bacillus oceanisediminis 2691', 'Dietzia alimentaria 72', 'Campylobacter sp. 10_1_50', 'Clostridium sp. 7_3_54FAA', 'Coprobacillus sp. 3_3_56FAA', 'Desulfovibrio sp. 6_1_46AFAA', 'Eggerthella sp. 1_3_56FAA', 'Klebsiella sp. 4_1_44FAA', 'Neisseria sp. GT4A_CT1', 'Tannerella sp. 6_1_58FAA_CT1', 'Lachnospiraceae bacterium 3_1_46FAA', 'Lachnospiraceae bacterium 8_1_57FAA', 'Subdoligranulum sp. 4_3_54A2FAA', 'Bacillus sp. 7_6_55CFAA_CT2', 'Bacillus sp. BT1B_CT2', 'Bacillus sp. 2_A_57_CT2', 'Aquimarina macrocephali JAMB N27', 'Afipia sp. 1NLS2', 'Rhodanobacter denitrificans', 'Bacillus sp. 1NLA3E', 'Raphidiopsis brookii D9', 'Thelohanellus kitauei', 'Geminocystis herdmanii PCC 6308', 'Paenibacillus pini JCM 16418', 'Candidatus Profftella armatura', 'Microvirga aerilata', 'Candidatus Uzinura diaspidicola str. ASNER', 'Candidatus Methylomirabilis oxyfera', 'Leptotrichia sp. oral taxon 225 str. F0581', 'Alloprevotella rava F0323', 'Propionibacterium sp. oral taxon 192 str. F0372', 'Selenomonas artemidis F0399', 'Veillonella sp. oral taxon 158 str. F0412', 'Veillonella sp. oral taxon 780 str. F0422', 'Enterorhabdus caecimuris B7', 'Bacteroides sartorii dnLKV3', 'Microbacterium yannicii PS01', 'Cardinium endosymbiont cBtQ1 of Bemisia tabaci', 'Aciduliprofundum sp. MAR08-339', 'Candidatus Babela massiliensis', 'Bacteroides faecis MAJ27', 'Vibrio sp. RC586', 'Lachancea nothofagi', 'Fervidicoccus fontis Kam940', 'Sphingomonas sp. PR090111-T3T-6A', 'Pseudomonas sp. S9', 'Lichtheimia ramosa', 'Oribacterium sp. NK2B42', 'Colletotrichum fructicola Nara gc5', 'Rhizobium vignae', 'Geobacillus sp. C56-T3', 'Fonticula alba', 'Caldisericum exile AZM16c01', 'Vibrio atlanticus LGP32', 'Enterobacteriaceae bacterium strain FGI 57', 'Halogranum salarium B-1', 'Bilophila sp. 4_1_30', "Marssonina brunnea f. sp. 'multigermtubi' MB_m1", 'Virgibacillus alimentarius', 'Megasphaera genomosp. type_1 str. 28L', 'Vibrio caribbeanicus ATCC BAA-2122', 'Vibrio sp. N418', 'Novosphingobium sp. PP1Y', 'Saccharomyces arboricola H-6', 'Capnocytophaga sp. oral taxon 329 str. F0087', 'Actinomyces sp. oral taxon 171 str. F0337', 'Colletotrichum chlorophyti', 'Colletotrichum tofieldiae', 'Bradyrhizobiaceae bacterium SG-6C', 'Frankia sp. QA3', 'Actinomyces sp. oral taxon 178 str. F0338', 'Capnocytophaga sp. oral taxon 338 str. F0234', 'Colletotrichum fioriniae', 'Streptomyces sp. GXT6', 'Actinomyces sp. oral taxon 170 str. F0386', 'Actinomyces sp. oral taxon 172 str. F0311', 'Actinomyces sp. oral taxon 175 str. F0384', 'Actinomyces sp. oral taxon 181 str. F0379', 'Actinomyces sp. oral taxon 448 str. F0400', 'Aggregatibacter sp. oral taxon 458 str. W10330', 'Atopobium sp. oral taxon 199 str. F0494', 'Atopobium sp. oral taxon 810 str. F0209', 'Capnocytophaga sp. oral taxon 324 str. F0483', 'Capnocytophaga sp. oral taxon 326 str. F0382', 'Capnocytophaga sp. oral taxon 332 str. F0381', 'Capnocytophaga sp. oral taxon 336 str. F0502', 'Capnocytophaga sp. oral taxon 380 str. F0488', 'Fusobacterium sp. oral taxon 370 str. F0437', 'Leptotrichia sp. oral taxon 215 str. W9775', 'Microbacterium sp. oral taxon 186 str. F0373', 'Neisseria sp. oral taxon 020 str. F0370', 'Oribacterium sp. oral taxon 108 str. F0425', 'Peptoniphilus sp. oral taxon 375 str. F0436', 'Porphyromonas sp. oral taxon 278 str. W7784', 'Prevotella sp. oral taxon 306 str. F0472', 'Prevotella sp. oral taxon 473 str. F0040', 'Selenomonas sp. oral taxon 137 str. F0430', 'Selenomonas sp. oral taxon 138 str. F0429', 'Selenomonas sp. oral taxon 149 str. 67H29BP', 'Streptococcus sp. oral taxon 056 str. F0418', 'Streptococcus sp. oral taxon 058 str. F0407', 'Streptococcus sp. oral taxon 071 str. 73H25AP', 'Actinobaculum sp. oral taxon 183 str. F0552', 'Lachnospiraceae bacterium oral taxon 082 str. F0431', 'Lachnospiraceae oral taxon 107 str. F0167', 'Parvimonas sp. oral taxon 393 str. F0440', 'Candidatus Atelocyanobacterium thalassa isolate SIO64986', 'Alteromonas naphthalenivorans', 'Ensifer sojae CCBAU 05684', 'Caldicellulosiruptor obsidiansis OB47', 'Hyphopichia burtonii NRRL Y-1933', 'Hyphomicrobium sp. MC1', 'Plasmodium sp. DRC-Itaito', 'Nitratireductor indicus C115', 'Acidovorax ebreus TPSY', 'Vibrio genomosp. F10 str. ZF-129', 'Anncaliia algerae PRA109', 'Leptothrix ochracea L12', 'Rahnella sp. Y9602', 'Delftia sp. Cs1-4', 'Melanaphis sacchari', 'Collinsella sp. 4_8_47FAA', 'Lachnospiraceae bacterium 2_1_46FAA', 'Sphingobacterium sp. 21', 'Methylocystis sp. SB2', 'Ahrensia sp. R2A130', 'Roseibium sp. TrichSKD4', 'Sphingomonas sp. MM-1', 'Olleya sp. VCSM12', 'Mobilicoccus pelagius NBRC 104925', 'Aspergillus fumigatus Af293', 'Oceanobacillus kimchii X50', 'Azoarcus sp. KH32C', 'Pseudogulbenkiania sp. NH8B', 'Thioalkalivibrio sp. ALSr1', 'Sulfuritalea hydrogenivorans sk43H', 'Klebsiella sp. MS 92-3', 'Coprococcus sp. ART55/1', 'Halobacterium sp. DL1', 'Escherichia sp. TW09308', 'Winogradskyella sp. PG-2', 'Photobacterium aphoticum', 'Methylophaga nitratireducenticrescens', 'Methylophaga frappieri', 'Clostridium sp. BNL1100', 'Bacillus sp. WP8', 'Acinetobacter indicus CIP 110367', 'Burkholderia insecticola', 'Burkholderia sp. RPE67', 'Sporosarcina newyorkensis 2681', 'Massilia consociata', 'Bifidobacterium callitrichos DSM 23973', 'Bifidobacterium stellenboschense', 'Bifidobacterium biavatii DSM 23969', 'Siansivirga zeaxanthinifaciens CC-SAMT-1', 'Haemophilus sp. oral taxon 851 str. F0397', 'Paraburkholderia bannensis NBRC 103871', 'Moraxella macacae 0408225', 'Pyrenochaeta sp. DS3sAY3a', 'Stagonospora sp. SRC1lsM3a', 'Vibrio jasicida MWB 21', 'Citreicella sp. 357', 'Candidatus Puniceispirillum marinum IMCC1322', 'Serratia sp. AS12', 'Serratia sp. AS13', 'Sinorhizobium sp. CCBAU 05631', 'Opitutaceae bacterium TAV5', 'Burkholderiaceae bacterium PBA', 'Nesterenkonia sp. F', 'Sugiyamaella lignohabitans', 'Peptoanaerobacter stomatis', 'Stomatobaculum longum', 'Kipferlia bialata', 'Fonsecaea nubica', 'Cryptosporidium ubiquitum', 'Trichoderma parareesei', 'Caenispirillum salinarum AK4', 'Agrobacterium sp. H13-3', 'Gemmatirosa kalamazoonesis', 'Streptomyces sp. SirexAA-E', 'Thermincola potens JR', 'Burkholderiales bacterium JOSHI_001', 'Microvirga lotononidis', 'Oscillatoriales cyanobacterium C42_A2020_001', 'Schizosaccharomyces cryophilus', 'Methanothermobacter sp. CaT2', 'Chloroflexus sp. Y-396-1', 'Methanobacterium paludis', 'Ogataea angusta', 'Terriglobus saanensis SP1PR4', 'Bacteroides stercorirosoris JCM 17103', 'Lactobacillus pasteurii DSM 23907 = CRBIP 24.76', 'Celeribacter baekdonensis B30', 'Mycolicibacter sinensis', 'Peptoniphilus sp. 1-1', 'Methyloferula stellata AR4', 'Ruminococcus sp. NK3A76', 'Clostridiales bacterium NK3B98', 'Erysipelotrichaceae bacterium NK3D112', 'Lachnospiraceae bacterium NK4A136', 'Lachnospiraceae bacterium NK4A144', 'Lachnospiraceae bacterium NK4A179', 'Methanobacterium lacus', 'Chryseobacterium sp. StRB126', 'Pseudodesulfovibrio piezophilus C1TLV30', 'Cutaneotrichosporon oleaginosum', 'Plasmodium sp. gorilla clade G2', 'Fulvivirga imtechensis AK7', 'Methanoregula formicica SMSP', 'Schleiferia thermophila str. Yellowstone', 'Candidatus Zinderia insecticola CARI', 'Mageeibacillus indolicus UPII9-5', 'Fukomys damarensis', 'Desulfosporosinus acidiphilus SJ4', 'Methylovorus sp. MP688', 'Candidatus Nanosalina sp. J07AB43', 'Candidatus Nanosalinarum sp. J07AB56', 'Plautia stali symbiont', 'Nonlabens ulvanivorans', 'Phytopythium vexans DAOM BR484', 'Clostridium sp. HGF2', 'Alistipes sp. HGB5', 'Fusarium sp. FOSC 3-a', 'Actinokineospora spheciospongiae', 'SAR116 cluster alpha proteobacterium HIMB100', 'Pseudovibrio sp. FO-BEG1', 'Caldanaerobacter subterraneus subsp. tengcongensis MB4', 'Mycolicibacterium iranicum UM_TJL', 'Desulfosporosinus sp. OT', 'Knoellia flava TL1', 'Kangiella geojedonensis', 'Rhynchosporium commune', 'Rhynchosporium agropyri', 'Asinibacterium sp. OR53', 'Balearica regulorum', 'Synechocystis sp. PCC 7509', 'Bartonella florencae', 'Pseudomonas brassicacearum', 'Nonlabens marinus S1-08', 'Serratia sp. M24T3', 'Desulfosarcina sp. BuS5', 'Aminobacter sp. J41', 'Bacillus sp. J33', 'Bacillus sp. J37', 'Chelativorans sp. J32', 'Paenibacillus sp. J14', 'Paracoccus sp. J39', 'Luteimonas sp. J29', 'Nocardioides sp. J54', 'Rhizopus delemar', 'Mogibacterium sp. CM50', 'Desulfurispirillum indicum S5', 'Marinomonas posidonica IVIA-Po-181', 'Actinomyces sp. ICM47', 'Atopobium sp. BS2', 'Selenomonas sp. FOBRC6', 'Selenomonas sp. FOBRC9', 'Shuttleworthia sp. MSX8B', 'Streptococcus sp. CM6', 'Veillonella sp. AS16', 'Lachnoanaerobaculum sp. OBRC5-5', 'Lachnoanaerobaculum sp. MSX33', 'Casaltella massiliensis', 'Fenollaria massiliensis', 'Levyella massiliensis', 'Anaerococcus provencensis', 'Bacteroidetes bacterium SCGC AAA027-N21', 'Granulicella mallensis MP5ACTX8', 'Granulicella tundricola MP5ACTX9', 'Desulfovibrio sp. X2', 'Burkholderia sp. WSM2230', 'Hippea jasoniae', 'Hippea sp. KM1', 'Arcobacter sp. L', 'Gordonia neofelifaecis NRRL B-59395', 'Diplocarpon rosae', 'Salpingoeca rosetta', 'Arenimonas metalli CF5-1', 'Paraburkholderia dilworthii', 'Fusarium proliferatum', 'Palaeococcus pacificus DY20341', 'Bacillus sp. 17376', 'Fonsecaea multimorphosa CBS 102226', 'Leuconostoc sp. C2', 'Deinococcus wulumuqiensis R12', 'Aquimarina agarivorans', 'Morus notabilis', 'Ruegeria conchae', 'Lacinutrix sp. 5H-3-7-4', 'Glaciecola sp. 4H-3-7+YE-5', 'Dokdonia sp. 4H-3-7-5', 'Bifidobacterium reuteri DSM 23975', 'Heterobasidion irregulare', 'Mycoplasma parvum str. Indiana', 'Staphylococcus argenteus M21126', 'Vulcanisaeta moutnovskia 768-28', 'Ruegeria halocynthiae', 'Gillisia sp. CAL575', 'Staphylococcus agnetis', 'Lebetimonas sp. JS170', 'Polymorphum gilvum SL003B-26A1', 'Vibrio sp. HENC-03', 'Erosia sp. biolep03', 'Candidatus Kinetoplastibacterium desouzaii TCC079E', 'Candidatus Kinetoplastibacterium galatii TCC219', 'Candidatus Kinetoplastibacterium oncopeltii TCC290E', 'Desmospora sp. 8437', 'Porphyromonas sp. KLE 1280', 'Streptomyces himastatinicus ATCC 53653', 'Halomonas sp. TD01', 'Methylophaga lonarensis MPL', 'Selenomonas sp. F0473', 'Streptococcus sp. F0441', 'Streptococcus sp. F0442', 'Sedimentitalea nanhaiensis DSM 24252', 'Megasphaera sp. UPII 135-E', 'Cryobacterium roopkundense', 'Daldinia sp. EC12', 'Hypoxylon sp. CI-4A', 'Psychrobacter sp. 1501(2011)', 'Leisingera sp. ANG1', 'Candidatus Pelagibacter sp. IMCC9063', 'Verrucosispora maris AB-18-032', 'Fimbriimonas ginsengisoli Gsoil 348', 'Ogataea parapolymorpha DL-1', 'Metallosphaera cuprina Ar-4', 'Listeria weihenstephanensis FSL R9-0317', 'Defluviitoga tunisiensis', 'Candidatus Nitrosarchaeum limnium SFB1', 'Sphingomonas sp. S17', 'Pusillimonas sp. T7-7', 'Pyrococcus yayanosii CH1', 'Candidatus Tremblaya phenacola PAVE', 'Exophiala sideris', 'Nannospalax galili', 'Endozoicomonas montiporae', 'Pseudomonas sp. StFLB209', 'Acinetobacter sp. P8-3-8', 'Sphingomonas sp. KC8', 'Caloramator sp. ALD01', 'Campylobacter volucris LMG 24379', 'Corynebacterium nuruki S6-4', 'Bacillus timonensis', 'Brevibacterium senegalense', 'Kurthia sp. Dielmo', 'Kurthia massiliensis', 'Kurthia senegalensis', 'Exophiala aquamarina CBS 119918', 'Marinobacter adhaerens HP15', 'Thioalkalivibrio sulfidiphilus HL-EbGr7', 'Nitrososphaera viennensis EN76', 'Paenibacillus sp. HW567', 'Legionella massiliensis', 'Deferrisoma camini S3R1', 'Dehalobacter sp. FTH1', 'Idiomarina sp. A28L', 'Bradyrhizobium sp. WSM2793', 'Bradyrhizobium sp. WSM3983', 'Mesorhizobium sp. WSM3224', 'Mesorhizobium sp. WSM3626', 'Bradyrhizobium sp. ARR65', 'Drosophila rhopaloa', 'Ensifer sp. WSM1721', 'Candidatus Arthromitus sp. SFB-rat-Yit', 'Wickerhamomyces ciferrii', 'Aureobasidium subglaciale EXF-2481', 'Clostridium sp. SY8519', 'Rhizobium sp. IBUN', 'Ochrovirga pacifica', 'Thermococcus sp. 4557', 'Acidiphilium sp. PM', 'Demequina mangrovi', 'Citricoccus sp. CH26A', 'Oceaniovalibus guishaninsula JLT2003', 'Aminicenantes bacterium SCGC AAA252-A02', 'Zymoseptoria brevis', 'Zymoseptoria tritici', 'Candidatus Moranella endobia PCIT', 'Paracoccidioides lutzii', 'Anditalea andensis', 'Paenibacillus sp. Aloe-11', 'Verticillium alfalfae VaMs.102', 'Acetobacteraceae bacterium AT-5844', 'Thermoplasmatales archaeon BRNA1', 'Methylotenera versatilis 301', 'Psychrobacter sp. TB67', 'Grimontia indica', 'Nocardia sp. BMG51109', 'Ensifer sp. BR816', 'Azospirillum baldaniorum', 'Amycolatopsis halophila YIM 93223', 'Aspergillus luchuensis IFO 4308', 'Halonotius sp. J07HN4', 'Bacillus sp. NSP22.2', 'Tetrapisispora blattae', 'Caballeronia grimmiae', 'Lachancea dasiensis CBS 10888', 'Porticoccus hydrocarbonoclasticus MCTG13d', 'Armillaria solidipes', 'Pantoea rwandensis', 'Thiolapillus brandeum', 'Acetobacter okinawensis JCM 25146', 'Staphylococcus sp. HGB0015', 'Paenisporosarcina sp. HGH0030', 'Streptomyces sp. HGB0020', 'Parabacteroides sp. HGS0025', 'Bacteroides sp. HPS0048', 'Coprococcus sp. HPP0074', 'Coprococcus sp. HPP0048', 'Serinicoccus profundi MCCC 1A05965', 'Haemophilus sputorum CCUG 13788', 'Paenibacillus sp. HGH0039', 'Corynebacterium sp. HFH0082', 'Rhizobium mesoamericanum STM3625', 'Leucobacter chromiiresistens JG 31', 'Citrobacter sp. S-77', 'Saccharomyces eubayanus', 'Candidatus Aquiluna sp. IMCC13023', 'Hepatospora eriocheir', 'Enterospora canceri', 'Aquimarina agarilytica ZC1', 'Bartonella sp. DB5-6', 'Streptococcus sp. SK140', 'Streptococcus sp. SK643', 'Methylobacterium sp. GXF4', 'Arthrobacter sp. PAO19', 'Burkholderia sp. YI23', 'Coprobacter fastidiosus NSB1', 'Limnohabitans sp. Rim28', 'Limnohabitans sp. Rim47', 'Arthrobacter sp. MA-N2', 'Paracoccus sp. N5', 'Methylopila sp. M107', 'Methylobacterium sp. 10', 'Methylobacterium sp. 77', 'Methylophilaceae bacterium 11', 'Pyrobaculum ferrireducens', 'Actinomyces sp. ICM39', 'Clostridium sp. MSTE9', 'Rickettsia philipii str. 364D', 'Paenirhodobacter enshiensis', 'Penicillium rubens', 'Thermus sp. CCB_US3_UF1', 'Metallosphaera yellowstonensis MK1', 'Atopobium sp. BV3Ac4', 'Propionimicrobium sp. BV2F7', 'Peptoniphilus sp. BV3C26', 'Coriobacteriaceae bacterium BV3Ac1', 'Megasphaera sp. BV3C16-1', 'Psychrobacter sp. PAMC 21119', 'Sphingomonas sp. PAMC 26605', 'Sphingomonas sp. PAMC 26617', 'Methylophilus sp. 5', 'Arthrobacter sp. 31Y', 'Hoeflea sp. 108', 'Vibrio sp. EJY3', 'Elizabethkingia anophelis NUHP1', 'Brevibacillus massiliensis', 'Actinomyces sp. ph3', 'Halomonas sp. GFAJ-1', 'Arthrobacter sp. Rue61a', 'Rhizobium grahamii CCGE 502', 'Sphingopyxis sp. LC363', 'Methylopila sp. 73B', 'Mycobacterium sp. 141', 'Actinomadura flavalba DSM 45200', 'Corynebacterium doosanense CAU 212 = DSM 45436', 'Gordonia kroppenstedtii DSM 45133', 'Fodinicurvata fenggangensis DSM 21160', 'Fodinicurvata sediminis DSM 21159', 'Halomonas zhanjiangensis DSM 21076', 'Hirschia maritima DSM 19733', 'Pedobacter oryzae DSM 19973', 'Ponticaulis koreensis DSM 19734', 'Rubellimicrobium mesophilum DSM 19309', 'Thiomicrorhabdus sp. Kp2', 'Gonapodya prolifera JEL478', 'SAR86 cluster bacterium SAR86A', 'SAR86 cluster bacterium SAR86B', 'Magnetococcus marinus MC-1', 'Treponema sp. JC4', 'Pseudomonas sp. P179', 'Limimaricola cinnabarinus LL-001', 'Bosea sp. 117', 'Bradyrhizobium sp. DOA9', 'Paenibacillus beijingensis', 'Bacillus sp. JS', 'Paraglaciecola arctica BSs20135', 'Weissella oryzae SG25', 'Marine Group I thaumarchaeote SCGC AB-629-I23', 'Nitrospina sp. AB-629-B18', 'Dehalobacter sp. CF', 'Sphaerochaeta globosa str. Buddy', 'Sphaerochaeta pleomorpha str. Grapes', 'Flavobacterium sp. 83', 'Methylobacterium sp. 88A', 'Xanthobacter sp. 126', 'Arthrobacter sp. 35W', 'Bacillus sp. 37MA', 'Rhizobium sp. CCGE 510', 'Melioribacter roseus P3M-2', 'Alkalihalobacillus ligniniphilus', 'Cellvibrio sp. BR', 'Klebsiella michiganensis E718', 'Nocardiopsis sp. CNT312', 'Streptomyces sp. CNH099', 'Saccharomonospora sp. CNQ490', 'Xanthomarina gelatinilytica', 'Endozoicomonas numazuensis', 'Clostridium arbusti SL206', 'Mycobacterium paraintracellulare', 'Lactobacillus curieae', 'Pseudomassariella vexata', 'Homolaphlyctis polyrhiza', 'Novosphingobium sp. AP12', 'Sphingobium sp. AP49', 'Rhizobium sp. CF080', 'Rhizobium sp. CF122', 'Flavobacterium sp. CF136', 'Herbaspirillum sp. CF444', 'Pseudomonas sp. GM21', 'Herbaspirillum sp. YR522', 'Phyllobacterium sp. YR531', 'Tritrichomonas foetus', 'Acinetobacter sp. CIP 101934', 'Acinetobacter sp. CIP 101966', 'Acinetobacter sp. CIP 102082', 'Acinetobacter sp. CIP 102129', 'Acinetobacter sp. CIP 102136', 'Acinetobacter sp. CIP 102143', 'Acinetobacter sp. CIP 102159', 'Acinetobacter sp. CIP 102529', 'Acinetobacter sp. CIP 102637', 'Acinetobacter sp. CIP 51.11', 'Acinetobacter sp. CIP 53.82', 'Acinetobacter sp. CIP 56.2', 'Acinetobacter sp. CIP 64.7', 'Acinetobacter sp. CIP A162', 'Lysinibacillus varians', 'Dehalobacter sp. DCA', 'Ornithinibacillus scapharcae TW25', 'Achromobacter arsenitoxydans SY8', 'Acinetobacter oleivorans DR1', 'Geminisphaera colitermitum TAV2', 'Pseudomonas furukawaii', 'Arthrobacter sp. 9MFCol3.1', 'Leifsonia sp. 109', 'Tsukamurella sp. 1534', 'Arthrobacter sp. 161MFSha2.1', 'Arthrobacter sp. 162MFSha1.1', 'Microbacterium sp. 292MF', 'Nematocida sp. 1 ERTm2', 'Streptomyces sp. LaPpAH-108', 'Streptomyces sp. MspMP-M5', 'Moorea producens 3L', 'Streptococcus sp. I-G2', 'Streptococcus sp. I-P16', 'Streptomyces sp. HmicA12', 'Tumebacillus flagellatus', 'Streptomyces sp. LaPpAH-95', 'Streptomyces sp. Amel2xE9', 'Streptomyces sp. ATexAB-D23', 'Streptomyces sp. BoleA5', 'Streptomyces sp. PsTaAH-124', 'Streptomyces sp. FxanaC1', 'Mycobacterium sp. 155', 'Thermotoga sp. Cell2', 'Thermotoga sp. 2812B', 'Arthrobacter sp. 135MFCol5.1', 'Thioalkalivibrio sp. ALJT', 'Thioalkalivibrio sp. ALD1', 'Thioalkalivibrio sp. ALMg11', 'Thioalkalivibrio sp. ALE31', 'Thiomonas sp. FB-Cd', 'Prevotella sp. 10(H)', 'Desulfurobacterium sp. TC5-1', 'Persephonella sp. IF05-L8', 'Persephonella sp. KM09-Lau-8', 'Kosakonia sacchari SP1', 'Thioalkalivibrio sp. ALJ7', 'Thioalkalivibrio sp. ALJ11', 'Thioalkalivibrio sp. ALJ16', "Leptospirillum sp. Group II 'C75'", 'Ustilaginoidea virens', 'Bordetella sp. FB-8', 'Nocardia sp. BMG111209', 'Brucella sp. 63/311', 'Ruminococcus bicirculans', 'Candidatus Nasuia deltocephalinicola str. NAS-ALF', 'Euryhalocaulis caribicus', 'Streptococcus sp. ACC21', 'Ruminococcus champanellensis 18P13 = JCM 17042', 'Pseudomonas donghuensis', 'Clostridium sp. 12(A)', 'Cronobacter condimenti 1330', 'Richelia intracellularis HH01', 'Imtechella halotolerans K1', 'Methylotenera sp. 73s', 'Sulfurovum sp. AR', 'Enterobacter sp. R4-368', 'Halomonas xinjiangensis', 'Draconibacterium orientale', 'Xanthobacteraceae bacterium 501b', 'Mycobacterium sp. MOTT36Y', 'Mycobacterium sp. H4Y', 'Streptomyces pratensis ATCC 33331', 'Bacillus sp. 123MFChir2', 'Nocardia sp. CNY236', 'Streptomyces sp. CNT372', 'Streptomyces sp. CNY243', 'Brucella sp. F5/06', 'Brucella sp. 56/94', 'Citrobacter sp. KTE30', 'Escherichia sp. KTE114', 'Citrobacter sp. KTE151', 'Escherichia sp. KTE11', 'Escherichia sp. KTE31', 'Citrobacter sp. KTE32', 'Vitrella brassicaformis CCMP3155', 'Rhodobacteraceae bacterium PD-2', 'Streptomyces sp. 142MFCol3.1', 'Streptomyces sp. 351MFTsu5.1', 'Streptomyces sp. 303MFCol5.2', 'Nocardia sp. 348MFTsu5.1', 'Mycobacterium sp. 360MFTsu5.1', 'Terracoccus sp. 273MFTsu3.1', 'Oxytricha trifallax', 'Sulfurimonas hongkongensis', 'Catenovulum agarivorans DS-2', 'Fischerella sp. PCC 9431', 'Fischerella sp. PCC 9605', 'Geitlerinema sp. PCC 7407', 'Gloeocapsa sp. PCC 7428', 'Microcoleus sp. PCC 7113', 'Oscillatoria sp. PCC 10802', 'Chamaesiphon minutus PCC 6605', 'Synechococcus sp. PCC 7502', 'Leptolyngbya sp. PCC 6406', 'Colletotrichum sublineola', 'Fischerella sp. PCC 9339', 'Sphingopyxis sp. MC1', 'Herbaspirillum sp. GW103', 'Methanocella conradii HZ254', 'Methanocella arvoryzae MRE50', 'Peptoniphilus rhinitidis 1-13', 'Sulfurimonas gotlandica GD1', 'Agrobacterium fabrum str. C58', 'Alcanivorax nanhaiticus', 'Microbacterium sp. C448', 'Komagataeibacter medellinensis NBRC 3288', 'Halomonas huangheensis', 'Bacillus xiamenensis', 'Bacillus zhangzhouensis', 'Arenitalea lutea', 'Candidatus Photodesmus blepharus', 'Mycoplasma feriruminatoris', 'Pseudomonas sp. M47T1', 'Cladophialophora psammophila', 'Deinococcus swuensis', 'Escherichia sp. KTE52', 'Klebsiella sp. KTE92', 'Escherichia sp. KTE96', 'Escherichia sp. KTE159', 'Myroides injenensis M09-0166', 'Pyrococcus sp. ST04', 'Mesotoga prima MesG1.Ag.4.2', 'Thioclava dalianensis', 'Blattabacterium sp. (Blaberus giganteus)', 'Rhodovulum sp. PH10', 'Flavobacterium sp. ACAM 123', 'Burkholderia sp. lig30', 'Lactobacillus hokkaidonensis JCM 18461', 'Snodgrassella alvi', 'Gilliamella apicola', 'Corvus moneduloides', 'Clostridium sp. Maddingley MBC34-26', 'Paenibacillus sp. OSY-SE', 'Mangrovimonas yunxiaonensis', 'Arthrobacter sp. M2012083', 'Janthinobacterium sp. HH01', 'Thermogladius calderae 1633', 'Anaerovibrio sp. RM50', 'Ruminobacter sp. RM87', 'Bacteriovorax sp. Seq25_V', 'Bacteriovorax sp. BAL6_X', 'Flavobacterium sp. F52', 'Lactobacillus oryzae JCM 18671', 'Halopiger salifodinae', 'Achlya hypogyna', 'Lactobacillus hominis DSM 23910 = CRBIP 24.179', 'Geobacter daltonii FRC-32', 'Acidaminococcus sp. HPA0509', 'Actinomyces sp. HPA0247', 'Corynebacterium sp. KPL1814', 'Corynebacterium sp. KPL1817', 'Corynebacterium sp. KPL1818', 'Corynebacterium sp. KPL1821', 'Corynebacterium sp. KPL1824', 'Corynebacterium sp. KPL1855', 'Corynebacterium sp. KPL1856', 'Corynebacterium sp. KPL1857', 'Corynebacterium sp. KPL1859', 'Corynebacterium sp. KPL1860', 'Dermabacter sp. HFH0086', 'Propionibacterium sp. HGH0353', 'Propionibacterium sp. KPL1838', 'Propionibacterium sp. KPL1844', 'Propionibacterium sp. KPL1852', 'Pseudomonas sp. HPB0071', 'Streptococcus sp. HPH0090', 'Streptomyces sp. HPH0547', 'Veillonella sp. HPA0037', 'Corynebacterium sp. KPL1986', 'Corynebacterium sp. KPL1989', 'Corynebacterium sp. KPL1995', 'Corynebacterium sp. KPL1996', 'Corynebacterium sp. KPL1998', 'Corynebacterium sp. KPL2004', 'Propionibacterium sp. KPL2005', 'Propionibacterium sp. KPL2009', 'Streptomyces sp. CNR698', 'Novosphingobium sp. MBES04', 'Pseudomonas sp. Lz4W', 'Gallaecimonas xiamenensis 3-C-1', 'Idiomarina xiamenensis 10-D-4', 'Sphingobium sp. C100', 'Hyphomonas sp. L-53-1-40', 'Pseudomonas sp. UW4', 'Marinomonas profundimaris', 'Celeribacter indicus', 'Commensalibacter sp. MX01', 'Colletotrichum orchidophilum', 'Streptomyces sp. AA0539', 'Gemmata massiliana', 'Pseudoxanthomonas sp. GW2', 'Chelatococcus sp. GW1', 'Dyadobacter tibetensis Y620-1', 'Enterobacteriaceae bacterium B14', 'Acidocella sp. MX-AZ02', 'Diaporthe ampelina', 'Thermus tengchongensis YIM 77401', 'Amphibacillus jilinensis Y1', 'Clostridium bornimense', 'Acinetobacter sp. NIPH 542', 'Acinetobacter sp. NIPH 298', 'Acinetobacter sp. CIP 64.2', 'Acinetobacter sp. NIPH 1847', 'Acinetobacter sp. NIPH 3623', 'Acinetobacter sp. CIP 110321', 'Acinetobacter sp. CIP 70.18', 'Acinetobacter sp. ANC 3880', 'Acinetobacter sp. NIPH 1867', 'Acinetobacter sp. ANC 4105', 'Acinetobacter sp. NIPH 284', 'Acinetobacter sp. ANC 3862', 'Acinetobacter sp. NIPH 2168', 'Acinetobacter sp. ANC 3929', 'Acinetobacter sp. NIPH 2100', 'Acinetobacter sp. NIPH 713', 'Acinetobacter sp. NIPH 899', 'Acinetobacter sp. NIPH 236', 'Acinetobacter sp. NIPH 758', 'Acinetobacter sp. ANC 3789', 'Cupriavidus sp. BIS7', 'Roseomonas sp. B5', 'Xylona heveae TC161', 'Octadecabacter antarcticus 307', 'Streptomyces sp. GBA 94-10', 'Brucella inopinata BO1', 'Lactobacillus mellifer', 'Lactobacillus kullabergensis', 'Lactobacillus helsingborgensis', 'Lactobacillus kimbladii', 'Lactobacillus melliventris', 'Lactobacillus mellis', 'Acinetobacter nectaris CIP 110549', 'Actinomyces sp. S4-C9', 'Arcanobacterium sp. S3PF19', 'Peptostreptococcus sp. MV1', 'Methanobacterium sp. Maddingley MBC34', 'Altibacter lentus', 'Corynebacterium humireducens NBRC 106098 = DSM 45392', 'Enterobacteriaceae bacterium LSJC7', 'Mangrovibacter sp. MFB070', 'Pantoea sp. A4', 'Dickeya sp. DW 0440', 'Oscillibacter sp. KLE 1728', 'Oscillibacter sp. KLE 1745', 'Blautia sp. KLE 1732', 'Clostridium sp. KLE 1755', 'Streptomyces rapamycinicus NRRL 5491', 'Actinomyces sp. oral taxon 877 str. F0543', 'Capnocytophaga sp. oral taxon 863 str. F0517', 'Leptotrichia sp. oral taxon 879 str. F0557', 'Prevotella sp. F0091', 'Paenibacillus sp. FSL H7-689', 'Paenibacillus sp. FSL R7-277', 'Leptolyngbya sp. KIOST-1', 'Sphingobacterium deserti', 'Flavobacterium sp. WG21', 'Cupriavidus sp. GA3-3', 'Alkalibacterium sp. AK22', 'Candidatus Nitrosopumilus sediminis', 'Salimicrobium jeotgali', 'Bradyrhizobium sp. DFCI-1', 'Flaviramulus ichthyoenteri Th78', 'Lachancea sp. CBS 6924', 'Lachancea mirantina', 'Paenisporosarcina sp. TG-14', 'Nitratireductor pacificus pht-3B', 'Thermotoga sp. Mc24', 'Lactobacillus shenzhenensis LY-73', 'Clohesyomyces aquaticus', 'Desulfuromonas sp. TF', 'Corynebacterium ihumii', 'Megasphaera massiliensis', 'Nesterenkonia massiliensis', 'Nosocomiicoccus massiliensis', 'Enorma timonensis', 'Desulfobacula sp. TS', 'Clostridiales bacterium VE202-13', 'Clostridiales bacterium VE202-18', 'Clostridiales bacterium VE202-09', 'Clostridiales bacterium VE202-08', 'Clostridiales bacterium VE202-14', 'Clostridiales bacterium VE202-21', 'Marinobacterium sp. AK27', 'Geobacillus sp. GHH01', 'Chryseobacterium sp. JM1', 'Chryseobacterium sp. FH1', 'Staphylococcus sp. E463', 'Pacificimonas flava', 'Gayadomonas joobiniege G7', 'Ralstonia sp. AU12-08', 'Eubacterium sp. 14-2', 'Lachnospiraceae bacterium M18-1', 'Lachnospiraceae bacterium MD335', 'Firmicutes bacterium M10-2', 'Oscillibacter sp. 1-3', 'Dorea sp. 5-2', 'Lachnospiraceae bacterium MD308', 'Lachnospiraceae bacterium 10-1', 'Parabacteroides sp. ASF519', 'Anaerotruncus sp. G3(2012)', 'Candidatus Pantoea carbekii', 'Haloquadratum sp. J07HQX50', 'Halonotius sp. J07HN6', 'Halorubrum sp. J07HR59', 'Sodalis praecaptivus', 'Dokdonia sp. PRO95', 'Bacillus massiliogorillae', 'Luteimonas huabeiensis HB2', 'Campylobacter iguaniorum', 'Magnetospirillum caucaseum', 'Mariniradius saccharolyticus AK6', 'Lachancea lanzarotensis', 'Borreliella chilensis', 'Nocardiopsis potens DSM 45234', 'Rhizobium sp. 2MFCol3.1', 'Halobacillus sp. BAB-2008', 'Paramicrosporidium saccamoebae', 'Arsenophonus endosymbiont str. Hangzhou of Nilaparvata lugens', 'Microbacterium sp. UCD-TDU', 'Parvularcula oceani', 'Blastomonas sp. AAP53', 'Sandarakinorhabdus sp. AAP62', 'Porphyrobacter sp. AAP82', 'Candidatus Sulfuricurvum sp. RIFRC-1', 'Imhoffiella purpurea', 'Gillisia sp. Hel_I_29', 'Maribacter sp. Hel_I_7', 'Polaribacter sp. Hel1_85', 'Polaribacter sp. Hel_I_88', 'Muricauda sp. MAR_2010_75', 'Salegentibacter sp. Hel_I_6', 'Pseudomonas sp. FGI182', "Leptospirillum sp. Group IV 'UBA BS'", 'Streptomyces sp. 769', 'Phascolarctobacterium sp. CAG:207', 'Phascolarctobacterium sp. CAG:266', 'Oscillibacter ruminantium GH1', 'Edwardsiella piscicida C07-087', 'Candidatus Endolissoclinum faulkneri L2', 'Pseudomonas sp. URMO17WK12:I8', 'Streptomyces sp. PAMC 26508', 'Nafulsella turpanensis ZLM-10', 'Lysinibacillus manganicus DSM 26584', 'Thioalkalivibrio sp. ALE6', 'Thioalkalivibrio sp. ALE19', 'Thioalkalivibrio sp. AKL19', 'Frischella perrara', 'Sediminibacterium sp. C3', 'Acidobacteriaceae bacterium KBS 83', 'Acidobacteriaceae bacterium KBS 89', 'Pantoea sp. IMH', 'Pseudomonas sp. G5(2012)', 'Peptoniphilus timonensis JC401', 'Rhodococcus sp. AW25M09', 'Acidovorax sp. MR-S7', 'Thioalkalivibrio sp. ALR17-21', 'Flavobacterium sp. KJJ', 'Pedobacter sp. R20-19', 'Megasphaera sp. NM10', 'Liberibacter crescens BT-1', 'Mycobacterium sp. VKM Ac-1817D', 'Paenibacillus antibioticophila', 'Candidatus Hepatobacter penaei', 'Acidovorax sp. JHL-9', 'Escherichia sp. KTE172', 'Hippea alviniae EP5-r', 'Synechococcus sp. KORDI-100', 'Gorillibacterium massiliense', 'Butyrivibrio sp. AE2015', 'Butyrivibrio sp. VCD2006', 'Butyrivibrio sp. AE3009', 'Butyrivibrio sp. XPD2006', 'Butyrivibrio sp. FC2001', 'Butyrivibrio sp. AE3006', 'Prevotella sp. AGR2160', 'Butyrivibrio sp. WCD3002', 'Butyrivibrio sp. VCB2006', 'Butyrivibrio sp. LC3010', 'Butyrivibrio sp. WCD2001', 'Butyrivibrio sp. XBB1001', 'Butyrivibrio sp. NC3005', 'Butyrivibrio sp. MC2013', 'Meira miltonrushii', 'Hyphomonas pacifica', 'Hyphomonas sp. CY54-11-8', 'Hyphomonas beringensis', 'Hyphomonas chukchiensis', 'Hyphomonas atlantica', 'Asticcacaulis sp. AC460', 'Asticcacaulis sp. AC402', 'Asticcacaulis sp. AC466', 'Frankia sp. Iso899', 'Tolumonas lignilytica', 'Nocardioides sp. Iso805N', 'Paenibacillus sp. A9', 'Planktomarina temperata RCA23', 'Actinomyces sp. S6-Spd3', 'Tissierellia bacterium S7-1-4', 'Prevotella sp. S7-1-8', 'Pandoraea sp. SD6-2', 'Brachyspira hampsonii 30446', 'Mesorhizobium sp. L2C084A000', 'Mesorhizobium sp. LNJC398B00', 'Prevotella sp. S7 MS 2', 'Bacillus massiliosenegalensis JC6', 'Achromobacter insuavis AXX-A', 'Arcticibacter svalbardensis MN12-7', 'Streptomyces sp. CNT318', 'Streptomyces sp. TAA040', 'Anaerococcus senegalensis JC48', 'Alistipes senegalensis JC50', 'Actinomyces timonensis DSM 23838', 'Nitrosospira lacus', 'Magnetospira sp. QH-2', 'Streptomyces sp. TAA204', 'Candidatus Methanomethylophilus alvus Mx1201', 'Dietzia sp. UCD-THP', 'Kocuria sp. UCD-OTCP', 'Leucobacter sp. UCD-THU', 'Halopiger djelfimassiliensis', 'Halopiger goleimassiliensis', 'Pseudomonas sp. ATCC 13867', 'Photobacterium gaetbulicola Gung47', 'Thermodesulfobacterium geofontis OPF15', 'Parageobacillus genomosp. 1', 'Aquimarina pacifica', 'Mesorhizobium sp. STM 4661', 'Intestinimonas butyriciproducens', 'Myxococcus hansupus', 'Afipia sp. OHSU_I-C4', 'Bradyrhizobium sp. OHSU_III', 'Psychrobacter sp. JCM 18900', 'Mesorhizobium sp. URHA0056', 'Microbacterium sp. URHA0036', 'Marmoricola sp. URHB0036', 'Mycobacterium sp. URHD0025', 'Alteromonas sp. ALT199', 'Bradyrhizobium sp. URHA0002', 'Streptomyces sp. TAA486', 'Methanocaldococcus bathoardescens', 'Caldisalinibacter kiritimatiensis', 'Cellulomonas sp. KRMCY2', 'Clostridium sp. ASBs410', 'Geovibrio sp. L21-Ace-BES', 'Microbacterium sp. KROCY2', 'Oceanicola sp. HL-35', 'Marinobacter nanhaiticus D15-8W', 'Sporosarcina sp. EUR3 2.2.2', 'Alcanivorax pacificus W11-5', 'Termitomyces sp. J132', 'Streptomyces hokutonensis', 'Desulfohalovibrio reitneri', 'Salinispira pacifica', 'Arthrobacter sp. Br18', 'Arthrobacter sp. H14', 'Thermocrinis sp. GBS', 'Aureispira sp. CCB-QB1', 'Peniophora sp. CONT', 'Perkinsela sp. CCAP 1560/4', 'Streptococcus sp. HSISM1', 'Streptococcus sp. HSISB1', 'Streptococcus sp. HSISS1', 'Streptococcus sp. HSISS2', 'Streptococcus sp. HSISS3', 'Enterococcus sp. HSIEG1', 'Blattabacterium sp. (Nauphoeta cinerea)', 'Archaeoglobus sulfaticallidus PM70-1', 'Aquimarina atlantica', 'Thioclava atlantica', 'Candidatus Mycoplasma girerdii', 'Mesorhizobium sp. NBIMC_P2-C3', 'Clostridiales bacterium oral taxon 876 str. F0540', 'Mitsuokella sp. oral taxon 131 str. W9106', 'Peptostreptococcaceae bacterium oral taxon 113 str. W5053', 'Selenomonas sp. oral taxon 892 str. F0426', 'Rhodococcus defluvii', 'Mycobacterium sp. TKK-01-0059', 'Serratia sp. FS14', 'Prolemur simus', 'Thermoactinomyces daqus', 'Enterobacter sp. MGH 1', 'Enterobacter sp. MGH 3', 'Enterobacter sp. MGH 6', 'Enterobacter sp. MGH 7', 'Enterobacter sp. MGH 10', 'Enterobacter sp. MGH 15', 'Enterobacter sp. MGH 22', 'Enterobacter sp. MGH 23', 'Enterobacter sp. MGH 24', 'Enterobacter sp. MGH 25', 'Enterobacter sp. MGH 33', 'Enterobacter sp. MGH 37', 'Enterobacter sp. MGH 38', 'Enterobacter sp. BWH 37', 'Enterobacter sp. BIDMC 26', 'Enterobacter sp. BIDMC 27', 'Enterobacter sp. BIDMC 28', 'Enterobacter sp. BIDMC 29', 'Enterobacter sp. BIDMC 30', 'Novosphingobium lindaniclasticum LE124', 'Cycloclasticus zancles 78-ME', 'Thermus caliditerrae', 'Auricularia subglabra TFB-10046 SS5', 'Sphingobium baderi LL03', 'Candidatus Saccharimonas aalborgensis', 'Salinarchaeum sp. Harcht-Bsk1', 'Bifidobacterium moukalabense DSM 27321', 'Tepidicaulis marinus', 'Spiribacter salinus M19-40', 'Spiribacter curvatus', 'Sphingobium bisphenolivorans', 'Polaribacter sp. Hel1_33_49', 'Calothrix sp. 336/3', 'Bacillus sp. UNC438CL73TsuS30', 'Luminiphilus syltensis NOR5-1B', 'Flavobacterium enshiense DK69', 'Brucella sp. 04-5288', 'Sulfitobacter geojensis', 'Sulfitobacter noctilucicola', 'Sulfitobacter noctilucae', 'Saccharibacter sp. AM169', 'Epichloe mollis', 'Winogradskyella psychrotolerans RS-3', 'Halomonas sp. A3H3', 'Bacillus sp. EB01', 'Paucisalibacillus sp. EB02', 'Bacillus ndiopicus', 'Bacillus dielmoensis', 'Anaerosalibacter massiliensis', 'Bacteroides neonati', 'Pseudoalteromonas piratica', 'Arthrobacter sp. AK-YN10', 'Cyclobacterium qasimii M12-11B', 'Synechococcus sp. UTEX 2973', 'Thioclava indica', 'Bacteriovorax sp. BSW11_IV', 'Peptoniphilus mikwangii', 'Roseovarius sp. MCTG156(2b)', 'Arcobacter sp. AF1028', 'Arcobacter lanthieri', 'Bradyrhizobium diazoefficiens USDA 110', 'Rhodococcus sp. PML026', 'Hymenobacter sp. APR13', 'Batrachochytrium salamandrivorans', 'Lutibaculum baratangense AMV1', 'Thermofilum adornatum', 'Zygosaccharomyces parabailii', 'Rhodobacteraceae bacterium HIMB11', 'Fonsecaea erecta', 'Mycobacterium sp. UM_WGJ', 'Mycobacterium sp. UM_WWY', 'Firmicutes bacterium ASF500', 'Dyella jiangningensis', 'Gemmatimonas phototrophica', 'Desulfonauticus sp. A7A', 'Sphingomonas sp. FUKUSWIS1', 'Methanobacterium sp. MB1', 'Spirosoma radiotolerans', 'Streptomyces sp. URHA0041', 'Geodermatophilaceae bacterium URHB0048', 'Mesorhizobium sp. URHC0008', 'Cellulomonas sp. URHE0023', 'Bradyrhizobium sp. URHD0069', 'Blastococcus sp. URHD0036', 'Halomonas sp. 23_GOM-1509m', 'Sulfitobacter sp. 20_GPM-1509m', 'Intrasporangiaceae bacterium URHB0013', 'Ahrensia sp. 13_GOM-1096m', 'Tenacibaculum sp. 47A_GOM-205m', 'Mycobacterium sp. URHB0044', 'Alcanivorax sp. 43B_GOM-46m', 'Solirubrobacterales bacterium URHD0059', 'Dongia sp. URHE0060', 'Geodermatophilaceae bacterium URHA0031', 'Rhodospirillales bacterium URHD0088', 'Paenibacillus darwinianus', 'Streptomycetaceae bacterium MP113-05', 'Aliihoeflea sp. 2WW', 'Brevibacterium sp. VCM10', 'Caulobacteraceae bacterium PMMR1', 'Sporosarcina sp. D27', 'Thermogemmatispora carboxidivorans', 'Thermorudis peleae', 'Acidobacterium ailaaui', 'Methyloceanibacter caenitepidi', 'Francisella sp. W12-1067', 'Lysobacter arseniciresistens ZS79', 'Hymenobacter sp. DG25B', 'Leptolyngbya sp. Heron Island J', 'Exiguobacterium chiriqhucha RW-2', 'Sphingobacterium paucimobilis HER1398', 'Methylophilus sp. OH31', 'Staphylococcus sp. M0480', 'Clostridium sp. Ade.TY', 'Pseudogymnoascus sp. VKM F-3808', 'Kalmanozyma brasiliensis', 'Prevotella sp. HUN102', 'Eubacterium sp. AB3007', 'Flavimarina sp. Hel_I_48', 'Leeuwenhoekiella sp. MAR_2009_132', 'Sediminibacter sp. Hel_I_10', 'Ruminococcaceae bacterium AE2021', 'Lachnospiraceae bacterium AC2031', 'Bifidobacterium sp. 7101', 'Bifidobacterium sp. A11', 'Candidatus Saccharibacteria bacterium RAAC3_TM7_1', 'Thermosynechococcus sp. NK55a', 'Paenibacillus sp. MAEPY2', 'Haloferula sp. BvORR071', 'Verrucomicrobium sp. BvORR034', 'Marinobacter sp. ES-1', 'Leucobacter sp. PH1c', 'Serratia sp. H1n', 'Alcanivorax sp. P2S70', 'Halomonas sp. PBN3', 'Candidatus Micropelagos thuwalensis', 'Exiguobacterium sp. MH3', 'Ophiocordyceps australis', 'Bacteroidales bacterium CF', 'Flavobacterium limnosediminis JC2902', 'Sulfitobacter pseudonitzschiae', 'Streptomyces sp. A02', 'Verrucomicrobium sp. BvORR106', 'Corynebacterium glyciniphilum AJ 3170', 'Candidatus Methanomassiliicoccus intestinalis Issoire-Mx1', 'Synechococcus sp. NKBG15041c', 'Betaproteobacteria bacterium MOLA814', 'Bacillus sp. MB2021', 'Butyrivibrio sp. FCS014', 'Butyrivibrio sp. MC2021', 'Prevotella sp. MA2016', 'Oribacterium sp. FC2011', 'Pseudobutyrivibrio sp. LB2011', 'Lachnospiraceae bacterium AC2028', 'Lachnospiraceae bacterium AC3007', 'Lachnospiraceae bacterium MA2020', 'Lachnospiraceae bacterium MC2017', 'Youngiibacter fragilis 232.1', 'Candidatus Tachikawaea gelatinosa', 'Candidatus Nitrosopelagicus brevis', 'Bacteroides sp. Ga6A2', 'Treponema sp. C6A8', 'Oribacterium sp. P6A1', 'Prevotella sp. P6B1', 'Pseudobutyrivibrio sp. MD2005', 'Ruminococcus sp. FC2018', 'Selenomonas sp. ND2010', 'Serratia sp. DD3', 'Shinella sp. DD12', 'Lachnospiraceae bacterium C6A11', 'Lachnospiraceae bacterium FE2018', 'Lachnospiraceae bacterium MD2004', 'Lachnospiraceae bacterium NC2004', 'Lachnospiraceae bacterium ND2006', 'Lachnospiraceae bacterium P6A3', 'Lachnospiraceae bacterium P6B14', 'Lachnospiraceae bacterium V9D3004', 'Lachnospiraceae bacterium YSB2008', 'Propionibacteriaceae bacterium P6A17', 'Ruminococcaceae bacterium AB4001', 'Methyloglobulus morosus KoM1', 'Rhizobiales bacterium YIM 77505', 'Gammaproteobacteria bacterium MOLA455', 'Corynebacterium jeddahense', 'Clostridium saudiense', 'Pseudomonas sp. TKP', 'Candidatus Walczuchella monophlebidarum', 'Marinobacter sp. MCTG268', 'Halomonas sp. TG39a', 'Oceanicola sp. MCTG156(1a)', 'Gloeobacter kilaueensis JS1', 'Defluviimonas sp. 20V17', 'Streptococcus sp. VT 162', 'Pseudogymnoascus sp. VKM F-3775', 'Pseudogymnoascus sp. VKM F-4246', 'Pseudogymnoascus sp. VKM F-4281 (FW-2241)', 'Pseudogymnoascus sp. VKM F-4513 (FW-928)', 'Pseudogymnoascus sp. VKM F-4514 (FW-929)', 'Pseudogymnoascus sp. VKM F-4515 (FW-2607)', 'Pseudogymnoascus sp. VKM F-4516 (FW-969)', 'Pseudogymnoascus sp. VKM F-4517 (FW-2822)', 'Pseudogymnoascus sp. VKM F-103', 'Pseudogymnoascus sp. VKM F-4518 (FW-2643)', 'Pseudogymnoascus sp. VKM F-4519 (FW-2642)', 'Pseudogymnoascus sp. VKM F-4520 (FW-2644)', 'Marinobacter similis', 'Marinobacter salarius', 'Kurthia huakuii LAM0618', 'Bacillus sp. SJS', 'Hyphomicrobium nitrativorans NL23', 'Candidatus Entotheonella factor', 'Candidatus Entotheonella gemina', 'Afipia sp. P52-10', 'Geobacillus icigianus', 'Candidatus Halobonum tyrrellensis G22', 'Mannheimia sp. USDA-ARS-USMARC-1261', 'Mucinivorans hirudinis', 'Methanosarcina sp. Kolksee', 'Methanosarcina sp. MTP4', 'Methanosarcina sp. WH1', 'Methanosarcina sp. WWM596', 'Acinetobacter bohemicus ANC 3994', 'Alcanivorax sp. 97CO-5', 'Candidatus Symbiobacter mobilis CR', 'Pseudogymnoascus sp. VKM F-3557', 'Citrobacter sp. MGH 55', 'Pseudomonas sp. BAY1663', 'Talaromyces atroroseus', 'Clostridium sp. K25', 'Aquimarina megaterium XH134', 'Candidatus Protochlamydia massiliensis', 'Candidatus Rubidus massiliensis', 'Xylella taiwanensis', 'Gynuella sunshinyii YC6258', 'Sciscionella sp. SE31', 'Hymenobacter swuensis DY53', 'Bacillus sp. Pc3', 'Campylobacter corcagiensis', 'Halobellus rufus', 'Arthrobacter sp. UNC362MFTsu5.1', 'Mycobacterium sp. UNC280MFTsu5.1', 'Caulobacter sp. UNC358MFTsu5.1', 'Clostridium sp. KNHs205', 'Microbacterium sp. UNCCL10', 'Paenibacillus sp. UNC451MF', 'Phyllobacterium sp. UNC302MFCol5.2', 'Rhodococcus sp. UNC23MFCrub1.1', 'Rhodococcus sp. UNC363MFTsu5.1', 'Sphingomonas sp. UNC305MFCol5.2', 'Thermus amyloliquefaciens', 'Bacillus sp. TS-2', 'Microbacterium sp. MRS-1', 'Microbacterium sp. Cr-K32', 'Microbacterium sp. Cr-K20', 'Pseudomonas sp. RL', 'Chryseobacterium hispalense DSM 25574', 'Microbulbifer sp. HZ11', 'Candidatus Accumulibacter sp. BA-93', 'Cellulomonas sp. HZM', 'Chlamydia avium 10DC88', 'Chlamydia gallinacea 08-1274/3', 'Halapricum salinum', 'Caballeronia jiangsuensis', 'Serpentinomonas raichei', 'Serpentinomonas mccroryi', 'Candidatus Phaeomarinobacter ectocarpi', 'Lachnospiraceae bacterium AC2029', 'Candidatus Nitrososphaera evergladensis SR1', 'Geomicrobium sp. JCM 19037', 'Geomicrobium sp. JCM 19038', 'Bacillus sp. JCM 19046', 'Paraphaeosphaeria sporulosa', 'Weeksella massiliensis', 'Haemophilus massiliensis', 'Neobacillus jeddahensis', 'Jeotgalicoccus saudimassiliensis', 'Metalysinibacillus saudimassiliensis', 'Actibacterium atlanticum', 'Pseudooceanicola atlanticus', 'Pseudoalteromonas sp. SCSIO_11900', 'Virgibacillus massiliensis', 'Oceanobacillus jeddahense', 'Brucella papionis', 'Klebsiella quasipneumoniae subsp. quasipneumoniae UCICRE 14', 'Actinosporangium sp. NRRL B-3428', 'Glycomyces sp. NRRL B-16210', 'Saccharothrix sp. NRRL B-16314', 'Streptomyces sp. NRRL F-2580', 'Streptomyces sp. NRRL F-2890', 'Streptomyces sp. NRRL F-5008', 'Streptomyces sp. NRRL F-5053', 'Streptomyces sp. NRRL F-5065', 'Streptomyces sp. NRRL F-5123', 'Streptomyces sp. NRRL F-5126', 'Streptomyces sp. NRRL F-5135', 'Streptomyces sp. NRRL F-525', 'Streptomyces sp. NRRL F-5630', 'Streptomyces sp. NRRL F-6677', 'Streptomyces sp. NRRL S-118', 'Streptomyces sp. NRRL S-149', 'Streptomyces sp. NRRL S-1777', 'Streptomyces sp. NRRL S-237', 'Streptomyces sp. NRRL S-337', 'Streptomyces sp. NRRL S-340', 'Streptomyces sp. NRRL S-37', 'Streptomyces sp. NRRL S-474', 'Streptomyces sp. NRRL S-646', 'Streptomyces sp. NRRL S-87', 'Streptomyces sp. NRRL S-920', 'Streptomyces sp. NRRL WC-3626', 'Streptomyces sp. NRRL WC-3742', 'Streptomyces sp. NRRL WC-3773', 'Micromonospora parva', 'Aeromicrobium massiliense JC14', 'Peptoniphilus grossensis ph5', 'Peptoniphilus senegalensis JC140', "Oceanobacillus massiliensis str. N'diop", 'Paenibacillus senegalensis JC66', 'Clostridium senegalense JC122', 'Cellulomonas massiliensis JC225', 'Noviherbaspirillum massiliense JC206', 'Timonella senegalensis JC301', 'Burkholderia sp. 2002721687', 'Bacillus massilioanorexius AP8', 'Bartonella senegalensis OS02', 'Holdemania massiliensis AP2', 'Thioalkalivibrio sp. HK1', 'Burkholderiales bacterium GJ-E10', 'Lacinutrix jangbogonensis', 'Rhodovulum sp. NI22', 'Kineothrix alysoides', 'Alistipes ihumii AP11', 'Candidatus Stoquefichus massiliensis AP9', 'Clostridium ihumii AP5', 'Candidatus Blastococcus massiliensis AP3', 'Streptomyces sp. Tu 6176', 'Sphingomonas sp. RIT328', 'Pseudomonas sp. RIT357', 'Prochlorococcus sp. scB241_528O2', 'Prochlorococcus sp. scB245a_520K10', 'Talaromyces cellulolyticus', 'Basilea psittacipulmonis DSM 24701', 'Falsirhodobacter sp. alg1', 'Burkholderia sp. K24', 'Enorma massiliensis phI', 'Kallipyga massiliensis ph2', 'Senegalimassilia anaerobia JC110', 'Lysinibacillus sp. BF-4', 'Mizugakiibacter sediminis', 'Deinococcus phoenicis', 'Streptomyces sp. NRRL B-24720', 'Peptostreptococcaceae bacterium VA2', 'Halomonas sp. HL-48', 'Marinobacter sp. HL-58', 'Oceanicaulis sp. HL-87', 'Porphyrobacter sp. HL-46', 'Curtobacterium sp. S6', 'Spirochaeta lutea', 'Pantoea sp. PSNIH2', 'Pantoea sp. PSNIH1', 'Psychroserpens jangbogonensis', 'Exiguobacterium sp. AB2', 'Rhodoferax saidenbachensis ED16', 'Cadophora sp. DSE1049', 'Selenomonas sp. AE3005', 'Ferriphaselus sp. R-1', 'Ghiorsea bivora', 'Mitosporidium daphniae', 'Martelella endophytica', 'Candidatus Sodalis pierantonius str. SOPE', 'Clostridium sp. HMP27', 'Desulfosporosinus sp. HMP52', 'Corynebacterium sp. ATCC 6931', 'Pseudomonas sp. Ant30-3', 'Deinococcus sp. RL', 'Trichoderma guizhouense', 'Flavobacterium gilvum', 'Flavobacterium seoulense', 'Gammaproteobacteria bacterium MFB021', 'Arthrobacter sp. PAMC 25486', 'Mesoaciditoga lauensis cd-1655R = DSM 25116', 'Pseudomonas sp. WCS374', 'Penicillium cf. griseofulvum UFMGCB 6741', 'Candidatus Evansia muelleri', 'Cyanobium sp. CACIAM 14', 'Listeriaceae bacterium FSL A5-0209', 'Prochlorococcus sp. MIT 0601', 'Prochlorococcus sp. MIT 0602', 'Prochlorococcus sp. MIT 0701', 'Bacillus rubiinfantis', 'Clostridium sp. CL-6', 'Clostridium sp. CL-2', 'Bacillus andreraoultii', 'Pseudomonas saudiphocaensis', 'Clostridium amazonitimonense', 'Candidatus Moduliflexus flocculans', 'Candidatus Vecturithrix granuli', 'Paenibacillus sp. TCA20', 'Rhizobium sp. YR295', 'Rhizobium sp. YR519', 'Chryseobacterium sp. CF284', 'Rhizobium sp. CF097', 'Rhizobium sp. CF394', 'Rhizobium sp. OK494', 'Luteibacter sp. 9143', 'Luteibacter sp. 9135', 'Massilia sp. 9096', 'Burkholderia sp. 9120', 'Campylobacter sp. RM16704', 'Paenibacillus tyrfis', 'Prochlorococcus sp. MIT 0604', 'Prochlorococcus sp. MIT 0801', 'Oribacterium parvum ACB8', 'Oribacterium asaccharolyticum ACB7', 'Alistipes inops', 'Devosia sp. LC5', 'Methylotenera sp. L2L1', 'Pseudomonas sp. AAC', 'Sphingopyxis sp. LC81', 'Bosea sp. LC85', 'Massilia sp. LC238', 'Veillonella seminalis ACS-216-V-Col6b', 'Polaromonas sp. CG9_12', 'Halomonas sp. KO116', 'Chitinivibrio alkaliphilus ACht1', 'Blochmannia endosymbiont of Polyrhachis (Hedomyrma) turneri', 'Blochmannia endosymbiont of Camponotus (Colobopsis) obliquus', 'Candidatus Schmidhempelia bombi str. Bimp', 'Thermococcus eurythermalis', 'Flavobacterium sp. Fl', 'Butyrivibrio sp. AE3004', 'Rachicladosporium antarcticum', 'Jeotgalibacillus malaysiensis', 'Candidatus Arthromitus sp. SFB-mouse-NL', 'Acinetobacter sp. HR7', 'Pseudorhizobium pelagicum', 'Candidatus Nitrosopumilus koreensis AR1', 'Bosea sp. UNC402CLCol', 'Ruminococcus sp. HUN007', 'Sphingopyxis fribergensis', 'Porphyromonas sp. COT-239 OH1446', 'Porphyromonas sp. COT-290 OH860', 'Shewanella mangrovi', 'Idiomarina atlantica', 'Vibrio sp. ER1A', 'Porphyromonadaceae bacterium COT-184 OH4590', 'Anopheles coluzzii', 'Oscillibacter sp. ER4', 'Candidatus Thermochlorobacteriaceae bacterium GBChlB', 'Chloroflexus sp. MS-G', 'Sphingobium sp. ba1', 'Ceraceosorus guamensis', 'Pseudomonas sp. ML96', 'Serratia sp. Ag1', 'Planococcus sp. PAMC 21323', 'Rickettsiales bacterium Ac37b', 'Thalassospira australica', 'Acinetobacter seifertii', 'Palleronia rufa', 'Coriobacteriaceae bacterium 68-1-3', 'Torrubiella hemipterigena', 'Achromobacter sp. RTa', 'Rhizobium sp. YS-1r', 'Devosia sp. 17-2-E-8', 'Thalassotalea sp. ND16A', 'Paenibacillus sp. FSL P4-0081', 'Paenibacillus sp. FSL R5-0345', 'Paenibacillus sp. FSL R5-0912', 'Paenibacillus sp. FSL R7-0273', 'Paenibacillus sp. FSL R7-0331', 'Paenibacillus sp. FSL H7-0357', 'Paenibacillus sp. FSL H7-0737', 'Sphingopyxis sp. MWB1', 'Sulfurospirillum sp. SCADC', 'Sulfuricurvum sp. MLSB', 'Alteromonas sp. LOR', 'Micromonospora sp. HK10', 'Aquabacterium sp. NJ1', 'Sphingobacterium sp. ML3W', 'Treponema sp. OMZ 838', 'Deinococcus sp. YIM 77859', 'Clostridium sp. KNHs214', 'Myxosarcina sp. GI1', 'Candidatus Izimaplasma sp. HR1', 'Candidatus Izimaplasma sp. HR2', 'Oleiagrimonas soli', 'Lactobacillus sp. wkB10', 'Lactobacillus sp. wkB8', 'Sphingomonas sp. 35-24ZXX', 'Hoeflea sp. BAL378', 'Francisella sp. FSC1006', 'Helicobacter sp. MIT 11-5569', 'Campylobacter sp. MIT 97-5078', 'Sphingomonas taxi', 'Sphingomonas sp. 37zxx', 'Sphingobacteriaceae bacterium DW12', 'Thermofilum uzonense', 'Listeria booriae', 'Caenorhabditis tropicalis', 'Fermentimonas caenicola', 'Rhodococcus sp. B7740', 'Shewanella sp. ECSMB14101', 'Sulfurospirillum sp. MES', 'Rugosibacter aromaticivorans', 'Bacillus sp. X1(2014)', 'Paenibacillus sp. IHBB 10380', 'Paracoccus sp. PAMC 22219', 'Phaeobacter sp. S60', 'Jaminaea rosea', 'Bacillus sp. BH072', 'Bacillus sp. YP1', 'Candidatus Methanoplasma termitum', 'Dickeya undicola', 'Nitrosopumilus adriaticus', 'Pseudomonas sp. HMSC05H02', 'Neisseria sp. HMSC06F02', 'Candidatus Methylopumilus planktonicus', 'Nitrosopumilus piranensis', 'Fusobacterium hwasookii ChDC F128', 'Myroides sp. A21', 'Agrobacterium arsenijevicii', 'Pseudomonas sp. 10B238', 'Haloarcula sp. CBA1115', 'Enterobacteriaceae bacterium ATCC 29904', 'Candidatus Nitrosotenuis cloacae', 'Halanaeroarchaeum sulfurireducens', 'Sinocyclocheilus anshuiensis', 'Candidatus Filomicrobium marinum', 'Sphingomonas hengshuiensis', 'Pseudomonas sp. MRSN12121', 'Vibrio sp. S234-5', 'Psychromicrobium lacuslunae', 'Bacillus sp. LM 4-2', 'Sulfuricella sp. T08', 'Verrucomicrobia bacterium IMCC26134', 'Chania multitudinisentens RB-25', 'Bacillus paralicheniformis ATCC 9945a', 'Metarhizium rileyi RCEF 4871', 'Metarhizium majus ARSEF 297', 'Blattabacterium cuenoti BPAA', 'Lachancea quebecensis', 'Emmonsia sp. CAC-2015a', 'Blastomyces percursus', 'Phialophora attinorum', 'Violaceomyces palustris', 'Paramormyrops kingsleyae', 'Blastomyces gilchristii SLH14081', 'Pseudomicrostroma glucosiphilum', 'Wallemia mellicola CBS 633.66', 'Baudoinia panamericana UAMH 10762', 'Leucoagaricus sp. SymC.cos', 'Pezoloma ericae', 'Neocallimastix californiae', 'Piromyces finnis', 'Anaeromyces robustus', 'Mesorhizobium erdmanii USDA 3471', 'Nematocida displodere', 'Enterobacter roggenkampii EC_38VIM1', 'Edwardsiella anguillarum ET080813', 'Gopherus evgoodei', 'Dacryopinax primogenitus', 'Cryptococcus gattii VGII LA55', 'Cryptococcus gattii VGIV IND107', 'Amphiamblys sp. WSBS2006', 'Carlito syrichta', 'Pseudocercospora fijiensis CIRAD86', 'Testicularia cyperi', 'Xanthomonas cannabis pv. phaseoli', 'Planoprotostelium fungivorum', 'Fortiea contorta PCC 7126', 'Pectobacterium parmentieri WPP163', 'Geobacillus genomosp. 3', 'Bifiguratus adelaidae', 'Emergomyces pasteurianus Ep9510', 'Dinothrombium tinctorium', 'Rachicladosporium sp. CCFEE 5018', 'Xanthomonas phaseoli pv. phaseoli', 'Cordyceps sp. RAO-2017', 'Ophiocordyceps camponoti-rufipedis', 'Ooceraea biroi', 'Malassezia vespertilionis', 'Coniella lustricola', 'Globisporangium ultimum DAOM BR144', 'Blastomyces silverae', 'Mesorhizobium japonicum MAFF 303099', 'Rutstroemia sp. NJR-2017a WRK4', 'Rutstroemia sp. NJR-2017a BVV2', 'Rutstroemia sp. NJR-2017a BBW', 'Cervus hanglu yarkandensis', 'Lactobacillus paragasseri JV-V03', 'Photorhabdus laumondii subsp. laumondii TTO1', 'Pyrrhoderma noxium', 'Hondaea fermentalgiana', 'Yamadazyma tenuis ATCC 10573', 'Hyaloscypha bicolor E', 'Hyaloscypha variabilis F', 'Nothophytophthora sp. Chile5', 'Strigops habroptila', 'Fusarium odoratissimum NRRL 54006', 'Gloeothece citriformis PCC 7424', 'Gloeothece verrucosa PCC 7822', 'Crocosphaera subtropica ATCC 51142', 'Crocosphaera chwakensis CCY0110', 'Rippkaea orientalis PCC 8802', 'Thermothielavioides terrestris NRRL 8126', 'Podospora anserina S mat+', 'Dacryopinax sp. DJM 731 SSP-1', 'Akanthomyces lecanii RCEF 1005', 'Fusarium vanettenii 77-13-4']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', consistency_score_threshold: Fraction = 0.5, filter_consistency_score: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the PhylomeDB database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

param map_to_organism

organism name or NCBI taxon ID of the target species for ortholog mapping.

type map_to_organism

str or int

param map_from_organism

organism name or NCBI taxon ID of the input genes’ source species.

type map_from_organism

str or int

param gene_id_type

the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

type gene_id_type

str or ‘auto’ (default=’auto’)

` :param consistency_score_threshold: the minimum consistency score required for an ortholog mapping to be considered valid. Consistency scores are calculated by PhylomeDB and represent the confidence of the ortholog mapping. setting consistency_score_threshold to 0 will keep all mappings. You can read more about PhylomeDB consistency score on the PhylomeDB website: orthology.phylomedb.org/help

type consistency_score_threshold

float between 0 and 1 (default=0.5)

param filter_consistency_score

if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest consistency score.

type filter_consistency_score

bool (default=True)

param non_unique_mode

How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

type non_unique_mode

‘first’, ‘last’, ‘random’, or ‘none’ (default=’first’)

param remove_unmapped_genes

if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

type remove_unmapped_genes

bool (default=False)

type inplace

bool (default=True)

param inplace

If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

return

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

normalize_median_of_ratios(sample_grouping: GroupedColumns, reference_group: NonNegativeInt = 0, inplace: bool = True, return_scaling_factors: bool = False)

Normalizes the count matrix using the ‘Median of Ratios Normalization’ (MRN) method (Maza et al 2013). This normalization method uses information about the experimental condition of each sample. To calculate the Median of Ratios scaling factors, you first calculate the weighted mean expression of each gene within the replicates of each experimental condition. You then calculate per gene the ratio between each weighted mean in the experimental condition and those of the reference condition. You then pick the median ratio for each experimental condition, and calculate the scaling factor for each sample by multiplying it with the sample’s total number of reads. Finally, the scaling factors are adjusted, for symmetry, so that they multiply to 1.

Parameters

• sample_grouping (nested list of column names) – grouping of the samples into conditions. Each grouping should containg all replicates of the same condition.

• reference_group (int (default=0)) – the index of the sample group to be used as the reference condition. Must be an integer between 0 and the number of sample groups -1.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current CountFilter object. If False, the function will return a new CountFilter instance and the current instance will not be affected.

• return_scaling_factors (bool (default=False)) – if True, return a DataFrame containing the calculated scaling factors.

Returns

If inplace is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> c = filtering.CountFilter("tests/test_files/counted.csv")
>>> c.normalize_median_of_ratios([['cond1','cond2'],['cond3','cond4']])

Normalized 22 features. Normalized inplace.

normalize_rle(inplace: bool = True, return_scaling_factors: bool = False)

Normalizes the count matrix using the ‘Relative Log Expression’ (RLE) method (Anders and Huber 2010). This is the default normalization method used by R’s DESeq2. To calculate the Relative Log Expression scaling factors, you first generate a pseudo-sample by calculating the geometric mean expression of each gene across samples. You then calculate the gene-wise ratio of expression between each sample and the pseudo-sample. You then pick the median ratio within each sample as the scaling factor for that sample.

Parameters

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current CountFilter object. If False, the function will return a new CountFilter instance and the current instance will not be affected.

• return_scaling_factors (bool (default=False)) – if True, return a DataFrame containing the calculated scaling factors.

Returns

If inplace is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> c = filtering.CountFilter("tests/test_files/counted.csv")
>>> c.normalize_rle()

Normalized 22 features. Normalized inplace.

normalize_tmm(log_ratio_trim: float = 0.3, sum_trim: float = 0.05, a_cutoff: Optional[float] = -10000000000, ref_column: Union[Literal['auto'], ColumnName] = 'auto', inplace: bool = True, return_scaling_factors: bool = False)

Normalizes the count matrix using the ‘trimmed mean of M values’ (TMM) method (Robinson and Oshlack 2010). This is the default normalization method used by R’s edgeR. To calculate the Trimmed Mean of M Values scaling factors, you first calculate the M-values of each gene between each sample and the reference sample (log2 of each sample Minus log2 of the reference sample), and the A-values of each gene between each sample and the reference sample (log2 of each sample Added to log2 of the reference sample). You then trim out genes with extreme values that are likely to be differentially expressed or non-indicative, by trimming the top and bottom X% of M-values, the top and bottom Y% of A-values, all A-values which are smaller than the specified cutuff, and all genes with 0 reads (to avoid log2 values of inf or -inf). Next, a weighted mean is calculated on the filtered M-values, with the weights being an inverse of an approximation of variance of each gene, which gives out the scaling factors for each sample. Finally, the scaling factors are adjusted, for symmetry, so that they multiply to 1.

Parameters

• log_ratio_trim (float between 0 and 0.5 (default=0.3)) – the fraction of M-values that should be trimmed from each direction (top and bottom X%).

• sum_trim (float between 0 and 0.5 (default=0.05)) – the fraction of A-values that should be trimmed from each direction (top and bottom Y%).

• a_cutoff (float or None (default = -1e10)) – a lower bound on the A-values that should be included in the trimmed mean. If set to None, no lower bound will be used.

• ref_column (name of a column or 'auto' (default='auto')) – the column to be used as reference for normalization. If ‘auto’, then the reference column will be chosen automatically to be the column whose upper quartile is closest to the mean upper quartile.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current CountFilter object. If False, the function will return a new CountFilter instance and the current instance will not be affected.

• return_scaling_factors (bool (default=False)) – if True, return a DataFrame containing the calculated scaling factors.

Returns

If inplace is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> c = filtering.CountFilter("tests/test_files/counted.csv")
>>> c.normalize_tmm()

Normalized 22 features. Normalized inplace.

normalize_to_quantile(quantile: Fraction = 0.75, inplace: bool = True, return_scaling_factors: bool = False)

Normalizes the count matrix using the quantile method, generalized from Bullard et al 2010. This is the default normalization method used by R’s Limma. To calculate the Quantile Method scaling factors, you first calculate the given quantile of gene expression within each sample, excluding genes that have 0 reads in all samples. You then divide those quantile values by the total number of reads in each sample, which yields the scaling factors for each sample.

Parameters

• quantile (float between 0 and 1 (default=0.75)) – the quantile from which scaling factors will be calculated.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current CountFilter object. If False, the function will return a new CountFilter instance and the current instance will not be affected.

• return_scaling_factors (bool (default=False)) – if True, return a DataFrame containing the calculated scaling factors.

Returns

If inplace is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> c = filtering.CountFilter("tests/test_files/counted.csv")
>>> c.normalize_to_quantile(0.75)

Normalized 22 features. Normalized inplace.

normalize_to_rpkm(gtf_file: Union[str, Path], feature_type: Literal['gene', 'transcript'] = 'gene', method: Literal['mean', 'median', 'max', 'min', 'geometric_mean', 'merged_exons'] = 'mean', inplace: bool = True, return_scaling_factors: bool = False)

Normalizes the count matrix to Reads Per Kilobase Million (RPKM). Divides each column in the count matrix by (total reads)*(gene length / 1000)*10^-6.

Parameters

gtf_file – Path to a GTF/GFF3 annotation file. This file will be used to determine the length of each gene/transcript. The gene/transcript names in this annotation file should match the ones in count matrix. :type gtf_file: str or Path :param feature_type: the type of features in your count matrix. if feature_type is ‘transcript’, lengths will be calculated per-transcript, and the ‘method’ parameter is ignored. Otherwise, lengths will be aggregated per gene according to the method specified in the ‘method’ parameter. :type feature_type: ‘gene’ or ‘transcript’ (default=’gene’) :param method: if feature_type=’gene’, this determines the aggregation method to calculate gene lengths. ‘mean’, ‘median’, ‘min’, and ‘max’ will calculate the mean/median/min/max of all transcripts’ lengths of the given gene. ‘geometric_mean’ will calculate the goemetric mean of all transcripts’ lengths of the given gene. ‘merged_exons’ will calculate the total lengths of all exons of a gene across all of its transcripts, while counting overlapping exons/regions exactly once. :type method: ‘mean’, ‘median’, ‘min’, ‘max’, ‘geometric_mean’, or ‘merged_exons’ (deafult=’mean’) :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current CountFilter object. If False, the function will return a new CountFilter instance and the current instance will not be affected. :param return_scaling_factors: if True, return a DataFrame containing the calculated scaling factors. :type return_scaling_factors: bool (default=False) :return: If inplace is False, returns a new instance of the Filter object.

normalize_to_rpm(inplace: bool = True, return_scaling_factors: bool = False)

Normalizes the count matrix to Reads Per Million (RPM). Divides each column in the count matrix by (total reads)*10^-6 .

Parameters

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current CountFilter object. If False, the function will return a new CountFilter instance and the current instance will not be affected.

• return_scaling_factors (bool (default=False)) – if True, return a DataFrame containing the calculated scaling factors.

Returns

If inplace is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> c = filtering.CountFilter("tests/test_files/counted.csv")
>>> c.normalize_to_rpm()

Normalized 22 features. Normalized inplace.

normalize_to_rpm_htseqcount(special_counter_fname: Union[str, Path], inplace: bool = True, return_scaling_factors: bool = False)

Normalizes the count matrix to Reads Per Million (RPM). Uses a table of feature counts (ambiguous, no feature, not aligned, etc) from HTSeq-count’s output. Divides each column in the CountFilter object by (total reads + ambiguous + no feature)*10^-6 .

Parameters

• special_counter_fname – the .csv file which contains feature information about the RNA library (ambiguous, no feature, not aligned, etc).

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current CountFilter object. If False, the function will return a new CountFilter instance and the current instance will not be affected.

• return_scaling_factors (bool (default=False)) – if True, return a DataFrame containing the calculated scaling factors.

Returns

If inplace is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> c = filtering.CountFilter("tests/test_files/counted.csv")
>>> c.normalize_to_rpm_htseqcount("tests/test_files/uncounted.csv")

Normalized 22 features. Normalized inplace.

normalize_to_tpm(gtf_file: Union[str, Path], feature_type: Literal['gene', 'transcript'] = 'gene', method: Literal['mean', 'median', 'max', 'min', 'geometric_mean', 'merged_exons'] = 'mean', inplace: bool = True, return_scaling_factors: bool = False)

Normalizes the count matrix to Transcripts Per Million (TPM). First, normalizes each gene to Reads Per Kilobase (RPK) by dividing each gene in the count matrix by its length in Kbp (gene length / 1000). Then, divides each column in the RPK matrix by (total RPK in column)*10^-6. This calculation is similar to that of Reads Per Kilobase Million (RPKM), but in the opposite order: the “per million” normalization factors are calculated after normalizing to gene lengths, not before.

Parameters

gtf_file – Path to a GTF/GFF3 annotation file. This file will be used to determine the length of each gene/transcript. The gene/transcript names in this annotation file should match the ones in count matrix. :type gtf_file: str or Path :param feature_type: the type of features in your count matrix. if feature_type is ‘transcript’, lengths will be calculated per-transcript, and the ‘method’ parameter is ignored. Otherwise, lengths will be aggregated per gene according to the method specified in the ‘method’ parameter. :type feature_type: ‘gene’ or ‘transcript’ (default=’gene’) :param method: if feature_type=’gene’, this determines the aggregation method to calculate gene lengths. ‘mean’, ‘median’, ‘min’, and ‘max’ will calculate the mean/median/min/max of all transcripts’ lengths of the given gene. ‘geometric_mean’ will calculate the goemetric mean of all transcripts’ lengths of the given gene. ‘merged_exons’ will calculate the total lengths of all exons of a gene across all of its transcripts, while counting overlapping exons/regions exactly once. :type method: ‘mean’, ‘median’, ‘min’, ‘max’, ‘geometric_mean’, or ‘merged_exons’ (deafult=’mean’) :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current CountFilter object. If False, the function will return a new CountFilter instance and the current instance will not be affected. :param return_scaling_factors: if True, return a DataFrame containing the calculated scaling factors. :type return_scaling_factors: bool (default=False) :return: If inplace is False, returns a new instance of the Filter object.

normalize_with_scaling_factors(scaling_factor_fname: Union[str, Path], inplace: bool = True)

Normalizes the reads in the CountFilter using pre-calculated scaling factors. Receives a table of sample names and their corresponding scaling factors, and divides each column in the CountFilter by the corresponding scaling factor.

Parameters

• scaling_factor_fname (str or pathlib.Path) – the .csv file which contains scaling factors for the different libraries.

• inplace – If True (default), filtering will be applied to the current CountFilter object. If False, the function will return a new CountFilter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> c = filtering.CountFilter("tests/test_files/counted.csv")
>>> c.normalize_with_scaling_factors("tests/test_files/scaling_factors.csv")

Normalized 22 features. Normalized inplace.

number_filters(column: ColumnName, operator: Literal['greater than', 'equals', 'lesser than'], value: float, opposite: bool = False, inplace: bool = True)

Applay a number filter (greater than, equal, lesser than) on a particular column in the Filter object.

Parameters

• column (str) – name of the column to filter by

• operator (str: 'gt' / 'greater than' / '>', 'eq' / 'equals' / '=', 'lt' / 'lesser than' / '<') – the operator to filter the column by (greater than, equal or lesser than)

• value (float) – the value to filter by

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/test_deseq.csv')
>>> #keep only rows that have a value greater than 5900 in the column 'baseMean'.
>>> filt.number_filters('baseMean','gt',5900)
Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

>>> filt = filtering.Filter('tests/test_files/test_deseq.csv')
>>> #keep only rows that have a value greater than 5900 in the column 'baseMean'.
>>> filt.number_filters('baseMean','greater than',5900)
Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

>>> filt = filtering.Filter('tests/test_files/test_deseq.csv')
>>> #keep only rows that have a value greater than 5900 in the column 'baseMean'.
>>> filt.number_filters('baseMean','>',5900)
Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

pairplot(samples: Union[GroupedColumns, Literal['all']] = 'all', log2: bool = True, show_corr: bool = True, title: Union[str, Literal['auto']] = 'auto', title_fontsize: float = 30, label_fontsize: float = 16, tick_fontsize: float = 12) → Figure

Plot pairwise relationships in the dataset. Can plot both single samples and average multiple replicates. For more information see the documentation of seaborn.pairplot.

Parameters

• samples ('all', list, or nested list.) – A list of the sample names and/or grouped sample names to be included in the pairplot. All specified samples must be present in the CountFilter object. To average multiple replicates of the same condition, they can be grouped in an inner list. Example input: [[‘SAMPLE1A’, ‘SAMPLE1B’, ‘SAMPLE1C’], [‘SAMPLE2A’, ‘SAMPLE2B’, ‘SAMPLE2C’],’SAMPLE3’ , ‘SAMPLE6’]

• log2 (bool (default=True)) – if True, the pairplot will be calculated with log2 of the DataFrame (pseudocount+1 added), and not with the raw data. If False, the pairplot will be calculated with the raw data.

• show_corr (bool (default=True)) – if True, shows the Spearman correlation coefficient (R) between each pair of samples/groups.

• title (str or 'auto' (default='auto')) – The title of the plot. If ‘auto’, a title will be generated automatically.

• title_fontsize (float (default=30)) – determines the font size of the graph title.

• label_fontsize (float (default=15) :param tick_fontsize: determines the font size of the X and Y tick labels.) – determines the font size of the X and Y axis labels.

Returns

A matplotlib Figure.

Example plot of pairplot()

pca(samples: Union[GroupedColumns, Literal['all']] = 'all', n_components: PositiveInt = 3, power_transform: bool = True, labels: bool = True, title: Union[str, Literal['auto']] = 'auto', title_fontsize: float = 20, label_fontsize: float = 16, tick_fontsize: float = 12, proportional_axes: bool = False, plot_grid: bool = True, legend: Optional[List[str]] = None) → Tuple[PCA, List[Figure]]

Performs Principal Component Analysis (PCA), visualizing the principal components that explain the most variance between the different samples. The function will standardize the data prior to PCA, and then plot the requested number of pairwise PCA projections.

Parameters

• samples ('all' or list.) – A list of the sample names and/or grouped sample names to be plotted. All specified samples must be present in the CountFilter object. To draw multiple replicates of the same condition in the same color, they can be grouped in an inner list. Example input: [[‘SAMPLE1A’, ‘SAMPLE1B’, ‘SAMPLE1C’], [‘SAMPLE2A’, ‘SAMPLE2B’, ‘SAMPLE2C’],’SAMPLE3’ , ‘SAMPLE6’]

• n_components (int >=2 (default=3)) – number of Principal Components to plot (minimum is 2). RNAlysis will generate a pair-wise scatter plot between every pair of Principal Components.

• labels (bool (default=True)) – if True, RNAlysis will display labels with the sample names next to each sample on the graph.

• power_transform (bool (default=True)) – if True, RNAlysis will apply a power transform (Box-Cox) to the data prior to standartization and principal component analysis.

• title (str or 'auto' (default='auto')) – The title of the plot. If ‘auto’, a title will be generated automatically.

• title_fontsize (float (default=30)) – determines the font size of the graph title.

• label_fontsize (float (default=15)) – determines the font size of the X and Y axis labels.

• tick_fontsize (float (default=10)) – determines the font size of the X and Y tick labels, and the sample name labels. .

• proportional_axes (bool (default=False)) – if True, the dimensions of the PCA plots will be proportional to the percentage of variance explained by each principal component.

• plot_grid (bool (default=True)) – if True, will draw a grid on the PCA plot.

• legend (list of str, or None (default=None)) – if enabled, display a legend on the PCA plot. Each entry in the ‘legend’ parameter corresponds to one group of samples (one color on the graph), as defined by the parameter ‘samples’

Returns

A tuple whose first element is an sklearn.decomposition.pca object, and second element is a list of matplotlib.axis objects.

Example plot of pca()

plot_expression(features: Union[List[str], str], samples: Union[GroupedColumns, Literal['all']] = 'all', count_unit: str = 'Normalized reads', split_plots: bool = False) → Figure

Plot the average expression and standard error of the specified features under the specified conditions.

Parameters

• features (str or list of strings) – the feature/features to plot expression for.

• samples – A list of the sample names and/or grouped sample names to be plotted. All specified samples must be present in the CountFilter object. To average multiple replicates of the same condition, they can be grouped in an inner list. Example input: [[‘SAMPLE1A’, ‘SAMPLE1B’, ‘SAMPLE1C’], [‘SAMPLE2A’, ‘SAMPLE2B’, ‘SAMPLE2C’],’SAMPLE3’ , ‘SAMPLE6’]

• count_unit (str, default 'Reads per million') – The unit of the count data. Will be displayed in the y axis.

• split_plots (bool (default=False)) – if True, each gene will be plotted in its own Figure. Otherwise, all genes will be plotted in the same Figure.

Example plot of plot_expression()

print_features()

Print the feature indices in the Filter object, sorted by their current order in the FIlter object, and separated by newline.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.sort(by='cond1',ascending=False)
>>> counts.print_features()
WBGene00007075
WBGene00043988
WBGene00043990
WBGene00007079
WBGene00007076
WBGene00043989
WBGene00007063
WBGene00007077
WBGene00007078
WBGene00007071
WBGene00007064
WBGene00007066
WBGene00007074
WBGene00043987
WBGene00007067
WBGene00014997
WBGene00044022
WBGene00077503
WBGene00077504
WBGene00077502
WBGene00007069
WBGene00044951

save_csv(alt_filename: Union[None, str, Path] = None)

Saves the current filtered data to a .csv file.

Parameters

alt_filename (str, pathlib.Path, or None (default)) – If None, file name will be generated automatically according to the filtering methods used. If it’s a string, it will be used as the name of the saved file. Example input: ‘myfilename’

save_parquet(alt_filename: Union[None, str, Path] = None)

Saves the current filtered data to a .parquet file.

Parameters

alt_filename (str, pathlib.Path, or None (default)) – If None, file name will be generated automatically according to the filtering methods used. If it’s a string, it will be used as the name of the saved file. Example input: ‘myfilename’

save_table(suffix: Literal['.csv', '.tsv', '.parquet'] = '.csv', alt_filename: Union[None, str, Path] = None)

Save the current filtered data table.

Parameters

• suffix ('.csv', '.tsv', or '.parquet' (default='.csv')) – the file suffix

• alt_filename (str, pathlib.Path, or None (default)) – If None, file name will be generated automatically according to the filtering methods used. If it’s a string, it will be used as the name of the saved file. Example input: ‘myfilename’

scatter_sample_vs_sample(sample1: ColumnNames, sample2: ColumnNames, xlabel: Union[str, Literal['auto']] = 'auto', ylabel: Union[str, Literal['auto']] = 'auto', title: Union[str, Literal['auto']] = 'auto', title_fontsize: float = 20, label_fontsize: float = 16, tick_fontsize: float = 12, annotation_fontsize: float = 10, highlight: Optional[Sequence[str]] = None, point_color: Color = '#6d7178', highlight_color: Color = '#00aaff', opacity: Fraction = 0.65, point_size: float = 10, interactive: bool = True, show_cursor: bool = False) → Figure

Generate a scatter plot where every dot is a feature, the x value is log10 of reads (counts, RPM, RPKM, TPM, etc) in sample1, the y value is log10 of reads in sample2. If the plot is generated in interactive mode, data points can be labeled by clicking on them.

Parameters

• sample1 (string or list of strings) – Name of the first sample from the CountFilter object. If sample1 is a list, they will be avarged as replicates.

• sample2 (string or list of strings) – Name of the second sample from the CountFilter object. If sample2 is a list, they will be averaged as replicates.

• xlabel (str or 'auto') – optional. If not specified, sample1 will be used as xlabel.

• ylabel (str or 'auto') – optional. If not specified, sample2 will be used as ylabel.

• title (str or 'auto') – optional. If not specified, a title will be generated automatically.

• title_fontsize (float (default=30)) – determines the font size of the graph title.

• label_fontsize (float (default=15)) – determines the font size of the X and Y axis labels.

• tick_fontsize (float (default=10)) – determines the font size of the X and Y tick labels.

• annotation_fontsize (float (default=10)) – determines the font size of the point annotations created in interactive mode.

• highlight (Filter object or iterable of strings) – If specified, the points in the scatter corresponding to the names/features in ‘highlight’ will be highlighted in red.

• point_color (str or tuple of (int, int, int) (default='#6d7178')) – color of the points in the scatter plot.

• highlight_color (str or tuple of (int, int, int) (default='#00aaff')) – color of the highlighted points in the scatter plot.

• opacity (determines the opacity of the points in the scatter plot. 0 indicates completely transparent, while 1 indicates completely opaque.) – float between 0 and 1 (default=0.65)

• point_size (float (default=10)) – determines the size of the points in the scatter plot

• interactive (bool (default=True)) – if True, turns on interactive mode. While in interactive mode, you can click on a data point to label it with its gene name/ID, or click on a labeled data point to unlabel it.

• show_cursor (bool (default=False)) – if True, show the cursor position on the plot during interactive mode

Returns

a matplotlib axis object.

Example plot of scatter_sample_vs_sample()

sort(by: Union[str, List[str]], ascending: Union[bool, List[bool]] = True, na_position: str = 'last', inplace: bool = True)

Sort the rows by the values of specified column or columns.

Parameters

• by (str or list of str) – Names of the column or columns to sort by.

• ascending (bool or list of bool (default=True)) – Sort ascending vs. descending. Specify list for multiple sort orders. If this is a list of bools, it must have the same length as ‘by’.

• na_position ('first' or 'last', default 'last') – If ‘first’, puts NaNs at the beginning; if ‘last’, puts NaNs at the end.

• inplace (bool (default=True)) – If True, perform operation in-place. Otherwise, returns a sorted copy of the Filter object without modifying the original.

Returns

None if inplace=True, a sorted Filter object otherwise.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.head()
                cond1  cond2  cond3  cond4
WBGene00007063    633    451    365    388
WBGene00007064     60     57     20     23
WBGene00044951      0      0      0      1
WBGene00007066     55    266     46     39
WBGene00007067     15     13      1      0
>>> counts.sort(by='cond1',ascending=True)
>>> counts.head()
                cond1  cond2  cond3  cond4
WBGene00044951      0      0      0      1
WBGene00077504      0      0      0      0
WBGene00007069      0      2      1      0
WBGene00077502      0      0      0      0
WBGene00077503      1      4      2      0

sort_by_principal_component(component: PositiveInt, ascending: bool = True, power_transform: bool = True, inplace: bool = True)

Performs Principal Component Analysis (PCA), and sort the table based on the contribution (loadings) of genes to a specific Principal Component. This type of analysis can help you understand which genes contribute the most to each principal component, particularly using single-list enrichment analysis. .

Parameters

• component (positive int) – the Principal Component the table should be sorted by.

• ascending (bool (default=Trle)) – Sort order: ascending (negative loadings at the top of the list) versus descending (positive loadings at the top of the list).

• power_transform (bool (default=True)) – if True, RNAlysis will apply a power transform (Box-Cox) to the data prior to standartization and principal component analysis.

• inplace (bool (default=True)) – If True, perform the operation in-place. Otherwise, returns a sorted copy of the Filter object without modifying the original.

Returns

None if inplace=True, a sorted Filter object otherwise.

split_by_attribute(attributes: Union[str, List[str]], ref: Union[str, Path, Literal['predefined']] = 'predefined') → tuple

Splits the features in the Filter object into multiple Filter objects, each corresponding to one of the specified Attribute Reference Table attributes. Each new Filter object will contain only features that belong to its Attribute Reference Table attribute.

Parameters

• attributes (list of strings) – list of attribute names from the Attribute Reference Table to filter by.

• ref – filename/path of the reference table to be used as reference.

Return type

Tuple[filtering.Filter]

Returns

A tuple of Filter objects, each containing only features that match one Attribute Reference Table attribute; the Filter objects are returned in the same order the attributes were given in.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> attribute1,attribute2 = counts.split_by_attribute(['attribute1','attribute2'],
... ref='tests/attr_ref_table_for_examples.csv')
Filtered 15 features, leaving 7 of the original 22 features. Filtering result saved to new object.
Filtered 20 features, leaving 2 of the original 22 features. Filtering result saved to new object.

split_by_percentile(percentile: Fraction, column: ColumnName) → tuple

Splits the features in the Filter object into two non-overlapping Filter objects: one containing features below the specified percentile in the specfieid column, and the other containing features about the specified percentile in the specified column.

Parameters

• percentile (float between 0 and 1) – The percentile that all features above it will be filtered out.

• column (str) – Name of the DataFrame column according to which the filtering will be performed.

Return type

Tuple[filtering.Filter, filtering.Filter]

Returns

a tuple of two Filter objects: the first contains all of the features below the specified percentile, and the second contains all of the features above and equal to the specified percentile.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> below, above = d.split_by_percentile(0.75,'log2FoldChange')
Filtered 7 features, leaving 21 of the original 28 features. Filtering result saved to new object.
Filtered 21 features, leaving 7 of the original 28 features. Filtering result saved to new object.

split_by_principal_components(components: Union[PositiveInt, List[PositiveInt]], gene_fraction: Fraction = 0.1, power_transform: bool = True) → Union[Tuple[CountFilter, CountFilter], Tuple[Tuple[CountFilter, CountFilter], ...]]

Performs Principal Component Analysis (PCA), and split the table based on the contribution (loadings) of genes to specific Principal Components. For each Principal Component specified, RNAlysis will find the X% most influential genes on the Principal Component based on their loadings (where X is gene_fraction), (X/2)% from the top and (X/2)% from the bottom. This type of analysis can help you understand which genes contribute the most to each principal component.

Parameters

• components (int or list of integers) – the Principal Components the table should be filtered by. Each Principal Component will be analyzed separately.

• gene_fraction (float between 0 and 1 (default=0.1)) – the total fraction of top influential genes that will be returned. For example, if gene_fraction=0.1, RNAlysis will return the top and bottom 5% of genes based on their loadings for any principal component.

• power_transform (bool (default=True)) – if True, RNAlysis will apply a power transform (Box-Cox) to the data prior to standartization and principal component analysis.

split_by_reads(threshold: float = 5) → tuple

Splits the features in the CountFilter object into two non-overlapping CountFilter objects, based on their maximum expression level. The first object will contain only highly-expressed features (which have reads over the specified threshold in at least one sample). The second object will contain only lowly-expressed features (which have reads below the specified threshold in all samples).

Parameters

threshold (float (default=5)) – The minimal number of reads (counts, RPM, RPKM, TPM etc) a feature needs to have in at least one sample in order to be included in the “highly expressed” object and no the “lowly expressed” object.

Return type

Tuple[filtering.CountFilter, filtering.CountFilter]

Returns

A tuple containing two CountFilter objects: the first has only highly-expressed features, and the second has only lowly-expressed features.

Examples

>>> from rnalysis import filtering
>>> c = filtering.CountFilter('tests/test_files/counted.csv')
>>> low_expression, high_expression = c.split_by_reads(5)
Filtered 6 features, leaving 16 of the original 22 features. Filtering result saved to new object.
Filtered 16 features, leaving 6 of the original 22 features. Filtering result saved to new object.

split_clicom(*parameter_dicts: dict, replicate_grouping: Union[GroupedColumns, Literal['ungrouped']] = 'ungrouped', power_transform: Union[bool, Tuple[bool, bool]] = True, evidence_threshold: Fraction = 0.6666666666666666, cluster_unclustered_features: bool = False, min_cluster_size: PositiveInt = 15, plot_style: Literal['all', 'std_area', 'std_bar'] = 'all', split_plots: bool = False, parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False) → Tuple[CountFilter, ...]

Clusters the features in the CountFilter object using the modified CLICOM ensemble clustering algorithm (Mimaroglu and Yagci 2012), and then splits those features into multiple non-overlapping CountFilter objects, based on the clustering result. The CLICOM algorithm incorporates the results of multiple clustering solutions, which can come from different clustering algorithms with differing clustering parameters, and uses these clustering solutions to create a combined clustering solution. Due to the nature of CLICOM, the number of clusters the data will be divided into is determined automatically. This modified version of the CLICOM algorithm can also classify features as noise, which does not belong in any discovered cluster.

Parameters

• replicate_grouping (nested list of strings or 'ungrouped' (default='ungrouped')) – Allows you to group your data into replicates. Each replicate will be clustered separately, and used as its own clustering setup. This can minimize the influence of batch effects on the clustering results, and take advantage of repeated measures data to improve the accuracy of your clustering. If `replicate_grouping`=’ungrouped’, the data will be clustered normally as if no replicate data is available. To read more about the theory behind this, see the following publication: https://doi.org/10.1093/bib/bbs057

• power_transform (True, False, or (True, False) (default=True)) – if True, RNAlysis will apply a power transform (Box-Cox) to the data prior to clustering. If both True and False are supplied, RNAlysis will run the initial clustering setups twice: once with a power transform, and once without.

• evidence_threshold (float between 0 and 1 (default=2/3)) – determines whether each pair of features can be reliably clustered together. For example, if evidence_threshold=0.5, a pair of features is considered reliably clustered together if they were clustered together in at least 50% of the tested clustering solutions.

• cluster_unclustered_features (bool (default=False)) – if True, RNAlysis will force every feature to be part of a cluster, even if they were not initially determined to reliably belong to any of the discovered clusters. Larger values will lead to fewer clusters, with more features classified as noise.

• min_cluster_size (int (default=15)) – the minimum size of clusters the algorithm will seek. Larger values will lead to fewer clusters, with more features classified as noise.

• parameter_dicts – multiple dictionaries, each corresponding to a clustering setup to be run. Each dictionary must contain a ‘method’ field with a clustering method supported by RNAlysis (‘k-means’, ‘k-medoids’, ‘hierarchical’, or ‘hdbscan’). The other fields of the dictionary should contain your preferred values for each of the clustering algorithm’s parameters. Yoy can specify a list of values for each of those parameters, and then RNAlysis will run the clustering algorithm with all legal combinations of parameters you specified. For example, {‘method’:’k-medoids’, ‘n_clusters’:[3,5], ‘metric’:[‘Euclidean’, ‘cosine’]} will run the K-Medoids algorithm four times with the following parameter combinations: (n_clusters=3,metric=’Euclidean’), (n_clusters=5, metric=’Euclidean’), (n_clusters=3, metric=’cosine’), (n_clusters=5, metric=’cosine’).

• plot_style ('all', 'std_area', or 'std_bar' (default='all')) – determines the visual style of the cluster expression plot.

• split_plots (bool (default=False)) – if True, each discovered cluster will be plotted on its own. Otherwise, all clusters will be plotted in the same Figure.

• parallel_backend (Literal[PARALLEL_BACKENDS] (default='loky')) – Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise.

Returns

returns a tuple of CountFilter objects, each corresponding to a discovered cluster.

Examples

>>> from rnalysis import filtering
>>> dev_stages = filtering.CountFilter('tests/test_files/elegans_developmental_stages.tsv')
>>> dev_stages.filter_low_reads(100)
Filtered 44072 features, leaving 2326 of the original 46398 features. Filtered inplace.
>>> clusters = dev_stages.split_clicom(
... {'method': 'hdbscan', 'min_cluster_size': [50, 75, 140], 'metric': ['ys1', 'yr1', 'spearman']},
... {'method': 'hierarchical', 'n_clusters': [7, 12], 'metric': ['Euclidean', 'jackknife', 'yr1'],
... 'linkage': ['average', 'ward']}, {'method': 'kmedoids', 'n_clusters': [7, 16], 'metric': 'spearman'},
... power_transform=True, evidence_threshold=0.5, min_cluster_size=40)
Found 19 legal clustering setups.
Running clustering setups: 100%|██████████| 19/19 [00:12<00:00,  1.49 setup/s]
Generating cluster similarity matrix: 100%|██████████| [00:32<00:00, 651.06it/s]
Finding cliques: 100%|██████████| 42436/42436 [00:00<00:00, 61385.87it/s]
Done
Found 15 clusters of average size 153.60. Number of unclustered genes is 22, which are 0.95% of the genes.
Filtered 1864 features, leaving 462 of the original 2326 features. Filtering result saved to new object.
Filtered 2115 features, leaving 211 of the original 2326 features. Filtering result saved to new object.
Filtered 2122 features, leaving 204 of the original 2326 features. Filtering result saved to new object.
Filtered 2123 features, leaving 203 of the original 2326 features. Filtering result saved to new object.
Filtered 2128 features, leaving 198 of the original 2326 features. Filtering result saved to new object.
Filtered 2167 features, leaving 159 of the original 2326 features. Filtering result saved to new object.
Filtered 2179 features, leaving 147 of the original 2326 features. Filtering result saved to new object.
Filtered 2200 features, leaving 126 of the original 2326 features. Filtering result saved to new object.
Filtered 2204 features, leaving 122 of the original 2326 features. Filtering result saved to new object.
Filtered 2229 features, leaving 97 of the original 2326 features. Filtering result saved to new object.
Filtered 2234 features, leaving 92 of the original 2326 features. Filtering result saved to new object.
Filtered 2238 features, leaving 88 of the original 2326 features. Filtering result saved to new object.
Filtered 2241 features, leaving 85 of the original 2326 features. Filtering result saved to new object.
Filtered 2263 features, leaving 63 of the original 2326 features. Filtering result saved to new object.
Filtered 2279 features, leaving 47 of the original 2326 features. Filtering result saved to new object.

Example plot of split_clicom(plot_style=’all’)

Example plot of split_clicom()

split_hdbscan(min_cluster_size: PositiveInt, min_samples: Optional[PositiveInt] = 1, metric: Union[str, Literal['Euclidean', 'Cosine', 'Pearson', 'Spearman', 'Manhattan', 'L1', 'L2', 'Jackknife', 'YS1', 'YR1', 'Sharpened_Cosine', 'Hamming']] = 'Euclidean', cluster_selection_epsilon: float = 0, cluster_selection_method: Literal['eom', 'leaf'] = 'eom', power_transform: bool = True, plot_style: Literal['all', 'std_area', 'std_bar'] = 'all', split_plots: bool = False, return_probabilities: bool = False, parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False) → Optional[Union[Tuple[CountFilter, ...], List[Union[Tuple[CountFilter, ...], ndarray]]]]

Clusters the features in the CountFilter object using the HDBSCAN clustering algorithm, and then splits those features into multiple non-overlapping CountFilter objects, based on the clustering result.

Parameters

• min_cluster_size (int) – the minimum size of clusters the algorithm will seek. Larger values will lead to fewer, larger clusters.

• min_samples (int or None (default=1)) – the number of samples in a neighbourhood for a point to be considered a core point. Higher values will lead to a more conservative clustering result, with more points being classified as noise. If min_samples is None, the algorithm will pick a value automatically

• metric (str (default='Euclidean')) – the distance metric used to determine similarity between data points. For a full list of supported distance metrics see the user guide.

• cluster_selection_epsilon (float (default=0.0)) – a distance threshold below which clusters will be merged.

• cluster_selection_method ('eom' or 'leaf' (default='eom')) – The method used to select clusters from the condensed tree. ‘eom’ will use an Excess of Mass algorithm to find the most persistent clusters. ‘leaf’ will select the leaves of the tree, providing the most fine-grained and homogenous clusters.

• power_transform (bool (default=True)) – if True, RNAlysis will apply a power transform (Box-Cox) to the data prior to clustering.

• plot_style ('all', 'std_area', or 'std_bar' (default='all')) – determines the visual style of the cluster expression plot.

• split_plots (bool (default=False)) – if True, each discovered cluster will be plotted on its own. Otherwise, all clusters will be plotted in the same Figure.

• return_probabilities (bool (default False)) – if True, the algorithm will return an array containing the probability with which each sample is a member of its assigned cluster, in addition to returning the clustering results. Points which were categorized as noise have probability 0.

• parallel_backend (Literal[PARALLEL_BACKENDS] (default='loky')) – Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise.

Returns

if return_probabilities is False, returns a tuple of CountFilter objects, each corresponding to a discovered cluster. Otherswise, returns a tuple of CountFilter objects, and a numpy array containing the probability values.

Examples

>>> from rnalysis import filtering
>>> dev_stages = filtering.CountFilter('tests/test_files/elegans_developmental_stages.tsv')
>>> dev_stages.filter_low_reads(100)
Filtered 44072 features, leaving 2326 of the original 46398 features. Filtered inplace.
>>> clusters = dev_stages.split_hdbscan(min_cluster_size=75,metric='yr1',power_transform=True)
Found 14 clusters of average size 141.57. Number of unclustered genes is 344, which are 14.79% of the genes.
Filtered 2019 features, leaving 307 of the original 2326 features. Filtering result saved to new object.
Filtered 2122 features, leaving 204 of the original 2326 features. Filtering result saved to new object.
Filtered 2146 features, leaving 180 of the original 2326 features. Filtering result saved to new object.
Filtered 2168 features, leaving 158 of the original 2326 features. Filtering result saved to new object.
Filtered 2173 features, leaving 153 of the original 2326 features. Filtering result saved to new object.
Filtered 2176 features, leaving 150 of the original 2326 features. Filtering result saved to new object.
Filtered 2183 features, leaving 143 of the original 2326 features. Filtering result saved to new object.
Filtered 2192 features, leaving 134 of the original 2326 features. Filtering result saved to new object.
Filtered 2200 features, leaving 126 of the original 2326 features. Filtering result saved to new object.
Filtered 2234 features, leaving 92 of the original 2326 features. Filtering result saved to new object.
Filtered 2238 features, leaving 88 of the original 2326 features. Filtering result saved to new object.
Filtered 2241 features, leaving 85 of the original 2326 features. Filtering result saved to new object.
Filtered 2244 features, leaving 82 of the original 2326 features. Filtering result saved to new object.
Filtered 2246 features, leaving 80 of the original 2326 features. Filtering result saved to new object.

Example plot of split_hdbscan(plot_style=’all’)

Example plot of split_hdbscan()

split_hierarchical(n_clusters: Union[PositiveInt, List[PositiveInt], Literal['gap', 'silhouette', 'calinski_harabasz', 'davies_bouldin', 'bic', 'distance']], metric: Literal['Euclidean', 'Cosine', 'Pearson', 'Spearman', 'Manhattan', 'L1', 'L2', 'Jackknife', 'YS1', 'YR1', 'Sharpened_Cosine'] = 'Euclidean', linkage: Literal['Single', 'Average', 'Complete', 'Ward'] = 'Average', power_transform: bool = True, distance_threshold: Optional[float] = None, plot_style: Literal['all', 'std_area', 'std_bar'] = 'all', split_plots: bool = False, max_n_clusters_estimate: Union[PositiveInt, Literal['auto']] = 'auto', parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False) → Union[Tuple[CountFilter, ...], Tuple[Tuple[CountFilter, ...], ...]]

Clusters the features in the CountFilter object using the Hierarchical clustering algorithm, and then splits those features into multiple non-overlapping CountFilter objects, based on the clustering result.

Parameters

• n_clusters (int, list of ints, 'distance', 'gap', 'silhouette', 'calinski_harabasz', 'davies_bouldin', or 'bic') – The number of clusters the algorithm will seek. If set to ‘distance’, the algorithm will derive the number of clusters from the distance threshold (see ‘distance_threshold’).

• metric ('Euclidean', 'l1', 'l2', 'manhattan', or 'cosine', (default='Euclidean')) – the distance metric used to determine similarity between data points. If linkage is ‘ward’, only the ‘Euclidean’ metric is accepted. For a full list of supported distance metrics see the user guide.

• linkage ('single', 'Average', 'complete', or 'ward' (default='Average')) – Which linkage criterion to use. The linkage criterion determines which distance to use between sets of observation. The algorithm will merge the pairs of cluster that minimize this criterion.

• power_transform (bool (default=True)) – if True, RNAlysis will apply a power transform (Box-Cox) to the data prior to clustering.

• distance_threshold (float or None (default=None)) – a distance threshold above which clusters will not be merged. If a number is specified, n_clusters must be None.

• plot_style ('all', 'std_area', or 'std_bar' (default='all')) – determines the visual style of the cluster expression plot.

• split_plots (bool (default=False)) – if True, each discovered cluster will be plotted on its own. Otherwise, all clusters will be plotted in the same Figure.

• max_n_clusters_estimate (int or 'auto' (default='auto')) – the maximum number of clusters to test if trying to automatically estimate the optimal number of clusters. If `max_n_clusters_estimate`=’default’, an appropriate value will be picked automatically.

• parallel_backend (Literal[PARALLEL_BACKENDS] (default='loky')) – Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise.

Returns

if n_clusters is an int, returns a tuple of n_clusters CountFilter objects, each corresponding to a discovered cluster. If n_clusters is a list, returns one tuple of CountFilter objects per value in n_clusters.

Examples

>>> from rnalysis import filtering
>>> dev_stages = filtering.CountFilter('tests/test_files/elegans_developmental_stages.tsv')
>>> dev_stages.filter_low_reads(100)
Filtered 44072 features, leaving 2326 of the original 46398 features. Filtered inplace.
>>> clusters = dev_stages.split_hierarchical(n_clusters=13, metric='Euclidean',linkage='ward'
...                                         ,power_transform=True)
Filtered 1718 features, leaving 608 of the original 2326 features. Filtering result saved to new object.
Filtered 1979 features, leaving 347 of the original 2326 features. Filtering result saved to new object.
Filtered 2094 features, leaving 232 of the original 2326 features. Filtering result saved to new object.
Filtered 2110 features, leaving 216 of the original 2326 features. Filtering result saved to new object.
Filtered 2156 features, leaving 170 of the original 2326 features. Filtering result saved to new object.
Filtered 2191 features, leaving 135 of the original 2326 features. Filtering result saved to new object.
Filtered 2195 features, leaving 131 of the original 2326 features. Filtering result saved to new object.
Filtered 2223 features, leaving 103 of the original 2326 features. Filtering result saved to new object.
Filtered 2224 features, leaving 102 of the original 2326 features. Filtering result saved to new object.
Filtered 2238 features, leaving 88 of the original 2326 features. Filtering result saved to new object.
Filtered 2246 features, leaving 80 of the original 2326 features. Filtering result saved to new object.
Filtered 2252 features, leaving 74 of the original 2326 features. Filtering result saved to new object.
Filtered 2286 features, leaving 40 of the original 2326 features. Filtering result saved to new object.

Example plot of split_hierarchical(plot_style=’all’)

align

center

Example plot of split_hierarchical()

split_kmeans(n_clusters: Union[PositiveInt, List[PositiveInt], Literal['gap', 'silhouette', 'calinski_harabasz', 'davies_bouldin', 'bic']], n_init: PositiveInt = 3, max_iter: PositiveInt = 300, random_seed: Optional[NonNegativeInt] = None, power_transform: bool = True, plot_style: Literal['all', 'std_area', 'std_bar'] = 'all', split_plots: bool = False, max_n_clusters_estimate: Union[PositiveInt, Literal['auto']] = 'auto', parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False) → Union[Tuple[CountFilter, ...], Tuple[Tuple[CountFilter, ...], ...]]

Clusters the features in the CountFilter object using the K-means clustering algorithm, and then splits those features into multiple non-overlapping CountFilter objects, based on the clustering result.

Parameters

• n_clusters (int, list of ints, 'gap', 'silhouette', 'calinski_harabasz', 'davies_bouldin', or 'bic') – The number of clusters the algorithm will seek.

• random_seed (Union[int, None] or None (default=None)) – determines random number generation for centroid initialization. Use an int to make the randomness deterministic.

• n_init (int (default=3)) – number of time the k-medoids algorithm will be run with different medoid seeds. The final results will be the best output of n_init consecutive runs in terms of inertia.

• max_iter (int (default=300)) – maximum number of iterations of the k-medoids algorithm for a single run.

• power_transform (bool (default=True)) – if True, RNAlysis will apply a power transform (Box-Cox) to the data prior to clustering.

• plot_style ('all', 'std_area', or 'std_bar' (default='all')) – determines the visual style of the cluster expression plot.

• split_plots (bool (default=False)) – if True, each discovered cluster will be plotted on its own. Otherwise, all clusters will be plotted in the same Figure.

• max_n_clusters_estimate (int or 'auto' (default='auto')) – the maximum number of clusters to test if trying to automatically estimate the optimal number of clusters. If `max_n_clusters_estimate`=’default’, an appropriate value will be picked automatically.

• parallel_backend (Literal[PARALLEL_BACKENDS] (default='loky')) – Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise.

Returns

if n_clusters is an int, returns a tuple of n_clusters CountFilter objects, each corresponding to a discovered cluster. If n_clusters is a list, returns one tuple of CountFilter objects per value in n_clusters.

Examples

>>> from rnalysis import filtering
>>> dev_stages = filtering.CountFilter('tests/test_files/elegans_developmental_stages.tsv')
>>> dev_stages.filter_low_reads(100)
Filtered 44072 features, leaving 2326 of the original 46398 features. Filtered inplace.
>>> clusters = dev_stages.split_kmeans(14,power_transform=True)
Filtered 44072 features, leaving 2326 of the original 46398 features. Filtered inplace.
Filtered 1801 features, leaving 525 of the original 2326 features. Filtering result saved to new object.
Filtered 2010 features, leaving 316 of the original 2326 features. Filtering result saved to new object.
Filtered 2059 features, leaving 267 of the original 2326 features. Filtering result saved to new object.
Filtered 2102 features, leaving 224 of the original 2326 features. Filtering result saved to new object.
Filtered 2185 features, leaving 141 of the original 2326 features. Filtering result saved to new object.
Filtered 2186 features, leaving 140 of the original 2326 features. Filtering result saved to new object.
Filtered 2200 features, leaving 126 of the original 2326 features. Filtering result saved to new object.
Filtered 2219 features, leaving 107 of the original 2326 features. Filtering result saved to new object.
Filtered 2225 features, leaving 101 of the original 2326 features. Filtering result saved to new object.
Filtered 2225 features, leaving 101 of the original 2326 features. Filtering result saved to new object.
Filtered 2241 features, leaving 85 of the original 2326 features. Filtering result saved to new object.
Filtered 2250 features, leaving 76 of the original 2326 features. Filtering result saved to new object.
Filtered 2259 features, leaving 67 of the original 2326 features. Filtering result saved to new object.
Filtered 2276 features, leaving 50 of the original 2326 features. Filtering result saved to new object.

Example plot of split_kmeans(plot_style=’all’)

Example plot of split_kmeans()

split_kmedoids(n_clusters: Union[PositiveInt, List[PositiveInt], Literal['gap', 'silhouette', 'calinski_harabasz', 'davies_bouldin', 'bic']], n_init: PositiveInt = 3, max_iter: PositiveInt = 300, random_seed: Optional[NonNegativeInt] = None, metric: Union[str, Literal['Euclidean', 'Cosine', 'Pearson', 'Spearman', 'Manhattan', 'L1', 'L2', 'Jackknife', 'YS1', 'YR1', 'Sharpened_Cosine', 'Hamming']] = 'Euclidean', power_transform: bool = True, plot_style: Literal['all', 'std_area', 'std_bar'] = 'all', split_plots: bool = False, max_n_clusters_estimate: Union[PositiveInt, Literal['auto']] = 'auto', parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False) → Union[Tuple[CountFilter, ...], Tuple[Tuple[CountFilter, ...], ...]]

Clusters the features in the CountFilter object using the K-medoids clustering algorithm, and then splits those features into multiple non-overlapping CountFilter objects, based on the clustering result.

Parameters

• n_clusters (int, list of ints, 'gap', 'silhouette', 'calinski_harabasz', 'davies_bouldin', or 'bic') – The number of clusters the algorithm will seek.

• random_seed (Union[int, None] or None (default=None)) – determines random number generation for centroid initialization. Use an int to make the randomness deterministic.

• n_init (int (default=3)) – number of time the k-medoids algorithm will be run with different medoid seeds. The final results will be the best output of n_init consecutive runs in terms of inertia.

• max_iter (int (default=300)) – maximum number of iterations of the k-medoids algorithm for a single run.

• metric (str (default='Euclidean')) – the distance metric used to determine similarity between data points. For a full list of supported distance metrics see the user guide.

• power_transform (bool (default=True)) – if True, RNAlysis will apply a power transform (Box-Cox) to the data prior to clustering.

• plot_style ('all', 'std_area', or 'std_bar' (default='all')) – determines the visual style of the cluster expression plot.

• split_plots (bool (default=False)) – if True, each discovered cluster will be plotted on its own. Otherwise, all clusters will be plotted in the same Figure.

• max_n_clusters_estimate (int or 'auto' (default='auto')) – the maximum number of clusters to test if trying to automatically estimate the optimal number of clusters. If `max_n_clusters_estimate`=’default’, an appropriate value will be picked automatically.

• parallel_backend (Literal[PARALLEL_BACKENDS] (default='loky')) – Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise.

Returns

if n_clusters is an int, returns a tuple of n_clusters CountFilter objects, each corresponding to a discovered cluster. If n_clusters is a list, returns one tuple of CountFilter objects per value in n_clusters.

Examples

>>> from rnalysis import filtering
>>> dev_stages = filtering.CountFilter('tests/test_files/elegans_developmental_stages.tsv')
>>> dev_stages.filter_low_reads(100)
Filtered 44072 features, leaving 2326 of the original 46398 features. Filtered inplace.
>>> clusters = dev_stages.split_kmedoids(n_clusters=14, metric='spearman', power_transform=True)
Filtered 1967 features, leaving 359 of the original 2326 features. Filtering result saved to new object.
Filtered 2020 features, leaving 306 of the original 2326 features. Filtering result saved to new object.
Filtered 2071 features, leaving 255 of the original 2326 features. Filtering result saved to new object.
Filtered 2131 features, leaving 195 of the original 2326 features. Filtering result saved to new object.
Filtered 2145 features, leaving 181 of the original 2326 features. Filtering result saved to new object.
Filtered 2157 features, leaving 169 of the original 2326 features. Filtering result saved to new object.
Filtered 2159 features, leaving 167 of the original 2326 features. Filtering result saved to new object.
Filtered 2182 features, leaving 144 of the original 2326 features. Filtering result saved to new object.
Filtered 2190 features, leaving 136 of the original 2326 features. Filtering result saved to new object.
Filtered 2192 features, leaving 134 of the original 2326 features. Filtering result saved to new object.
Filtered 2229 features, leaving 97 of the original 2326 features. Filtering result saved to new object.
Filtered 2252 features, leaving 74 of the original 2326 features. Filtering result saved to new object.
Filtered 2268 features, leaving 58 of the original 2326 features. Filtering result saved to new object.
Filtered 2275 features, leaving 51 of the original 2326 features. Filtering result saved to new object.

Example plot of split_kmedoids(plot_style=’all’)

Example plot of split_kmedoids()

symmetric_difference(other: Union[Filter, set], return_type: Literal['set', 'str'] = 'set')

Returns a set/string of the WBGene indices that exist either in the first Filter object/set OR the second, but NOT in both (set symmetric difference).

Parameters

• other (Filter or set.) – a second Filter object/set to calculate symmetric difference with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the features that exist in exactly one Filter object. If ‘str’, returns a string of the features that exist in exactly one Filter object, delimited by a comma.

Return type

set or str

Returns

a set/string of the features that that exist t in exactly one Filter. (set symmetric difference).

Examples

>>> from rnalysis import filtering
>>> d = filtering.DESeqFilter("tests/test_files/test_deseq.csv")
>>> counts = filtering.CountFilter('tests/test_files/counted.csv')
>>> # calculate difference and return a set
>>> d.symmetric_difference(counts)
{'WBGene00000017', 'WBGene00077504', 'WBGene00000024', 'WBGene00000010', 'WBGene00000020',
'WBGene00007069', 'WBGene00007063', 'WBGene00007067', 'WBGene00007078', 'WBGene00000029', 'WBGene00000006',
'WBGene00007064', 'WBGene00000019', 'WBGene00000004', 'WBGene00007066', 'WBGene00014997', 'WBGene00000023',
'WBGene00007074', 'WBGene00000025', 'WBGene00043989', 'WBGene00043988', 'WBGene00000014', 'WBGene00000027',
'WBGene00000021', 'WBGene00044022', 'WBGene00007079', 'WBGene00000012', 'WBGene00000005', 'WBGene00077503',
'WBGene00000026', 'WBGene00000003', 'WBGene00000002', 'WBGene00077502', 'WBGene00044951', 'WBGene00007077',
'WBGene00000007', 'WBGene00000008', 'WBGene00007076', 'WBGene00000013', 'WBGene00043990', 'WBGene00043987',
'WBGene00007071', 'WBGene00000011', 'WBGene00000015', 'WBGene00000018', 'WBGene00000016', 'WBGene00000028',
'WBGene00007075', 'WBGene00000022', 'WBGene00000009'}

tail(n: PositiveInt = 5) → DataFrame

Return the last n rows of the Filter object. See pandas.DataFrame.tail documentation.

Parameters

n (positive int, default 5) – Number of rows to show.

Return type

pandas.DataFrame

Returns

returns the last n rows of the Filter object.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> d.tail()
                   baseMean  log2FoldChange  ...        pvalue          padj
WBGene00000025  2236.185837        2.477374  ...  1.910000e-81  1.460000e-78
WBGene00000026   343.648987       -4.037191  ...  2.320000e-75  1.700000e-72
WBGene00000027   175.142856        6.352044  ...  1.580000e-74  1.120000e-71
WBGene00000028   219.163200        3.913657  ...  3.420000e-72  2.320000e-69
WBGene00000029  1066.242402       -2.811281  ...  1.420000e-70  9.290000e-68

[5 rows x 6 columns]

>>> d.tail(8) # returns the last 8 rows
                   baseMean  log2FoldChange  ...        pvalue          padj
WBGene00000022   365.813048        6.101303  ...  2.740000e-97  2.400000e-94
WBGene00000023  3168.566714        3.906719  ...  1.600000e-93  1.340000e-90
WBGene00000024   221.925724        4.801676  ...  1.230000e-84  9.820000e-82
WBGene00000025  2236.185837        2.477374  ...  1.910000e-81  1.460000e-78
WBGene00000026   343.648987       -4.037191  ...  2.320000e-75  1.700000e-72
WBGene00000027   175.142856        6.352044  ...  1.580000e-74  1.120000e-71
WBGene00000028   219.163200        3.913657  ...  3.420000e-72  2.320000e-69
WBGene00000029  1066.242402       -2.811281  ...  1.420000e-70  9.290000e-68

[8 rows x 6 columns]

text_filters(column: ColumnName, operator: Literal['equals', 'contains', 'starts with', 'ends with'], value: str, opposite: bool = False, inplace: bool = True)

Applay a text filter (equals, contains, starts with, ends with) on a particular column in the Filter object.

Parameters

• column (str) – name of the column to filter by

• operator (str: 'eq' / 'equals' / '=', 'ct' / 'contains' / 'in', 'sw' / 'starts with', 'ew' / 'ends with') – the operator to filter the column by (equals, contains, starts with, ends with)

• value (number (int or float)) – the value to filter by

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/text_filters.csv')
>>> # keep only rows that have a value that starts with 'AC3' in the column 'name'.
>>> filt.text_filters('name','sw','AC3')
Filtered 17 features, leaving 5 of the original 22 features. Filtered inplace.

transform(function: Union[Literal['Box-Cox', 'log2', 'log10', 'ln', 'Standardize'], Callable], columns: Union[ColumnNames, Literal['all']] = 'all', inplace: bool = True, **function_kwargs)

Transform the values in the Filter object with the specified function.

Parameters

• function (Callable or str ('logx' for base-x log of the data + 1, 'box-cox' for Box-Cox transform of the data + 1, 'standardize' for standardization)) – The function or function name to be applied.

• columns (str, list of str, or 'all' (default='all')) – The columns to which the transform should be applied.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

• function_kwargs – Any additional keyworded arguments taken by the supplied function.

Returns

If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/counted.csv')
>>> filt_log10 = filt.transform('log10', inplace=False)
Transformed 22 features. Transformation result saved to new object.
>>> filt.transform(lambda x: x+1, columns=['cond1','cond4'])
Transformed 22 features. Transformed inplace.

translate_gene_ids(translate_to: Union[str, Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']], translate_from: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', remove_unmapped_genes: bool = False, inplace: bool = True)

Translates gene names/IDs from one type to another. Mapping is done using the UniProtKB Gene ID Mapping service. You can choose to optionally drop from the table all rows that failed to be translated.

Parameters

• translate_to (str) – the gene ID type to translate gene names/IDs to. For example: UniProtKB, Ensembl, Wormbase.

• translate_from (str or 'auto' (default='auto')) – the gene ID type to translate gene names/IDs from. For example: UniProtKB, Ensembl, Wormbase. If translate_from=’auto’, RNAlysis will attempt to automatically determine the gene ID type of the features in the table.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be translated will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and translated instance of the Filter object.

property triplicates

Returns a nested list of the column names in the CountFilter, grouped by alphabetical order into triplicates. For example, if counts.columns is [‘A_rep1’,’A_rep2’,’A_rep3’,’B_rep1’,’B_rep2’,_B_rep3’], then counts.triplicates will be [[‘A_rep1’,’A_rep2’,’A_rep3’],[‘B_rep1’,’B_rep2’,_B_rep3’]]

union(*others: Union[Filter, set], return_type: Literal['set', 'str'] = 'set')

Returns a set/string of the union of features between multiple Filter objects/sets (the features that exist in at least one of the Filter objects/sets).

Parameters

• others (Filter or set objects.) – Objects to calculate union with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the union features. If ‘str’, returns a string of the union WBGene indices, delimited by a comma.

Return type

set or str

Returns

a set/string of the WBGene indices that exist in at least one of the Filter objects.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # calculate union and return a set
>>> d.union(counts)
{'WBGene00000017', 'WBGene00000021', 'WBGene00044022', 'WBGene00077504', 'WBGene00000012',
'WBGene00000024', 'WBGene00007079', 'WBGene00000010', 'WBGene00000020', 'WBGene00000005', 'WBGene00007069',
'WBGene00007063', 'WBGene00007067', 'WBGene00077503', 'WBGene00007078', 'WBGene00000026', 'WBGene00000029',
'WBGene00000002', 'WBGene00000003', 'WBGene00000006', 'WBGene00007064', 'WBGene00077502', 'WBGene00044951',
'WBGene00000007', 'WBGene00000008', 'WBGene00000019', 'WBGene00007077', 'WBGene00000004', 'WBGene00007066',
'WBGene00007076', 'WBGene00000013', 'WBGene00014997', 'WBGene00000023', 'WBGene00043990', 'WBGene00007074',
'WBGene00000025', 'WBGene00000011', 'WBGene00043987', 'WBGene00007071', 'WBGene00000015', 'WBGene00000018',
'WBGene00043989', 'WBGene00043988', 'WBGene00000014', 'WBGene00000016', 'WBGene00000027', 'WBGene00000028',
'WBGene00007075', 'WBGene00000022', 'WBGene00000009'}

violin_plot(samples: Union[GroupedColumns, Literal['all']] = 'all', ylabel: str = '$\\log_10$(normalized reads + 1)', title: Union[str, Literal['auto']] = 'auto', title_fontsize: float = 20, label_fontsize: float = 16, tick_fontsize: float = 12) → Figure

Generates a violin plot of the specified samples in the CountFilter object in log10 scale. Can plot both single samples and average multiple replicates. It is recommended to use this function on normalized values and not on absolute read values. Box inside the violin plot indicates 25% and 75% percentiles, and the white dot indicates the median.

Parameters

• samples ('all' or list.) – A list of the sample names and/or grouped sample names to be plotted. All specified samples must be present in the CountFilter object. To average multiple replicates of the same condition, they can be grouped in an inner list. Example input: [[‘SAMPLE1A’, ‘SAMPLE1B’, ‘SAMPLE1C’], [‘SAMPLE2A’, ‘SAMPLE2B’, ‘SAMPLE2C’],’SAMPLE3’ , ‘SAMPLE6’]

• ylabel (str (default='log10(normalized reads + 1)')) – the label of the Y axis.

• title (str or 'auto' (default='auto')) – The title of the plot. If ‘auto’, a title will be generated automatically.

• title_fontsize (float (default=30)) – determines the font size of the graph title.

• label_fontsize (float (default=15) :param tick_fontsize: determines the font size of the X and Y tick labels.) – determines the font size of the X and Y axis labels.

Return type

a matplotlib Figure.

Example plot of violin_plot()

class rnalysis.filtering.DESeqFilter(fname: Union[str, Path, tuple], drop_columns: Union[str, List[str]] = None, log2fc_col: str = 'log2FoldChange', padj_col: str = 'padj', suppress_warnings: bool = False)

Bases: Filter

A class that receives a DESeq output file and can filter it according to various characteristics.

Attributes

df: pandas DataFrame

A DataFrame that contains the DESeq output file contents. The DataFrame is modified upon usage of filter operations.

shape: tuple (rows, columns)

The dimensions of df.

columns: list

The columns of df.

fname: pathlib.Path

The path and filename for the purpose of saving df as a csv file. Updates automatically when filter operations are applied.

index_set: set

All of the indices in the current DataFrame (which were not removed by previously used filter methods) as a set.

index_string: string

A string of all feature indices in the current DataFrame separated by newline.

static _from_string(msg: str = '', delimiter: str = '\n')

Takes a manual string input from the user, and then splits it using a delimiter into a list of values.

param msg

a promprt to be printed to the user

param delimiter

the delimiter used to separate the values. Default is ‘

‘

return

A list of the comma-seperated values the user inserted.

_inplace(new_df: DataFrame, opposite: bool, inplace: bool, suffix: str, printout_operation: str = 'filter', **filter_update_kwargs)

Executes the user’s choice whether to filter in-place or create a new instance of the Filter object.

Parameters

• new_df (pd.DataFrame) – the post-filtering DataFrame

• opposite (bool) – Determines whether to return the filtration ,or its opposite.

• inplace (bool) – Determines whether to filter in-place or not.

• suffix (str) – The suffix to be added to the filename

Returns

If inplace is False, returns a new instance of the Filter object.

_set_ops(others, return_type: Literal['set', 'str'], op: Any, **kwargs)

Apply the supplied set operation (union/intersection/difference/symmetric difference) to the supplied objects.

Parameters

• others (Filter or set objects.) – the other objects to apply the set operation to

• return_type ('set' or 'str') – the return type of the output

• op (function (set.union, set.intersection, set.difference or set.symmetric_difference)) – the set operation

• kwargs – any additional keyworded arguments to be supplied to the set operation.

Returns

a set/string of indices resulting from the set operation

Return type

set or str

_sort(by: Union[str, List[str]], ascending: Union[bool, List[bool]] = True, na_position: str = 'last', inplace: bool = True)

Sort the rows by the values of specified column or columns.

Parameters

• by (str or list of str) – Names of the column or columns to sort by.

• ascending (bool or list of bool, default True) – Sort ascending vs. descending. Specify list for multiple sort orders. If this is a list of bools, it must have the same length as ‘by’.

• na_position ('first' or 'last', default 'last') – If ‘first’, puts NaNs at the beginning; if ‘last’, puts NaNs at the end.

• inplace (bool, default True) – If True, perform operation in-place. Otherwise, returns a sorted copy of the Filter object without modifying the original.

Returns

None if inplace=True, a sorted Filter object otherwise.

biotypes_from_gtf(gtf_path: Union[str, Path], attribute_name: Union[Literal['biotype', 'gene_biotype', 'transcript_biotype', 'gene_type', 'transcript_type'], str] = 'gene_biotype', feature_type: Literal['gene', 'transcript'] = 'gene', long_format: bool = False) → DataFrame

Returns a DataFrame describing the biotypes in the table and their count. The data about feature biotypes is drawn from a GTF (Gene transfer format) file supplied by the user.

Parameters

• gtf_path (str or Path) – Path to your GTF (Gene transfer format) file. The file should match the type of gene names/IDs you use in your table, and should contain an attribute describing biotype.

• attribute_name (str (default='gene_biotype')) – name of the attribute in your GTF file that describes feature biotype.

• feature_type ('gene' or 'transcript' (default='gene')) – determined whether the features/rows in your data table describe individual genes or transcripts.

:param long_format:if True, returns a short-form DataFrame, which states the biotypes in the Filter object and their count. Otherwise, returns a long-form DataFrame, which also provides descriptive statistics of each column per biotype. :rtype: pandas.DataFrame :returns: a pandas DataFrame showing the number of values belonging to each biotype, as well as additional descriptive statistics of format==’long’.

biotypes_from_ref_table(long_format: bool = False, ref: Union[str, Path, Literal['predefined']] = 'predefined') → DataFrame

Returns a DataFrame describing the biotypes in the table and their count. The data about feature biotypes is drawn from a Biotype Reference Table supplied by the user.

:param long_format:if True, returns a short-form DataFrame, which states the biotypes in the Filter object and their count. Otherwise, returns a long-form DataFrame, which also provides descriptive statistics of each column per biotype. :param ref: Name of the biotype reference table used to determine biotype. Default is ce11 (included in the package). :rtype: pandas.DataFrame :returns: a pandas DataFrame showing the number of values belonging to each biotype, as well as additional descriptive statistics of format==’long’.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> # short-form view
>>> d.biotypes_from_ref_table(ref='tests/biotype_ref_table_for_tests.csv')
                gene
biotype
protein_coding    26
pseudogene         1
unknown            1

>>> # long-form view
>>> d.biotypes_from_ref_table(long_format=True,ref='tests/biotype_ref_table_for_tests.csv')
               baseMean               ...           padj
                  count         mean  ...            75%            max
biotype                               ...
protein_coding     26.0  1823.089609  ...   1.005060e-90   9.290000e-68
pseudogene          1.0  2688.043701  ...   1.800000e-94   1.800000e-94
unknown             1.0  2085.995094  ...  3.070000e-152  3.070000e-152

[3 rows x 48 columns]

property columns: list

The columns of df.

Returns

a list of the columns in the Filter object.

Return type

list

describe(percentiles: Union[float, List[float]] = (0.01, 0.25, 0.5, 0.75, 0.99)) → DataFrame

Generate descriptive statistics that summarize the central tendency, dispersion and shape of the dataset’s distribution, excluding NaN values. For more information see the documentation of pandas.DataFrame.describe.

Parameters

percentiles (list-like of floats (default=(0.01, 0.25, 0.5, 0.75, 0.99))) – The percentiles to include in the output. All should fall between 0 and 1. The default is [.25, .5, .75], which returns the 25th, 50th, and 75th percentiles.

Returns

Summary statistics of the dataset.

Return type

Series or DataFrame

Examples

>>> from rnalysis import filtering
>>> import numpy as np
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.describe()
              cond1         cond2         cond3         cond4
count     22.000000     22.000000     22.000000     22.000000
mean    2515.590909   2209.227273   4230.227273   3099.818182
std     4820.512674   4134.948493   7635.832664   5520.394522
min        0.000000      0.000000      0.000000      0.000000
1%         0.000000      0.000000      0.000000      0.000000
25%        6.000000      6.250000      1.250000      0.250000
50%       57.500000     52.500000     23.500000     21.000000
75%     2637.000000   2479.000000   6030.500000   4669.750000
99%    15054.950000  12714.290000  21955.390000  15603.510000
max    15056.000000  12746.000000  22027.000000  15639.000000

>>> # show the deciles (10%, 20%, 30%... 90%) of the columns
>>> counts.describe(percentiles=np.arange(0.1, 1, 0.1))
              cond1         cond2         cond3         cond4
count     22.000000     22.000000     22.000000     22.000000
mean    2515.590909   2209.227273   4230.227273   3099.818182
std     4820.512674   4134.948493   7635.832664   5520.394522
min        0.000000      0.000000      0.000000      0.000000
10%        0.000000      0.200000      0.000000      0.000000
20%        1.400000      3.200000      1.000000      0.000000
30%       15.000000     15.700000      2.600000      1.000000
40%       28.400000     26.800000     14.000000      9.000000
50%       57.500000     52.500000     23.500000     21.000000
60%       82.000000    106.800000     44.000000     33.000000
70%      484.200000    395.500000    305.000000    302.500000
80%     3398.600000   3172.600000   7981.400000   6213.000000
90%     8722.100000   7941.800000  16449.500000  12129.900000
max    15056.000000  12746.000000  22027.000000  15639.000000

df

difference(*others: Union[Filter, set], return_type: Literal['set', 'str'] = 'set', inplace: bool = False)

Keep only the features that exist in the first Filter object/set but NOT in the others. Can be done inplace on the first Filter object, or return a set/string of features.

Parameters

• others (Filter or set objects.) – Objects to calculate difference with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the features that exist only in the first Filter object. If ‘str’, returns a string of the WBGene indices that exist only in the first Filter object, delimited by a comma.

• inplace (bool, default False) – If True, filtering will be applied to the current Filter object. If False (default), the function will return a set/str that contains the intersecting features.

Return type

set or str

Returns

If inplace=False, returns a set/string of the features that exist only in the first Filter object/set (set difference).

Examples

>>> from rnalysis import filtering
>>> d = filtering.DESeqFilter("tests/test_files/test_deseq.csv")
>>> counts = filtering.CountFilter('tests/test_files/counted.csv')
>>> a_set = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> # calculate difference and return a set
>>> d.difference(counts, a_set)
{'WBGene00007063', 'WBGene00007064', 'WBGene00007066', 'WBGene00007067', 'WBGene00007069', 'WBGene00007071',
 'WBGene00007074', 'WBGene00007075', 'WBGene00007076', 'WBGene00007077', 'WBGene00007078', 'WBGene00007079',
 'WBGene00014997', 'WBGene00043987', 'WBGene00043988', 'WBGene00043989', 'WBGene00043990', 'WBGene00044022',
 'WBGene00044951', 'WBGene00077502', 'WBGene00077503', 'WBGene00077504'}

# calculate difference and filter in-place >>> d.difference(counts, a_set, inplace=True) Filtered 2 features, leaving 26 of the original 28 features. Filtered inplace.

drop_columns(columns: ColumnNames, inplace: bool = True)

Drop specific columns from the table.

Parameters

• columns (str or list of str) – The names of the column/columns to be dropped fro mthe table.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

filter_abs_log2_fold_change(abslog2fc: float = 1, opposite: bool = False, inplace: bool = True)

Filters out all features whose absolute log2 fold change is below the indicated threshold. For example: if log2fc is 2.0, all features whose log2 fold change is between 1 and -1 (went up less than two-fold or went down less than two-fold) will be filtered out.

Parameters

• abslog2fc – The threshold absolute log2 fold change for filtering out a feature. Float or int. All features whose absolute log2 fold change is lower than log2fc will be filtered out.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current DESeqFilter object. If False, the function will return a new DESeqFilter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of DESeqFilter.

Examples

>>> from rnalysis import filtering
>>> d = filtering.DESeqFilter('tests/test_files/sample_deseq.csv')
>>> d.filter_abs_log2_fold_change(2) # keep only rows whose log2(fold change) is >=2 or <=-2
Filtered 1 features, leaving 28 of the original 29 features. Filtered inplace.

filter_biotype_from_gtf(gtf_path: Union[str, Path], biotype: Union[Literal['protein_coding', 'pseudogene', 'lincRNA', 'miRNA', 'ncRNA', 'piRNA', 'rRNA', 'snoRNA', 'snRNA', 'tRNA'], str, List[str]] = 'protein_coding', attribute_name: Union[Literal['biotype', 'gene_biotype', 'transcript_biotype', 'gene_type', 'transcript_type'], str] = 'gene_biotype', feature_type: Literal['gene', 'transcript'] = 'gene', opposite: bool = False, inplace: bool = True)

Filters out all features that do not match the indicated biotype/biotypes (for example: ‘protein_coding’, ‘ncRNA’, etc). The data about feature biotypes is drawn from a GTF (Gene transfer format) file supplied by the user.

Parameters

• gtf_path (str or Path) – Path to your GTF (Gene transfer format) file. The file should match the type of gene names/IDs you use in your table, and should contain an attribute describing biotype.

• biotype (str or list of strings) – the biotypes which will not be filtered out.

• attribute_name (str (default='gene_biotype')) – name of the attribute in your GTF file that describes feature biotype.

• feature_type ('gene' or 'transcript' (default='gene')) – determined whether the features/rows in your data table describe individual genes or transcripts.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

filter_biotype_from_ref_table(biotype: Union[Literal['protein_coding', 'pseudogene', 'lincRNA', 'miRNA', 'ncRNA', 'piRNA', 'rRNA', 'snoRNA', 'snRNA', 'tRNA'], str, List[str]] = 'protein_coding', ref: Union[str, Path, Literal['predefined']] = 'predefined', opposite: bool = False, inplace: bool = True)

Filters out all features that do not match the indicated biotype/biotypes (for example: ‘protein_coding’, ‘ncRNA’, etc). The data about feature biotypes is drawn from a Biotype Reference Table supplied by the user.

Parameters

• biotype (string or list of strings) – the biotypes which will not be filtered out.

• ref – Name of the biotype reference file used to determine biotypes. Default is the path defined by the user in the settings.yaml file.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows whose biotype is 'protein_coding'
>>> counts.filter_biotype_from_ref_table('protein_coding',ref='tests/biotype_ref_table_for_tests.csv')
Filtered 9 features, leaving 13 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows whose biotype is 'protein_coding' or 'pseudogene'
>>> counts.filter_biotype_from_ref_table(['protein_coding','pseudogene'],ref='tests/biotype_ref_table_for_tests.csv')
Filtered 0 features, leaving 22 of the original 22 features. Filtered inplace.

filter_by_attribute(attributes: Union[str, List[str]] = None, mode: Literal['union', 'intersection'] = 'union', ref: Union[str, Path, Literal['predefined']] = 'predefined', opposite: bool = False, inplace: bool = True)

Filters features according to user-defined attributes from an Attribute Reference Table. When multiple attributes are given, filtering can be done in ‘union’ mode (where features that belong to at least one attribute are not filtered out), or in ‘intersection’ mode (where only features that belong to ALL attributes are not filtered out). To learn more about user-defined attributes and Attribute Reference Tables, read the user guide.

Parameters

• attributes (string or list of strings, which are column titles in the user-defined Attribute Reference Table.) – attributes to filter by.

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

• ref (str or pathlib.Path (default='predefined')) – filename/path of the attribute reference table to be used as reference.

• opposite (bool (default=False)) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new and filtered instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that belong to the attribute 'attribute1'
>>> counts.filter_by_attribute('attribute1',ref='tests/attr_ref_table_for_examples.csv')
Filtered 15 features, leaving 7 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that belong to the attributes 'attribute1' OR 'attribute3' (union)
>>> counts.filter_by_attribute(['attribute1','attribute3'],ref='tests/attr_ref_table_for_examples.csv')
Filtered 14 features, leaving 8 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that belong to both attributes 'attribute1' AND 'attribute3' (intersection)
>>> counts.filter_by_attribute(['attribute1','attribute3'],mode='intersection',
... ref='tests/attr_ref_table_for_examples.csv')
Filtered 19 features, leaving 3 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that DON'T belong to either 'attribute1','attribute3' or both
>>> counts.filter_by_attribute(['attribute1','attribute3'],ref='tests/attr_ref_table_for_examples.csv',
... opposite=True)
Filtered 8 features, leaving 14 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that DON'T belong to both 'attribute1' AND 'attribute3'
>>> counts.filter_by_attribute(['attribute1','attribute3'],mode='intersection',
... ref='tests/attr_ref_table_for_examples.csv',opposite=True)
Filtered 3 features, leaving 19 of the original 22 features. Filtered inplace.

filter_by_go_annotations(go_ids: Union[str, List[str]], mode: Literal['union', 'intersection'] = 'union', organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', propagate_annotations: bool = True, evidence_types: Union[Literal['any', 'experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = 'any', excluded_evidence_types: Union[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = (), databases: Union[str, Iterable[str]] = 'any', excluded_databases: Union[str, Iterable[str]] = (), qualifiers: Union[Literal['any', 'not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'any', excluded_qualifiers: Union[Literal['not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'not', opposite: bool = False, inplace: bool = True)

Filters genes according to GO annotations, keeping only genes that are annotated with a specific GO term. When multiple GO terms are given, filtering can be done in ‘union’ mode (where genes that belong to at least one GO term are not filtered out), or in ‘intersection’ mode (where only genes that belong to ALL GO terms are not filtered out).

Parameters

• go_ids (str or list of str) –

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

param organism: organism name or NCBI taxon ID for which the function will fetch GO annotations. :type organism: str or int :param gene_id_type: the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping :type gene_id_type: str or ‘auto’ (default=’auto’) :param propagate_annotations: determines the propagation method of GO annotations. ‘no’ does not propagate annotations at all; ‘classic’ propagates all annotations up to the DAG tree’s root; ‘elim’ terminates propagation at nodes which show significant enrichment; ‘weight’ performs propagation in a weighted manner based on the significance of children nodes relatively to their parents; and ‘allm’ uses a combination of all proopagation methods. To read more about the propagation methods, see Alexa et al: https://pubmed.ncbi.nlm.nih.gov/16606683/ :type propagate_annotations: ‘classic’, ‘elim’, ‘weight’, ‘all.m’, or ‘no’ (default=’elim’) :param evidence_types: only annotations with the specified evidence types will be included in the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/ :type evidence_types: str, Iterable of str, ‘experimental’, ‘phylogenetic’ ,’computational’, ‘author’, ‘curator’, ‘electronic’, or ‘any’ (default=’any’) :param excluded_evidence_types: annotations with the specified evidence types will be excluded from the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/ :type excluded_evidence_types: str, Iterable of str, ‘experimental’, ‘phylogenetic’ ,’computational’, ‘author’, ‘curator’, ‘electronic’, or None (default=None) :param databases: only annotations from the specified databases will be included in the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type databases: str, Iterable of str, or ‘any’ (default) :param excluded_databases: annotations from the specified databases will be excluded from the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type excluded_databases: str, Iterable of str, or None (default) :param qualifiers: only annotations with the speficied qualifiers will be included in the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type qualifiers: str, Iterable of str, or ‘any’ (default) :param excluded_qualifiers: annotations with the speficied qualifiers will be excluded from the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type excluded_qualifiers: str, Iterable of str, or None (default=’not’) :type opposite: bool (default=False) :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current FeatureSet object. If False, the function will return a new FeatureSet instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new, filtered instance of the FeatureSet object.

filter_by_kegg_annotations(kegg_ids: Union[str, List[str]], mode: Literal['union', 'intersection'] = 'union', organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', opposite: bool = False, inplace: bool = True)

Filters genes according to KEGG pathways, keeping only genes that belong to specific KEGG pathway. When multiple KEGG IDs are given, filtering can be done in ‘union’ mode (where genes that belong to at least one pathway are not filtered out), or in ‘intersection’ mode (where only genes that belong to ALL pathways are not filtered out).

Parameters

• kegg_ids (str or list of str) – the KEGG pathway IDs according to which the table will be filtered. An example for a legal KEGG pathway ID would be ‘path:cel04020’ for the C. elegans calcium signaling pathway.

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

param organism: organism name or NCBI taxon ID for which the function will fetch GO annotations. :type organism: str or int :param gene_id_type: the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping :type gene_id_type: str or ‘auto’ (default=’auto’) :type opposite: bool (default=False) :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new, filtered instance of the Filter object.

filter_by_row_name(row_names: Union[str, List[str]], opposite: bool = False, inplace: bool = True)

Filter out specific rows from the table by their name (index).

Parameters

• row_names (str or list of str) – list of row names to be removed from the table.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

filter_duplicate_ids(keep: Literal['first', 'last', 'neither'] = 'first', opposite: bool = False, inplace: bool = True)

Filter out rows with duplicate names/IDs (index).

Parameters

• keep ('first', 'last', or 'neither' (default='first')) – determines which of the duplicates to keep for each group of duplicates. ‘first’ will keep the first duplicate found for each group; ‘last’ will keep the last; and ‘neither’ will remove all of the values in the group.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

filter_fold_change_direction(direction: Literal['pos', 'neg'] = 'pos', opposite: bool = False, inplace: bool = True)

Filters out features according to the direction in which they changed between the two conditions.

Parameters

• direction – ‘pos’ or ‘neg’. If ‘pos’, will keep only features that have positive log2foldchange. If ‘neg’, will keep only features that have negative log2foldchange.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current DESeqFilter object. If False, the function will return a new DESeqFilter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of DESeqFilter.

Examples

>>> from rnalysis import filtering
>>> d = filtering.DESeqFilter('tests/test_files/sample_deseq.csv')
>>> d.filter_fold_change_direction('pos') # keep only rows with a positive log2(fold change) value
Filtered 3 features, leaving 26 of the original 29 features. Filtered inplace.

>>> d = filtering.DESeqFilter('tests/test_files/sample_deseq.csv')
>>> d.filter_fold_change_direction('neg') # keep only rows with a negative log2(fold change) value
Filtered 27 features, leaving 2 of the original 29 features. Filtered inplace.

>>> d = filtering.DESeqFilter('tests/test_files/sample_deseq.csv')
>>> d.filter_fold_change_direction('pos', opposite=True) # keep only rows with a non-positive log2(fold change) value
Filtered 26 features, leaving 3 of the original 29 features. Filtered inplace.

filter_missing_values(columns: Union[ColumnNames, Literal['all']] = 'all', opposite: bool = False, inplace: bool = True)

Remove all rows whose values in the specified columns are missing (NaN).

:param columns:name/names of the columns to check for missing values. :type opposite: bool :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/test_deseq_with_nan.csv')
>>> filt_no_nan = filt.filter_missing_values(inplace=False)
Filtered 3 features, leaving 25 of the original 28 features. Filtering result saved to new object.
>>> filt_no_nan_basemean = filt.filter_missing_values(columns='baseMean', inplace=False)
Filtered 1 features, leaving 27 of the original 28 features. Filtering result saved to new object.
>>> filt_no_nan_basemean_pval = filt.filter_missing_values(columns=['baseMean','pval'], inplace=False)
Filtered 2 features, leaving 26 of the original 28 features. Filtering result saved to new object.

filter_percentile(percentile: Fraction, column: ColumnName, opposite: bool = False, inplace: bool = True)

Removes all entries above the specified percentile in the specified column. For example, if the column were ‘pvalue’ and the percentile was 0.5, then all features whose pvalue is above the median pvalue will be filtered out.

Parameters

• percentile (float between 0 and 1) – The percentile that all features above it will be filtered out.

• column (str) – Name of the DataFrame column according to which the filtering will be performed.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> # keep only the rows whose value in the column 'log2FoldChange' is below the 75th percentile
>>> d.filter_percentile(0.75,'log2FoldChange')
Filtered 7 features, leaving 21 of the original 28 features. Filtered inplace.

>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> # keep only the rows vulse value in the column 'log2FoldChange' is above the 25th percentile
>>> d.filter_percentile(0.25,'log2FoldChange',opposite=True)
Filtered 7 features, leaving 21 of the original 28 features. Filtered inplace.

filter_significant(alpha: Fraction = 0.1, opposite: bool = False, inplace: bool = True)

Removes all features which did not change significantly, according to the provided alpha.

Parameters

• alpha – the significance threshold to determine which genes will be filtered. between 0 and 1.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current DESeqFilter object. If False, the function will return a new DESeqFilter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of DESeqFilter.

Examples

>>> from rnalysis import filtering
>>> d = filtering.DESeqFilter('tests/test_files/sample_deseq.csv')
>>> d.filter_significant(0.1) # keep only rows whose adjusted p-value is <=0.1
Filtered 4 features, leaving 25 of the original 29 features. Filtered inplace.

>>> d = filtering.DESeqFilter('tests/test_files/sample_deseq.csv')

>>> d.filter_significant(0.1, opposite=True) # keep only rows whose adjusted p-value is >0.1
Filtered 25 features, leaving 4 of the original 29 features. Filtered inplace.

filter_top_n(by: ColumnNames, n: NonNegativeInt = 100, ascending: Union[bool, List[bool]] = True, na_position: str = 'last', opposite: bool = False, inplace: bool = True)

Sort the rows by the values of specified column or columns, then keep only the top ‘n’ rows.

Parameters

• by (name of column/columns (str/List[str])) – Names of the column or columns to sort and then filter by.

• n (int) – How many features to keep in the Filter object.

• ascending (bool or list of bools (default=True)) – Sort ascending vs. descending. Specify list for multiple sort orders. If this is a list of bools, it must have the same length as ‘by’.

• na_position ('first' or 'last', default 'last') – If ‘first’, puts NaNs at the beginning; if ‘last’, puts NaNs at the end.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of Filter.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only the 10 rows with the highest values in the columns 'cond1'
>>> counts.filter_top_n(by='cond1',n=10, ascending=False)
Filtered 12 features, leaving 10 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only the 10 rows which have the lowest values in the columns 'cond1'
>>> # and then the highest values in the column 'cond2'
>>> counts.filter_top_n(by=['cond1','cond2'],n=10, ascending=[True,False])
Filtered 12 features, leaving 10 of the original 22 features. Filtered inplace.

find_paralogs_ensembl(organism: Union[Literal['auto'], str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_percent_identity: bool = True)

Find paralogs within the same species using the Ensembl database.

Parameters

• organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_percent_identity (bool (default=True)) – if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest percent_identity score.

Returns

DataFrame describing all discovered paralog mappings.

find_paralogs_panther(organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto')

Find paralogs within the same species using the PantherDB database.

Parameters

• organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

Returns

DataFrame describing all discovered paralog mappings.

fname

head(n: PositiveInt = 5) → DataFrame

Return the first n rows of the Filter object. See pandas.DataFrame.head documentation.

Parameters

n (positive int, default 5) – Number of rows to show.

Returns

returns the first n rows of the Filter object.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> d.head()
                   baseMean  log2FoldChange  ...         pvalue           padj
WBGene00000002  6820.755327        7.567762  ...   0.000000e+00   0.000000e+00
WBGene00000003  3049.625670        9.138071  ...  4.660000e-302  4.280000e-298
WBGene00000004  1432.911791        8.111737  ...  6.400000e-237  3.920000e-233
WBGene00000005  4028.154186        6.534112  ...  1.700000e-228  7.800000e-225
WBGene00000006  1230.585240        7.157428  ...  2.070000e-216  7.590000e-213

[5 rows x 6 columns]

>>> d.head(3) # return only the first 3 rows
                   baseMean  log2FoldChange  ...         pvalue           padj
WBGene00000002  6820.755327        7.567762  ...   0.000000e+00   0.000000e+00
WBGene00000003  3049.625670        9.138071  ...  4.660000e-302  4.280000e-298
WBGene00000004  1432.911791        8.111737  ...  6.400000e-237  3.920000e-233

[3 rows x 6 columns]

property index_set: set

Returns all of the features in the current DataFrame (which were not removed by previously used filter methods) as a set. if any duplicate features exist in the filter object (same WBGene appears more than once), the corresponding WBGene index will appear in the returned set ONLY ONCE.

Returns

A set of WBGene names.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> myset = counts.index_set
>>> print(myset)
{'WBGene00044022', 'WBGene00077504', 'WBGene00007079', 'WBGene00007069', 'WBGene00007063',
'WBGene00007067', 'WBGene00077503', 'WBGene00007078', 'WBGene00007064', 'WBGene00077502', 'WBGene00044951',
'WBGene00007077', 'WBGene00007066', 'WBGene00007076', 'WBGene00014997', 'WBGene00043990', 'WBGene00007074',
'WBGene00043987', 'WBGene00007071', 'WBGene00043989', 'WBGene00043988', 'WBGene00007075'}

property index_string: str

Returns a string of all feature indices in the current DataFrame, sorted by their current order in the FIlter object, and separated by newline.

This includes all of the feature indices which were not filtered out by previously-used filter methods.

if any duplicate features exist in the filter object (same index appears more than once),

the corresponding index will appear in the returned string ONLY ONCE.

Returns

A string of WBGene indices separated by newlines (\n).

For example, “WBGene00000001\nWBGene00000003\nWBGene12345678”.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.sort(by='cond1',ascending=False)
>>> mystring = counts.index_string
>>> print(mystring)
WBGene00007075
WBGene00043988
WBGene00043990
WBGene00007079
WBGene00007076
WBGene00043989
WBGene00007063
WBGene00007077
WBGene00007078
WBGene00007071
WBGene00007064
WBGene00007066
WBGene00007074
WBGene00043987
WBGene00007067
WBGene00014997
WBGene00044022
WBGene00077503
WBGene00077504
WBGene00077502
WBGene00007069
WBGene00044951

intersection(*others: Union[Filter, set], return_type: Literal['set', 'str'] = 'set', inplace: bool = False)

Keep only the features that exist in ALL of the given Filter objects/sets. Can be done either inplace on the first Filter object, or return a set/string of features.

Parameters

• others (Filter or set objects.) – Objects to calculate intersection with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the intersecting features. If ‘str’, returns a string of the intersecting features, delimited by a comma.

• inplace (bool (default=False)) – If True, the function will be applied in-place to the current Filter object. If False (default), the function will return a set/str that contains the intersecting indices.

Return type

set or str

Returns

If inplace=False, returns a set/string of the features that intersect between the given Filter objects/sets.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> a_set = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> # calculate intersection and return a set
>>> d.intersection(a_set)
{'WBGene00000002', 'WBGene00000003'}

# calculate intersection and filter in-place >>> d.intersection(a_set, inplace=True) Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

log2fc_col

name of the log2 fold change column

majority_vote_intersection(*others: Union[Filter, set], majority_threshold: float = 0.5, return_type: Literal['set', 'str'] = 'set')

Returns a set/string of the features that appear in at least (majority_threhold * 100)% of the given Filter objects/sets. Majority-vote intersection with majority_threshold=0 is equivalent to Union. Majority-vote intersection with majority_threshold=1 is equivalent to Intersection.

Parameters

• others (Filter or set objects.) – Objects to calculate intersection with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the intersecting WBGene indices. If ‘str’, returns a string of the intersecting indices, delimited by a comma.

• majority_threshold (float (default=0.5)) – The threshold that determines what counts as majority. Features will be returned only if they appear in at least (majority_threshold * 100)% of the given Filter objects/sets.

Return type

set or str

Returns

If inplace=False, returns a set/string of the features that uphold majority vote intersection between two given Filter objects/sets.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> a_set = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> b_set = {'WBGene00000002','WBGene00000004'}
>>> # calculate majority-vote intersection and return a set
>>> d.majority_vote_intersection(a_set, b_set, majority_threshold=2/3)
{'WBGene00000002', 'WBGene00000003', 'WBGene00000004'}

map_orthologs_ensembl(map_to_organism: Union[str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']], map_from_organism: Union[Literal['auto'], str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_percent_identity: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the Ensembl database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_percent_identity (bool (default=True)) – if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest percent_identity score.

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_orthoinspector(map_to_organism: Union[str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']], map_from_organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the OrthoInspector database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_panther(map_to_organism: Union[str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']], map_from_organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_least_diverged: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the PantherDB database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_least_diverged (bool (default=True)) – if True (default), RNAlysis will only fetch ortholog mappings that were flagged as a ‘least diverged ortholog’ on the PantherDB database. You can read more about this flag on the PantherDB website: https://www.pantherdb.org/genes/

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_phylomedb(map_to_organism: Union[str, int, Literal['Azorhizobium caulinodans ORS 571', 'Buchnera aphidicola str. G002 (Myzus persicae)', 'Cellulomonas gilvus ATCC 13127', 'Dictyoglomus thermophilum H-6-12', 'Methylophilus methylotrophus DSM 46235 = ATCC 53528', 'Pelobacter carbinolicus DSM 2380', 'Shewanella putrefaciens CN-32', 'Myxococcus fulvus HW-1', 'Myxococcus xanthus DK 1622', 'Stigmatella aurantiaca DW4/3-1', 'Cystobacter fuscus DSM 2262', 'Chondromyces apiculatus DSM 436', 'Sorangium cellulosum So0157-2', 'Vitreoscilla stercoraria DSM 513', 'Herpetosiphon aurantiacus DSM 785', 'Simonsiella muelleri ATCC 29453', 'Hyphomonas jannaschiana VP2', 'Flectobacillus major DSM 103', 'Cyclobacterium marinum DSM 745', 'Runella slithyformis DSM 19594', 'Spirosoma linguale DSM 74', 'Rubinisphaera brasiliensis DSM 5305', 'Planctopirus limnophila DSM 3776', 'Gimesia maris DSM 8797', 'Blastopirellula marina DSM 3645', 'Pirellula staleyi DSM 6068', 'Isosphaera pallida ATCC 43644', 'Methylocystis parvus OBBP', 'Borreliella burgdorferi B31', 'Borrelia hermsii DAH', 'Borrelia parkeri SLO', 'Borrelia turicatae 91E135', 'Borrelia anserina BA2', 'Sediminispirochaeta bajacaliforniensis DSM 16054', 'Spirochaeta thermophila DSM 6192', 'Treponema denticola ATCC 35405', 'Brachyspira hyodysenteriae WA1', 'Treponema pallidum subsp. pallidum str. Nichols', 'Treponema phagedenis F0421', 'Treponema bryantii NK4A124', 'Treponema saccharophilum DSM 2985', 'Treponema succinifaciens DSM 2489', "Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'", 'Leptospira interrogans serovar Lai str. 56601', 'Leptospira borgpetersenii serovar Hardjo-bovis str. L550', 'Leptospirillum ferrooxidans C2-3', 'Leptonema illini DSM 21528', 'Novispirillum itersonii subsp. itersonii ATCC 12639', 'Aquaspirillum serpens DSM 68', 'Azospirillum sp. B510', 'Campylobacter coli 76339', 'Campylobacter fetus subsp. venerealis NCTC 10354', 'Campylobacter jejuni subsp. jejuni 414', 'Campylobacter concisus 13826', 'Campylobacter curvus 525.92', 'Campylobacter lari RM2100', 'Campylobacter rectus RM3267', 'Campylobacter showae CSUNSWCD', 'Campylobacter sputorum biovar sputorum', 'Helicobacter pylori 26695', 'Helicobacter acinonychis str. Sheeba', 'Helicobacter cinaedi CCUG 18818 = ATCC BAA-847', 'Helicobacter felis ATCC 49179', 'Helicobacter fennelliae MRY12-0050', 'Helicobacter mustelae 12198', 'Pseudoalteromonas haloplanktis ATCC 14393', 'Brucella abortus 2308', 'Brucella ovis ATCC 25840', 'Elizabethkingia meningoseptica ATCC 13253 = NBRC 12535', 'Flavobacterium aquatile LMG 4008 = ATCC 11947', 'Empedobacter brevis NBRC 14943 = ATCC 43319', 'Chryseobacterium gleum ATCC 35910', 'Psychroflexus gondwanensis ACAM 44', 'Chryseobacterium indologenes NBRC 14944', 'Myroides odoratus DSM 2801', 'Sphingobacterium spiritivorum ATCC 33861', 'Francisella cf. tularensis subsp. novicida 3523', 'Paracoccus denitrificans PD1222', 'Thermus aquaticus Y51MC23', 'Thermus thermophilus HB8', 'Meiothermus ruber DSM 1279', 'Xanthobacter autotrophicus Py2', 'Comamonas testosteroni KF-1', 'Pseudomonas aeruginosa PAO1', 'Pseudoalteromonas atlantica T6c', 'Burkholderia cepacia', 'Brevundimonas diminuta 470-4', 'Pseudomonas fluorescens NCIMB 11764', 'Pseudomonas fragi B25', 'Pseudomonas mendocina NK-01', 'Pseudomonas pseudoalcaligenes AD6', 'Pseudomonas putida KT2440', 'Ralstonia solanacearum GMI1000', 'Pseudomonas stutzeri MF28', 'Pseudomonas syringae pv. syringae B728a', 'Ralstonia pickettii DTP0602', 'Burkholderia glumae BGR1', 'Xanthomonas campestris pv. campestris', 'Xanthomonas translucens DAR61454', 'Xanthomonas citri pv. citri str. 306', 'Xanthomonas oryzae pv. oryzae PXO99A', 'Azotobacter chroococcum NCIMB 8003', 'Azotobacter vinelandii DJ', 'Agrobacterium radiobacter K84', 'Agrobacterium rhizogenes', 'Agrobacterium vitis S4', 'Bradyrhizobium japonicum', 'Sinorhizobium fredii USDA 257', 'Mesorhizobium loti CJ3sym', 'Sinorhizobium meliloti 1021', 'Rhizobium leguminosarum bv. viciae GB30', 'Rhizobium tropici CIAT 899', 'Neorhizobium galegae bv. orientalis str. HAMBI 540', 'Methylobacillus flagellatus KT', 'Methylobacillus glycogenes JCM 2850', 'Methylorubrum extorquens AM1', 'Methylococcus capsulatus str. Bath', 'Methylomonas methanica MC09', 'Methylosinus trichosporium OB3b', 'Acetobacter aceti ATCC 23746', 'Komagataeibacter hansenii ATCC 23769', 'Acetobacter pasteurianus 3P3', 'Gluconobacter oxydans H24', 'Legionella pneumophila str. Paris', 'Legionella hackeliae', 'Legionella longbeachae NSW150', 'Tatlockia micdadei', 'Fluoribacter dumoffii NY 23', 'Acinetobacter baumannii', 'Acinetobacter calcoaceticus ANC 3680', 'Moraxella catarrhalis O35E', 'Neisseria cinerea ATCC 14685', 'Neisseria flavescens NRL30031/H210', 'Neisseria gonorrhoeae NCCP11945', 'Neisseria lactamica 020-06', 'Neisseria meningitidis MC58', 'Neisseria mucosa ATCC 25996', 'Neisseria polysaccharea ATCC 43768', 'Neisseria sicca ATCC 29256', 'Neisseria elongata subsp. glycolytica ATCC 29315', 'Neisseria macacae ATCC 33926', 'Thermomicrobium roseum DSM 5159', 'Kingella denitrificans ATCC 33394', 'Kingella kingae ATCC 23330', 'Kingella oralis ATCC 51147', 'Alcaligenes faecalis', 'Bordetella bronchiseptica RB50', 'Bordetella parapertussis Bpp5', 'Bordetella pertussis Tohama I', 'Bordetella avium 197N', 'Acidiphilium angustum ATCC 35903', 'Acidiphilium cryptum JF-5', 'Acidocella facilis ATCC 35904', 'Ochrobactrum anthropi ATCC 49188', 'Polaribacter irgensii 23-P', 'Beijerinckia indica subsp. indica ATCC 9039', 'Chromobacterium violaceum ATCC 12472', 'Eikenella corrodens ATCC 23834', 'Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821', 'Citrobacter koseri ATCC BAA-895', 'Citrobacter freundii MGH 56', 'Klebsiella aerogenes KCTC 2190', 'Pantoea agglomerans', 'Enterobacter cloacae subsp. cloacae ATCC 13047', 'Erwinia amylovora CFBP1430', 'Pantoea ananatis LMG 20103', 'Pectobacterium carotovorum subsp. carotovorum PC1', 'Dickeya chrysanthemi Ech1591', 'Escherichia coli K-12', 'Shimwellia blattae DSM 4481 = NBRC 105725', 'Escherichia fergusonii B253', 'Atlantibacter hermannii NBRC 105704', 'Pseudescherichia vulneris NBRC 102420', 'Hafnia alvei FB1', 'Klebsiella oxytoca', 'Klebsiella pneumoniae', 'Morganella morganii subsp. morganii KT', 'Proteus mirabilis HI4320', 'Proteus vulgaris', 'Providencia rettgeri DSM 1131', 'Providencia stuartii ATCC 25827', 'Serratia liquefaciens ATCC 27592', 'Serratia marcescens subsp. marcescens Db11', 'Serratia odorifera DSM 4582', 'Shigella boydii CDC 3083-94', 'Shigella dysenteriae 1617', 'Shigella flexneri 2a str. 301', 'Shigella sonnei Ss046', 'Xenorhabdus nematophila ATCC 19061', 'Yersinia enterocolitica LC20', 'Yersinia intermedia ATCC 29909', 'Yersinia pestis CO92', 'Yersinia pseudotuberculosis', 'Edwardsiella tarda ATCC 15947 = NBRC 105688', 'Aeromonas hydrophila subsp. hydrophila ATCC 7966', 'Aeromonas salmonicida subsp. salmonicida A449', 'Aeromonas media WS', 'Aeromonas veronii B565', 'Photobacterium phosphoreum ANT-2200', 'Photobacterium angustum S14', 'Vibrio alginolyticus NBRC 15630 = ATCC 17749', 'Vibrio cholerae O395', 'Aliivibrio fischeri ES114', 'Vibrio parahaemolyticus RIMD 2210633', 'Vibrio proteolyticus NBRC 13287', 'Vibrio vulnificus', 'Grimontia hollisae CIP 101886', 'Vibrio mimicus MB451', 'Vibrio campbellii ATCC BAA-1116', 'Vibrio diazotrophicus NBRC 103148', 'Plesiomonas shigelloides 302-73', 'Aggregatibacter actinomycetemcomitans HK1651', 'Actinobacillus pleuropneumoniae serovar 1 str. 4074', 'Actinobacillus suis H91-0380', 'Actinobacillus capsulatus DSM 19761', 'Actinobacillus equuli subsp. equuli', 'Actinobacillus ureae ATCC 25976', 'Haemophilus haemolyticus M21639', 'Haemophilus influenzae Rd KW20', 'Avibacterium paragallinarum 221', 'Haemophilus parainfluenzae T3T1', 'Histophilus somni 129PT', 'Aggregatibacter aphrophilus NJ8700', 'Haemophilus paraphrohaemolyticus HK411', 'Glaesserella parasuis ZJ0906', 'Aggregatibacter segnis ATCC 33393', 'Pasteurella multocida', 'Gallibacterium anatis UMN179', 'Pasteurella bettyae CCUG 2042', 'Pasteurella dagmatis ATCC 43325', 'Rodentibacter pneumotropicus', 'Anaplasma centrale str. Israel', 'Anaplasma marginale str. St. Maries', 'Bartonella bacilliformis KC583', 'Coxiella burnetii RSA 493', 'Ehrlichia ruminantium str. Welgevonden', 'Rickettsia conorii str. Malish 7', 'Rickettsia prowazekii str. Madrid E', 'Rickettsia rickettsii str. Iowa', 'Orientia tsutsugamushi str. Boryong', 'Rickettsia typhi str. Wilmington', 'Rickettsia akari str. Hartford', 'Rickettsia australis str. Cutlack', 'Rickettsia canadensis str. McKiel', 'Bartonella quintana str. Toulouse', 'Bartonella elizabethae F9251 = ATCC 49927', 'Chlamydia trachomatis D/UW-3/CX', 'Bacteroides fragilis 3_1_12', 'Bacteroides thetaiotaomicron VPI-5482', 'Bacteroides uniformis ATCC 8492', 'Bacteroides vulgatus ATCC 8482', 'Parabacteroides distasonis ATCC 8503', 'Campylobacter gracilis RM3268', 'Sebaldella termitidis ATCC 33386', 'Campylobacter ureolyticus', 'Butyrivibrio fibrisolvens ND3005', 'Fibrobacter succinogenes subsp. succinogenes S85', 'Porphyromonas gingivalis ATCC 33277', 'Prevotella ruminicola 23', 'Prevotella loescheii DSM 19665 = JCM 12249 = ATCC 15930', 'Wolinella succinogenes DSM 1740', 'Oxalobacter formigenes HOxBLS', 'Fusobacterium gonidiaformans ATCC 25563', 'Fusobacterium mortiferum ATCC 9817', 'Fusobacterium nucleatum subsp. nucleatum ATCC 25586', 'Fusobacterium perfoetens ATCC 29250', 'Faecalibacterium prausnitzii A2-165', 'Fusobacterium russii ATCC 25533', 'Fusobacterium varium ATCC 27725', 'Fusobacterium necrophorum subsp. funduliforme ATCC 51357', 'Fusobacterium periodonticum ATCC 33693', 'Fusobacterium ulcerans ATCC 49185', 'Syntrophomonas wolfei subsp. wolfei str. Goettingen G311', 'Dichelobacter nodosus VCS1703A', 'Desulfocurvibacter africanus subsp. africanus str. Walvis Bay', 'Desulfovibrio desulfuricans ND132', 'Desulfovibrio fructosivorans JJ', 'Desulfovibrio gigas DSM 1382 = ATCC 19364', 'Desulfovibrio salexigens DSM 2638', 'Desulfovibrio vulgaris str. Hildenborough', 'Thermodesulfobacterium thermophilum DSM 1276', 'Desulfovibrio longus DSM 6739', 'Desulfobulbus propionicus DSM 2032', 'Desulfococcus multivorans DSM 2059', 'Desulfomicrobium baculatum DSM 4028', 'Desulfovibrio piger ATCC 29098', 'Acidaminococcus fermentans DSM 20731', 'Megasphaera elsdenii DSM 20460', 'Nitrobacter hamburgensis X14', 'Nitrobacter winogradskyi Nb-255', 'Nitrosomonas europaea ATCC 19718', 'Nitrosomonas eutropha C91', 'Acidithiobacillus ferrooxidans ATCC 23270', 'Starkeya novella DSM 506', 'Thiomonas intermedia K12', 'Halothiobacillus neapolitanus c2', 'Thermithiobacillus tepidarius DSM 3134', 'Acidithiobacillus thiooxidans ATCC 19377', 'Thiobacillus thioparus DSM 505', 'Thiomicrospira pelophila DSM 1534', 'Hydrogenobacter thermophilus TK-6', 'Ehrlichia canis str. Jake', 'Ehrlichia chaffeensis str. Arkansas', 'Anaplasma phagocytophilum str. HZ', 'Neorickettsia risticii str. Illinois', 'Neorickettsia sennetsu str. Miyayama', 'Bdellovibrio bacteriovorus HD100', 'Herbaspirillum seropedicae SmR1', 'Selenomonas ruminantium AB3002', 'Cellulophaga lytica DSM 7489', 'Saccharicrinis fermentans DSM 9555 = JCM 21142', 'Pedobacter heparinus DSM 2366', 'Cytophaga hutchinsonii ATCC 33406', 'Flavobacterium johnsoniae UW101', 'Marinilabilia salmonicolor JCM 21150', 'Flavobacterium hydatis', 'Solitalea canadensis DSM 3403', 'Flavobacterium columnare ATCC 49512', 'Bernardetia litoralis DSM 6794', 'Marivirga tractuosa DSM 4126', 'Saprospira grandis str. Lewin', 'Weeksella virosa DSM 16922', 'Bergeyella zoohelcum ATCC 43767', 'Capnocytophaga gingivalis ATCC 33624', 'Capnocytophaga ochracea F0287', 'Capnocytophaga sputigena ATCC 33612', 'Beggiatoa alba B18LD', 'Microscilla marina ATCC 23134', 'Thiothrix nivea DSM 5205', 'Afipia clevelandensis ATCC 49720', 'Afipia felis ATCC 53690', 'Erythrobacter longus', 'Allochromatium vinosum DSM 180', 'Halorhodospira halochloris str. A', 'Halorhodospira halophila SL1', 'Rhodobacter capsulatus SB 1003', 'Rhodobacter sphaeroides 2.4.1', 'Rhodomicrobium vannielii ATCC 17100', 'Rhodopseudomonas palustris CGA009', 'Phaeospirillum fulvum MGU-K5', 'Phaeospirillum molischianum DSM 120', 'Pararhodospirillum photometricum DSM 122', 'Rhodospirillum rubrum ATCC 11170', 'Rhodovibrio salinarum DSM 9154', 'Chlorobium limicola DSM 245', 'Chlorobium phaeovibrioides DSM 265', 'Chlorobium phaeobacteroides DSM 266', 'Chlorobaculum tepidum TLS', 'Pelodictyon luteolum DSM 273', 'Prosthecochloris aestuarii DSM 271', 'Chloroflexus aurantiacus J-10-fl', 'Chlorogloeopsis fritschii PCC 6912', 'Microcystis aeruginosa NIES-843', 'Synechocystis sp. PCC 6714', 'Synechocystis sp. PCC 6803 substr. Kazusa', 'Planktothrix agardhii NIVA-CYA 126/8', 'Anabaena cylindrica PCC 7122', 'Leptolyngbya boryana PCC 6306', 'Tolypothrix sp. PCC 7601', 'Trichodesmium erythraeum IMS101', 'Prochlorococcus marinus str. AS9601', 'Prochlorothrix hollandica PCC 9006 = CALU 1027', 'Nitrosococcus oceani ATCC 19707', 'Nitrosospira multiformis ATCC 25196', 'Leuconostoc gelidum subsp. gasicomitatum LMG 18811', 'Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293', 'Leuconostoc lactis', 'Oenococcus oeni PSU-1', 'Weissella paramesenteroides ATCC 33313', 'Leuconostoc fallax KCTC 3537', 'Leuconostoc carnosum JB16', 'Pediococcus acidilactici DSM 20284', 'Pediococcus pentosaceus ATCC 25745', 'Finegoldia magna ATCC 53516', 'Peptostreptococcus anaerobius VPI 4330 = DSM 2949', 'Ruminococcus albus 8', 'Ruminococcus flavefaciens FD-1', 'Micrococcus luteus NCTC 2665', 'Dermacoccus nishinomiyaensis', 'Kytococcus sedentarius DSM 20547', 'Staphylococcus aureus subsp. aureus Mu50', 'Staphylococcus carnosus subsp. carnosus TM300', 'Staphylococcus epidermidis RP62A', 'Staphylococcus haemolyticus JCSC1435', 'Staphylococcus hyicus', 'Staphylococcus intermedius NCTC 11048', 'Staphylococcus simulans UMC-CNS-990', 'Staphylococcus xylosus', 'Staphylococcus hominis SK119', 'Staphylococcus warneri L37603', 'Staphylococcus sciuri subsp. sciuri Z8', 'Deinococcus radiodurans R1', 'Streptococcus gordonii str. Challis substr. CH1', 'Streptococcus oralis subsp. tigurinus AZ_3a', 'Streptococcus salivarius 57.I', 'Streptococcus sanguinis SK1057', 'Streptococcus suis R61', 'Streptococcus thermophilus LMG 18311', 'Streptococcus mutans UA159', 'Streptococcus sobrinus W1703', 'Streptococcus agalactiae LMG 14747', 'Streptococcus pneumoniae R6', 'Streptococcus pyogenes', 'Streptococcus downei F0415', 'Streptococcus parasanguinis ATCC 903', 'Blautia hansenii DSM 20583', 'Faecalicoccus pleomorphus DSM 20574', 'Streptococcus anginosus DORA_7', 'Streptococcus canis FSL Z3-227', 'Streptococcus criceti HS-6', 'Streptococcus dysgalactiae subsp. equisimilis AC-2713', 'Streptococcus equinus ATCC 9812', 'Streptococcus equi subsp. zooepidemicus', 'Streptococcus intermedius B196', 'Streptococcus macacae NCTC 11558', 'Streptococcus porcinus str. Jelinkova 176', 'Streptococcus ratti FA-1 = DSM 20564', 'Streptococcus vestibularis F0396', 'Streptococcus ferus DSM 20646', 'Streptococcus iniae', 'Streptococcus parauberis NCFD 2020', 'Streptococcus uberis 0140J', 'Enterococcus faecalis V583', 'Enterococcus faecium C68', 'Enterococcus gallinarum EG2', 'Enterococcus hirae ATCC 9790', 'Enterococcus columbae DSM 7374 = ATCC 51263', 'Enterococcus sulfureus ATCC 49903', 'Lactococcus lactis subsp. cremoris SK11', 'Lactococcus garvieae DCC43', 'Lactococcus piscium MKFS47', 'Lactococcus raffinolactis 4877', 'Aerococcus urinae ACS-120-V-Col10a', 'Aerococcus viridans ATCC 11563 = CCUG 4311', 'Gemella haemolysans M341', 'Atopobium minutum 10063974', 'Atopobium parvulum DSM 20469', 'Atopobium rimae ATCC 49626', 'Bacillus amyloliquefaciens Y2', 'Aneurinibacillus aneurinilyticus ATCC 12856', 'Bacillus anthracis str. Ames', 'Brevibacillus brevis X23', 'Bacillus cereus', 'Bacillus coagulans 36D1', 'Bacillus firmus DS1', 'Bacillus licheniformis DSM 13 = ATCC 14580', 'Bacillus megaterium QM B1551', 'Bacillus mycoides KBAB4', 'Paenibacillus polymyxa SC2', 'Bacillus psychrosaccharolyticus ATCC 23296', 'Bacillus pumilus SAFR-032', 'Bacillus sp. (in: Bacteria)', 'Bacillus akibai JCM 9157', 'Bacillus cellulosilyticus DSM 2522', 'Lysinibacillus sphaericus OT4b.31', 'Bacillus subtilis subsp. subtilis str. 168', 'Parageobacillus thermoglucosidasius C56-YS93', 'Bacillus thuringiensis serovar kurstaki', 'Bacillus alcalophilus ATCC 27647 = CGMCC 1.3604', 'Amphibacillus xylanus NBRC 15112', 'Alicyclobacillus acidoterrestris ATCC 49025', 'Bacillus atrophaeus 1942', 'Geobacillus kaustophilus HTA426', 'Paenibacillus larvae subsp. larvae DSM 25430', 'Brevibacillus laterosporus DSM 25', 'Bacillus methanolicus PB1', 'Peribacillus simplex BA2H3', 'Bacillus smithii 7_3_47FAA', 'Virgibacillus halodenitrificans 1806', 'Clostridium acetobutylicum ATCC 824', 'Paraclostridium bifermentans WYM', 'Clostridium botulinum A2 str. Kyoto', 'Clostridium butyricum E4 str. BoNT E BL5262', 'Clostridium cellulovorans 743B', 'Clostridioides difficile', 'Ruminiclostridium josui JCM 17888', 'Clostridium pasteurianum BC1', 'Clostridium perfringens ATCC 13124', 'Paeniclostridium sordellii VPI 9048', 'Clostridium sp. ATCC 29733', 'Clostridium sporogenes PA 3679', 'Thermoclostridium stercorarium subsp. stercorarium DSM 8532', 'Acetoanaerobium sticklandii', 'Clostridium tetani 12124569', 'Hungateiclostridium thermocellum ATCC 27405', 'Thermoanaerobacter thermohydrosulfuricus WC1', 'Thermoanaerobacterium thermosaccharolyticum DSM 571', 'Clostridium tyrobutyricum DSM 2637 = ATCC 25755 = JCM 11008', 'Clostridium beijerinckii NCIMB 8052', 'Ruminiclostridium cellulolyticum H10', 'Moorella thermoacetica ATCC 39073', 'Clostridium cadaveris AGR2141', 'Clostridium kluyveri DSM 555', 'Clostridium ljungdahlii DSM 13528', 'Clostridioides mangenotii TR', 'Clostridium novyi B str. NCTC 9691', 'Erysipelatoclostridium ramosum DSM 1402', 'Clostridium scatologenes', 'Clostridium tetanomorphum DSM 665', 'Gottschalkia acidurici 9a', 'Peptoclostridium litorale DSM 5388', 'Clostridium baratii str. Sullivan', 'Desulfosporosinus orientis DSM 765', 'Desulfotomaculum ruminis DSM 2154', 'Desulfotomaculum nigrificans DSM 574', 'Halobacillus halophilus DSM 2266', 'Sporosarcina ureae DSM 2281', 'Leifsonia xyli subsp. cynodontis DSM 46306', 'Lactobacillus acidophilus 30SC', 'Lactobacillus brevis ATCC 367', 'Lactobacillus buchneri ATCC 11577', 'Lactobacillus casei BL23', 'Weissella confusa LBAE C39-2', 'Lactobacillus delbrueckii subsp. bulgaricus 2038', 'Lactobacillus helveticus CNRZ32', 'Lactobacillus hilgardii DSM 20176 = ATCC 8290', 'Lactobacillus pentosus KCA1', 'Lactobacillus plantarum WCFS1', 'Lactobacillus gasseri ATCC 33323 = JCM 1131', 'Lactobacillus paracasei subsp. paracasei ATCC 25302', 'Lactobacillus reuteri 100-23', 'Lactobacillus sakei subsp. sakei 23K', 'Lactobacillus amylovorus GRL 1112', 'Lactobacillus animalis', 'Lactobacillus coryniformis subsp. coryniformis KCTC 3167 = DSM 20001', 'Lactobacillus farciminis KCTC 3681 = DSM 20184', 'Lactobacillus fermentum IFO 3956', 'Lactobacillus fructivorans KCTC 3543 = DSM 20203', 'Weissella halotolerans DSM 20190', 'Lactobacillus murinus ASF361', 'Lactobacillus ruminis ATCC 27782', 'Lactobacillus salivarius UCC118', 'Lactobacillus sanfranciscensis TMW 1.1304', 'Kandleria vitulina MC3001', 'Fructobacillus fructosus KCTC 3544', 'Lactobacillus oris F0423', 'Lactobacillus vaginalis DSM 5837 = ATCC 49540', 'Listeria ivanovii subsp. londoniensis', 'Listeria monocytogenes EGD-e', 'Listeria seeligeri serovar 1/2b str. SLCC3954', 'Listeria grayi DSM 20601', 'Listeria innocua Clip11262', 'Listeria welshimeri serovar 6b str. SLCC5334', 'Renibacterium salmoninarum ATCC 33209', 'Erysipelothrix rhusiopathiae str. Fujisawa', 'Alloiococcus otitis ATCC 51267', 'Actinomyces naeslundii str. Howell 279', 'Actinomyces viscosus C505', 'Actinomyces israelii DSM 43320', 'Schaalia odontolytica ATCC 17982', 'Trueperella pyogenes TP8', 'Arthrobacter globiformis NBRC 12137', 'Bifidobacterium adolescentis', 'Bifidobacterium bifidum NCIMB 41171', 'Bifidobacterium angulatum DSM 20098 = JCM 7096', 'Bifidobacterium asteroides PRL2011', 'Bifidobacterium breve UCC2003', 'Bifidobacterium catenulatum DSM 16992 = JCM 1194 = LMG 11043', 'Bifidobacterium coryneforme', 'Bifidobacterium cuniculi', 'Bifidobacterium dentium Bd1', 'Bifidobacterium indicum LMG 11587 = DSM 20214', 'Bifidobacterium magnum', 'Bifidobacterium minimum', 'Bifidobacterium pseudolongum subsp. globosum', 'Corynebacterium ammoniagenes DSM 20306', 'Brevibacterium linens BL2', 'Cellulomonas fimi ATCC 484', 'Cellulosimicrobium cellulans J36', 'Cellulomonas flavigena DSM 20109', 'Oerskovia turbata', 'Corynebacterium diphtheriae PW8', 'Corynebacterium glutamicum', 'Corynebacterium pseudotuberculosis', 'Corynebacterium callunae DSM 20147', 'Corynebacterium variabile DSM 44702', 'Peptoclostridium acidaminophilum DSM 3953', 'Holdemanella biformis DSM 3989', 'Eubacterium limosum KIST612', 'Thermodesulfobacterium commune DSM 2178', 'Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1', 'Cutibacterium acnes KPA171202', 'Acidipropionibacterium acidipropionici ATCC 4875', 'Acidipropionibacterium jensenii DSM 20535', 'Pseudopropionibacterium propionicum F0230a', 'Acidipropionibacterium thoenii DSM 20276', 'Mycobacterium avium subsp. avium', 'Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841', 'Mycobacterium intracellulare ATCC 13950', 'Mycobacterium kansasii 732', 'Mycobacterium leprae TN', 'Mycolicibacterium phlei RIVM601174', 'Mycolicibacterium smegmatis MC2 155', 'Mycobacterium tuberculosis H37Rv', 'Mycobacteroides chelonae', 'Mycobacterium marinum M', 'Mycobacterium asiaticum DSM 44297', 'Mycolicibacterium neoaurum VKM Ac-1815D', 'Mycolicibacterium thermoresistibile ATCC 19527', 'Mycolicibacterium chubuense NBB4', 'Mycolicibacterium farcinogenes', 'Mycolicibacterium gilvum PYR-GCK', 'Mycobacterium ulcerans Agy99', 'Mycolicibacterium vaccae ATCC 25954', 'Amycolatopsis methanolica 239', 'Nocardia otitidiscaviarum NBRC 14405', 'Nocardia asteroides NBRC 15531', 'Rhodococcus fascians', 'Rhodococcus rhodochrous ATCC 21198', 'Rhodococcus ruber Chol-4', 'Rhodococcus erythropolis PR4', 'Saccharopolyspora erythraea NRRL 2338', 'Actinopolyspora halophila DSM 43834', 'Saccharomonospora viridis DSM 43017', 'Frankia alni ACN14a', 'Geodermatophilus obscurus DSM 43160', 'Actinoplanes missouriensis 431', 'Actinoplanes utahensis', 'Streptomyces albus subsp. albus', 'Kitasatospora aureofaciens', 'Streptomyces bikiniensis', 'Streptomyces coelicolor A3(2)', 'Streptomyces fradiae', 'Streptomyces glaucescens', 'Streptomyces griseus subsp. griseus NBRC 13350', 'Streptomyces hygroscopicus subsp. jinggangensis 5008', 'Streptomyces lividans 1326', 'Streptomyces scabiei 87.22', 'Streptomyces viridochromogenes DSM 40736', 'Streptomyces halstedii', 'Streptomyces purpureus KA281', 'Streptomyces sclerotialus', 'Streptomyces virginiae', 'Streptomyces cellulosae', 'Streptomyces chartreusis NRRL 12338', 'Actinomadura atramentaria DSM 43919', 'Actinomadura madurae LIID-AJ290', 'Microtetraspora glauca', 'Streptosporangium roseum DSM 43021', 'Streptosporangium amethystogenes', 'Thermobispora bispora DSM 43833', 'Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111', 'Nocardiopsis prasina DSM 43845', 'Thermomonospora curvata DSM 43183', 'Thermobifida fusca YX', 'Microbacterium testaceum StLB037', 'Curtobacterium flaccumfaciens UCD-AKU', 'Tropheryma whipplei str. Twist', 'Pimelobacter simplex', 'Rothia dentocariosa ATCC 17931', 'Mobiluncus curtisii ATCC 43063', 'Mobiluncus mulieris 28-1', 'Gordonia bronchialis DSM 43247', 'Gordonia terrae', 'Sphaerobacter thermophilus DSM 20745', 'Tsukamurella paurometabola DSM 20162', 'Kitasatospora setae KM-6054', 'Pseudonocardia autotrophica', 'Mycoplasma arginini 7264', 'Mycoplasma capricolum subsp. capricolum ATCC 27343', 'Mycoplasma gallisepticum', 'Mycoplasma genitalium G37', 'Mycoplasma hominis', 'Mycoplasma hyopneumoniae J', 'Mycoplasma hyorhinis SK76', 'Mycoplasma mycoides subsp. mycoides SC str. PG1', 'Mycoplasma pneumoniae', 'Mycoplasma leachii PG50', 'Mycoplasma pulmonis', 'Mycoplasma synoviae 53', 'Mycoplasma agalactiae PG2', 'Mycoplasma arthritidis 158L3-1', 'Mycoplasma bovigenitalium 51080', 'Mycoplasmopsis californica', 'Mycoplasma fermentans PG18', 'Mycoplasma iowae 695', 'Mycoplasma mobile', 'Mycoplasma putrefaciens Mput9231', 'Mycoplasma flocculare ATCC 27399', 'Ureaplasma urealyticum serovar 7 str. ATCC 27819', 'Spiroplasma melliferum IPMB4A', 'Spiroplasma apis B31', 'Spiroplasma mirum ATCC 29335', 'Spiroplasma taiwanense CT-1', 'Acholeplasma laidlawii PG-8A', 'Acholeplasma modicum ATCC 29102', 'Mesoplasma florum L1', 'Methanobrevibacter smithii ATCC 35061', 'Methanohalophilus mahii DSM 5219', 'Methanothermus fervidus DSM 2088', 'Methanothermococcus thermolithotrophicus DSM 2095', 'Methanococcus vannielii SB', 'Methanococcus voltae A3', 'Methanotorris igneus Kol 5', 'Methanocaldococcus jannaschii DSM 2661', 'Methanoculleus marisnigri JR1', 'Methanofollis liminatans DSM 4140', 'Methanospirillum hungatei JF-1', 'Methanomicrobium mobile BP', 'Methanosarcina barkeri str. Fusaro', 'Methanosarcina mazei Go1', 'Methanosarcina thermophila TM-1', 'Methanosarcina acetivorans C2A', 'Methanosarcina vacuolata Z-761', 'Methanothrix soehngenii GP6', 'Methanothrix thermoacetophila PT', 'Methanococcoides methylutens MM1', 'Archaeoglobus fulgidus DSM 4304', 'Haloarcula marismortui ATCC 43049', 'Halobacterium salinarum NRC-1', 'Haloferax volcanii DS2', 'Halorubrum lacusprofundi ATCC 49239', 'Halorubrum saccharovorum DSM 1137', 'Halococcus morrhuae DSM 1307', 'Haloferax mediterranei ATCC 33500', 'Natronomonas pharaonis DSM 2160', 'Pyrococcus furiosus DSM 3638', 'Thermococcus litoralis DSM 5473', 'Thermofilum pendens Hrk 5', 'Thermoproteus tenax Kra 1', 'Desulfurococcus mucosus DSM 2162', 'Pyrobaculum islandicum DSM 4184', 'Staphylothermus marinus F1', 'Sulfolobus acidocaldarius DSM 639', 'Saccharolobus solfataricus P2', 'Desulfobacter curvatus DSM 3379', 'Desulfobacter postgatei 2ac9', 'Desulfobacterium autotrophicum HRM2', 'Thermoplasma acidophilum DSM 1728', 'Methanoplanus limicola DSM 2279', 'Methanosphaera stadtmanae DSM 3091', 'Methanopyrus kandleri AV19', 'Methanohalobium evestigatum Z-7303', 'Thermoanaerobacter kivui', 'Halanaerobium praevalens DSM 2228', 'Thermotoga maritima MSB8', 'Thermotoga neapolitana DSM 4359', 'Solemya velum gill symbiont', 'Haliscomenobacter hydrossis DSM 1100', 'Flexistipes sinusarabici DSM 4947', 'Desulfomonile tiedjei DSM 6799', 'Xylella fastidiosa 9a5c', 'Acetonema longum DSM 6540', 'Sporomusa ovata DSM 2662', 'Thermosipho africanus TCF52B', 'Fervidobacterium islandicum', 'Fervidobacterium nodosum Rt17-B1', 'Teredinibacter turnerae T7901', 'Roseobacter denitrificans OCh 114', 'Gardnerella vaginalis 6119V5', 'Citrus sinensis', 'Cardiobacterium hominis ATCC 15826', 'Hirschia baltica ATCC 49814', 'Symbiobacterium thermophilum IAM 14863', 'Verrucomicrobium spinosum DSM 4136 = JCM 18804', 'Marinobacter hydrocarbonoclasticus VT8', 'Halomonas elongata DSM 2581', 'Carnobacterium divergens DSM 20623', 'Carnobacterium gallinarum DSM 4847', 'Carnobacterium mobile DSM 4848', 'Carnobacterium maltaromaticum LMA28', 'Carnobacterium funditum DSM 5970', 'Synergistes jonesii', 'Chondrus crispus', 'Phaeodactylum tricornutum', 'Ectocarpus siliculosus', 'Cryptomonas paramecium', 'Emiliania huxleyi', 'Symbiodinium microadriaticum', 'Chlamydomonas reinhardtii', 'Volvox carteri', 'Auxenochlorella protothecoides', 'Marchantia polymorpha', 'Physcomitrium patens', 'Cannabis sativa', 'Actinidia chinensis var. chinensis', 'Theobroma cacao', 'Carica papaya', 'Citrullus lanatus', 'Cucumis melo', 'Cucumis sativus', 'Populus trichocarpa', 'Arabidopsis thaliana', 'Brassica napus', 'Brassica rapa', 'Brassica oleracea', 'Malus domestica', 'Prunus dulcis', 'Prunus persica', 'Cajanus cajan', 'Cicer arietinum', 'Glycine max', 'Glycine soja', 'Lupinus angustifolius', 'Medicago truncatula', 'Phaseolus vulgaris', 'Vigna angularis', 'Manihot esculenta', 'Ricinus communis', 'Linum usitatissimum', 'Daucus carota subsp. sativus', 'Capsicum annuum', 'Solanum lycopersicum', 'Nicotiana sylvestris', 'Nicotiana tabacum', 'Nicotiana tomentosiformis', 'Nicotiana benthamiana', 'Solanum commersonii', 'Solanum tuberosum', 'Olea europaea', 'Erythranthe guttata', 'Sesamum indicum', 'Helianthus annuus', 'Cynara cardunculus var. scolymus', 'Nelumbo nucifera', 'Hordeum vulgare', 'Oryza longistaminata', 'Oryza rufipogon', 'Oryza sativa Japonica Group', 'Oryza brachyantha', 'Oryza nivara', 'Oryza punctata', 'Oryza glaberrima', 'Setaria italica', 'Setaria viridis', 'Sorghum bicolor', 'Triticum aestivum', 'Triticum turgidum subsp. durum', 'Triticum urartu', 'Zea mays', 'Ananas comosus', 'Musa acuminata', 'Pneumocystis carinii', 'Plasmopara halstedii', 'Phytophthora infestans', 'Phytophthora nicotianae', 'Phytophthora parasitica', 'Phytophthora megakarya', 'Phytophthora palmivora var. palmivora', 'Phycomyces blakesleeanus', 'Schizosaccharomyces pombe 972h-', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces octosporus', 'Cyberlindnera jadinii', 'Pichia kudriavzevii', 'Kluyveromyces marxianus DMKU3-1042', 'Lachancea waltii', 'Pachysolen tannophilus NRRL Y-2460', 'Millerozyma farinosa', 'Komagataella pastoris', 'Scheffersomyces stipitis', 'Pichia membranifaciens NRRL Y-2026', 'Wickerhamomyces anomalus', 'Meyerozyma guilliermondii', 'Saccharomyces bayanus', 'Saccharomyces cerevisiae S288C', 'Lachancea kluyveri', 'Torulaspora delbrueckii CBS 1146', 'Yarrowia lipolytica CLIB122', 'Zygosaccharomyces bailii CLIB 213', 'Lachancea fermentati', 'Zygosaccharomyces rouxii', 'Debaryomyces hansenii', 'Kockovaella imperatae', 'Brettanomyces bruxellensis', 'Taphrina deformans PYCC 5710', 'Bipolaris maydis', 'Bipolaris zeicola', 'Leptosphaeria maculans', 'Histoplasma capsulatum', 'Blastomyces dermatitidis', 'Acremonium chrysogenum ATCC 11550', 'Aspergillus aculeatus', 'Aspergillus clavatus', 'Aspergillus flavus', 'Aspergillus niger', 'Aspergillus oryzae', 'Penicillium camemberti', 'Penicillium chrysogenum', 'Penicillium roqueforti', 'Amorphotheca resinae ATCC 22711', 'Ascosphaera apis ARSEF 7405', 'Claviceps purpurea 20.1', 'Epichloe typhina E8', 'Cryphonectria parasitica', 'Fusarium fujikuroi', 'Neurospora crassa OR74A', 'Sordaria macrospora k-hell', 'Ophiostoma ulmi', 'Sclerotinia sclerotiorum 1980 UF-70', 'Cryptococcus neoformans var. neoformans JEC21', 'Cryptococcus depauperatus CBS 7841', 'Tremella mesenterica', 'Exidia glandulosa HHB12029', 'Ustilago maydis 521', 'Microbotryum violaceum', 'Tilletiaria anomala UBC 951', 'Rhodotorula toruloides', 'Puccinia graminis f. sp. tritici CRL 75-36-700-3', 'Phanerochaete chrysosporium', 'Pleurotus ostreatus var. ostreatus', 'Trametes versicolor FP-101664 SS1', 'Schizophyllum commune', 'Agaricus bisporus', 'Coprinopsis cinerea', 'Lentinula edodes', 'Suillus luteus UH-Slu-Lm8-n1', 'Ascochyta rabiei', 'Colletotrichum orbiculare', 'Candida albicans SC5314', 'Candida maltosa', 'Candida parapsilosis', 'Diutina rugosa', 'Candida tropicalis', 'Coccidioides immitis', 'Fusarium oxysporum', 'Fusarium culmorum CS7071', 'Fusarium graminearum', 'Metarhizium anisopliae ARSEF 549', 'Rhodotorula glutinis', 'Trichoderma harzianum', 'Trichoderma longibrachiatum ATCC 18648', 'Trichophyton rubrum', 'Aureobasidium pullulans EXF-150', 'Alternaria alternata', 'Phialophora americana', 'Saitoella complicata NRRL Y-17804', 'Cryptococcus wingfieldii CBS 7118', 'Grifola frondosa', 'Laetiporus sulphureus 93-53', 'Trametes cinnabarina', 'Leishmania braziliensis MHOM/BR/75/M2904', 'Leishmania donovani BPK282A1', 'Leishmania major', 'Leishmania mexicana MHOM/GT/2001/U1103', 'Leishmania infantum JPCM5', 'Leishmania panamensis', 'Leptomonas seymouri', 'Leishmania tarentolae', 'Trypanosoma brucei brucei', 'Trypanosoma cruzi', 'Trypanosoma equiperdum', 'Trypanosoma rangeli SC58', 'Trichomonas vaginalis', 'Giardia lamblia ATCC 50803', 'Acanthamoeba castellanii str. Neff', 'Entamoeba histolytica', 'Naegleria gruberi', 'Dictyostelium purpureum', 'Eimeria acervulina', 'Eimeria tenella', 'Eimeria maxima', 'Cryptosporidium parvum Iowa II', 'Cryptosporidium muris', 'Toxoplasma gondii ME49', 'Plasmodium berghei', 'Plasmodium chabaudi', 'Plasmodium cynomolgi strain B', 'Plasmodium falciparum 3D7', 'Plasmodium gallinaceum', 'Plasmodium knowlesi strain H', 'Plasmodium reichenowi', 'Plasmodium vivax Sal-1', 'Plasmodium fragile', 'Plasmodium malariae', 'Plasmodium vinckei', 'Plasmodium yoelii yoelii', 'Babesia bovis T2Bo', 'Babesia bigemina', 'Theileria equi', 'Theileria annulata', 'Theileria parva', 'Paramecium tetraurelia', 'Tetrahymena thermophila', 'Ichthyophthirius multifiliis', 'Stylonychia lemnae', 'Stentor coeruleus', 'Exophiala dermatitidis', 'Encephalitozoon cuniculi', 'Hydra vulgaris', 'Schistosoma japonicum', 'Schistosoma mansoni', 'Schistosoma haematobium', 'Echinococcus multilocularis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Ascaris suum', 'Brugia malayi', 'Onchocerca volvulus', 'Meloidogyne hapla', 'Bursaphelenchus xylophilus', 'Trichinella spiralis', 'Helobdella robusta', 'Aplysia californica', 'Biomphalaria glabrata', 'Crassostrea virginica', 'Mizuhopecten yessoensis', 'Daphnia pulex', 'Tigriopus californicus', 'Ixodes scapularis', 'Blattella germanica', 'Acyrthosiphon pisum', 'Bemisia tabaci', 'Tribolium castaneum', 'Bombyx mori', 'Aedes aegypti', 'Aedes albopictus', 'Anopheles gambiae', 'Anopheles albimanus', 'Anopheles dirus', 'Anopheles arabiensis', 'Culex pipiens', 'Culex quinquefasciatus', 'Lutzomyia longipalpis', 'Loa loa', 'Ceratitis capitata', 'Drosophila ananassae', 'Drosophila erecta', 'Drosophila grimshawi', 'Drosophila melanogaster', 'Drosophila mojavensis', 'Drosophila persimilis', 'Drosophila pseudoobscura pseudoobscura', 'Drosophila sechellia', 'Drosophila simulans', 'Drosophila virilis', 'Drosophila yakuba', 'Drosophila willistoni', 'Drosophila saltans', 'Musca domestica', 'Lucilia cuprina', 'Glossina morsitans morsitans', 'Glossina austeni', 'Glossina fuscipes fuscipes', 'Glossina palpalis gambiensis', 'Glossina pallidipes', 'Nasonia vitripennis', 'Apis mellifera', 'Lingula anatina', 'Strongylocentrotus purpuratus', 'Ciona intestinalis', 'Branchiostoma floridae', 'Branchiostoma lanceolatum', 'Petromyzon marinus', 'Eptatretus burgeri', 'Callorhinchus milii', 'Latimeria chalumnae', 'Lepisosteus oculatus', 'Clupea harengus', 'Danio rerio', 'Carassius auratus', 'Cyprinus carpio', 'Astyanax mexicanus', 'Ictalurus punctatus', 'Electrophorus electricus', 'Esox lucius', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Salmo salar', 'Salmo trutta', 'Gadus morhua', 'Fundulus heteroclitus', 'Poecilia reticulata', 'Xiphophorus maculatus', 'Oryzias latipes', 'Cyclopterus lumpus', 'Oreochromis niloticus', 'Haplochromis burtoni', 'Astatotilapia calliptera', 'Sparus aurata', 'Lates calcarifer', 'Xenopus tropicalis', 'Chelonia mydas', 'Chelydra serpentina', 'Chrysemys picta', 'Alligator mississippiensis', 'Crocodylus porosus', 'Sphenodon punctatus', 'Laticauda laticaudata', 'Notechis scutatus', 'Pseudonaja textilis', 'Dromaius novaehollandiae', 'Struthio camelus', 'Apteryx haastii', 'Apteryx owenii', 'Anas platyrhynchos', 'Anser cygnoides', 'Cairina moschata domestica', 'Chaetura pelagica', 'Columba livia', 'Falco peregrinus', 'Aquila chrysaetos chrysaetos', 'Haliaeetus albicilla', 'Numida meleagris', 'Gallus gallus', 'Pavo cristatus', 'Phasianus colchicus', 'Chrysolophus pictus', 'Meleagris gallopavo', 'Serinus canaria', 'Parus major', 'Phalacrocorax carbo', 'Phoenicopterus ruber ruber', 'Aptenodytes forsteri', 'Pygoscelis adeliae', 'Calypte anna', 'Ornithorhynchus anatinus', 'Sarcophilus harrisii', 'Notamacropus eugenii', 'Choloepus hoffmanni', 'Dasypus novemcinctus', 'Erinaceus europaeus', 'Echinops telfairi', 'Pteropus alecto', 'Callithrix jacchus', 'Cercocebus atys', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Papio anubis', 'Theropithecus gelada', 'Mandrillus leucophaeus', 'Gorilla gorilla gorilla', 'Pan paniscus', 'Pan troglodytes', 'Pongo abelii', 'Homo sapiens', 'Canis lupus familiaris', 'Vulpes vulpes', 'Ursus thibetanus thibetanus', 'Ursus americanus', 'Ailuropoda melanoleuca', 'Mustela putorius', 'Felis catus', 'Panthera leo', 'Panthera onca', 'Panthera pardus', 'Panthera tigris', 'Zalophus californianus', 'Odobenus rosmarus', 'Leptonychotes weddellii', 'Orcinus orca', 'Tursiops truncatus', 'Delphinapterus leucas', 'Physeter catodon', 'Balaenoptera acutorostrata', 'Balaenoptera musculus', 'Trichechus manatus', 'Loxodonta africana', 'Equus asinus asinus', 'Equus caballus', 'Procavia capensis', 'Orycteropus afer', 'Sus scrofa', 'Camelus dromedarius', 'Bison bison bison', 'Bos taurus', 'Capra hircus', 'Ovis aries', 'Ochotona princeps', 'Oryctolagus cuniculus', 'Marmota marmota marmota', 'Urocitellus parryii', 'Dipodomys ordii', 'Cricetulus griseus', 'Mesocricetus auratus', 'Peromyscus maniculatus', 'Meriones unguiculatus', 'Mus caroli', 'Mus musculus', 'Mus pahari', 'Mus spretus', 'Mus spicilegus', 'Rattus norvegicus', 'Cavia porcellus', 'Octodon degus', 'Heterocephalus glaber', 'Saccoglossus kowalevskii', 'Trichoplax adhaerens', 'Sagitta elegans', 'Atta cephalotes', 'Blastocystis hominis', 'Danaus plexippus', 'Lynx lynx', 'Melopsittacus undulatus', 'Myzus persicae', 'Rhodnius prolixus', 'Tilletia caries', 'Tilletia controversa', 'Amborella trichopoda', 'Anaerobiospirillum succiniciproducens DSM 6400', 'Arthrobotrys oligospora ATCC 24927', 'Burkholderia mallei ATCC 23344', 'Dicentrarchus labrax', 'Monodelphis domestica', 'Parastagonospora nodorum SN15', 'Solenopsis invicta', 'Sphingomonas paucimobilis', 'Sphingobium yanoikuyae', 'Syncephalastrum racemosum', 'Pelodiscus sinensis', 'Utricularia gibba', 'Natrialba magadii ATCC 43099', 'Pyrobaculum aerophilum str. IM2', 'Brachypodium distachyon', 'Naumovozyma castellii', 'Naumovozyma dairenensis CBS 421', 'Saccharomyces paradoxus', 'Saccharomyces pastorianus Weihenstephan 34/70', 'Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993', 'Penicillium expansum', 'Verticillium dahliae VdLs.17', 'Schizopora paradoxa', 'Puccinia coronata var. avenae f. sp. avenae', 'Puccinia sorghi', 'Puccinia striiformis', 'Saimiri boliviensis', 'Erpetoichthys calabaricus', 'Mnemiopsis leidyi', 'Encephalitozoon hellem ATCC 50504', 'Nosema bombycis CQ1', 'Strigomonas culicis', 'Bifidobacterium animalis subsp. lactis BB-12', 'Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505', 'Lysinibacillus fusiformis ZC1', 'Staphylococcus lugdunensis HKU09-01', 'Streptococcus mitis B6', 'Lactobacillus curvatus CRL 705', 'Saccharopolyspora rectivirgula', 'Acidothermus cellulolyticus 11B', 'Lachnospira multipara ATCC 19207', 'Rubrivivax gelatinosus IL144', 'Nostoc sp. PCC 7524', 'Campylobacter upsaliensis RM3195', 'Legionella anisa str. Linanisette', 'Legionella sainthelensi ATCC 35248 = DSM 19231', 'Acinetobacter lwoffii SH145', 'Neisseria weaveri LMG 5135', 'Burkholderia gladioli BSR3', 'Mesorhizobium huakuii 7653R', "Alteromonas macleodii str. 'Black Sea 11'", 'Francisella philomiragia subsp. philomiragia ATCC 25017', 'Bacteroides eggerthii DSM 20697', 'Tannerella forsythia 92A2', 'Porphyromonas levii DSM 23370', 'Porphyromonas macacae', 'Bacteroides ovatus ATCC 8483', 'Alistipes putredinis DSM 17216', 'Odoribacter splanchnicus DSM 20712', 'Porphyromonas asaccharolytica DSM 20707', 'Porphyromonas endodontalis ATCC 35406', 'Prevotella bivia DNF00188', 'Prevotella buccae ATCC 33574', 'Prevotella buccalis ATCC 35310', 'Prevotella corporis DSM 18810 = JCM 8529', 'Prevotella denticola F0289', 'Prevotella disiens JCM 6334 = ATCC 29426', 'Prevotella intermedia 17', 'Prevotella melaninogenica ATCC 25845', 'Prevotella nigrescens ATCC 33563', 'Prevotella oralis ATCC 33269', 'Prevotella oris C735', 'Prevotella oulorum JCM 14966', 'Prevotella veroralis F0319', 'Rikenella microfusus DSM 15922', 'Cronobacter sakazakii ATCC BAA-894', 'Serratia proteamaculans 568', 'Yersinia kristensenii', 'Vibrio metschnikovii CIP 69.14', 'Vibrio nigripulchritudo SOn1', 'Vibrio orientalis CIP 102891 = ATCC 33934', 'Candidatus Photodesmus katoptron', 'Acetohalobium arabaticum DSM 5501', 'Capnocytophaga canimorsus Cc5', 'Capnocytophaga cynodegmi DSM 19736', 'Arcobacter butzleri RM4018', 'Arcobacter nitrofigilis DSM 7299', 'Sphingomonas parapaucimobilis NBRC 15100', 'Desulfobacula toluolica Tol2', 'Mycoplasma penetrans', 'Colwellia psychrerythraea', 'Carnobacterium alterfunditum DSM 5972', 'Geobacter metallireducens GS-15', 'Ornithobacterium rhinotracheale DSM 15997', 'Cobetia marina', 'Thermodesulfovibrio yellowstonii DSM 11347', 'Arcanobacterium haemolyticum DSM 20595', 'Anolis carolinensis', 'Herbidospora cretacea', 'Clavibacter michiganensis subsp. sepedonicus', 'Komagataeibacter xylinus E25', 'Neisseria subflava NJ9703', 'Burkholderia pseudomallei K96243', 'Tarenaya hassleriana', 'Talaromyces stipitatus ATCC 10500', 'Talaromyces islandicus', 'Allomyces macrogynus', 'Elephantulus edwardii', 'Cyprinodon variegatus', 'Thermoanaerobacterium saccharolyticum JW/SL-YS485', 'Salmonella enterica subsp. enterica serovar Typhimurium str. LT2', 'Mycoplasma bovis PG45', 'Kluyveromyces lactis', 'Alternaria brassicicola', 'Drosophila eugracilis', 'Drosophila takahashii', 'Phlebotomus papatasi', 'Panthera uncia', 'Ursus maritimus', 'Eptesicus fuscus', 'Vombatus ursinus', 'Mytilus galloprovincialis', 'Crassostrea gigas', 'Neospora caninum', 'Haloarcula japonica DSM 6131', 'Natronococcus occultus SP4', 'Methanococcoides burtonii DSM 6242', 'Pyrococcus abyssi GE5', 'Streptomyces cattleya NRRL 8057 = DSM 46488', 'Streptomyces griseoluteus', 'Paenarthrobacter nicotinovorans 231Sha2.1M6', 'Corynebacterium otitidis ATCC 51513', 'Thermoanaerobacter brockii subsp. finnii Ako-1', 'Thermoanaerobacterium xylanolyticum LX-11', 'Ruminiclostridium cellobioparum subsp. termitidis CT1112', 'Cellulosilyticum lentocellum DSM 5427', 'Tyzzerella nexilis DSM 1787', 'Ruminiclostridium papyrosolvens DSM 2782', 'Clostridium paraputrificum AGR2156', 'Staphylococcus caprae M23864:W1', 'Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292', 'Staphylococcus capitis C87', 'Gemella morbillorum M424', 'Dolosigranulum pigrum ATCC 51524', 'Microlunatus phosphovorus NM-1', 'Helicobacter canis NCTC 12740', 'Legionella oakridgensis ATCC 33761 = DSM 21215', 'Acinetobacter haemolyticus MTCC 9819', 'Psychrobacter phenylpyruvicus DSM 7000 = NBRC 102152', 'Pseudomonas savastanoi pv. phaseolicola 1448A', 'Xanthomonas albilineans GPE PC73', 'Bradyrhizobium elkanii WSM2783', 'Rhizobium etli CIAT 652', 'Rhizobium leucaenae USDA 9039', 'Brucella melitensis bv. 1 str. 16M', 'Brucella neotomae 5K33', 'Brucella suis 1330', 'Veillonella parvula DSM 2008', 'Pectobacterium atrosepticum SCRI1043', 'Yersinia aldovae ATCC 35236', 'Yersinia frederiksenii ATCC 33641', 'Yersinia rohdei', 'Yersinia ruckeri', 'Vibrio furnissii NCTC 11218', 'Vibrio navarrensis', 'Vibrio splendidus ZS-139', 'Vibrio tubiashii ATCC 19109', 'Mycoplasma haemofelis Ohio2', 'Turneriella parva DSM 21527', 'Borreliella afzelii PKo', 'Borreliella garinii BgVir', 'Borrelia crocidurae DOU', 'Cytophaga aurantiaca DSM 3654', 'Flavobacterium succinicans LMG 10402', 'Pelobacter propionicus DSM 2379', 'Lawsonia intracellularis PHE/MN1-00', 'Rhodothermus marinus DSM 4252', 'Acholeplasma axanthum ATCC 25176', 'Mycoplasma canadense', 'Mycoplasma canis PG 14', 'Mycoplasma meleagridis', 'Mycoplasma ovipneumoniae 14811', 'Taylorella equigenitalis MCE9', 'Janthinobacterium lividum', 'Dioscorea cayenensis subsp. rotundata', 'Gossypium raimondii', 'Vitis vinifera', 'Lipomyces starkeyi NRRL Y-11557', 'Lachancea cidri', 'Hanseniaspora uvarum DSM 2768', 'Penicillium vulpinum', 'Gaeumannomyces graminis', 'Trichoderma virens', 'Neurospora discreta FGSC 8579', 'Laccaria bicolor', 'Calocera cornea HHB12733', 'Rhodotorula graminis WP1', 'Sporothrix schenckii', 'Tolypocladium inflatum', 'Phytophthora cactorum', 'Drosophila elegans', 'Drosophila emarginata', 'Drosophila ficusphila', 'Drosophila kikkawai', 'Drosophila neocordata', 'Drosophila prosaltans', 'Drosophila sturtevanti', 'Anopheles merus', 'Anopheles stephensi', 'Bombus terrestris', 'Opisthocomus hoazin', 'Fulmarus glacialis', 'Bubo bubo', 'Nothoprocta perdicaria', 'Tinamus major', 'Bos grunniens', 'Bos indicus x Bos taurus', 'Vicugna pacos', 'Microcebus murinus', 'Otolemur garnettii', 'Oryzias melastigma', 'Takifugu rubripes', 'Caenorhabditis remanei', 'Perkinsus marinus ATCC 50983', 'Enterocytozoon bieneusi H348', 'Colletotrichum graminicola M1.001', 'Caldicellulosiruptor bescii DSM 6725', 'Halothermothrix orenii H 168', 'Amycolatopsis orientalis DSM 40040 = KCTC 9412', 'Amycolatopsis lurida NRRL 2430', 'Absiella dolichum DSM 3991', 'Eggerthia catenaformis OT 569 = DSM 20559', 'Methylobacterium radiotolerans JCM 2831', 'Helicobacter hepaticus ATCC 51449', 'Synechococcus elongatus', 'Synechococcus sp. PCC 7002', 'Synechococcus sp. WH 7803', 'Calothrix sp. PCC 6303', 'Calothrix sp. PCC 7103', 'Tetranychus urticae', 'Xiphophorus couchianus', 'Neolamprologus brichardi', 'Desulfurella acetivorans A63', 'Winkia neuii subsp. neuii DSM 8576', 'Cutibacterium avidum 44067', 'Cutibacterium granulosum TM11', 'Propionimicrobium lymphophilum ACS-093-V-SCH5', 'Sporolactobacillus laevolacticus DSM 442', 'Anaerococcus hydrogenalis DSM 7454', 'Peptoniphilus indolicus ATCC 29427', 'Peptoniphilus lacrimalis 315-B', 'Anaerococcus lactolyticus ATCC 51172', 'Parvimonas micra ATCC 33270', 'Anaerococcus prevotii DSM 20548', 'Blautia producta', 'Anaerococcus tetradius ATCC 35098', 'Anaerococcus vaginalis ATCC 51170', 'Coprococcus eutactus ATCC 27759', 'Bartonella doshiae NCTC 12862 = ATCC 700133', 'Bartonella grahamii as4aup', 'Bartonella taylorii 8TBB', 'Bartonella vinsonii subsp. arupensis Pm136co', 'Candidatus Kinetoplastibacterium crithidii TCC036E', 'Acidithiobacillus caldus ATCC 51756', 'Gloeobacter violaceus PCC 7421', 'Acidobacterium capsulatum ATCC 51196', 'Entamoeba invadens IP1', 'Eremothecium gossypii ATCC 10895', 'Aspergillus terreus', 'Uncinocarpus reesii 1704', 'Purpureocillium lilacinum', 'Gambusia affinis', 'Coriobacterium glomerans PW2', 'Catenuloplanes japonicus', 'Brevibacterium casei S18', 'Streptomyces galbus', 'Streptomyces avermitilis MA-4680 = NBRC 14893', 'Bifidobacterium thermophilum', 'Actinopolyspora mortivallis DSM 44261', 'Amycolatopsis mediterranei U32', 'Anoxybacillus flavithermus subsp. yunnanensis str. E13', 'Geobacillus thermodenitrificans NG80-2', 'Geobacillus thermoleovorans CCB_US3_UF5', 'Kyrpidia tusciae DSM 2912', 'Enterococcus avium ATCC 14025', 'Acetobacterium woodii DSM 1030', 'Lactobacillus johnsonii NCC 533', 'Leuconostoc citreum KM20', 'Leuconostoc pseudomesenteroides 4882', 'Melissococcus plutonius ATCC 35311', 'Rickettsia amblyommatis str. GAT-30V', 'Rickettsia bellii OSU 85-389', 'Rickettsia montanensis str. OSU 85-930', 'Rickettsia rhipicephali str. 3-7-female6-CWPP', 'Neorickettsia helminthoeca str. Oregon', 'Gluconacetobacter diazotrophicus PA1 5', 'Paracoccus aminophilus JCM 7686', 'Paracoccus versutus', 'Azospirillum halopraeferens DSM 3675', 'Rhodospirillum centenum SW', 'Candidatus Liberibacter asiaticus str. gxpsy', 'Leptothrix cholodnii SP-6', 'Rahnella aquatilis CIP 78.65 = ATCC 33071', 'Variovorax paradoxus 110B', 'Riemerella anatipestifer RA-GD', 'Pedobacter antarcticus 4BY', 'Pelodictyon phaeoclathratiforme BU-1', 'Sphaerotilus natans subsp. natans DSM 6575', 'Streptobacillus moniliformis DSM 12112', 'Lotus japonicus', 'Mixia osmundae', 'Blumeria graminis', 'Trichophyton tonsurans', 'Trichophyton violaceum', 'Conidiobolus coronatus NRRL 28638', 'Strongyloides ratti', 'Anopheles melas', 'Anopheles quadriannulatus', 'Heliconius melpomene plesseni', 'Chinchilla lanigera', 'Thalassiosira pseudonana', 'Nosema apis BRL 01', 'Eubacterium brachy ATCC 33089', 'Eubacterium nodatum ATCC 33099', 'Daphnia magna', 'Geobacter sulfurreducens PCA', 'Stomoxys calcitrans', 'Streptomyces griseoflavus Tu4000', 'Streptomyces mobaraensis NBRC 13819 = DSM 40847', 'Acholeplasma oculi', 'Naja naja', 'Heliobacterium modesticaldum Ice1', 'Citrobacter amalonaticus', 'Epichloe festucae', 'Macrophomina phaseolina MS6', 'Sporichthya polymorpha DSM 43042', 'Dactylosporangium aurantiacum', 'Corynebacterium kutscheri', 'Corynebacterium pilosum DSM 20521', 'Bifidobacterium choerinum', "Peanut witches'-broom phytoplasma NTU2011", 'Coprothermobacter proteolyticus DSM 5265', 'Rickettsia africae ESF-5', 'Rickettsia helvetica C9P9', 'Rickettsia japonica YH', 'Rickettsia massiliae str. AZT80', 'Rickettsia parkeri str. Portsmouth', 'Rickettsia sibirica 246', 'Rickettsia slovaca str. D-CWPP', 'Ehrlichia muris AS145', 'Nitrococcus mobilis Nb-231', 'Nitrosospira briensis C-128', 'Nitrospina gracilis 3/211', 'Rhodovulum sulfidophilum DSM 1374', 'Bordetella holmesii ATCC 51541', 'Helicobacter heilmannii ASB1.4', 'Helicobacter pullorum MIT 98-5489', 'Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933', 'Hungateiclostridium cellulolyticum CD2', 'Bilophila wadsworthia ATCC 49260', 'Holophaga foetida DSM 6591', 'Bacillus thermoamylovorans', 'Ipomoea triloba', 'Cyberlindnera fabianii', 'Vanderwaltozyma polyspora DSM 70294', 'Fusarium poae', 'Cantharellus cibarius var. cibarius', 'Ganoderma sinense ZZ0214-1', 'Mucor circinelloides', 'Megaselia scalaris', 'Pelecanus crispus', 'Plasmodium ovale curtisi', 'Globisporangium irregulare', 'Aspergillus fischeri NRRL 181', 'Penicillium coprophilum', 'Penicillium digitatum', 'Dermabacter hominis 1368', 'Clostridium saccharoperbutylacetonicum N1-4(HMT)', 'Pseudomonas cichorii JBC1', 'Gaeumannomyces tritici', 'Mycobacteroides abscessus', 'Mycobacterium genavense ATCC 51234', 'Mycolicibacterium rhodesiae JS60', 'Gordonia aichiensis NBRC 108223', 'Gordonia amarae NBRC 15530', 'Gordonia sputi NBRC 100414', 'Clostridium celatum DSM 1785', 'Clostridium intestinale URNW', 'Desulfitobacterium dehalogenans ATCC 51507', 'Brucella canis ATCC 23365', 'Thiobacillus denitrificans DSM 12475', 'Paraburkholderia xenovorans LB400', 'Porphyromonas cangingivalis', 'Porphyromonas canoris', 'Clavispora lusitaniae', 'Lodderomyces elongisporus', 'Glossina brevipalpis', 'Kryptolebias marmoratus', 'Suricata suricatta', 'Gavia stellata', 'Aotus nancymaae', 'Nocardia brasiliensis ATCC 700358', 'Nocardia brevicatena NBRC 12119', 'Nocardia carnea NBRC 14403', 'Nocardia farcinica IFM 10152', 'Nocardia nova SH22a', 'Nocardia transvalensis NBRC 15921', 'Tupaia belangeri', 'Plasmodiophora brassicae', 'Helicobacter bilis ATCC 43879', 'Pisolithus tinctorius Marx 270', 'Laceyella sacchari 1-1', 'Marichromatium purpuratum 984', 'Cavia aperea', 'Thermus scotoductus SA-01', 'Octopus bimaculoides', 'Clostridium algidicarnis', 'Aegilops tauschii', 'Candidatus Phytoplasma mali AT', 'Talaromyces marneffei ATCC 18224', 'Enterococcus casseliflavus EC20', 'Cryptococcus gattii EJB2', 'Heterorhabditis bacteriophora', 'Rhytidhysteron rufulum', 'Rhodococcus opacus', 'Methanosarcina siciliae C2J', 'Chaetomium globosum', 'Rhynchosporium secalis', 'Corynebacterium accolens ATCC 49725', 'Corynebacterium genitalium ATCC 33030', 'Corynebacterium jeikeium K411', 'Photobacterium damselae subsp. damselae CIP 102761', 'Streptomyces pristinaespiralis ATCC 25486', 'Corynebacterium pseudogenitalium ATCC 33035', 'Corynebacterium vitaeruminis DSM 20294', 'Gluconobacter frateurii NBRC 103465', 'Rhodococcus rhodnii LMG 5362', 'Shewanella algae JCM 14758', 'Bartonella henselae str. Houston-1', 'Erysipelothrix tonsillarum DSM 14972', 'Eragrostis curvula', 'Phascolarctos cinereus', 'Alligator sinensis', 'Panicum virgatum', 'Gopherus agassizii', 'Neolentinus lepideus HHB14362 ss-1', 'Micromonas pusilla', 'Fraxinus excelsior', 'Acholeplasma palmae J233', 'Methanococcus maripaludis C6', 'Tuber melanosporum Mel28', 'Faecalitalea cylindroides ATCC 27803', 'Agathobaculum desmolans ATCC 43058', 'Dorea formicigenerans 4_6_53AFAA', 'Anaerobutyricum hallii DSM 3353', 'Eubacterium ramulus ATCC 29099', 'Eubacterium ventriosum ATCC 27560', 'Eubacterium xylanophilum ATCC 35991', 'Mesorhizobium ciceri biovar biserrulae WSM1271', 'Cellvibrio mixtus subsp. mixtus J3-8', 'Methanosalsum zhilinae DSM 4017', 'Mayetiola destructor', 'Hydrogenovibrio crunogenus XCL-2', 'Sulfurimonas denitrificans DSM 1251', 'Blattabacterium sp. (Mastotermes darwiniensis) str. MADAR', 'Methylomicrobium album BG8', 'Veillonella atypica KON', 'Veillonella dispar ATCC 17748', 'Corynebacterium glucuronolyticum ATCC 51867', 'Erythrobacter litoralis HTCC2594', 'Legionella moravica DSM 19234', 'Hypsizygus marmoreus', 'Helcococcus kunzii ATCC 51366', 'Bipolaris victoriae FI3', 'Neurospora tetrasperma', 'Oligotropha carboxidovorans OM5', 'Oryza glumipatula', 'Oryza meridionalis', 'Monodon monoceros', 'Lonchura striata domestica', 'Fusarium avenaceum', 'Acinetobacter johnsonii SH046', 'Acinetobacter junii', 'Acinetobacter radioresistens SH164', 'Junco hyemalis', 'Aliivibrio salmonicida LFI1238', 'Penicillium italicum', 'Nosema ceranae BRL01', 'Streptomyces nodosus', 'Stenotrophomonas maltophilia K279a', 'Fonsecaea pedrosoi CBS 271.37', 'Acinetobacter sp. CIP-A165', 'Daedalea quercina L-15889', 'Fistulina hepatica ATCC 64428', 'Fomitopsis pinicola', 'Stereum hirsutum', 'Ruminococcus bromii L2-63', 'Ruminococcus callidus ATCC 27760', 'Blautia obeum ATCC 29174', 'Leptotrichia buccalis C-1013-b', 'Sutterella wadsworthensis HGA0223', 'Botrytis cinerea', 'Sporobolomyces roseus IAM 13481', 'Actinosynnema mirum DSM 43827', 'Lentzea albidocapillata', 'Xenorhabdus bovienii SS-2004', 'Xenorhabdus poinarii G6', 'Claviceps paspali', 'Claviceps fusiformis', 'Balansia obtecta', 'Thioploca ingrica', 'Borrelia duttonii Ly', 'Rhopalosiphum padi', 'Saccharomonospora azurea SZMC 14600', 'Saccharomonospora cyanea NA-134', 'Saccharomonospora glauca K62', 'Aspergillus carbonarius ITEM 5010', 'Elsinoe australis', 'Penicilliopsis zonata CBS 506.65', 'Ewingella americana ATCC 33852', 'Anopheles atroparvus', 'Seriola dumerili', 'Lomentospora prolificans', 'Bathycoccus prasinos', 'Candidatus Microthrix parvicella RN1', 'Amanita muscaria Koide BX008', 'Porphyromonas catoniae F0037', 'Enterococcus saccharolyticus subsp. saccharolyticus ATCC 43076', 'Drosophila bipectinata', 'Pneumocystis jirovecii SE8', 'Ureaplasma diversum NCTC 246', 'Phocoena sinus', 'Prunus avium', 'Streptomyces acidiscabies 84-104', 'Tuber magnatum', 'Tuber borchii', 'Desulfovibrio termitidis HI1', 'Sorex araneus', 'Rubrobacter radiotolerans', 'Phoenix dactylifera', 'Aciculosporium take MAFF-241224', 'Candida dubliniensis', 'Vittaforma corneae ATCC 50505', 'Halobacteroides halobius DSM 5150', 'Roseobacter litoralis Och 149', 'Lichtheimia corymbifera', 'Desulfofundulus thermocisternus DSM 10259', 'Pygocentrus nattereri', 'Halomonas salina', 'Streptomyces collinus Tu 365', 'Gelatoporia subvermispora B', 'Epichloe amarillans E57', 'Corynebacterium argentoratense DSM 44202', 'Ammonifex degensii KC4', 'Staphylococcus lentus F1142', 'Rickettsia felis URRWXCal2', 'Methanococcus aeolicus Nankai-3', 'Anopheles christyi', 'Tilletia indica', 'Sulfolobus islandicus REY15A', 'Rhopalosiphum maidis', 'Anopheles darlingi', 'Ictidomys tridecemlineatus', 'Capronia epimyces', 'Capronia coronata', 'Pseudomonas alcaligenes NBRC 14159', 'Butyrivibrio proteoclasticus P6B7', 'Prauserella rugosa', 'Kutzneria albida DSM 43870', 'Cathartes aura', 'Zosterops lateralis melanops', 'Halanaerobium saccharolyticum subsp. saccharolyticum DSM 6643', 'Pseudoalteromonas citrea DSM 8771', 'Pseudoalteromonas luteoviolacea B = ATCC 29581', 'Pseudoalteromonas rubra DSM 6842', 'Paenarthrobacter aurescens TC1', 'Brachybacterium faecium DSM 4810', 'Jonesia denitrificans DSM 20603', 'Rothia mucilaginosa DY-18', 'Metallosphaera sedula DSM 5348', 'Monopterus albus', 'Streptomyces wedmorensis', 'Corynebacterium amycolatum SK46', 'Rhodococcus hoagii 103S', 'Corynebacterium matruchotii ATCC 14266', 'Corynebacterium propinquum DSM 44285', 'Corynebacterium striatum ATCC 6940', 'Corynebacterium urealyticum DSM 7109', 'Tolumonas auensis DSM 9187', 'Johnsonella ignava ATCC 51276', 'Catonella morbi ATCC 51271', 'Caldicellulosiruptor saccharolyticus DSM 8903', 'Enterococcus cecorum DSM 20682 = ATCC 43198', 'Enterococcus dispar ATCC 51266', 'Ferrimonas balearica DSM 9799', 'Aureococcus anophagefferens', 'Streptomyces megasporus', 'Trichomonascus ciferrii', 'Paenibacillus alvei TS-15', 'Paenibacillus durus', 'Paenibacillus macerans', 'Bradyrhizobium oligotrophicum S58', 'Caldanaerobius polysaccharolyticus DSM 13641', 'Erythrura gouldiae', 'Zonotrichia albicollis', 'Eimeria mitis', 'Borrelia persica No12', 'Borrelia recurrentis A1', 'Natronococcus amylolyticus DSM 10524', 'Nitrosomonas cryotolerans ATCC 49181', 'Sulfurospirillum barnesii SES-3', 'Geothrix fermentans DSM 14018', 'Dictyostelium discoideum', 'Natronobacterium gregoryi SP2', 'Legionella fairfieldensis ATCC 49588', 'Legionella lansingensis DSM 19556 = ATCC 49751', 'Legionella shakespearei DSM 23087', 'Bipolaris sorokiniana', 'Pyrenophora tritici-repentis Pt-1C-BFP', 'Cyanidioschyzon merolae', 'Tolypocladium capitatum', 'Capnocytophaga granulosa ATCC 51502', 'Leucothrix mucor DSM 2157', 'Eremothecium cymbalariae', 'Eremothecium sinecaudum', 'Nematostella vectensis', 'Mycoplasma conjunctivae HRC/581', 'Mycoplasma bovoculi M165/69', 'Mycoplasma alkalescens 14918', 'Brevibacillus borstelensis 3096-7', 'Wickerhamiella sorbophila', 'Babjeviella inositovora NRRL Y-12698', 'Streptococcus cristatus AS 1.3089', 'Vibrio scophthalmi LMG 19158', 'Desulfohalobium retbaense DSM 5692', 'Nadsonia fulvescens', 'Butyrivibrio crossotus DSM 2876', 'Staphylococcus pasteuri SP1', 'Granulicatella adiacens ATCC 49175', 'Abiotrophia defectiva ATCC 49176', 'Staphylococcus chromogenes MU 970', 'Pseudobutyrivibrio ruminis CF1b', 'Anabaena sp. 90', 'Weissella hellenica', 'Pseudomonas avellanae BPIC 631', 'Mycolicibacterium hassiacum DSM 44199', 'Thermoanaerobacter wiegelii Rt8.B1', 'Spirochaeta africana DSM 8902', 'Sphingobium chlorophenolicum', 'Reticulomyxa filosa', 'Orenia marismortui DSM 5156', 'Parabacteroides merdae ATCC 43184', 'Bacteroides stercoris ATCC 43183', 'Thermosipho melanesiensis BI429', 'Suhomyces tanzawaensis', 'Aureobasidium melanogenum', 'Pseudomonas nitroreducens HBP1', 'Entamoeba dispar', 'Cenarchaeum symbiosum A', 'Dethiosulfovibrio peptidovorans DSM 11002', 'Desulfovibrio bastinii DSM 16055', 'Massilia timonae CCUG 45783', 'Neogobius melanostomus', 'Armillaria gallica', 'Armillaria ostoyae', 'Borrelia miyamotoi LB-2001', 'Rickettsia peacockii str. Rustic', 'Lautropia mirabilis ATCC 51599', 'Bacteroides caccae ATCC 43185', 'Mycoplasma alligatoris A21JP2', 'Lactobacillus rhamnosus GG', 'Streptomyces olivaceus', 'Bibersteinia trehalosi USDA-ARS-USMARC-189', 'Atkinsonella hypoxylon', 'Streptomyces sulphureus DSM 40104', 'Streptomyces lydicus', 'Lactobacillus crispatus ST1', 'Epichloe baconii ATCC 200745', 'Mycobacterium triplex', 'Micromonospora aurantiaca ATCC 27029', 'Pseudomonas amygdali pv. mori str. 301020', 'Pseudomonas corrugata CFBP 5454', 'Pseudomonas fulva 12-X', 'Pseudomonas synxantha BG33R', 'Pseudomonas luteola XLDN4-9', 'Serratia fonticola AU-AP2C', 'Vibrio cyclitrophicus FF75', 'Oreochromis aureus', 'Hyphomicrobium zavarzinii ATCC 27496', 'Acinetobacter pittii PHEA-2', 'Xanthomonas fragariae LMG 25863', 'Neolecta irregularis DAH-3', 'Penicillium freii', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Orchesella cincta', 'Geospiza fortis', 'Novosphingobium aromaticivorans DSM 12444', 'Sporisorium scitamineum', 'Candidatus Arthromitus sp. SFB-mouse-Japan', 'Kineosporia aurantiaca JCM 3230', 'Marinobacterium stanieri S30', 'Psychroserpens burtonensis DSM 12212', 'Rubrobacter xylanophilus DSM 9941', 'Desulfitobacterium hafniense Y51', 'Coffea canephora', 'Nicotiana attenuata', 'Holospora obtusa F1', 'Mycoplasma crocodyli MP145', 'Rhizobium sullae WSM1592', 'Thermoplasma volcanium GSS1', 'Charadrius vociferus', 'Pinctada fucata', 'Arabis alpina', 'Helicobacter trogontum', 'Actinobacillus minor NM305', 'Eubacterium saphenum ATCC 49989', 'Catagonus wagneri', 'Treponema maltophilum ATCC 51939', 'Ureibacillus thermosphaericus str. Thermo-BF', 'Syntrophobotulus glycolicus DSM 8271', 'Wigglesworthia glossinidia endosymbiont of Glossina morsitans morsitans (Yale colony)', 'Kluyvera ascorbata ATCC 33433', 'Eimeria brunetti', 'Eimeria praecox', 'Jaculus jaculus', 'Castor canadensis', 'Mycoplasma auris 15026', 'Mycoplasma yeatsii 13926', 'Trichoderma reesei', 'Ciona savignyi', 'Spraguea lophii 42_110', 'Haloarcula hispanica ATCC 33960', 'Kluyveromyces dobzhanskii CBS 2104', 'Nakaseomyces delphensis', 'Nakaseomyces bacillisporus', 'Tetragenococcus halophilus NBRC 12172', 'Tortispora caseinolytica', 'Meiothermus silvanus DSM 9946', 'Calidithermus chliarophilus DSM 9957', 'Acinetobacter venetianus RAG-1 = CIP 110063', 'Mitsuokella multacida DSM 20544', 'Prevotella dentalis DSM 3688', 'Lactobacillus gallinarum DSM 10532 = JCM 2011', 'Sarcoptes scabiei', 'Plasmodium inui San Antonio 1', 'Brachyspira pilosicoli 95/1000', 'Erysiphe necator', 'Sulfitobacter sp. EE-36', 'Sagittula stellata E-37', 'Haliaeetus leucocephalus', 'Bartonella alsatica IBS 382', 'Caldicellulosiruptor kristjanssonii I77R1B', 'Caldicellulosiruptor lactoaceticus 6A', 'Schaalia georgiae DSM 6843', 'Scophthalmus maximus', 'Desulfonatronovibrio hydrogenovorans DSM 9292', 'Desulfospira joergensenii DSM 10085', 'Enterococcus durans ATCC 6056', 'Enterococcus mundtii QU 25', 'Intrasporangium calvum DSM 43043', 'Brevibacterium mcbrellneri ATCC 49030', 'Hamadaea tsunoensis DSM 44101', 'Hyphomicrobium denitrificans 1NES1', 'Pseudomonas coronafaciens pv. oryzae str. 1_6', 'Pseudomonas resinovorans NBRC 106553', 'Xanthomonas axonopodis pv. vasculorum', 'Treponema lecithinolyticum ATCC 700332', 'Treponema socranskii subsp. socranskii VPI DR56BR1116 = ATCC 35536', 'Thermobrachium celere DSM 8682', 'Thermodesulfobacterium hveragerdense DSM 12571', 'Gordonia hirsuta DSM 44140 = NBRC 16056', 'Treponema paraluiscuniculi Cuniculi A', 'Nocardiopsis alba ATCC BAA-2165', 'Blautia hydrogenotrophica DSM 10507', 'Nakamurella multipartita DSM 44233', 'Mycolicibacterium mageritense DSM 44476 = CIP 104973', 'Pyrenophora teres', 'Sulfobacillus acidophilus TPY', 'Acidimicrobium ferrooxidans DSM 10331', 'Hanseniaspora valbyensis NRRL Y-1626', 'Octadecabacter arcticus 238', 'Pyrococcus horikoshii OT3', 'Peptoniphilus harei ACS-146-V-Sch2b', 'Pseudonocardia asaccharolytica DSM 44247 = NBRC 16224', 'Thermococcus zilligii AN1', 'Methanolacinia petrolearia DSM 11571', 'Pristionchus pacificus', 'Colobus angolensis palliatus', 'Ascoidea rubescens DSM 1968', 'Hyperthermus butylicus DSM 5456', 'Pyrolobus fumarii 1A', 'Thermosphaera aggregans DSM 11486', 'Ferroglobus placidus DSM 10642', 'Raoultella ornithinolytica B6', 'Chroococcidiopsis thermalis PCC 7203', 'Pleurocapsa sp. PCC 7327', 'Spirulina subsalsa PCC 9445', 'Mesitornis unicolor', 'Cariama cristata', 'Eurypyga helias', 'Streptomyces venezuelae ATCC 10712', 'Salmonella bongori N268-08', 'Streptococcus thoraltensis DSM 12221', 'Deinococcus proteolyticus MRP', 'Sciurus vulgaris', 'Flavobacterium branchiophilum FL-15', 'Epichloe elymi E56', 'Caldicellulosiruptor owensensis OL', 'Sediminispirochaeta smaragdinae DSM 11293', 'Pectobacterium betavasculorum', 'Ruegeria lacuscaerulensis ITI-1157', 'Thermonema rossianum DSM 10300', 'Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628', 'Pistacia vera', 'Magnetospirillum gryphiswaldense MSR-1 v2', 'Guillardia theta', 'Actinomyces graevenitzii C83', 'Dehalobacter restrictus DSM 9455', 'Vibrio anguillarum', 'Cuculus canorus', 'Thermococcus barophilus MP', 'Malurus cyaneus samueli', 'Streptomyces toyocaensis', 'Tyto alba', 'Hanseniaspora guilliermondii', 'Hanseniaspora osmophila', 'Bartonella clarridgeiae 73', 'Xanthomonas arboricola pv. celebensis', 'Xanthomonas cassavae CFBP 4642', 'Xanthomonas hortorum pv. carotae str. M081', 'Xanthomonas sacchari', 'Xanthomonas campestris pv. musacearum NCPPB 4379', 'Xanthomonas vesicatoria ATCC 35937', 'Protomyces lactucaedebilis', 'Aeropyrum pernix K1', 'Cottoperca gobio', 'Labrus bergylta', 'Rhizobium gallicum bv. gallicum R602sp', 'Rhizobium giardinii bv. giardinii H152', 'Eubacterium infirmum F0142', 'Glaciecola punicea ACAM 611', 'Shewanella frigidimarina NCIMB 400', 'Helicobacter bizzozeronii CIII-1', 'Afipia broomeae ATCC 49717', 'Thermus oshimai JL-2', 'Psychroflexus torquis ATCC 700755', 'Lactobacillus zeae DSM 20178 = KCTC 3804', 'Acanthisitta chloris', 'Mycoplasma suis str. Illinois', 'Apaloderma vittatum', 'Colius striatus', 'Merops nubicus', 'Trifolium pratense', 'Sulfurospirillum arcachonense DSM 9755', 'Rhizobium mongolense USDA 1844', 'Halomicrobium mukohataei DSM 12286', 'Enterococcus asini ATCC 700915', 'Fragaria vesca subsp. vesca', 'Burkholderia thailandensis MSMB43', 'Daktulosphaira vitifoliae', 'Spirillospora albida', 'Desulfofundulus kuznetsovii DSM 6115', 'Desulfofarcimen acetoxidans DSM 771', 'Desulfovibrio alaskensis G20', 'Treponema medium ATCC 700293', 'Archaeoglobus veneficus SNP6', 'Rhizopus microsporus', 'Streptomyces celluloflavus', 'Kitasatospora azatica KCTC 9699', 'Kitasatospora mediocidica KCTC 9733', 'Debaryomyces fabryi', 'Encephalitozoon intestinalis ATCC 50506', 'Trichoderma citrinoviride', 'Tilletiopsis washingtonensis', 'Rickettsiella grylli', 'Streptococcus macedonicus ACA-DC 198', 'Myotis lucifugus', 'Rhinolophus ferrumequinum', 'Actinotignum schaalii FB123-CNA-2', 'Pantholops hodgsonii', 'Corynespora cassiicola Philippines', 'Cellulophaga algicola DSM 14237', 'Desulfotomaculum reducens MI-1', 'Helicobacter rodentium ATCC 700285', 'Arabidopsis lyrata', 'Taeniopygia guttata', 'Candidatus Phytoplasma australiense', 'Alcanivorax borkumensis SK2', 'Angomonas deanei', 'Sphingomonas echinoides ATCC 14820', 'Paenibacillus alginolyticus DSM 5050 = NBRC 15375', 'Paenibacillus curdlanolyticus YK9', 'Paenibacillus peoriae KCTC 3763', 'Ficedula albicollis', 'Cyanobium gracile PCC 6307', 'Synechococcus sp. WH 7805', 'Prevotella pallens ATCC 700821', 'Penicillium polonicum', 'Penicillium solitum', 'Penicillium nalgiovense', 'Shewanella violacea DSS12', 'Shewanella amazonensis SB2B', 'Shewanella sp. MR-4', 'Shewanella sp. MR-7', 'Lactobacillus paraplantarum', 'Burkholderia vietnamiensis G4', 'Chlorocebus sabaeus', 'Halogeometricum borinquense DSM 11551', 'Phaeobacter gallaeciensis DSM 26640', 'Desulfobacca acetoxidans DSM 11109', 'Saccharopolyspora spinosa NRRL 18395', 'Sanguibacter keddieii DSM 10542', 'Shewanella woodyi ATCC 51908', 'Holdemania filiformis DSM 12042', 'Monilinia laxa', 'Varanus komodoensis', 'Ophiostoma piceae', 'Lynx canadensis', 'Dehalococcoides mccartyi 195', 'Coniosporium apollinis', 'Corynebacterium durum F0235', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Paenibacillus mucilaginosus KNP414', 'Acholeplasma brassicae', 'Enterobacter asburiae LF7a', 'Lelliottia amnigena CHS 78', 'Pluralibacter gergoviae', 'Amphilophus citrinellus', 'Nomascus leucogenys', 'Natronorubrum bangense JCM 10635', 'Hucho hucho', 'Borreliella valaisiana Tom4006', 'Acidiphilium multivorum AIU301', 'Haloterrigena turkmenica DSM 5511', 'Shewanella baltica OS117', 'Anopheles funestus', 'Saccharum spontaneum', 'Natronorubrum tibetense GA33', 'Calocera viscosa TUFC12733', 'Zobellia galactanivorans', 'Aquifex aeolicus VF5', 'Melanopsichium pennsylvanicum 4', 'Trichophyton benhamiae', 'Nannizzia gypsea CBS 118893', 'Microsporum canis CBS 113480', 'Trichophyton verrucosum', 'Trichophyton equinum', 'Desulfovibrio oxyclinae DSM 11498', 'Trichoderma atroviride', "Sodalis glossinidius str. 'morsitans'", 'Hydrogenovibrio kuenenii DSM 12350', 'Sideroxydans lithotrophicus ES-1', 'Demetria terragena DSM 11295', 'Nevskia ramosa DSM 11499', 'Bacillus pseudomycoides DSM 12442', 'Anabas testudineus', 'Desulfurobacterium thermolithotrophum DSM 11699', 'Podarcis muralis', 'Coleofasciculus chthonoplastes PCC 7420', 'Carnimonas nigrificans ATCC BAA-78', 'Dothistroma septosporum', 'Synechococcus sp. CC9311', 'Rhizopus oryzae', 'Mortierella alpina ATCC 32222', 'Lobosporangium transversale', 'Natrialba asiatica DSM 12278', 'Tetragenococcus muriaticus DSM 15685', 'Borreliella bissettii DN127', 'Terasakiella pusilla DSM 6293', 'Marinospirillum minutulum DSM 6287', 'Alcanivorax jadensis T9', 'Corynebacterium ulcerans BR-AD22', 'Pythium aphanidermatum DAOM BR444', 'Halothece sp. PCC 7418', 'Mycoplasma wenyonii str. Massachusetts', 'Oryza barthii', 'Actinoalloteichus cyanogriseus', 'Meiothermus cerbereus DSM 11376', 'Sulfurospirillum deleyianum DSM 6946', 'Desulfocapsa sulfexigens DSM 10523', 'Serendipita indica', 'Erwinia tracheiphila PSU-1', 'Pseudomonas knackmussii B13', 'Wolbachia sp. wRi', 'Lachnoclostridium phytofermentans ISDg', 'Gleimia europaea ACS-120-V-Col10b', 'Komagataeibacter intermedius AF2', 'Pantoea stewartii', 'Streptomyces niger', 'Streptomyces violens', 'Papilio xuthus', 'Streptomyces roseoverticillatus', 'Sulfurospirillum multivorans DSM 12446', 'Streptomyces afghaniensis 772', 'Streptomyces atroolivaceus', 'Streptomyces bicolor', 'Streptomyces catenulae', 'Streptomyces griseorubens', 'Trypanosoma theileri', 'Streptomyces alboflavus', 'Streptomyces aureocirculatus', 'Streptomyces filamentosus NRRL 15998', 'Streptomyces flavidovirens DSM 40150', 'Streptomyces lavenduligriseus', 'Streptomyces mutabilis', 'Kitasatospora purpeofusca', 'Streptomyces resistomycificus', 'Streptomyces varsoviensis', 'Rheinheimera baltica DSM 14885', 'Streptomyces viridosporus ATCC 14672', 'Phytophthora sojae', 'Methanocaldococcus infernus ME', 'Edwardsiella ictaluri 93-146', 'Citrobacter farmeri GTC 1319', 'Citrobacter rodentium ICC168', 'Citrobacter sedlakii NBRC 105722', 'Actinobacillus succinogenes 130Z', 'Lentzea aerocolonigenes', 'Streptomyces cyaneogriseus subsp. noncyanogenus', 'Streptomyces durhamensis', 'Streptomyces flavochromogenes', 'Streptomyces fulvissimus DSM 40593', 'Streptomyces griseoaurantiacus M045', 'Streptomyces iakyrus', 'Streptomyces katrae', 'Streptomyces pyridomyceticus', 'Streptomyces violaceusniger Tu 4113', 'Moschus moschiferus', 'Streptomyces albulus', 'Sphaerobolus stellatus SS14', 'Scleroderma citrinum Foug A', 'Rasamsonia emersonii CBS 393.64', 'Theileria orientalis', 'Streptococcus peroris ATCC 700780', 'Streptococcus infantis SK970', 'Deinococcus geothermalis DSM 11300', 'Anopheles farauti', 'Synechococcus sp. WH 5701', 'Enterobacter cancerogenus ATCC 35316', 'Dickeya paradisiaca Ech703', 'Aquamicrobium defluvii', 'Gasterosteus aculeatus', 'Microplitis demolitor', 'Pseudomonas sp. VLB120', 'Chara braunii', 'Caulobacter henricii', 'Petrotoga mobilis SJ95', 'Natrinema pellirubrum DSM 15624', 'Natrinema pallidum DSM 3751', 'Treponema vincentii ATCC 35580', 'Penicillium oxalicum 114-2', 'Selenomonas sputigena ATCC 35185', 'Trichophyton soudanense CBS 452.61', 'Macrococcus caseolyticus JCSC5402', 'Ostreococcus tauri', 'Edhazardia aedis USNM 41457', 'Pyrobaculum neutrophilum V24Sta', 'Pseudomonas plecoglossicida NB2011', 'Nodularia spumigena CCY9414', 'Shewanella oneidensis MR-1', 'Shewanella pealeana ATCC 700345', 'Flexithrix dorotheae DSM 6795', 'Lewinella cohaerens DSM 23179', 'Lewinella persica DSM 23188', 'Eucalyptus grandis', 'Paxillus involutus ATCC 200175', 'Staphylococcus vitulinus F1028', 'Vibrio halioticoli NBRC 102217', 'Mesorhizobium amorphae CCNWGS0123', 'Enterococcus malodoratus ATCC 43197', 'Enterococcus raffinosus ATCC 49464', 'Tolypocladium ophioglossoides CBS 100239', 'Lonsdalea quercina subsp. quercina', 'Waddlia chondrophila WSU 86-1044', 'Naematelia encephala', 'Hypholoma sublateritium FD-334 SS-4', 'Kocuria rhizophila P7-4', 'Bos mutus', 'Sphaeroforma arctica JP610', 'Thielaviopsis punctulata', 'Lepeophtheirus salmonis', 'Citromicrobium bathyomarinum JL354', 'Ophiocordyceps sinensis', 'Trachipleistophora hominis', 'Bacillus mojavensis RO-H-1 = KCTC 3706', 'Drosophila austrosaltans', 'Drosophila lusaltans', 'Drosophila milleri', 'Nannochloropsis gaditana CCMP526', 'Achromobacter piechaudii HLE', 'Sporisorium reilianum', 'Boechera stricta', 'Eutrema salsugineum', 'Dechloromonas agitata is5', 'Streptomyces seoulensis', 'Thiocystis violascens DSM 198', 'Emmonsia crescens UAMH 3008', 'Cordyceps militaris', 'Piromyces sp. E2', 'Methanocaldococcus vulcanius M7', 'Thermaerobacter marianensis DSM 12885', 'Photobacterium profundum SS9', 'Brevundimonas bacteroides DSM 4726', 'Brevundimonas subvibrioides ATCC 15264', 'Maricaulis maris MCS10', 'Hyphomonas polymorpha PS728', 'Sulfitobacter guttiformis KCTC 32187', 'Thraustotheca clavata', 'Rosa chinensis', 'Stachybotrys chartarum IBT 7711', 'Pseudomonas balearica DSM 6083', 'Anopheles maculatus', 'Anopheles sinensis', 'Oncorhynchus tshawytscha', 'Paraburkholderia caribensis MBA4', 'Saccharomonospora xinjiangensis XJ-54', 'Sinocyclocheilus grahami', 'Pseudomonas mandelii PD30', 'Castellaniella defragrans 65Phen', 'Anas zonorhyncha', 'Thermocrinis ruber DSM 12173', 'Mycolicibacterium tusciae JS617', 'Mannheimia haemolytica M42548', 'Thauera linaloolentis 47Lol = DSM 12138', 'Thauera terpenica 58Eu', 'Alloprevotella tannerae ATCC 51259', 'Prevotella enoeca JCM 12259', 'Vibrio rumoiensis 1S-45', 'Campylobacter hominis ATCC BAA-381', 'Cellulophaga baltica 13', 'Mycetocola saprophilus', 'Streptomyces vitaminophilus DSM 41686', 'Sinorhizobium arboris LMG 14919', 'Pseudomonas monteilii SB3078', 'Malassezia globosa CBS 7966', 'Malassezia sympodialis ATCC 42132', 'Myroides odoratimimus H1bi', 'Solibacillus silvestris StLB046', 'Streptococcus constellatus subsp. pharyngis SK1060 = CCUG 46377', 'Hebeloma cylindrosporum h7', 'Caldivirga maquilingensis IC-167', 'Asticcacaulis biprosthecum C19', 'Sphingobium herbicidovorans NBRC 16415', 'Malassezia pachydermatis', 'Cylindrospermopsis raciborskii CS-505', 'Wolbachia endosymbiont of Drosophila simulans wNo', 'Rosellinia necatrix', 'Sclerotinia borealis F-4128', 'Dendroctonus ponderosae', 'Plasmodium gonderi', 'Leersia perrieri', 'Bifidobacterium subtile', 'Prevotella albensis DSM 11370 = JCM 12258', 'Succinispira mobilis DSM 6222', 'Oidiodendron maius', 'Parascardovia denticolens DSM 10105 = JCM 12538', 'Scardovia inopinata F0304', 'Pseudomonas mosselii SJ10', 'Mycobacterium canettii CIPT 140070017', 'Bifidobacterium gallicum DSM 20093 = LMG 11596', 'Bifidobacterium gallinarum', 'Bifidobacterium merycicum', 'Bifidobacterium ruminantium', 'Streptomyces somaliensis DSM 40738', 'Pectobacterium odoriferum', 'Neonectria ditissima', 'Bifidobacterium pullorum DSM 20433', 'Rhizobium undicola ORS 992 = ATCC 700741', 'Thermothelomyces thermophilus', 'Asticcacaulis excentricus CB 48', 'Podila verticillata', 'Desulfosporosinus meridiei DSM 13257', 'Chitinophaga pinensis DSM 2588', 'Epichloe brachyelytri', 'Microtus ochrogaster', 'Cimex lectularius', 'Bacillus clausii KSM-K16', 'Bacillus pseudofirmus OF4', 'Erwinia pyrifoliae Ep1/96', 'Coniophora puteana', 'Piloderma croceum F 1598', 'Thioflavicoccus mobilis 8321', 'Aphis gossypii', 'Haliangium ochraceum DSM 14365', 'Wolbachia endosymbiont strain TRS of Brugia malayi', 'Aliivibrio wodanis', 'Moritella viscosa', 'Delftia acidovorans SPH-1', 'Acidovorax avenae subsp. avenae ATCC 19860', 'Acidovorax citrulli AAC00-1', 'Cryptosporangium arvum DSM 44712', 'Hylemonella gracilis str. Niagara R', 'Simplicispira psychrophila DSM 11588', 'Colletotrichum higginsianum', 'Acanthochromis polyacanthus', 'Amphiprion ocellaris', 'Treponema brennaborense DSM 12168', 'Hyphomonas adhaerens MHS-3', 'Hyphomonas johnsonii MHS-2', 'Hyphomonas neptunium ATCC 15444', 'Hyphomonas oceanitis SCH89', 'Wolfiporia cocos MD-104 SS10', 'Desulfovibrio alcoholivorans DSM 5433', 'Parageobacillus caldoxylosilyticus CIC9', 'Aminomonas paucivorans DSM 12260', 'Desulfovibrio aminophilus DSM 12254', 'Thermanaerovibrio acidaminovorans DSM 6589', 'Aminobacterium mobile DSM 12262', 'Aminobacterium colombiense DSM 12261', 'Frateuria aurantia DSM 6220', 'Monosiga brevicollis', 'Kitasatospora cheerisanensis KCTC 2395', 'Vagococcus lutrae LBD1', 'Arabidopsis halleri subsp. gemmifera', 'Capsella rubella', 'Picrophilus torridus DSM 9790', 'Atopobium vaginae DSM 15829', 'Centipeda periodontii DSM 2778', 'Phlebiopsis gigantea 11061_1 CR5-6', 'Facklamia languida CCUG 37842', 'Paracoccus pantotrophus J46', 'Anaerovibrio lipolyticus LB2005', 'Anaeroarcus burkinensis DSM 6283', 'Trichosporon asahii', 'Pseudanabaena sp. PCC 7367', 'Streptococcus ovis DSM 16829', 'Pythium arrhenomanes ATCC 12531', 'Buttiauxella agrestis ATCC 33320', 'Budvicia aquatica DSM 5075 = ATCC 35567', 'Leminorella grimontii ATCC 33999 = DSM 5078', 'Tatumella ptyseos ATCC 33301', 'Serratia grimesii', 'Serratia plymuthica', 'Methanocaldococcus fervens AG86', 'Sulfitobacter mediterraneus', 'Prevotella brevis P6B11', 'Gordonia rhizosphera NBRC 16068', 'Myxococcus stipitatus DSM 14675', 'Linepithema humile', 'Parachlamydia acanthamoebae UV-7', 'Chlamydia psittaci 10_1398_11', 'Chlamydia abortus S26/3', 'Chlamydia felis Fe/C-56', 'Chlamydia caviae GPIC', 'Chlamydia pneumoniae TW-183', 'Chlamydia suis MD56', 'Chlamydia muridarum str. Nigg', 'Simkania negevensis Z', 'Leclercia adecarboxylata ATCC 23216 = NBRC 102595', 'Lactobacillus amylolyticus DSM 11664', 'Succinimonas amylolytica DSM 2873', 'Succinivibrio dextrinosolvens H5', 'Methanobrevibacter ruminantium M1', 'Trypanosoma conorhini', 'Methanocorpusculum labreanum Z', 'Methanoculleus bourgensis MS2', 'Clostridium autoethanogenum DSM 10061', 'Clostridium haemolyticum NCTC 9693', 'Gordonia alkanivorans NBRC 16433', 'Slackia exigua ATCC 700122', 'Slackia heliotrinireducens DSM 20476', 'Eggerthella lenta DSM 2243', 'Gemella sanguinis M325', 'Gemella bergeri ATCC 700627', 'Archaeoglobus profundus DSM 5631', 'Magnetospirillum magneticum AMB-1', 'Cryptobacterium curtum DSM 15641', 'Brachyspira intermedia PWS/A', 'Brachyspira murdochii DSM 12563', 'Hippea maritima DSM 10411', 'Lysobacter antibioticus', 'Synechococcus sp. WH 8102', 'Taylorella asinigenitalis MCE3', 'Gordonia polyisoprenivorans VH2', 'Staphylothermus hellenicus DSM 12710', 'Candidatus Odyssella thessalonicensis L13', 'Anthracocystis flocculosa', 'Moesziomyces antarcticus', 'Moesziomyces aphidis DSM 70725', 'Beutenbergia cavernae DSM 12333', 'Desulfotalea psychrophila LSv54', 'Corvus brachyrhynchos', 'Pseudarthrobacter chlorophenolicus A6', 'Clogmia albipunctata', 'Mannheimia varigena USDA-ARS-USMARC-1296', 'Plasmodium relictum', 'Thauera sp. MZ1T', 'Citrus clementina', 'Triticum dicoccoides', 'Achromobacter xylosoxidans A8', 'Bartonella tribocorum CIP 105476', 'Thermacetogenium phaeum DSM 12270', 'Sphaerulina musiva', 'Serpula lacrymans', 'Chlamydia pecorum E58', 'Cladophialophora carrionii', 'Rhinocladiella mackenziei CBS 650.93', 'Arenibacter latericius DSM 15913', 'Syntrophothermus lipocalidus DSM 12680', 'Phaseolibacter flectens ATCC 12775', 'Saccharophagus degradans 2-40', 'Mycoplasma dispar', 'Bacillus flexus T6186-2', 'Bacillus halodurans C-125', 'Propionispira raffinosivorans DSM 20765', 'Camarhynchus parvulus', 'Facklamia sourekii ATCC 700629', 'Burkholderia multivorans ATCC 17616', 'Selaginella moellendorffii', 'Treponema primitia ZAS-2', 'Eremococcus coleocola DSM 15696', 'Thermus igniterrae ATCC 700962', 'Thermus antranikianii DSM 12462', 'Dorea longicatena AGR2136', 'Cyclospora cayetanensis', 'Megaselia abdita', 'Caulobacter segnis ATCC 21756', 'Ceratocystis platani', 'Borreliella spielmanii A14S', 'Streptomyces yeochonensis CN732', 'Gordonia amicalis CCMA-559', 'Corynebacterium terpenotabidum Y-11', 'Ruegeria pomeroyi DSS-3', 'Laccaria amethystina LaAM-08-1', 'Bubalus bubalis', 'Cladophialophora bantiana CBS 173.52', 'Moraxella caprae DSM 19149', 'Oligella ureolytica DSM 18253', 'Oligella urethralis DNF00040', 'Absidia repens', 'Camelina sativa', 'Moritella marina ATCC 15381', 'Hydrogenovibrio sp. Milos-T1', 'Thiomicrorhabdus sp. Milos-T2', 'Enterovibrio calviensis 1F-211', 'Polistes canadensis', 'Synechococcus sp. PCC 7335', 'Aspergillus udagawae', 'Candidatus Paracaedibacter acanthamoebae', 'Mucor ambiguus', 'Candidatus Portiera aleyrodidarum BT-QVLC', 'Exophiala spinifera', 'Hortaea werneckii', 'Catharus ustulatus', 'Bartonella koehlerae C-29', 'Thiomicrospira aerophila AL3', 'Metarhizium album ARSEF 1941', 'Metarhizium acridum CQMa 102', 'Herbaspirillum frisingense GSF30', 'Fischerella muscicola PCC 7414', 'Ketogulonicigenium vulgare WSH-001', 'Pandoraea apista', 'Pandoraea pnomenusa', 'Pandoraea pulmonicola', 'Pandoraea sputorum', 'Pseudaminobacter salicylatoxidans KCT001', 'Edwardsiella hoshinae NBRC 105699 = ATCC 33379', 'Fervidobacterium pennivorans DSM 9078', 'Exserohilum turcicum', 'Roseivivax halodurans JCM 10272', 'Myzus cerasi', 'Thermotoga petrophila RKU-1', 'Thermotoga naphthophila RKU-10', 'Coturnix japonica', 'Cryptosporidium meleagridis', 'Thermicanus aegyptius DSM 12793', 'Shewanella sp. ANA-3', 'Rhizophagus clarus', 'Ramlibacter tataouinensis TTB310', 'Tolypocladium paradoxum', 'Mola mola', 'Dyadobacter fermentans DSM 18053', 'Bordetella petrii', 'Ochrobactrum intermedium LMG 3301', 'Besnoitia besnoiti', 'Desulfurococcus amylolyticus 1221n', 'Gavialis gangeticus', 'Helicobacter pametensis ATCC 51478', 'Burkholderia cenocepacia J2315', 'Pseudomonas sp. M1', 'Legionella fallonii LLAP-10', 'Flavobacterium psychrophilum JIP02/86', 'Salvator merianae', 'Lactobacillus hamsteri DSM 5661 = JCM 6256', 'Halobacteriovorax marinus SJ', 'Eutypa lata', 'Phaethon lepturus', 'Lactobacillus sp. ASF360', 'Clostridium sp. MD294', 'Eubacterium plexicaudatum ASF492', 'Ferroplasma acidarmanus fer1', 'Acetomicrobium mobile DSM 13181', 'Lactobacillus mucosae LM1', 'Periconia macrospinosa', 'Bacillus sp. OxB-1', 'Drechmeria coniospora', 'Mycolicibacterium septicum DSM 44393', 'Phlebia centrifuga', 'Pyrobaculum oguniense TE7', 'Hammondia hammondi', 'Flavobacterium frigidarium DSM 17623', 'Calothrix sp. PCC 7507', 'Spermophilus dauricus', 'Tetraodon nigroviridis', 'Austwickia chelonae NBRC 105200', 'Onion yellows phytoplasma', 'Chloroherpeton thalassium ATCC 35110', 'Verticillium longisporum', 'Madurella mycetomatis', 'Falco tinnunculus', 'Wolbachia endosymbiont of Onchocerca ochengi', 'Fusarium pseudograminearum CS3096', 'Choanephora cucurbitarum', 'Hesseltinella vesiculosa', 'Bipolaris oryzae', 'Methanomethylovorans hollandica DSM 15978', 'Trichoderma asperellum CBS 433.97', 'Saprolegnia parasitica CBS 223.65', 'Aequorivita sublithincola DSM 14238', 'Trichophyton interdigitale H6', 'Candidatus Blochmannia pennsylvanicus str. BPEN', 'Burkholderia ubonensis MSMB22', 'Tetrasphaera elongata Lp2', 'Glarea lozoyensis ATCC 20868', 'Prunus mume', 'Stanieria cyanosphaera PCC 7437', 'Xenococcus sp. PCC 7305', 'Leptolyngbya sp. PCC 7375', 'Desulfallas gibsoniae DSM 7213', 'Solobacterium moorei DSM 22971', 'Gloeocapsa sp. PCC 73106', 'Cyanobacterium stanieri PCC 7202', 'Streptococcus infantarius subsp. infantarius CJ18', 'Proteus penneri ATCC 35198', 'Streptococcus didelphis DSM 15616', 'Acromyrmex echinatior', 'Vavraia culicis subsp. floridensis', 'Gleimia coleocanis DSM 15436', 'Actinomyces urogenitalis DSM 15434', 'Nostoc sp. PCC 7120 = FACHB-418', 'Pogona vitticeps', 'Saccharothrix espanaensis DSM 44229', 'Saccharothrix syringae', 'Riemerella columbina DSM 16469', 'Rhodococcus pyridinivorans SB3094', 'Bordetella hinzii ATCC 51730', 'Oscillochloris trichoides DG-6', 'Penicillium brasilianum', 'Postia placenta Mad-698-R', 'Gloeophyllum trabeum', 'Camponotus floridanus', 'Serratia sp. ATCC 39006', 'Helicobacter suis HS1', 'Cryptococcus amylolentus', 'Adineta vaga', 'Nothobranchius furzeri', 'Ralstonia mannitolilytica', 'Streptacidiphilus neutrinimicus', 'Streptacidiphilus carbonis', 'Streptacidiphilus albus', 'Desulfohalotomaculum alkaliphilum DSM 12257', 'Valsa mali var. pyri', 'Methylibium petroleiphilum PM1', 'Epicoccum nigrum', 'Cryptotermes secundus', 'Anaerostipes caccae DSM 14662', 'Leucosporidium creatinivorum', 'Frankia casuarinae', 'Thermoanaerobacter siderophilus SR4', 'Maylandia zebra', 'Pseudoflavonifractor capillosus ATCC 29799', 'Cupriavidus necator H16', 'Ensifer adhaerens OV14', 'Acinetobacter bereziniae', 'Acinetobacter guillouiae NIPH 991', 'Acinetobacter sp. RUH2624', 'Chelonoidis abingdonii', 'Tenacibaculum maritimum NCIMB 2154', 'Methylosinus sp. LW3', 'Methylosinus sp. PW1', 'Opitutus terrae PB90-1', 'Thermanaerovibrio velox DSM 12556', 'Thermoanaerobacter italicus Ab9', 'Corynebacterium falsenii DSM 44353', 'Coprothermobacter platensis DSM 11748', 'Acinetobacter ursingii DSM 16037 = CIP 107286', 'Acinetobacter schindleri NIPH 900', 'Rickettsia monacensis', 'Hippocampus comes', 'Anaerovorax odorimutans DSM 5092', 'Leptotrichia trevisanii DSM 22070', 'Varroa destructor', 'Myotis brandtii', 'Galerina marginata CBS 339.88', 'Spizellomyces punctatus', 'Lactobacillus jensenii 115-3-CHN', 'Batrachochytrium dendrobatidis JAM81', 'Catenaria anguillulae PL171', 'Serendipita vermifera MAFF 305830', 'Nocardioides sp. CF8', 'Sinorhizobium medicae WSM419', 'Gregarina niphandrodes', 'Pelotomaculum thermopropionicum SI', 'Mycolicibacterium vanbaalenii PYR-1', 'Synechococcus sp. CC9605', 'Synechococcus sp. CC9616', 'Eragrostis tef', 'Porphyromonas gulae', 'Muricauda ruestringensis DSM 13258', 'Bartonella birtlesii E11', 'Kineosphaera limosa NBRC 100340', 'Leptolyngbya sp. PCC 7376', 'Sulfurisphaera tokodaii str. 7', 'Ignatzschineria larvae DSM 13226', 'Aphanomyces astaci', 'Saprolegnia diclina', 'Anopheles minimus', 'Ramularia collo-cygni', 'Enterococcus villorum ATCC 700913', 'Streptococcus australis ATCC 700641', 'Pseudocercospora musae', 'Pseudoramibacter alactolyticus ATCC 23263', 'Melitaea cinxia', 'Bradyrhizobium sp. Tv2a-2', 'Scleropages formosus', 'Actinoplanes globisporus DSM 43857', 'Tetrapisispora phaffii CBS 4417', 'Geoglobus ahangari', 'Dichomitus squalens LYAD-421 SS1', 'Candidatus Carsonella ruddii DC', 'Cordyceps fumosorosea ARSEF 2679', 'Saccharomyces kudriavzevii', 'Saccharomyces mikatae', 'Bradyrhizobium sp. ORS 278', 'Methylobacterium nodulans ORS 2060', 'Alkaliphilus transvaalensis ATCC 700919', 'Streptococcus orisratti DSM 15617', 'Streptomyces auratus AGR0001', 'Mycoplasmopsis columbinum SF7', 'Phoronis australis', 'Globisporangium iwayamae', 'Coprococcus catus GD/7', 'Lactobacillus psittaci DSM 15354', 'Cryptosporidium andersoni', 'Tilletia walkeri', 'Fusarium verticillioides', 'Sphingopyxis alaskensis RB2256', 'Denitrovibrio acetiphilus DSM 12809', 'Pleurocapsa sp. PCC 7319', 'Pseudanabaena sp. PCC 6802', 'Picoides pubescens', 'Beauveria brongniartii RCEF 3172', 'Oscillatoria acuminata PCC 6304', 'Arthrospira platensis NIES-39', 'Nicotiana noctiflora var. noctiflora', 'Bulleidia extructa W1219', 'Lipotes vexillifer', 'Cupriavidus metallidurans CH34', 'Pseudothermotoga thermarum DSM 5069', 'Syntrophobacter fumaroxidans MPOB', 'Microcoleus vaginatus FGP-2', 'Bacillus sonorensis L12', 'Marinomonas mediterranea MMB-1', 'Ustilago hordei Uh4857-4', 'Brucella pinnipedialis B2/94', 'Brucella ceti M644/93/1', 'Roseiflexus castenholzii DSM 13941', 'Ferrimicrobium acidiphilum DSM 19497', 'Helicocarpus griseus UAMH5409', 'Schaalia suimastitidis DSM 15538', 'Pediculus humanus corporis', 'Pyrobaculum arsenaticum DSM 13514', 'Sphingobium xenophagum QYY', 'Tauraco erythrolophus', 'Pannonibacter phragmitetus DSM 14782', 'Photobacterium sp. SKA34', 'Paracoccidioides brasiliensis', 'Diaphorina citri', 'Pseudomonas psychrophila HA-4', 'Cercospora beticola', 'Alicyclobacillus herbarius DSM 13609', 'Oryzias javanicus', 'Helicobacter canadensis MIT 98-5491', 'Bordetella trematum', 'Nocardiopsis xinjiangensis YIM 90004', 'Thiolinea disciformis DSM 14473', 'Thiofilum flexile DSM 14609', 'Drosophila biarmipes', 'Halodesulfovibrio aestuarii DSM 10141', 'Providencia alcalifaciens DSM 30120', 'Thermotoga sp. RQ7', 'Thermotoga sp. RQ2', 'Strigamia maritima', 'Nipponia nippon', 'Catelliglobosispora koreensis DSM 44566', 'Drosophila santomea', 'Phytophthora lateralis MPF4', 'Arthrospira maxima CS-328', 'Carboxydothermus hydrogenoformans Z-2901', 'Halobiforma nitratireducens JCM 10879', 'Galdieria sulphuraria', 'Corynebacterium capitovis DSM 44611', 'Schaalia turicensis ACS-279-V-Col4', 'Thiomicrorhabdus arctica DSM 13458', 'Kineococcus radiotolerans SRS30216 = ATCC BAA-149', 'Bombus impatiens', 'Candidatus Glomeribacter gigasporarum BEG34', 'Nocardia veterana NBRC 100344', 'Anser brachyrhynchus', 'Pteropus vampyrus', 'Rhodococcus jostii RHA1', 'Exiguobacterium antarcticum B7', 'Citrobacter youngae ATCC 29220', 'Caldilinea aerophila DSM 14535 = NBRC 104270', 'Nitrosococcus halophilus Nc 4', 'Methylocapsa acidiphila B2', 'Frankliniella occidentalis', 'Leisingera methylohalidivorans DSM 14336', 'Olsenella uli DSM 7084', 'Phytomonas sp. isolate EM1', 'Phytomonas sp. isolate Hart1', 'Corynebacterium freneyi DNF00450', 'Acinetobacter parvus NIPH 1103', 'Acinetobacter gyllenbergii NIPH 230', 'Paraburkholderia fungorum', 'Ministeria vibrans', 'Actinoplanes sp. SE50/110', 'Ureaplasma parvum serovar 3 str. ATCC 27815', 'Selenomonas flueggei ATCC 43531', 'Selenomonas infelix ATCC 43532', 'Selenomonas noxia ATCC 43541', 'Paenibacillus daejeonensis DSM 15491', 'Nocardia cyriacigeorgica GUH-2', 'Geobacillus vulcani PSS1', 'Idiomarina loihiensis L2TR', 'Caenorhabditis brenneri', 'Bacillus endophyticus 2102', 'Zootermopsis nevadensis', 'Thermocrinis albus DSM 14484', 'Knoellia sinensis KCTC 19936', 'Mycoplasma haemocanis str. Illinois', 'Kocuria polaris', 'Atopobacter phocae ATCC BAA-285', 'Leuconostoc kimchii IMSNU 11154', 'Methylosinus sp. LW4', 'Weissella cibaria KACC 11862', 'Facklamia ignava CCUG 37419', 'Granulicatella elegans ATCC 700633', 'Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)', 'Candidatus Regiella insecticola LSR1', "Serratia symbiotica str. 'Cinara cedri'", 'Blastococcus saxobsidens DD2', 'Helicobacter cetorum MIT 00-7128', 'Olsenella profusa F0195', 'Sistotremastrum niveocremeum HHB9708', 'Isoptericola variabilis 225', 'Plicaturopsis crispa FD-325 SS-3', 'Teleopsis dalmanni', 'Anopheles culicifacies', 'Shimazuella kribbensis DSM 45090', 'Lachnobacterium bovis', 'Nicotiana cordifolia', 'Candidatus Mycoplasma haemolamae str. Purdue', 'Nocardiopsis kunsanensis DSM 44524', 'Cylindrospermum stagnale PCC 7417', 'Desulfitobacterium metallireducens DSM 15288', 'Zobellia uliginosa', 'Filifactor alocis ATCC 35896', 'Eubacterium sulci ATCC 35585', 'Diuraphis noxia', 'Sipha flava', 'Pogonomyrmex barbatus', 'Mobiluncus holmesii ATCC 35242', 'Leifsonia aquatica H1aii', 'Stegastes partitus', 'Methanothermobacter thermautotrophicus str. Delta H', 'Methanothermobacter marburgensis str. Marburg', 'Rathayibacter toxicus DSM 7488', 'Thermosynechococcus elongatus BP-1', 'Halorhabdus utahensis DSM 12940', 'Pseudoloma neurophilia', 'Salinibacter ruber DSM 13855', 'Streptomyces griseofuscus', 'Azovibrio restrictus DSM 23866', 'Azospira oryzae PS', 'Collinsella stercoris DSM 13279', 'Collinsella intestinalis DSM 13280', 'Agrobacterium albertimagni AOL15', 'Thiomicrospira cyclica ALM1', 'Limnospira indica PCC 8005', 'Paracoccus yeei ATCC BAA-599', 'Carnobacterium inhibens subsp. gilichinskyi', 'Lactobacillus iners AB-1', 'Magnaporthiopsis poae', 'Pyricularia grisea', 'Paraburkholderia phymatum STM815', 'Lactobacillus ingluviei str. Autruche 4', 'Sulfuricurvum kujiense DSM 16994', 'Lactobacillus kunkeei', 'Wallemia sebi', 'Streptococcus urinalis 2285-97', 'Phialocephala scopiformis', 'Marinitoga piezophila KA3', 'Streptococcus lutetiensis 033', 'Halonatronum saccharophilum DSM 13868', 'Gemella cuniculi DSM 15828', 'Sporothrix insectorum RCEF 264', 'Escovopsis weberi', 'Pseudomonas sp. MT-1', 'Treponema azotonutricium ZAS-9', 'Pseudoalteromonas ruthenica CP76', 'Bacteroides coprosuis DSM 18011', 'Afipia birgiae 34632', 'Xenophilus azovorans DSM 13620', 'Pseudopedobacter saltans DSM 12145', 'Chloroflexus aggregans DSM 9485', 'Lactobacillus suebicus DSM 5007 = KCTC 3549', 'Thioalkalivibrio thiocyanoxidans ARh 4', 'Burkholderia ambifaria AMMD', 'Burkholderia dolosa PC543', 'Sphingomonas melonis DAPP-PG 224', 'Corynebacterium efficiens YS-314', 'Desulforegula conservatrix Mb1Pa', 'Oceanicaulis alexandrii DSM 11625', 'Alysiella crassa DSM 2578', 'Conchiformibius steedae DSM 2580', 'Kozakia baliensis', 'Moniliophthora perniciosa FA553', 'Sporocytophaga myxococcoides', 'Nitrosomonas sp. AL212', 'Hungatella hathewayi DSM 13479', 'Turicibacter sanguinis PC909', 'Thiorhodospira sibirica ATCC 700588', 'Trametes pubescens', 'Enterococcus phoeniculicola ATCC BAA-412', 'Cellvibrio japonicus Ueda107', 'Bartonella bovis 91-4', 'Bacillus toyonensis BCT-7112', 'Gallibacterium genomosp. 1', 'Enterococcus moraviensis ATCC BAA-383', 'Enterococcus haemoperoxidus ATCC BAA-382', 'Streptococcus entericus DSM 14446', 'Methanothermococcus okinawensis IH1', 'Caulobacter vibrioides NA1000', 'Actinokineospora enzanensis DSM 44649', 'Acaryochloris marina MBIC11017', 'Anaeroglobus geminatus F0357', 'Tulasnella calospora MUT 4182', 'Cyanistes caeruleus', 'Alteromonadales bacterium TW-7', 'Flavobacteria bacterium BBFL7', 'Dysgonomonas gadei ATCC BAA-286', 'Corynebacterium imitans', 'Aphanomyces invadans', 'Jeotgalicoccus psychrophilus DSM 19085', 'Helicobacter winghamensis ATCC BAA-430', 'Leptomonas pyrrhocoris', 'Leptotrichia wadei F0279', 'Leptotrichia hofstadii F0254', 'Leptotrichia shahii DSM 19757', 'Leptotrichia goodfellowii F0264', 'Pseudomonas parafulva NBRC 16636 = DSM 17004', 'Pseudomonas cremoricolorata', 'Vigna radiata var. radiata', 'Phaeomoniella chlamydospora', 'Chromohalobacter salexigens DSM 3043', 'Hahella chejuensis KCTC 2396', 'Folsomia candida', 'Betta splendens', 'Cedecea davisae DSM 4568', 'Novosphingobium resinovorum', 'Trametes coccinea BRFM310', 'Diaporthe helianthi', 'Bifidobacterium scardovii', 'Terrapene carolina triunguis', 'Cedecea neteri', 'Enterobacter sp. MGH 2', 'Megamonas hypermegale DSM 1672', 'Providencia rustigianii DSM 4541', 'Trabulsiella guamensis ATCC 49490', 'Yokenella regensburgei ATCC 43003', 'Collimonas fungivorans Ter331', 'Roseibacterium elongatum DSM 19469', 'Embleya scabrispora DSM 41855', 'Paraburkholderia sacchari', 'Paenibacillus terrae HPL-003', 'Thalassiosira oceanica', 'Microbacterium gubbeenense DSM 15944', 'Nanoarchaeum equitans Kin4-M', 'Ignicoccus hospitalis KIN4/I', 'Corynebacterium casei LMG S-19264', 'Enterococcus gilvus ATCC BAA-350', 'Enterococcus pallens ATCC BAA-351', 'Sphingomonas wittichii RW1', 'Paenibacillus borealis', 'Acidithiobacillus ferrivorans SS3', 'Auricularia delicata', 'Thermodesulfobacterium hydrogeniphilum', 'Planococcus antarcticus DSM 14505', 'Anaeromyxobacter dehalogenans 2CP-C', 'Erythrobacter sp. SD-21', 'Amphiprion percula', 'Corynebacterium kroppenstedtii DSM 44385', 'Corynebacterium lipophiloflavum DSM 44291', 'Corynebacterium mastitidis DSM 44356', 'Corynebacterium camporealensis', 'Corynebacterium singulare', 'Beta vulgaris', 'Aspergillus nidulans FGSC A4', 'Thermococcus cleftensis', 'Wolbachia endosymbiont of Drosophila melanogaster', 'Dysgonomonas mossii DSM 22836', 'Algicola sagamiensis DSM 14643', 'Anabaena sp. PCC 7108', 'Phytophthora ramorum', 'Lactobacillus fuchuensis DSM 14340 = JCM 11249', 'Vulcanisaeta distributa DSM 14429', 'Blattabacterium sp. (Cryptocercus punctulatus) str. Cpu', 'Cupriavidus taiwanensis LMG 19424', 'Mycobacterium sp. MCS', 'Mycobacterium sp. JLS', 'Weissella koreensis KACC 15510', 'Prevotella copri DSM 18205', 'Bartonella schoenbuchensis m07a', 'Synechococcus sp. WH 8109', 'Synechococcus sp. WH 8016', 'Roseburia intestinalis L1-82', 'Thermobaculum terrenum ATCC BAA-798', 'Pseudoalteromonas translucida TAC125', 'Allofustis seminis DSM 15817', 'Ilyobacter polytropus DSM 2926', 'Anaerolinea thermophila UNI-1', 'Candidatus Ishikawaella capsulata Mpkobe', 'Marvinbryantia formatexigens DSM 14469', 'Laribacter hongkongensis HLHK9', 'Salinispora tropica CNB-440', 'Salinispora arenicola CNS-205', 'Legionella drancourtii LLAP12', 'Metarhizium guizhouense ARSEF 977', 'Gelidibacter mesophilus DSM 14095', 'Novosphingobium tardaugens NBRC 16725', 'Exiguobacterium undae DSM 14481', 'Corynebacterium aurimucosum ATCC 700975', 'Anaerotruncus colihominis DSM 17241', 'Saccharospirillum impatiens DSM 12546', 'Clostridium saccharobutylicum DSM 13864', 'Paenibacillus stellifer', 'Epichloe aotearoae', 'Staphylococcus pettenkoferi VCU012', 'Vibrio brasiliensis LMG 20546', 'Vibrio kanaloae 5S-149', 'Methanosarcina lacustris Z-7289', 'Sulfurihydrogenibium subterraneum DSM 15120', 'Halosimplex carlsbadense 2-9-1', 'Mycoplasma anatis 1340', 'Mycoplasma cynos C142', 'Tistrella mobilis KA081020-065', 'Mycoplasma ovis str. Michigan', 'Oceanobacillus picturae', 'Thermodesulfatator indicus DSM 15286', 'Rothia aeria F0184', 'Elizabethkingia miricola', 'Thermococcus sibiricus MM 739', 'Bradyrhizobium sp. th.b2', 'Meiothermus taiwanensis DSM 14542', 'Echeneis naucrates', 'Brachybacterium paraconglomeratum LC44', 'Methylobacter tundripaludum SV96', 'Gemmatimonas aurantiaca T-27', 'Gordonia sihwensis NBRC 108236', 'Ordospora colligata OC4', 'Allobaculum stercoricanis DSM 13633', 'Gordonia paraffinivorans NBRC 108238', 'Thermaerobacter subterraneus DSM 13965', 'Buceros rhinoceros', 'Nestor notabilis', 'Streptococcus sinensis', 'Pseudoalteromonas agarivorans S816', 'Beauveria bassiana', 'Halomonas halocynthiae DSM 14573', 'Lactobacillus malefermentans DSM 5705 = KCTC 3548', 'Python bivittatus', 'Coniochaeta ligniaria NRRL 30616', 'Anaerophaga thermohalophila DSM 12881', 'Pseudothermotoga lettingae TMO', 'Shuttleworthia satelles DSM 14600', 'Facklamia hominis ACS-120-V-Sch10', 'Leptospirillum ferriphilum ML-04', 'Pisolithus microcarpus 441', 'Acetobacter malorum', 'Clostridium colicanis 209318', 'Alicycliphilus denitrificans K601', 'Culicoides sonorensis', 'Sphingomonas elodea ATCC 31461', 'Rhizopogon vesiculosus', 'Cyanobium sp. PCC 7001', 'Robinsoniella peoriensis', 'Salinisphaera shabanensis E1L3A', 'Proteocatella sphenisci DSM 23131', 'Carnobacterium pleistocenium FTR1', 'Pseudopodoces humilis', 'Salarias fasciatus', 'Pyrobaculum calidifontis JCM 11548', 'Schaalia cardiffensis F0333', 'Cyanoderma ruficeps', 'Desulfococcus oleovorans Hxd3', 'Lactobacillus coleohominis 101-4-CHN', 'Pseudodesulfovibrio aespoeensis Aspo-2', 'Erwinia billingiae Eb661', 'Rubritepida flocculans DSM 14296', 'Kribbella flavida DSM 17836', 'Oceanobacillus iheyensis HTE831', 'Oryzias sinensis', 'Stemphylium lycopersici', 'Pseudo-nitzschia multistriata', 'Pseudomonas mediterranea CFBP 5447', 'Schaalia vaccimaxillae DSM 15804', 'Thermodesulfobium narugense DSM 14796', 'Thermoproteus uzoniensis 768-20', 'Crocinitomix catalasitica ATCC 23190', 'Varibaculum cambriense DORA_20', 'Knoellia subterranea KCTC 19937', 'Corallococcus coralloides DSM 2259', 'Desulfovibrio magneticus RS-1', 'Prevotella oryzae DSM 17970', 'Prevotella paludivivens DSM 17968 = JCM 13650', 'Paludibacter propionicigenes WB4', 'Chrysochloris asiatica', 'Fragilariopsis cylindrus CCMP1102', 'Xylanimonas cellulosilytica DSM 15894', 'Marinithermus hydrothermalis DSM 14884', 'Candidatus Baumannia cicadellinicola', 'Bartonella washoeensis Sb944nv', 'Thioalkalivibrio nitratireducens DSM 14787', 'Sneathia amnii', 'Oceanithermus profundus DSM 14977', 'Caldithrix abyssi DSM 13497', 'Methylocystis sp. SC2', 'Labrenzia aggregata IAM 12614', 'Megasphaera micronuciformis F0359', 'Acidaminococcus intestini RyC-MR95', 'Veillonella montpellierensis DNF00314', 'Chlamydotis macqueenii', 'Paracoccus zeaxanthinifaciens ATCC 21588', 'Pediococcus claussenii ATCC BAA-344', 'Thalassolituus oleivorans MIL-1', 'Thermococcus gammatolerans EJ3', 'Mitsuokella jalaludinii DSM 13811', 'Enterovibrio norvegicus FF-33', 'Leptosomus discolor', 'Egretta garzetta', 'Dermacoccus sp. Ellin185', 'Oleispira antarctica RB-8', 'Cetobacterium somerae ATCC BAA-474', 'Candidatus Tremblaya princeps PCIT', 'Paenibacillus graminis', 'Paenibacillus odorifer', 'Babesia ovata', 'Paenibacillus elgii B69', 'Prevotella marshii DSM 16973 = JCM 13450', 'Prevotella micans F0438', 'Bradyrhizobium sp. Ec3.3', 'Mycobacterium sp. KMS', 'Actinotignum urinale DSM 15805', 'Idiomarina baltica OS145', 'Vibrio coralliilyticus ATCC BAA-450', 'Desulfovibrio hydrothermalis AM13 = DSM 14728', 'Rhodococcus aetherivorans', 'Leifsonia rubra CMS 76R', 'Conexibacter woesei DSM 14684', 'Epilithonimonas tenax DSM 16811', 'Fluviicola taffensis DSM 16823', 'Corynebacterium atypicum', 'Plesiocystis pacifica SIR-1', 'Lynx pardinus', 'Chthoniobacter flavus Ellin428', 'Shewanella denitrificans OS217', 'Rhodoferax ferrireducens T118', 'Capsaspora owczarzaki ATCC 30864', 'Streptomyces niveus NCIMB 11891', 'Lactobacillus versmoldensis DSM 14857 = KCTC 3814', 'Athene cunicularia', 'Cardiobacterium valvarum F0432', 'Sphingomonas sp. ATCC 31555', 'Sinorhizobium americanum CCGM7', 'Chroomonas mesostigmatica CCMP1168', 'Haematobacter massiliensis', 'Synechococcus sp. PCC 7336', 'Synechococcus sp. PCC 6312', 'Thermococcus nautili', 'Gillisia limnaea DSM 15749', 'Caldimonas manganoxidans ATCC BAA-369', 'Microdochium bolleyi', 'Nocardioides sp. JS614', 'Caballeronia sordidicola', 'Bradyrhizobium sp. Ai1a-2', 'Porphyrobacter cryptus DSM 12079', 'Actinoplanes friuliensis DSM 7358', 'Deferribacter desulfuricans SSM1', 'Alkanindiges illinoisensis DSM 15370', 'Paraglaciecola mesophila KMM 241', 'Psychroflexus tropicus DSM 15496', 'Haemophilus aegyptius ATCC 11116', 'Streptococcus pasteurianus ATCC 43144', 'Candidatus Pelagibacter ubique HTCC7217', 'Anoxybacillus gonensis', 'Talaromyces verruculosus', 'Calidris pugnax', 'Candidatus Paraburkholderia kirkii UZHbot1', 'Coccidioides posadasii RMSCC 3488', 'Microbacterium paraoxydans 77MFTsu3.2', 'Methylocella silvestris BL2', 'Anopheles epiroticus', 'Nicotiana obtusifolia', 'Caldisphaera lagunensis DSM 15908', 'Pseudomonas poae RE*1-1-14', 'Strix occidentalis caurina', 'Lysinibacillus odysseyi 34hs-1 = NBRC 100172', 'Jaapia argillacea MUCL 33604', 'Punctularia strigosozonata', 'Sulfurimonas autotrophica DSM 16294', 'Actinobaculum massiliense ACS-171-V-Col2', 'Acinetobacter baylyi ADP1', 'Acinetobacter bouvetii DSM 14964 = CIP 107468', 'Acinetobacter gerneri', 'Acinetobacter tandoii', 'Acinetobacter tjernbergiae', 'Acinetobacter towneri', 'Tepidiphilus margaritifer DSM 15129', 'Longispora albida DSM 44784', 'Candidatus Blochmannia floridanus', 'Melampsora larici-populina 98AG31', 'Dickeya dadantii 3937', 'Dickeya zeae Ech586', 'Alicyclobacillus pomorum DSM 14955', 'Bacteroides massiliensis B84634 = Timone 84634 = DSM 17679 = JCM 13223', 'Roseomonas cervicalis ATCC 49957', 'Herminiimonas arsenicoxydans', 'Nitratireductor aquibiodomus NL21 = JCM 21793', 'Mastacembelus armatus', 'Novosphingobium pentaromativorans US6-1', 'Panicum hallii', 'Gymnopus luxurians FD-317 M1', 'Sulfurovum lithotrophicum', 'Bermanella marisrubri', 'Neptuniibacter caesariensis', 'Parvularcula bermudensis HTCC2503', 'Alkaliphilus metalliredigens QYMF', 'Puccinia triticina 1-1 BBBD Race 1', 'Amycolatopsis japonica', 'Amycolatopsis balhimycina FH 1894', 'Amycolatopsis vancoresmycina', 'Plasmodium coatneyi', 'Carnobacterium sp. 17-4', 'Fomitiporia mediterranea', 'Escherichia albertii KF1', 'Nocardia niigatensis NBRC 100131', 'Chaetomium thermophilum', "Candidatus Mycoplasma haemominutum 'Birmingham 1'", 'Marinobacter lipolyticus SM19', 'Afifella pfennigii DSM 17143', 'Corchorus capsularis', 'Nymphaea colorata', 'Thiorhodococcus drewsii AZ1', 'Sandarakinorhabdus limnophila DSM 17366', 'Parambassis ranga', 'Hanseniaspora opuntiae', 'Allokutzneria albata', 'Conchiformibius kuhniae DSM 17694', 'Accipiter nisus', 'Colwellia piezophila ATCC BAA-637', 'Mycobacterium sp. JS623', 'Exophiala mesophila', 'Halomonas campaniensis', 'Shewanella waksmanii ATCC BAA-643', 'Subdoligranulum variabile DSM 15176', 'Anaerofustis stercorihominis DSM 17244', 'Alistipes finegoldii DSM 17242', 'Komagataeibacter rhaeticus AF1', 'Exophiala oligosperma', 'Acaromyces ingoldii', 'Larimichthys crocea', 'Treponema caldarium DSM 7334', 'Erwinia sp. Ejp617', 'Thermomonas fusca DSM 15424', 'Roseovarius mucosus DSM 17069', 'Enhygromyxa salina', 'Dinoroseobacter shibae DFL 12 = DSM 16493', 'Pseudomonas rhizosphaerae', 'Polaromonas naphthalenivorans CJ2', 'Stenotrophomonas rhizophila', 'Bifidobacterium longum NCC2705', 'Spiroplasma chrysopicola DF-1', 'Spiroplasma culicicola AES-1', 'Spiroplasma diminutum CUAS-1', 'Spiroplasma sabaudiense Ar-1343', 'Spiroplasma syrphidicola EA-1', 'Clostridium carboxidivorans P7', 'Microvirga flocculans ATCC BAA-817', 'Marinospirillum insulare DSM 21763', 'Neomegalonema perideroedes DSM 15528', 'Fulvimarina pelagi HTCC2506', 'Anoplophora glabripennis', 'Bifidobacterium psychraerophilum', 'Bacillus vietnamensis', 'Dialister invisus DSM 15470', 'Aquilegia coerulea', 'Brachybacterium muris UCD-AY4', 'Micromonospora sp. ATCC 39149', 'Aeromicrobium marinum DSM 15272', 'Rhodanobacter fulvus Jip2', 'Gemmobacter nectariphilus DSM 15620', 'Bathymodiolus platifrons', 'Bacillus bataviensis LMG 21833', 'Bacillus vireti LMG 21834', 'Thalassospira xiamenensis M-5 = DSM 17429', 'Treponema putidum', 'Kordia algicida OT-1', 'Moniliophthora roreri', 'Mastigocladopsis repens PCC 10914', 'Synechococcus sp. RS9916', 'Synechococcus sp. RS9917', 'Polytolypa hystricis UAMH7299', 'Phaeobacter inhibens DSM 17395', 'Frankia elaeagni', 'Natrinema altunense', 'Kocuria marina', 'Phaeoacremonium minimum', 'Halomonas boliviensis LC1', 'Hymenobacter norwichensis DSM 15439', 'Exiguobacterium oxidotolerans JCM 12280', 'Methylorubrum populi BJ001', 'Buteo japonicus', 'Methanobrevibacter sp. AbM4', 'Pyrus x bretschneideri', 'Lottia gigantea', 'Geobacter bemidjiensis Bem', 'Geopsychrobacter electrodiphilus DSM 16401', 'Enhydrobacter aerosaccus SK60', 'Corynebacterium halotolerans YIM 70093 = DSM 44683', 'Erysiphe pulchra', 'Myotis davidii', 'Sulfitobacter indolifex HEL-45', 'Yaniella halotolerans DSM 15476', 'Paenibacillus sanguinis 2301083 = DSM 16941', 'Paenibacillus massiliensis 2301065 = DSM 16942', 'Fictibacillus gelatini DSM 15865', 'Comamonas aquatica NBRC 14918', 'Aestuariibacter salexigens DSM 15300', 'Salvia miltiorrhiza', 'Algoriphagus mannitolivorans DSM 15301', 'Rickettsia heilongjiangensis 054', 'Grosmannia clavigera kw1407', 'Bigelowiella natans', 'Corynebacterium ciconiae DSM 44920', 'Lactobacillus antri DSM 16041', 'Lactobacillus ultunensis DSM 16047', 'Paenibacillus lactis 154', 'Nocardia higoensis NBRC 100133', 'Nocardia pneumoniae NBRC 100136', 'Prevotella shahii DSM 15611 = JCM 12083', 'Prevotella salivae DSM 15606', 'Thermovibrio ammonificans HB-1', 'Arenibacter certesii DSM 19833', 'Flavobacterium frigoris PS1', 'Arsenicicoccus bolidensis DSM 15745', "Aster yellows witches'-broom phytoplasma AYWB", 'Streptococcus minor DSM 17118', 'Halobiforma lacisalsi AJ5', 'Aeropyrum camini SY1 = JCM 12091', 'Methylophaga aminisulfidivorans MP', 'Scardovia wiggsiae F0424', 'Lactobacillus rossiae DSM 15814', 'Saccharibacter floricola DSM 15669', 'Streptococcus devriesei DSM 19639', 'Beijerinckia mobilis', 'Desulfobulbus japonicus DSM 18378', 'Dyella japonica A8', 'Phanerochaete carnosa HHB-10118-sp', 'Belliella baltica DSM 15883', 'Effusibacillus pohliae DSM 22757', 'Halomonas alkaliantarctica', 'Synechococcus sp. CB0101', 'Acidovorax sp. JS42', 'Desulfitobacterium dichloroeliminans LMG P-21439', 'Candidatus Kinetoplastibacterium blastocrithidii (ex Strigomonas culicis)', 'Candidatus Midichloria mitochondrii IricVA', 'Corynebacterium caspium DSM 44850', 'Pseudoalteromonas sp. SM9913', 'Amanita thiersii Skay4041', 'Streptacidiphilus jiangxiensis', 'Alcanivorax sp. DG881', 'Marinobacter algicola DG893', 'Diplodia corticola', 'Chryseobacterium formosense', 'Candidatus Scalindua brodae', 'Lactobacillus kitasatonis DSM 16761 = JCM 1039', 'Oribacterium sinus F0268', 'Pseudomonas alkylphenolica', 'Pseudomonas psychrotolerans L19', 'Erythrobacter sp. NAP1', 'Lactobacillus vini DSM 20605', 'Akkermansia muciniphila ATCC BAA-835', 'Nocardiopsis valliformis DSM 45023', 'Nocardiopsis ganjiahuensis DSM 45031', 'Mycobacterium parascrofulaceum ATCC BAA-614', 'Pterocles gutturalis', 'Woodsholea maritima DSM 17123', 'Halobacillus dabanensis', 'Pseudonocardia dioxanivorans CB1190', 'Crinalium epipsammum PCC 9333', 'Helcococcus sueciensis DSM 17243', 'Amazona collaria', 'Ostreococcus lucimarinus CCE9901', 'Xenoturbella bocki', 'Acidilobus saccharovorans 345-15', 'Prevotella bergensis DSM 17361', 'Thioalkalivibrio thiocyanodenitrificans ARhD 1', 'Burkholderia sp. Ch1-1', 'Pseudomonas lutea', 'Methylohalobius crimeensis 10Ki', 'Klebsiella variicola UCI 18', 'Cynoglossus semilaevis', 'Thiocapsa marina 5811', 'Candidatus Paracaedimonas acanthamoebae', 'Candidatus Paracaedibacter symbiosus', 'Hoeflea phototrophica DFL-43', 'Nautilia profundicola AmH', 'Fictibacillus macauensis ZFHKF-1', 'Wallemia ichthyophaga', 'Yoonia vestfoldensis SKA53', "Acidomyces sp. 'richmondensis'", 'Enterococcus italicus DSM 15952', 'Bacillus bogoriensis ATCC BAA-922', 'Wolbachia endosymbiont of Cimex lectularius', 'Staphylococcus equorum subsp. equorum Mu2', 'Tupaia chinensis', 'Bacteroides cellulosilyticus WH2', 'Thermococcus sp. AM4', 'Serinicoccus marinus DSM 15273', 'Candidatus Jettenia caeni', 'Cupriavidus pinatubonensis JMP134', 'Mucispirillum schaedleri ASF457', 'Psychrobacter aquaticus CMS 56', 'Nocardia testacea NBRC 100365', 'Coccomyxa subellipsoidea', 'Cardinium endosymbiont cEper1 of Encarsia pergandiella', 'Deinococcus frigens DSM 12807', 'Deinococcus marmoris DSM 12784', 'Candidatus Blochmannia vafer str. BVAF', 'Candidatus Blochmannia chromaiodes str. 640', 'Pseudomonas syringae pv. tomato str. DC3000', 'Oceanicola granulosus HTCC2516', 'Robiginitalea biformata HTCC2501', 'Vibrio ezurae NBRC 102218', 'Saccharomyces boulardii (nom. inval.)', 'Clytia hemisphaerica', 'Mahella australiensis 50-1 BON', 'Paraburkholderia phenoliruptrix BR3459a', 'Natronolimnohabitans innermongolicus JCM 12255', 'Ethanoligenens harbinense YUAN-3', 'Owenweeksia hongkongensis DSM 17368', 'Verruconis gallopava', 'Streptomyces sp. C', 'Fonsecaea monophora', 'Solimonas variicoloris DSM 15731', 'Bacillus fordii DSM 16014 = CIP 108821', 'Streptococcus castoreus DSM 17536', 'Paeniglutamicibacter gangotriensis Lz1y', 'Arcobacter cibarius LMG 21996', 'Glycomyces arizonensis DSM 44726', 'Parvibaculum lavamentivorans DS-1', 'Glutamicibacter arilaitensis Re117', 'Gulosibacter molinativorax DSM 13485', 'Lentisphaera araneosa HTCC2155', 'Sphingomonas phyllosphaerae 5.2', 'Nocardia aobensis NBRC 100429', 'Nocardia concava NBRC 100430', 'Pleomorphomonas koreensis DSM 23070', 'Roseomonas gilardii subsp. rosea ATCC BAA-691', 'Streptococcus pseudopneumoniae IS7493', 'Otus sunia', 'Kitasatospora arboriphila', 'Corynebacterium resistens DSM 45100', 'Mycolicibacterium cosmeticum', 'Halomonas anticariensis FP35 = DSM 16096', 'Desulfatibacillum alkenivorans AK-01', 'Nocardia takedensis NBRC 100417', 'Dechloromonas aromatica RCB', 'Microbulbifer agarilyticus S89', 'Campylobacter insulaenigrae NCTC 12927', 'Nitrosomonas sp. Is79A3', 'Intestinibacter bartlettii DSM 16795', 'Paraburkholderia phytofirmans PsJN', 'Mycobacterium liflandii 128FXT', 'Cavenderia fasciculata', 'Thermosinus carboxydivorans Nor1', 'Pleomorphomonas oryzae DSM 16300', 'Kangiella koreensis DSM 16069', 'Kangiella aquimarina DSM 16071', 'Marinobacter daepoensis DSM 16072', 'Lysobacter concretionis Ko07 = DSM 16239', 'Acinetobacter beijerinckii CIP 110307', 'Jonesia quinghaiensis DSM 15701', 'Salipiger mucosus DSM 16094', 'Wolbachia endosymbiont of Culex quinquefasciatus Pel', 'Viridibacillus arenosi FSL R5-213', 'Crocosphaera watsonii WH 8501', 'Pneumocystis murina', 'Marinomonas ushuaiensis DSM 15871', 'Gordonia effusa NBRC 100432', 'Algoriphagus marincola DSM 16067', 'Botryobasidium botryosum', 'Capsella grandiflora', 'Oceanimonas smirnovii ATCC BAA-899', 'Acholeplasma equifetale ATCC 29724', 'Acholeplasma granularum ATCC 19168', 'Acholeplasma hippikon ATCC 29725', 'Trichormus variabilis ATCC 29413', 'Byssochlamys spectabilis No. 5', 'Salinimonas chungwhensis DSM 16280', 'Pontibacillus chungwhensis BH030062', 'Silanimonas lenta DSM 16282', 'Desulfurispora thermophila DSM 16022', 'Desulfallas alcoholivorax DSM 16058', 'Rhodopirellula baltica SH 1', 'Anoxybacillus tepidamans PS2', 'Methylovorus glucosetrophus SIP3-4', 'Pseudocohnilembus persalinus', 'Chryseobacterium antarcticum', 'Porphyromonas gingivicanis', 'Chelativorans sp. BNC1', 'Microbulbifer variabilis ATCC 700307', 'Thalassobacter stenotrophicus', 'Granulicoccus phenolivorans DSM 17626 = NBRC 107789 = JCM 15570', 'Neisseria bacilliformis ATCC BAA-1200', 'Lactobacillus kefiranofaciens ZW3', 'Paenibacillus wynnii', 'Nitratifractor salsuginis DSM 16511', 'Microbotryum intermedium', 'Streptococcus marimammalium DSM 18627', 'Sporolactobacillus terrae DSM 11697', 'Atopococcus tabaci DSM 17538', 'Bartonella rattimassiliensis 15908', 'Marinobacter sp. ELB17', 'Fangia hongkongensis FSC776 = DSM 21703', 'Methylomicrobium alcaliphilum 20Z', 'Shewanella sediminis HAW-EB3', 'Shewanella halifaxensis HAW-EB4', 'Flavobacterium antarcticum DSM 19726', 'Arthrobacter castelli DSM 16402', 'Nostoc punctiforme PCC 73102', 'Olleya marilimosa CAM030', 'Actinomyces dentalis DSM 19115', 'Hyaloperonospora arabidopsidis', 'Pontibacillus marinus BH030004 = DSM 16465', 'Candida orthopsilosis Co 90-125', 'Candida metapsilosis', 'Sphaerochaeta coccoides DSM 17374', 'Exiguobacterium marinum DSM 16307', 'Microbacterium oleivorans', 'Chlorobaculum parvum NCIB 8327', 'Limimaricola hongkongensis DSM 17492', 'Opitutaceae bacterium TAV1', 'Acidobacteriaceae bacterium TAA 166', 'Collimonas arenae', 'Aquimarina muelleri DSM 19832', 'Gramella echinicola DSM 19838', 'Novosphingopyxis baekryungensis DSM 16222', 'Agromyces italicus DSM 16388', 'Antrostomus carolinensis', 'Nocardiopsis baichengensis YIM 90130', 'Pochonia chlamydosporia 170', 'Azorhizobium doebereinerae UFLA1-100', 'Candidatus Amoebophilus asiaticus 5a2', 'Caenorhabditis japonica', 'Rozella allomycis CSF55', 'Porphyromonas uenonis 60-3', 'Prevotella multiformis DSM 16608', 'Nocardia jiangxiensis NBRC 101359', 'Sander lucioperca', 'Kosakonia radicincitans DSM 16656', 'Pseudoalteromonas sp. Bsw20308', 'Staphylococcus pseudintermedius ED99', 'Stackebrandtia nassauensis DSM 44728', 'Capitella teleta', 'Phenylobacterium zucineum HLK1', 'Streptomyces flavovariabilis', 'Alcanivorax dieselolei B5', 'Thioclava pacifica DSM 10166', 'Acetobacter nitrogenifigens DSM 23921 = LMG 23498', 'Streptomyces roseochromogenus subsp. oscitans DS 12.976', 'Streptomyces xylophagus', 'Streptomyces sviceus ATCC 29083', 'Streptomyces fulvoviolaceus', 'Streptomyces thermolilacinus SPC6', 'Micromonospora lupini str. Lupac 08', 'Hahella ganghwensis DSM 17046', 'Episyrphus balteatus', 'Alkaliflexus imshenetskii DSM 15055', 'Segniliparus rotundus DSM 44985', 'Segniliparus rugosus ATCC BAA-974', 'Hellea balneolensis DSM 19091', 'Haliea salexigens DSM 19537', 'Balneola vulgaris DSM 17893', 'Amycolatopsis rifamycinica', 'Bradyrhizobium sp. BTAi1', 'Kordiimonas gwangyangensis DSM 19435 = JCM 12864', 'Microbotryum lychnidis-dioicae p1A1 Lamole', 'Hungateiclostridium clariflavum DSM 19732', 'Microbotryum aff. violaceum TUB 011817', 'Bacteroides helcogenes P 36-108', 'Nocardia exalbida NBRC 100660', "Penicillium sp. 'occitanis'", 'Comamonas granuli NBRC 101663', 'Arthrobacter sp. FB24', 'Jannaschia sp. CCS1', 'Aminiphilus circumscriptus DSM 16581', 'Photorhabdus asymbiotica', 'Bartonella melophagi K-2C', 'Bacteroides salyersiae WAL 10018 = DSM 18765 = JCM 12988', 'Bacteroides nordii CL02T12C05', 'Acaricomes phytoseiuli DSM 14247', 'Erythrobacter vulgaris', 'Thermosediminibacter oceani DSM 16646', 'Ruegeria sp. TM1040', 'Dactylococcopsis salina PCC 8305', 'Flavonifractor plautii 1_3_50AFAA', 'Lysinibacillus massiliensis 4400831 = CIP 108448 = CCUG 49529', 'Martelella mediterranea DSM 17316', 'Haloquadratum walsbyi J07HQW2', 'Cyphellophora europaea', 'Desulfovibrio alkalitolerans DSM 16529', 'Agromyces subbeticus DSM 16689', 'Proteiniphilum acetatigenes DSM 18083', 'Rubellimicrobium thermophilum DSM 16684', 'Candidatus Hepatoplasma crinochetorum Av', 'Micromonas commoda', 'Polaromonas sp. JS666', 'Caldalkalibacillus thermarum TA2.A1', 'Patulibacter minatonensis DSM 18081', 'Frankia sp. EAN1pec', 'Frankia inefficax', 'Frankia saprophytica', 'Pseudoalteromonas spongiae UST010723-006', 'Denticeps clupeoides', 'Leptotrombidium deliense', 'Adhaeribacter aquaticus DSM 16391', 'Francisella orientalis str. Toba 04', 'Rhodococcus triatomae BKS 15-14', 'Glaciecola nitratireducens FR1064', 'Lachancea meyersii CBS 8951', 'Catellicoccus marimammalium M35/04/3', 'Bacillus lehensis G1', 'Roseburia hominis A2-183', 'Methanosaeta harundinacea 6Ac', 'Seriola lalandi dorsalis', 'Advenella mimigardefordensis DPN7', 'Corynebacterium tuscaniense DNF00037', 'Halobacillus kuroshimensis DSM 18393', 'Pundamilia nyererei', 'Lactobacillus apis', 'Lactobacillus harbinensis DSM 16991', 'Catenulispora acidiphila DSM 44928', 'Actinospica robiniae DSM 44927', 'Thauera sp. 27', 'Endozoicomonas elysicola', 'Pusillimonas noertemannii BS8', 'Marinimicrobium agarilyticum DSM 16975', 'Calidithermus timidus DSM 17022', 'Lactobacillus apodemi DSM 16634 = JCM 16172', 'Chryseobacterium vrystaatense', 'Aphis glycines', 'Gracilibacillus boraciitolerans JCM 21714', 'Sinocyclocheilus rhinocerous', 'Apteryx rowi', 'Bacillus boroniphilus JCM 21738', 'Dialister microaerophilus UPII 345-E', 'Chrysiogenes arsenatis DSM 11915', 'Persephonella marina EX-H1', 'Sulfurihydrogenibium azorense Az-Fu1', 'Candidatus Liberibacter americanus str. Sao Paulo', 'Deinococcus apachensis DSM 19763', 'Deinococcus maricopensis DSM 21211', 'Deinococcus pimensis DSM 21231', 'Bacteroides plebeius DSM 17135', 'Bacteroides coprocola DSM 17136', 'Bacteroides pyogenes JCM 10003', 'Neofusicoccum parvum', 'Prevotella multisaccharivorax DSM 17128', 'Advenella kashmirensis W13003', 'Deinococcus deserti VCD115', 'Modiolus philippinarum', 'Linnemannia elongata AG-77', 'Paraburkholderia terrae NBRC 100964', 'Thermococcus kodakarensis KOD1', 'Paraburkholderia mimosarum LMG 23256 = NBRC 106338', 'Flavobacterium indicum GPTSA100-9 = DSM 17447', 'Emticicia oligotrophica DSM 17448', 'Pseudomonas entomophila L48', 'Streptococcus massiliensis DSM 18628', 'Croceibacter atlanticus HTCC2559', 'Janibacter sp. HTCC2649', 'Dokdonia sp. MED134', 'Polaribacter sp. MED152', 'Maribacter sp. HTCC2170', 'Lyngbya sp. PCC 8106', 'Synechococcus sp. BL107', 'Bacillus sp. NRRL B-14911', 'Geobacter lovleyi SZ', 'Drechslerella stenobrocha 248', 'Nitrobacter sp. Nb-311A', 'Oceanicaulis sp. HTCC2633', 'Pseudooceanicola batsensis HTCC2597', 'Roseobacter sp. MED193', 'Roseovarius nubinhibens ISM', 'Roseovarius sp. 217', 'Sphingomonas sp. SKA58', 'Sulfitobacter sp. NAS-14.1', 'Rhodobacteraceae bacterium HTCC2083', 'Alteromonas mediterranea', 'Marinomonas sp. MED121', 'Pseudoalteromonas tunicata D2', 'Psychromonas sp. CNPT3', 'Vibrio sp. MED222', 'Prolixibacter bellariivorans ATCC BAA-1284', 'Mariprofundus ferrooxydans PV-1', 'Pseudoxanthomonas suwonensis 11-1', 'Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069', 'Belgica antarctica', 'Leadbetterella byssophila DSM 17132', 'Syntrophus aciditrophicus SB', 'Synechococcus sp. RCC307', 'Synechococcus sp. CC9902', 'Microbispora sp. ATCC PTA-5024', 'Rubrivivax benzoatilyticus JA2 = ATCC BAA-35', 'Kuraishia capsulata', 'Enterococcus caccae ATCC BAA-1240', 'Nostoc sp. PCC 7107', 'Mycolicibacterium rufum', 'Mycolicibacterium aromaticivorans JS19b1 = JCM 16368', 'Clostridium sulfidigenes', 'Pyricularia oryzae 70-15', 'Bradyrhizobium sp. WSM1743', 'Bradyrhizobium sp. WSM1253', 'Bradyrhizobium sp. WSM471', 'Nonlabens sediminis', 'Clostridium lundense DSM 17049', 'Formosa agariphila KMM 3901', 'Gordonia soli NBRC 108243', 'Pseudocercospora eumusae', 'Synechococcus sp. JA-3-3Ab', "Synechococcus sp. JA-2-3B'a(2-13)", 'Lepidothrix coronata', 'Pseudomonas moraviensis R28-S', 'Pseudomonas simiae', 'Wheat blue dwarf phytoplasma', 'Porphyromonas somerae DSM 23386', 'Sharpea azabuensis DSM 18934', 'Sphingomonas sp. BHC-A', 'Leptolyngbya valderiana BDU 20041', 'Paenibacillus sp. JDR-2', 'Bacillus infantis NRRL B-14911', 'Kwoniella bestiolae CBS 10118', 'Kwoniella dejecticola CBS 10117', 'Moelleriella libera RCEF 2490', 'Phytophthora kernoviae', 'Coxiella endosymbiont of Amblyomma americanum', 'Paraglaciecola psychrophila 170', 'Pseudozyma hubeiensis', 'Candidatus Accumulibacter phosphatis clade IIA str. UW-1', 'Bifidobacterium crudilactis', 'Syntrophorhabdus aromaticivorans UI', 'Nonlabens dokdonensis DSW-6', 'Parabacteroides goldsteinii dnLKV18', 'Alistipes onderdonkii WAL 8169 = DSM 19147', 'Alistipes shahii WAL 8301', 'Manacus vitellinus', 'Rhizoclosmatium globosum', 'Flavobacterium saliperosum S13', 'Bacteroides intestinalis DSM 17393', 'Amycolatopsis jejuensis', 'Nitrospira defluvii', 'Psychrobacter cryohalolentis K5', 'Kamptonema formosum PCC 6407', 'Sphingobium japonicum UT26S', 'Clostridium drakei', 'Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7', 'Candidatus Solibacter usitatus Ellin6076', 'Halococcus hamelinensis 100A6', 'Truepera radiovictrix DSM 17093', 'Exiguobacterium sibiricum 255-15', 'Hirsutella minnesotensis 3608', 'Alkalihalobacillus okhensis', 'Psychrobacter arcticus 273-4', 'Rickettsia tamurae', 'Ignisphaera aggregans DSM 17230', 'Methylobacterium oryzae CBMB20', 'Halococcus thailandensis JCM 13552', 'Thermovirga lienii DSM 17291', 'Candidatus Sulcia muelleri PSPU', 'Rhodonellum psychrophilum GCM71 = DSM 17998', 'Oenococcus kitaharae DSM 17330', 'Pyronema omphalodes', 'Chlorobium chlorochromatii CaD3', 'Gordonia sp. KTR9', 'Halorubrum ezzemoulense DSM 17463', 'Pseudodonghicola xiamenensis DSM 18339', 'Bacteroides finegoldii DSM 17565', 'Nitrosopumilus maritimus SCM1', 'Erwinia tasmaniensis Et1/99', 'Mycobacterium colombiense CECT 3035', 'Desulfosporosinus youngiae DSM 17734', 'Criblamydia sequanensis CRIB-18', 'Thermodesulfovibrio thiophilus DSM 17215', 'Tuberibacillus calidus DSM 17572', 'Spathaspora passalidarum NRRL Y-27907', 'Amorphus coralli DSM 19760', 'Desulfovibrio frigidus DSM 17176', 'Ascodesmis nigricans', 'Peptostreptococcus stomatis DSM 17678', 'Agrococcus lahaulensis DSM 17612', 'Methylophilaceae bacterium B1', 'Burkholderia oklahomensis', 'Thermococcus onnurineus NA1', 'Pyrococcus sp. NA2', 'Paenibacillus barengoltzii G22', 'Salipiger bermudensis HTCC2601', 'Flavobacterium soli DSM 19725', 'Kutzneria sp. 744', 'Podiceps cristatus', 'Geobacter pickeringii', 'Amycolatopsis benzoatilytica AK 16/65', 'Lysobacter daejeonensis GH1-9', 'Echinicola pacifica DSM 19836', 'Moraxella boevrei DSM 14165', 'Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896', 'Rhodanobacter spathiphylli B39', 'Streptomyces davaonensis JCM 4913', 'Exophiala xenobiotica', 'Streptacidiphilus oryzae TH49', 'Rhizobium favelukesii', 'Spironucleus salmonicida', 'Desulfovirgula thermocuniculi DSM 16036', 'Cercospora zeina', 'Psychrobacter sp. PRwf-1', 'Micavibrio aeruginosavorus ARL-13', 'Corynebacterium marinum DSM 44953', 'Flavobacterium daejeonense DSM 17708', 'Flavobacterium suncheonense GH29-5 = DSM 17707', 'Roseobacter sp. AzwK-3b', 'Alkalilimnicola ehrlichii MLHE-1', 'Oscillibacter valericigenes Sjm18-20', 'Salinispora pacifica CNT003', 'Geobacter uraniireducens Rf4', 'Xenorhabdus doucetiae', 'Shewanella sp. W3-18-1', 'Halostagnicola larsenii XH-48', 'Arenimonas malthae CC-JY-1', 'Niastella koreensis GR20-10', 'Streptomyces sp. Tu6071', 'Limnoperna fortunei', 'Alloscardovia criceti DSM 17774', 'Bifidobacterium tsurumiense', 'Micromonospora chokoriensis', 'Phocaeicola dorei', 'Lactobacillus parabrevis ATCC 53295', 'Cercospora berteroae', 'Psychromonas ingrahamii 37', 'Roseiflexus sp. RS-1', 'Microbacterium indicum DSM 19969', 'Acidovorax sp. KKS102', 'Methanoregula boonei 6A8', 'Streptomyces olindensis', 'Pseudomonas extremaustralis 14-3 substr. 14-3b', 'Shewanella loihica PV-4', 'Smaragdicoccus niigatensis DSM 44881 = NBRC 103563', 'Methylotenera mobilis 13', 'Bryobacter aggregatus MPL3', 'Zavarzinella formosa DSM 19928', 'Schlesneria paludicola DSM 18645', 'Leeuwenhoekiella blandensis MED217', 'Roseburia inulinivorans DSM 16841', 'Exiguobacterium sp. AT1b', 'Rubritalea marina DSM 17716', 'Tieghemostelium lacteum', 'Streptococcus pseudoporcinus SPIN 20026', 'Pseudarthrobacter phenanthrenivorans Sphe3', 'Streptomyces vietnamensis', 'Flavobacterium reichenbachii', 'Candidatus Protochlamydia amoebophila UWE25', 'Kaistia granuli DSM 23481', 'Prevotella stercorea DSM 18206', 'Ktedonobacter racemifer DSM 44963', 'Dyella ginsengisoli LA-4', 'Janibacter hoylei PVAS-1', 'Verminephrobacter eiseniae EF01-2', 'Granulibacter bethesdensis CGDNIH1', 'Endocarpon pusillum Z07020', 'Ferrimonas futtsuensis DSM 18154', 'Chryseobacterium caeni DSM 17710', 'Pelosinus fermentans DSM 17108', 'Frankia discariae', 'Belnapia moabensis DSM 16746', 'Paenibacillus sabinae T27', 'Ruania albidiflava DSM 18029', 'Caulobacter sp. K31', 'Haladaptatus paucihalophilus DX253', 'Yersinia similis', 'Phycicoccus jejuensis', 'Rhodobacterales bacterium HTCC2255', 'Pelusios castaneus', 'Blattabacterium sp. (Periplaneta americana) str. BPLAN', 'Blattabacterium sp. (Blatta orientalis) str. Tarazona', 'Rheinheimera perlucida DSM 18276', 'Paenibacillus terrigena DSM 21567', 'Mesonia mobilis DSM 19841', 'Haloterrigena limicola JCM 13563', 'Gallionella capsiferriformans ES-2', 'Arenimonas composti TR7-09 = DSM 18010', 'Flavobacterium filum DSM 17961', 'Brevundimonas aveniformis DSM 17977', 'Erwinia typographi', 'Bacteroides xylanisolvens XB1A', 'Rhodobacter sp. SW2', 'Fischerella thermalis PCC 7521', 'Bartonella tamiae Th239', 'Rivularia sp. PCC 7116', 'Campylobacter cuniculorum DSM 23162 = LMG 24588', 'Reinekea blandensis MED297', 'Janthinobacterium sp. Marseille', 'Pseudooceanicola nanhaiensis DSM 18065', 'Sphaeramia orbicularis', 'Natranaerobius thermophilus JW/NM-WN-LF', 'Haloplanus natans DSM 17983', 'Gordonia shandongensis DSM 45094', 'Olivibacter sitiensis DSM 17696', 'Zhouia amylolytica AD3', 'Paracoccus halophilus', 'Bacteroides barnesiae DSM 18169 = JCM 13652', 'Phocaeicola salanitronis DSM 18170', 'Thermobacillus composti KWC4', 'Methyloversatilis universalis FAM5', 'Novosphingobium nitrogenifigens DSM 19370', 'Cyanobacterium aponinum PCC 10605', 'Streptomyces bingchenggensis BCW-1', 'Vibrio sinaloensis DSM 21326', 'Propithecus coquereli', 'Aciduliprofundum boonei T469', 'Paenibacillus fonticola DSM 21315', 'Niabella aurantiaca DSM 17617', 'Pseudomonas protegens CHA0', 'Cohnella laeviribosi DSM 21336', 'Lactobacillus namurensis str. Chizuka 01', 'Streptococcus ictaluri 707-05', 'Hydrogenobaculum sp. Y04AAS1', 'Lachancea thermotolerans', 'Amycolatopsis nigrescens CSC17Ta-90', 'Algiphilus aromaticivorans DG1253', 'Verrucomicrobiae bacterium DG1235', 'Erythrobacter sp. JL475', 'Ornithinimicrobium pekingense DSM 21552', 'Bacillus aidingensis DSM 18341', 'Cycloclasticus sp. P1', 'Pseudophaeobacter arcticus DSM 23566', 'Thermophagus xiamenensis', 'Paraburkholderia ferrariae NBRC 106233', 'Prevotella timonensis 4401737 = DSM 22865 = JCM 15640', 'Methanobacterium arcticum', 'Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)', 'Moraxella bovoculi 237', 'Bacteroides coprophilus DSM 18228 = JCM 13818', 'Nitratiruptor sp. SB155-2', 'Sulfurovum sp. NBC37-1', 'Halovivax ruber XH-70', 'Halopiger xanaduensis SH-6', 'Parabacteroides johnsonii CL02T12C29', 'Cupriavidus sp. amp6', 'Natronorubrum sulfidifaciens JCM 14089', 'Rhodobacteraceae bacterium HTCC2150', 'Labrenzia alexandrii DFL-11', 'Algoriphagus machipongonensis', 'Bartonella australis Aust/NH1', 'Roseobacter sp. SK209-2-6', 'Hydnomerulius pinastri MD-312', 'Stachybotrys chlorohalonata IBT 40285', 'Wenxinia marina DSM 24838', 'Lactobacillus farraginis DSM 18382 = JCM 14108', 'Lactobacillus parafarraginis F0439', 'Echinicola vietnamensis DSM 17526', 'Actinocatenispora sera', 'Ehrlichia sp. HF', 'Vibrio sp. 16', 'Roseobacter sp. GAI101', 'Roseobacter sp. CCS2', 'Pedobacter sp. BAL39', 'Flavobacteria bacterium BAL38', 'Brevundimonas sp. BAL3', 'Stenotrophomonas sp. SKA14', 'Flavobacteriales bacterium ALC-1', 'Roseovarius sp. TM1035', 'Lysobacter defluvii IMMIB APB-9 = DSM 18482', 'Alicyclobacillus macrosporangiidus CPP55', 'Alicyclobacillus contaminans DSM 17975', 'Paraburkholderia nodosa DSM 21604', 'Sphingomonas jaspsi DSM 18422', 'Deinococcus misasensis DSM 22328', 'Methylophaga thiooxydans DMS010', 'Perlucidibaca piscinae DSM 21586', 'Terriglobus roseus DSM 18391', 'Uliginosibacterium gangwonense DSM 18521', 'Halalkalibacillus halophilus DSM 18494', 'Mesoflavibacter zeaxanthinifaciens S86', 'Gracilibacillus lacisalsi DSM 19029', 'Pestalotiopsis fici', 'Congregibacter litoralis KT71', 'Porphyromonas crevioricanis', 'Bhargavaea cecembensis DSE10', 'Cylindrobasidium torrendii FP15055 ss-10', 'Lactobacillus ceti DSM 22408', 'Coraliomargarita akajimensis DSM 45221', 'Bartonella rochalimae ATCC BAA-1498', 'Cyanothece sp. PCC 7425', 'Gilvimarinus chinensis DSM 19667', 'Brachybacterium phenoliresistens', 'Aspergillus ruber CBS 135680', 'Acinetobacter brisouii ANC 4119', 'Aestuariimicrobium kwangyangense DSM 21549', 'Thioalkalivibrio sp. K90mix', 'Lactobacillus hayakitensis DSM 18933 = JCM 14209', 'Andreprevotia chitinilytica DSM 18519', 'Sphingomonas sanxanigenens DSM 19645 = NX02', 'Marmoricola aequoreus', 'Lachnospiraceae bacterium 28-4', 'Lachnospiraceae bacterium 3-1', 'Lachnospiraceae bacterium A2', 'Lachnospiraceae bacterium A4', 'Barnesiella viscericola DSM 18177', 'Segetibacter koreensis DSM 18137', 'Proteiniclasticum ruminis DSM 24773', 'Agrilactobacillus composti DSM 18527 = JCM 14202', 'Helicobacter macacae MIT 99-5501', 'Trichoderma gamsii', 'Zunongwangia profunda SM-A87', 'Desulfocurvus vexinensis DSM 17965', 'Thermoanaerobacter sp. X514', 'Enterobacter sp. 638', 'Streptococcus merionis DSM 19192', 'Pontibacter korlensis', 'Marinomonas sp. MWYL1', 'Amphimedon queenslandica', 'Wohlfahrtiimonas chitiniclastica DSM 18708', 'Corynebacterium ureicelerivorans', 'Aureimonas ureilytica DSM 18598 = NBRC 106430', 'Candidatus Riesia pediculicola USDA', 'Actinomycetospora chiangmaiensis DSM 45062', 'Haloferax mucosum ATCC BAA-1512', 'Sphingobacterium sp. PM2-P1-29', 'Virgibacillus sp. SK37', 'Shewanella piezotolerans WP3', 'Maritimibacter alkaliphilus HTCC2654', 'Nonomuraea coxensis DSM 45129', 'Anaeromyxobacter sp. Fw109-5', 'Marinobacterium litorale DSM 23545', 'Geminicoccus roseus DSM 18922', 'Alicyclobacillus acidocaldarius subsp. acidocaldarius Tc-4-1', 'Leisingera daeponensis DSM 23529', 'Streptacidiphilus rugosus AM-16', 'Bacillus sp. m3-13', 'Natrinema sp. J7-2', 'Sphingomonas astaxanthinifaciens DSM 22298', 'Stegodyphus mimosarum', 'Prevotella pleuritidis JCM 14110', 'Streptomyces xiamenensis', 'Bacillus coahuilensis m4-4', 'Nocardioidaceae bacterium Broad-1', 'Clostridiisalibacter paucivorans DSM 22131', 'Treponema pedis str. T A4', 'Blastobotrys adeninivorans', 'Periophthalmus magnuspinnatus', 'Coprococcus comes ATCC 27758', 'Gordonia malaquae NBRC 108250', 'Gramella forsetii KT0803', 'Halogeometricum pallidum JCM 14848', 'Clostridium sp. SS2/1', 'Clostridium sp. M62/1', 'Clostridium sp. L2-50', 'Chryseobacterium daeguense DSM 19388', 'Entamoeba nuttalli P19', 'Paracoccus sp. TRP', 'Intrasporangium oryzae NRRL B-24470', 'Desulfotomaculum hydrothermale Lam5 = DSM 18033', 'Mycetohabitans rhizoxinica HKI 454', 'Candidatus Vesicomyosocius okutanii', 'Solimonas soli DSM 21787', 'Cronobacter turicensis z3032', 'Halalkalicoccus jeotgali B3', 'Halorubrum halophilum', 'Caldicellulosiruptor hydrothermalis 108', 'Caldicellulosiruptor kronotskyensis 2002', 'Lysobacter dokdonensis DS-58', 'Planococcus donghaensis MPA1U2', 'Actinopolyspora erythraea', 'Pseudoxanthomonas spadix BD-a59', 'Solimonas flava DSM 18980', 'Nodosilinea nodulosa PCC 7104', 'Rhodanobacter thiooxydans LCS2', 'Natronomonas moolapensis 8.8.11', 'Burkholderia sp. KJ006', 'Penicillium antarcticum', 'Selenomonas bovis DSM 23594', 'Notospermus geniculatus', 'Neptunomonas japonica DSM 18939', 'Methanosarcina horonobensis HB-1 = JCM 15518', 'Blautia wexlerae DSM 19850', 'Salinicoccus albus DSM 19776', 'Nevskia soli DSM 19509', 'Prevotella amnii CRIS 21A-A', 'Alloscardovia omnicolens DSM 21503', 'Yersinia massiliensis CCUG 53443', 'Microvirga lupini', 'Lactobacillus equicursoris DSM 19284 = JCM 14600 = CIP 110162', 'Diplodia seriata', 'Methanolobus psychrophilus R15', 'Paraburkholderia bryophila 376MFSha3.1', 'Sphingobium ummariense RL-3', 'Sulfitobacter donghicola DSW-25 = KCTC 12864 = JCM 14565', 'Chryseobacterium oranimense G311', 'Chryseobacterium halperniae', 'Chryseobacterium luteum', 'Stenoxybacter acetivorans DSM 19021', 'Mucilaginibacter paludis DSM 18603', 'Basidiobolus meristosporus CBS 931.73', 'Elusimicrobium minutum Pei191', 'Rhizobium sp. IRBG74', 'Helicobacter japonicus', 'Calidris pygmaea', 'Thiomonas arsenitoxydans', 'Methylobacterium sp. 4-46', 'Flavobacterium subsaxonicum WB 4.1-42 = DSM 21790', 'Algoriphagus vanfongensis DSM 17529', 'Nocardia rhamnosiphila', 'Bacillus chagannorensis DSM 18086', 'Salsuginibacillus kocurii DSM 18087', 'Humibacter albus DSM 18994', 'Desulfurivibrio alkaliphilus AHT 2', 'Dethiobacter alkaliphilus AHT 1', 'Moritella dasanensis ArB 0140', 'Candidatus Riesia pediculischaeffi PTSU', 'Jonquetella anthropi E3_33 E1', 'Dactylellina haptotyla', 'Halorhabdus tiamatea SARL4B', 'Baudoinia compniacensis', 'Spirosoma luteum DSM 19990', 'Spirosoma spitsbergense DSM 19989', 'Paenibacillus ginsengihumi DSM 21568', 'Kazachstania africana CBS 2517', 'Deinococcus peraridilitoris DSM 19664', 'Nocardioides halotolerans DSM 19273', 'Streptococcus sp. C150', 'Idiomarina salinarum', 'Fibularhizoctonia sp. CBS 109695', 'Sulfurihydrogenibium sp. YO3AOP1', 'Streptacidiphilus jeojiense', 'Robiginitomaculum antarcticum DSM 21748', 'Brucella sp. UK1/97', 'Brucella sp. F23/97', 'Brucella sp. F96/2', 'Brucella sp. UK40/99', 'Brucella sp. F8/99', 'Brucella sp. F5/99', 'Megamonas funiformis YIT 11815', 'Sutterella parvirubra YIT 11816', 'Ruminococcus gauvreauii DSM 19829', 'Streptococcus henryi DSM 19005', 'Streptococcus caballi DSM 19004', 'Candidatus Pelagibacter sp. HTCC7211', 'Pseudovibrio sp. JE062', 'Rhodobacterales bacterium Y4I', 'Ruegeria sp. R11', 'Prevotella maculosa DSM 19339 = JCM 15638', 'Promicromonospora kroppenstedtii DSM 19349', 'Pseudomonas sp. Chol1', 'Gouania willdenowi', 'Corynebacterium timonense 5401744', 'Corynebacterium massiliense DSM 45435', 'Hofstenia miamia', 'Knoellia aerolata DSM 18566', 'Geobacter sp. M18', 'Geobacter sp. M21', 'Bradyrhizobium sp. Cp5.3', 'Brucella microti CCM 4915', 'Sporolactobacillus vineae DSM 21990 = SL153', 'Maribacter forsetii DSM 18668', 'Gryllotalpicola ginsengisoli DSM 22003', 'Rickettsia endosymbiont of Ixodes scapularis', 'Psychromonas ossibalaenae ATCC BAA-1528', 'Reyranella massiliensis 521', 'Leptobrachium leishanense', 'Chryseobacterium soli', 'Adlercreutzia equolifaciens DSM 19450', 'Eudoraea adriatica DSM 19308', 'Niabella soli DSM 19437', 'Anaeromyxobacter sp. K', 'Epichloe gansuensis', 'Simiduia agarivorans SA1 = DSM 21679', 'Rhizobium selenitireducens ATCC BAA-1503', 'Microbacterium profundi', 'Propionibacterium sp. 5_U_42AFAA', 'Veillonella sp. 6_1_27', 'Rudanella lutea DSM 19387', 'Microbacterium luticocti DSM 19459', 'Streptomyces scopuliridis RB72', 'Pseudoclavibacter soli DSM 23366', 'Amphritea japonica ATCC BAA-1530', 'Neovison vison', 'Roseomonas aerilata DSM 19363', 'Desulfarculus baarsii DSM 2075', 'Kwoniella pini CBS 10737', 'Bdellovibrio exovorus JSS', 'Haladaptatus cibarius D43', 'Henriciella marina DSM 19595', 'Joostella marina DSM 19592', 'Halomonas lutea DSM 23508', 'Paraprevotella clara YIT 11840', 'Paraprevotella xylaniphila YIT 11841', 'Kiloniella laminariae DSM 19542', 'Chthonomonas calidirosea T49', 'Gracilimonas tropica DSM 19535', 'Spongiibacter tropicus DSM 19543', 'Glaciecola sp. HTCC2999', 'Chryseobacterium gregarium DSM 19109', 'Xanthomonas campestris pv. vesicatoria str. 85-10', 'Bizionia argentinensis JUB59', 'Saccharibacillus sacchari DSM 19268', 'Candidatus Cloacimonas acidaminovorans str. Evry', 'Streptococcus plurextorum DSM 22810', 'Rhizoctonia solani AG-8 WAC10335', 'Bacteroides sp. 1_1_30', 'Bacteroides sp. 3_1_23', 'Bacteroides sp. 3_1_33FAA', 'Bacteroides sp. 3_2_5', 'Bacteroides sp. 4_1_36', 'Bacteroides sp. 4_3_47FAA', 'Bacteroides sp. 9_1_42FAA', 'Clostridium sp. 7_2_43FAA', 'Desulfovibrio sp. 3_1_syn3', 'Escherichia sp. 1_1_43', 'Escherichia sp. 4_1_40B', 'Eubacterium sp. 3_1_31', 'Micromonospora sp. M42', 'Ruminococcus sp. 5_1_39BFAA', 'Synergistes sp. 3_1_syn1', 'Veillonella sp. 3_1_44', 'Clostridiales bacterium 1_7_47FAA', 'Erysipelotrichaceae bacterium 2_2_44A', 'Elioraea tepidiphila DSM 17972', 'Chloracidobacterium thermophilum B', 'Planomicrobium glaciei CHR43', 'Saccharibacillus kuerlensis DSM 22868', 'Kribbella catacumbae DSM 19601', 'Komagataella phaffii GS115', 'Ogataea polymorpha NCYC 495 leu1.1', 'Lactobacillus nodensis DSM 19682 = JCM 14932 = NBRC 107160', 'Actinomyces massiliensis F0489', 'Alkaliphilus oremlandii OhILAs', 'Babesia sp. Xinjiang', 'Pontibacillus yanchengensis Y32', 'Paxillus rubicundulus Ve08.2h10', 'Veillonella magna DSM 19857', 'Hemiselmis andersenii', 'Streptomyces sp. Mg1', 'Streptomyces sp. SPB074', 'Acinetobacter sp. Ver3', 'Singulisphaera acidiphila DSM 18658', 'Ilumatobacter coccineus YM16-304', 'Lachnoanaerobaculum saburreum F0468', 'Rhodobacteraceae bacterium KLH11', 'Sistotremastrum suecicum HHB10207 ss-3', 'Bacteroides sp. 1_1_14', 'Bacteroides sp. 2_1_22', 'Bacteroides sp. 2_1_33B', 'Bacteroides sp. 2_2_4', 'Parabacteroides sp. 20_3', 'Bacteroides sp. 3_1_19', 'Bacteroides sp. 3_1_40A', 'Coprobacillus sp. 8_2_54BFAA', 'Streptococcus sp. 2_1_36FAA', 'Burkholderiales bacterium 1_1_47', 'Erysipelotrichaceae bacterium 6_1_45', 'Prevotella histicola JCM 15637 = DNF00424', 'Cladophialophora yegresii', 'Gracilibacillus halophilus YIM-C55.5', 'Salinimicrobium terrae DSM 17865', 'Pantoea vagans C9-1', 'Gordonibacter pamelaeae 7-10-1-b', 'Geobacillus sp. WCH70', 'Dasania marina DSM 21967', 'Bifidobacterium bombi DSM 19703', 'Haloplasma contractile SSD-17B', 'Candidatus Desulforudis audaxviator MP104C', 'Nitratireductor basaltis', 'Nitrosococcus watsonii C-113', 'Colletotrichum gloeosporioides', 'Methanosphaerula palustris E1-9c', 'Pedobacter borealis DSM 19626', 'Pseudohaliea rubra DSM 19751', 'Leisingera aquimarina DSM 24565', 'Modestobacter marinus', 'Bacteroides graminisolvens DSM 19988 = JCM 15093', 'Aliiglaciecola lipolytica E3', 'Calditerrivibrio nitroreducens DSM 19672', 'Verrucomicrobia bacterium LP2A', 'Haematomicrobium sanguinis DSM 21259', 'Brevibacterium ravenspurgense 5401308 = CCUG 53855', 'Gluconobacter morbifer G707', 'Commensalibacter intestini A911', 'Myroides profundi', 'Bartonella rattaustraliani AUST/NH4', 'Lactobacillus otakiensis DSM 19908 = JCM 15040', 'Lactobacillus kisonensis F0435', 'Paenibacillus sp. Y412MC10', 'Galeopterus variegatus', 'Oscillatoria nigro-viridis PCC 7112', 'Burkholderia lata', 'Lactobacillus fabifermentans T30PCM01', 'Cystoisospora suis', 'Geoalkalibacter subterraneus', 'Paenibacillus riograndensis SBR5', 'Sphingobium sp. YBL2', 'Pelosinus sp. UFO1', 'Dialister succinatiphilus YIT 11850', 'Barnesiella intestinihominis YIT 11860', 'Parasutterella excrementihominis YIT 11859', 'Acinetobacter soli', 'Aequorivita capsosiphonis DSM 23843', 'Shewanella marina JCM 15074', 'Corynebacterium ulceribovis DSM 45146', 'Flavobacteria bacterium MS024-2A', 'Serratia sp. SCBI', 'Campylobacter peloridis LMG 23910', 'Desulfonatronospira thiodismutans ASO3-1', 'Halarchaeum acidiphilum MH1-52-1', 'Mesorhizobium metallidurans STM 2683', 'Corynebacterium sputi DSM 45148', 'Marinobacter sp. BSs20148', 'Litoreibacter arenae DSM 19593', 'Leucobacter chironomi DSM 19883', 'Brachymonas chironomi DSM 19884', 'Megamonas rupellensis DSM 19944', 'Bacillus velezensis FZB42', 'Dyadobacter alkalitolerans DSM 23607', 'Rhizobium alamii', 'Chryseobacterium palustre DSM 21579', 'Psychrobacter sp. TB15', 'Arthrobacter sp. TB 23', 'Spirosoma panaciterrae DSM 21099', 'Thermoanaerobacter pseudethanolicus ATCC 33223', 'Thauera sp. 63', 'Campylobacter subantarcticus LMG 24377', 'Candidatus Nitrososphaera gargensis Ga9.2', 'Brevibacillus panacihumi W25', 'Arenimonas oryziterrae DSM 21050 = YC6267', 'Flavobacterium rivuli WB 3.3-2 = DSM 21788', 'Borreliella finlandensis', 'Candidatus Korarchaeum cryptofilum OPF8', 'Tepidanaerobacter acetatoxydans Re1', 'Metarhizium brunneum ARSEF 3297', 'Streptomyces avicenniae', 'Glaciibacter superstes DSM 21135', 'Citreicella sp. SE45', 'Porphyromonas bennonis DSM 23058 = JCM 16335', 'Thermodesulfatator atlanticus DSM 21156', 'Butyricicoccus pullicaecorum 1.2', 'Thalassospira profundimaris WP0211', 'Deinococcus gobiensis I-0', 'Eggerthella sp. YY7918', 'Streptococcus porci DSM 23759', 'Aeromonas diversa CDC 2478-85', 'Salisaeta longa DSM 21114', 'Flavobacterium sasangense DSM 21067', 'Kushneria aurantia DSM 21353', 'Jejuia pallidilutea', 'Haloterrigena salina JCM 13891', 'Novosphingobium acidiphilum DSM 19966', 'Chromera velia CCMP2878', 'Rheinheimera sp. A13L', 'Leisingera caerulea DSM 24564', 'Cinara cedri', 'Peptoniphilus duerdenii ATCC BAA-1640', 'Cloacibacillus evryensis DSM 19522', 'Bradyrhizobium genosp. SA-4 str. CB756', 'Pedobacter sp. V48', 'Oceanimonas sp. GK1', 'Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2', 'Methylacidiphilum infernorum V4', 'Vibrio azureus NBRC 104587', 'Dictyoglomus turgidum DSM 6724', 'Caloramator australicus RC3', 'Lacticigenium naphtae DSM 19658', 'Prevotella falsenii DSM 22864 = JCM 15124', 'Nesterenkonia alba DSM 19423', 'Muricauda lutaonensis', 'Providencia burhodogranariea DSM 19968', 'Providencia sneebia DSM 19967', 'Jeotgalicoccus marinus DSM 19772', 'Pontibacillus litoralis JSM 072002', 'Pontibacillus halophilus JSM 076056 = DSM 19796', 'Pantoea sp. aB', 'Citromicrobium sp. JLT1363', 'Bifidobacterium mongoliense DSM 21395', 'Lactobacillus sucicola DSM 21376 = JCM 15457', 'Alcanivorax hongdengensis A-11-3', 'Deinococcus aquatilis DSM 23025', 'Elaphomyces granulatus', 'Ectothiorhodospira sp. PHS-1', 'Brucella sp. NVSL 07-0026', 'Brucella sp. 83/13', 'Acinetobacter sp. NIPH 817', 'Pseudomonas caeni DSM 24390', 'Sphingobium lactosutens DS20', 'Trichophyton mentagrophytes', 'Marinobacter santoriniensis NKSG1', 'Acinetobacter sp. ATCC 27244', 'Thiothrix lacustris DSM 21227', 'Haloglycomyces albus DSM 45210', 'Oceanibaculum indicum P24', 'Listeria marthii FSL S4-120', 'Thecamonas trahens', 'Rhodoluna lacicola', 'Pelagibacterium halotolerans B2', 'Flavobacteriaceae bacterium 3519-10', 'Actinopolymorpha alba DSM 45243', 'Mesorhizobium australicum WSM2073', 'Psychrobacter lutiphocae DSM 21542', 'Rudaea cellulosilytica DSM 22992', 'Thermus islandicus DSM 21543', 'Corynebacterium lubricantis DSM 45231', 'Peronospora effusa', 'Actinoplanes subtropicus', 'Geobacillus sp. Y412MC61', 'Actinomyces johnsonii F0510', 'Butyricimonas synergistica DSM 23225', 'Thioalkalivibrio sp. AKL11', 'Thioalkalivibrio sp. ALJ24', 'Alishewanella jeotgali KCTC 22429', 'Paraoerskovia marina DSM 21750', 'Sporothrix brasiliensis 5110', 'Hydrogenobaculum sp. 3684', 'Hydrogenobaculum sp. HO', 'Hydrogenobaculum sp. SN', 'Mycobacterium vulneris', 'Phycisphaera mikurensis NBRC 102666', 'Pseudogulbenkiania ferrooxidans 2002', 'Geobacillus sp. Y412MC52', 'Pseudonocardia acaciae DSM 45401', 'Aromatoleum aromaticum EbN1', 'Caldicoprobacter oshimai DSM 21659', 'Sediminimonas qiaohouensis DSM 21189', 'Salinarimonas rosea DSM 21201', 'Erysipelotrichaceae bacterium 5_2_54FAA', 'Ruminococcaceae bacterium D16', 'Cryptococcus gattii VGIII', 'Dehalogenimonas lykanthroporepellens BL-DC-9', 'Pseudomonas pelagia CL-AP6', 'Vibrio breoganii 1C10', 'Alishewanella agri BL06', 'Cobetia crustatorum', 'Halomonas jeotgali Hwa', 'Photobacterium leiognathi lrivu.4.1', 'Chlorella variabilis', 'Thiomonas sp. CB2', 'Flavobacterium chungangense LMG 26729', 'Galbibacter marinus', 'Staphylococcus massiliensis S46', 'Novosphingobium sp. Rr 2-17', 'Bacteroides sp. D1', 'Bacteroides sp. D2', 'Clostridium sp. D5', 'Coprobacillus sp. D7', 'Candidatus Liberibacter solanacearum CLso-ZC1', 'Propionibacterium acidifaciens DSM 21887', 'Corynebacterium freiburgense DSM 45254', 'Chryseobacterium piperi', 'Lentibacillus jeotgali', 'Salinicoccus carnicancri Crm', 'Aeromonas lacus', 'Aureobasidium namibiae CBS 147.97', 'Lysinibacillus sinduriensis BLB-1 = JCM 15800', 'Aliagarivorans taiwanensis DSM 22990', 'Prevotella sp. C561', 'Streptococcus sp. C300', 'Streptococcus sp. M143', 'Streptococcus sp. M334', 'Acidianus hospitalis W1', 'Salinisphaera hydrothermalis C41B8', 'Parabacteroides sp. D13', 'Scedosporium apiospermum', 'Geoglobus acetivorans', "Saccharomycetaceae sp. 'Ashbya aceri'", 'Metarhizium robertsii ARSEF 23', 'Dickeya poaceiphila', 'Cladophialophora immunda', 'Pseudoalteromonas lipolytica SCSIO 04301', 'Methanocella paludicola SANAE', 'Ochrobactrum rhizosphaerae SJY1', 'Psychrobacter sp. G', 'Encephalitozoon romaleae SJ-2008', 'Absidia idahoensis var. thermophila', 'Thermoanaerobacter sp. X513', 'Francisella salina', 'Candidatus Hodgkinia cicadicola Dsem', 'Pandoraea oxalativorans', 'Bacillus gaemokensis', 'Bacillus manliponensis', 'Parabacteroides gordonii MS-1 = DSM 23371', 'Pseudomonas taeanensis MS-3', 'Corynebacterium maris DSM 45190', 'Phialocephala subalpina', 'Polynucleobacter necessarius STIR1', 'Polynucleobacter asymbioticus QLW-P1DMWA-1', 'Streptomyces iranensis', 'Indibacter alkaliphilus LW1', 'Enterorhabdus mucosicola DSM 19490', 'Bacillus cytotoxicus NVH 391-98', 'Geobacillus sp. Y4.1MC1', 'Thermococcus paralvinellae', 'Rubidibacter lacunae KORDI 51-2', 'Thermoanaerobacter mathranii subsp. mathranii str. A3', 'Synechococcus sp. KORDI-49', 'Synechococcus sp. KORDI-52', 'Bacteroides sp. D20', 'Bacteroides sp. D22', 'Nematocida parisii', 'Oceanobacillus manasiensis', 'Terribacillus aidingensis', 'Myripristis murdjan', 'Pseudomonas chlororaphis', 'Rhizophagus irregularis', 'Patulibacter americanus DSM 16676', 'Kazachstania naganishii', 'Brevundimonas naejangsanensis', 'Prevotella fusca JCM 17724', 'Prevotella scopos JCM 17725', 'Alteromonas australica', 'Methylacidiphilum fumariolicum SolV', 'Streptomyces sp. SPB78', 'Streptomyces sp. AA4', 'Ignavibacterium album JCM 16511', 'Roseivivax isoporae LMG 25204', 'Piliocolobus tephrosceles', 'Pantoea sp. At-9b', 'Pantoea sp. Sc1', 'Mesorhizobium opportunistum WSM2075', 'Allofrancisella guangzhouensis', 'Rhodopirellula sp. SWK7', 'Prevotella aurantiaca JCM 15754', 'Desulfovibrio sp. U5L', 'Brenneria sp. EniD312', 'Corynebacterium pyruviciproducens ATCC BAA-1742', 'Fibroporia radiculosa', 'Meiothermus rufus DSM 22234', 'Neisseria wadsworthii 9715', 'Neisseria shayeganii 871', 'Dinoponera quadriceps', 'Asaia platycodi SF2.1', 'Harpegnathos saltator', 'Arenibacter algicola', 'Polycyclovorans algicola TG408', 'Methylocystis sp. ATCC 49242', 'Blattabacterium sp. (Blattella germanica) str. Bge', 'Bacteroides clarus YIT 12056', 'Bacteroides fluxus YIT 12057', 'Bacteroides oleiciplenus YIT 12058', 'Alistipes indistinctus YIT 12060', 'Odoribacter laneus YIT 12061', 'Slackia piriformis YIT 12062', 'Collinsella tanakaei YIT 12063', 'Succinatimonas hippei YIT 12066', 'Phascolarctobacterium succinatutens YIT 12067', 'Sphingobium sp. SYK-6', 'Sphingomonas sp. Mn802worker', 'Tomitella biformata AHU 1821', 'Thiorhodovibrio sp. 970', 'Saccharomonospora marina XMU15', 'Acinetobacter rudis CIP 110305', 'Thalassobium sp. R2A62', 'Prevotella saccharolytica F0055', 'Bifidobacterium bohemicum DSM 22767', 'Bifidobacterium actinocoloniiforme DSM 22766', 'Pyramidobacter piscolens W5455', 'Acidobacteriaceae bacterium KBS 146', 'Hoyosella subflava DQS3-9A1', 'Lactobacillus florum 2F', 'Burkholderia sp. CCGE1001', 'Burkholderia sp. CCGE1003', 'Clostridium sp. DL-VIII', 'Neisseria sp. oral taxon 014 str. F0314', 'Tatumella morbirosei', 'Silicibacter sp. TrichCH4B', 'Methanocaldococcus sp. FS406-22', 'Streptomyces sp. e14', 'Enterocytozoon hepatopenaei', 'Plasmodium gaboni', 'Methylobacterium sp. MB200', 'Micromonospora sp. L5', 'Cesiribacter andamanensis AMV16', 'Clostridium sp. ATCC BAA-442', 'Actinomyces sp. oral taxon 848 str. F0332', 'Acetomicrobium hydrogeniformans ATCC BAA-1850', 'Anaerostipes hadrus DSM 3319', 'Actinoplanes sp. N902-109', 'Sulfuricella denitrificans skB26', 'Fibrella aestuarina BUZ 2', 'Aurantimonas manganoxydans SI85-9A1', 'Kosmotoga olearia TBF 19.5.1', 'Actinomyces sp. oral taxon 180 str. F0310', 'Fretibacterium fastidiosum', 'Oribacterium sp. oral taxon 078 str. F0262', 'Bacteroidetes oral taxon 274 str. F0058', 'Peptoniphilus sp. oral taxon 386 str. F0131', 'Paenibacillus sp. oral taxon 786 str. D14', 'Prevotella sp. oral taxon 299 str. F0039', 'Prevotella sp. oral taxon 317 str. F0108', 'Actinomyces sp. oral taxon 849 str. F0330', 'Albugo laibachii', 'Prevotella sp. oral taxon 472 str. F0295', 'Pseudogymnoascus destructans 20631-21', 'Pandoraea vervacti', 'Halanaerobium hydrogeniformans', 'Ruminococcus sp. SR1/5', 'Flavobacterium beibuense F44-8', 'Candidatus Koribacter versatilis Ellin345', 'Ralstonia sp. 5_2_56FAA', 'Lachnospiraceae bacterium 1_1_57FAA', 'Lachnospiraceae bacterium 2_1_58FAA', 'Lachnospiraceae bacterium 6_1_63FAA', 'Lachnospiraceae bacterium 5_1_57FAA', 'Lachnospiraceae bacterium 3_1_57FAA_CT1', 'Lachnospiraceae bacterium 7_1_58FAA', 'Lachnospiraceae bacterium 9_1_43BFAA', 'Lachnospiraceae bacterium 5_1_63FAA', 'Pseudomonas sp. H2', 'Lachnospiraceae bacterium 1_4_56FAA', 'Lachnospiraceae bacterium 6_1_37FAA', 'Erysipelotrichaceae bacterium 21_3', 'Erysipelotrichaceae bacterium 3_1_53', 'Parabacteroides sp. D25', 'Porphyromonas sp. 31_2', 'Paraburkholderia acidipaludis NBRC 101816', 'Olsenella sp. oral taxon 809 str. F0356', 'Brachybacterium squillarum M-6-3', "Candidatus Parvarchaeum acidiphilum ARMAN-4_'5-way FS'", "Candidatus Parvarchaeum acidophilus ARMAN-5_'5-way FS'", 'Fibrisoma limi BUZ 3', 'Methylocapsa aurea', 'Leucobacter salsicius M1-8', 'Borreliella bavariensis PBi', 'Bacillus oceanisediminis 2691', 'Dietzia alimentaria 72', 'Campylobacter sp. 10_1_50', 'Clostridium sp. 7_3_54FAA', 'Coprobacillus sp. 3_3_56FAA', 'Desulfovibrio sp. 6_1_46AFAA', 'Eggerthella sp. 1_3_56FAA', 'Klebsiella sp. 4_1_44FAA', 'Neisseria sp. GT4A_CT1', 'Tannerella sp. 6_1_58FAA_CT1', 'Lachnospiraceae bacterium 3_1_46FAA', 'Lachnospiraceae bacterium 8_1_57FAA', 'Subdoligranulum sp. 4_3_54A2FAA', 'Bacillus sp. 7_6_55CFAA_CT2', 'Bacillus sp. BT1B_CT2', 'Bacillus sp. 2_A_57_CT2', 'Aquimarina macrocephali JAMB N27', 'Afipia sp. 1NLS2', 'Rhodanobacter denitrificans', 'Bacillus sp. 1NLA3E', 'Raphidiopsis brookii D9', 'Thelohanellus kitauei', 'Geminocystis herdmanii PCC 6308', 'Paenibacillus pini JCM 16418', 'Candidatus Profftella armatura', 'Microvirga aerilata', 'Candidatus Uzinura diaspidicola str. ASNER', 'Candidatus Methylomirabilis oxyfera', 'Leptotrichia sp. oral taxon 225 str. F0581', 'Alloprevotella rava F0323', 'Propionibacterium sp. oral taxon 192 str. F0372', 'Selenomonas artemidis F0399', 'Veillonella sp. oral taxon 158 str. F0412', 'Veillonella sp. oral taxon 780 str. F0422', 'Enterorhabdus caecimuris B7', 'Bacteroides sartorii dnLKV3', 'Microbacterium yannicii PS01', 'Cardinium endosymbiont cBtQ1 of Bemisia tabaci', 'Aciduliprofundum sp. MAR08-339', 'Candidatus Babela massiliensis', 'Bacteroides faecis MAJ27', 'Vibrio sp. RC586', 'Lachancea nothofagi', 'Fervidicoccus fontis Kam940', 'Sphingomonas sp. PR090111-T3T-6A', 'Pseudomonas sp. S9', 'Lichtheimia ramosa', 'Oribacterium sp. NK2B42', 'Colletotrichum fructicola Nara gc5', 'Rhizobium vignae', 'Geobacillus sp. C56-T3', 'Fonticula alba', 'Caldisericum exile AZM16c01', 'Vibrio atlanticus LGP32', 'Enterobacteriaceae bacterium strain FGI 57', 'Halogranum salarium B-1', 'Bilophila sp. 4_1_30', "Marssonina brunnea f. sp. 'multigermtubi' MB_m1", 'Virgibacillus alimentarius', 'Megasphaera genomosp. type_1 str. 28L', 'Vibrio caribbeanicus ATCC BAA-2122', 'Vibrio sp. N418', 'Novosphingobium sp. PP1Y', 'Saccharomyces arboricola H-6', 'Capnocytophaga sp. oral taxon 329 str. F0087', 'Actinomyces sp. oral taxon 171 str. F0337', 'Colletotrichum chlorophyti', 'Colletotrichum tofieldiae', 'Bradyrhizobiaceae bacterium SG-6C', 'Frankia sp. QA3', 'Actinomyces sp. oral taxon 178 str. F0338', 'Capnocytophaga sp. oral taxon 338 str. F0234', 'Colletotrichum fioriniae', 'Streptomyces sp. GXT6', 'Actinomyces sp. oral taxon 170 str. F0386', 'Actinomyces sp. oral taxon 172 str. F0311', 'Actinomyces sp. oral taxon 175 str. F0384', 'Actinomyces sp. oral taxon 181 str. F0379', 'Actinomyces sp. oral taxon 448 str. F0400', 'Aggregatibacter sp. oral taxon 458 str. W10330', 'Atopobium sp. oral taxon 199 str. F0494', 'Atopobium sp. oral taxon 810 str. F0209', 'Capnocytophaga sp. oral taxon 324 str. F0483', 'Capnocytophaga sp. oral taxon 326 str. F0382', 'Capnocytophaga sp. oral taxon 332 str. F0381', 'Capnocytophaga sp. oral taxon 336 str. F0502', 'Capnocytophaga sp. oral taxon 380 str. F0488', 'Fusobacterium sp. oral taxon 370 str. F0437', 'Leptotrichia sp. oral taxon 215 str. W9775', 'Microbacterium sp. oral taxon 186 str. F0373', 'Neisseria sp. oral taxon 020 str. F0370', 'Oribacterium sp. oral taxon 108 str. F0425', 'Peptoniphilus sp. oral taxon 375 str. F0436', 'Porphyromonas sp. oral taxon 278 str. W7784', 'Prevotella sp. oral taxon 306 str. F0472', 'Prevotella sp. oral taxon 473 str. F0040', 'Selenomonas sp. oral taxon 137 str. F0430', 'Selenomonas sp. oral taxon 138 str. F0429', 'Selenomonas sp. oral taxon 149 str. 67H29BP', 'Streptococcus sp. oral taxon 056 str. F0418', 'Streptococcus sp. oral taxon 058 str. F0407', 'Streptococcus sp. oral taxon 071 str. 73H25AP', 'Actinobaculum sp. oral taxon 183 str. F0552', 'Lachnospiraceae bacterium oral taxon 082 str. F0431', 'Lachnospiraceae oral taxon 107 str. F0167', 'Parvimonas sp. oral taxon 393 str. F0440', 'Candidatus Atelocyanobacterium thalassa isolate SIO64986', 'Alteromonas naphthalenivorans', 'Ensifer sojae CCBAU 05684', 'Caldicellulosiruptor obsidiansis OB47', 'Hyphopichia burtonii NRRL Y-1933', 'Hyphomicrobium sp. MC1', 'Plasmodium sp. DRC-Itaito', 'Nitratireductor indicus C115', 'Acidovorax ebreus TPSY', 'Vibrio genomosp. F10 str. ZF-129', 'Anncaliia algerae PRA109', 'Leptothrix ochracea L12', 'Rahnella sp. Y9602', 'Delftia sp. Cs1-4', 'Melanaphis sacchari', 'Collinsella sp. 4_8_47FAA', 'Lachnospiraceae bacterium 2_1_46FAA', 'Sphingobacterium sp. 21', 'Methylocystis sp. SB2', 'Ahrensia sp. R2A130', 'Roseibium sp. TrichSKD4', 'Sphingomonas sp. MM-1', 'Olleya sp. VCSM12', 'Mobilicoccus pelagius NBRC 104925', 'Aspergillus fumigatus Af293', 'Oceanobacillus kimchii X50', 'Azoarcus sp. KH32C', 'Pseudogulbenkiania sp. NH8B', 'Thioalkalivibrio sp. ALSr1', 'Sulfuritalea hydrogenivorans sk43H', 'Klebsiella sp. MS 92-3', 'Coprococcus sp. ART55/1', 'Halobacterium sp. DL1', 'Escherichia sp. TW09308', 'Winogradskyella sp. PG-2', 'Photobacterium aphoticum', 'Methylophaga nitratireducenticrescens', 'Methylophaga frappieri', 'Clostridium sp. BNL1100', 'Bacillus sp. WP8', 'Acinetobacter indicus CIP 110367', 'Burkholderia insecticola', 'Burkholderia sp. RPE67', 'Sporosarcina newyorkensis 2681', 'Massilia consociata', 'Bifidobacterium callitrichos DSM 23973', 'Bifidobacterium stellenboschense', 'Bifidobacterium biavatii DSM 23969', 'Siansivirga zeaxanthinifaciens CC-SAMT-1', 'Haemophilus sp. oral taxon 851 str. F0397', 'Paraburkholderia bannensis NBRC 103871', 'Moraxella macacae 0408225', 'Pyrenochaeta sp. DS3sAY3a', 'Stagonospora sp. SRC1lsM3a', 'Vibrio jasicida MWB 21', 'Citreicella sp. 357', 'Candidatus Puniceispirillum marinum IMCC1322', 'Serratia sp. AS12', 'Serratia sp. AS13', 'Sinorhizobium sp. CCBAU 05631', 'Opitutaceae bacterium TAV5', 'Burkholderiaceae bacterium PBA', 'Nesterenkonia sp. F', 'Sugiyamaella lignohabitans', 'Peptoanaerobacter stomatis', 'Stomatobaculum longum', 'Kipferlia bialata', 'Fonsecaea nubica', 'Cryptosporidium ubiquitum', 'Trichoderma parareesei', 'Caenispirillum salinarum AK4', 'Agrobacterium sp. H13-3', 'Gemmatirosa kalamazoonesis', 'Streptomyces sp. SirexAA-E', 'Thermincola potens JR', 'Burkholderiales bacterium JOSHI_001', 'Microvirga lotononidis', 'Oscillatoriales cyanobacterium C42_A2020_001', 'Schizosaccharomyces cryophilus', 'Methanothermobacter sp. CaT2', 'Chloroflexus sp. Y-396-1', 'Methanobacterium paludis', 'Ogataea angusta', 'Terriglobus saanensis SP1PR4', 'Bacteroides stercorirosoris JCM 17103', 'Lactobacillus pasteurii DSM 23907 = CRBIP 24.76', 'Celeribacter baekdonensis B30', 'Mycolicibacter sinensis', 'Peptoniphilus sp. 1-1', 'Methyloferula stellata AR4', 'Ruminococcus sp. NK3A76', 'Clostridiales bacterium NK3B98', 'Erysipelotrichaceae bacterium NK3D112', 'Lachnospiraceae bacterium NK4A136', 'Lachnospiraceae bacterium NK4A144', 'Lachnospiraceae bacterium NK4A179', 'Methanobacterium lacus', 'Chryseobacterium sp. StRB126', 'Pseudodesulfovibrio piezophilus C1TLV30', 'Cutaneotrichosporon oleaginosum', 'Plasmodium sp. gorilla clade G2', 'Fulvivirga imtechensis AK7', 'Methanoregula formicica SMSP', 'Schleiferia thermophila str. Yellowstone', 'Candidatus Zinderia insecticola CARI', 'Mageeibacillus indolicus UPII9-5', 'Fukomys damarensis', 'Desulfosporosinus acidiphilus SJ4', 'Methylovorus sp. MP688', 'Candidatus Nanosalina sp. J07AB43', 'Candidatus Nanosalinarum sp. J07AB56', 'Plautia stali symbiont', 'Nonlabens ulvanivorans', 'Phytopythium vexans DAOM BR484', 'Clostridium sp. HGF2', 'Alistipes sp. HGB5', 'Fusarium sp. FOSC 3-a', 'Actinokineospora spheciospongiae', 'SAR116 cluster alpha proteobacterium HIMB100', 'Pseudovibrio sp. FO-BEG1', 'Caldanaerobacter subterraneus subsp. tengcongensis MB4', 'Mycolicibacterium iranicum UM_TJL', 'Desulfosporosinus sp. OT', 'Knoellia flava TL1', 'Kangiella geojedonensis', 'Rhynchosporium commune', 'Rhynchosporium agropyri', 'Asinibacterium sp. OR53', 'Balearica regulorum', 'Synechocystis sp. PCC 7509', 'Bartonella florencae', 'Pseudomonas brassicacearum', 'Nonlabens marinus S1-08', 'Serratia sp. M24T3', 'Desulfosarcina sp. BuS5', 'Aminobacter sp. J41', 'Bacillus sp. J33', 'Bacillus sp. J37', 'Chelativorans sp. J32', 'Paenibacillus sp. J14', 'Paracoccus sp. J39', 'Luteimonas sp. J29', 'Nocardioides sp. J54', 'Rhizopus delemar', 'Mogibacterium sp. CM50', 'Desulfurispirillum indicum S5', 'Marinomonas posidonica IVIA-Po-181', 'Actinomyces sp. ICM47', 'Atopobium sp. BS2', 'Selenomonas sp. FOBRC6', 'Selenomonas sp. FOBRC9', 'Shuttleworthia sp. MSX8B', 'Streptococcus sp. CM6', 'Veillonella sp. AS16', 'Lachnoanaerobaculum sp. OBRC5-5', 'Lachnoanaerobaculum sp. MSX33', 'Casaltella massiliensis', 'Fenollaria massiliensis', 'Levyella massiliensis', 'Anaerococcus provencensis', 'Bacteroidetes bacterium SCGC AAA027-N21', 'Granulicella mallensis MP5ACTX8', 'Granulicella tundricola MP5ACTX9', 'Desulfovibrio sp. X2', 'Burkholderia sp. WSM2230', 'Hippea jasoniae', 'Hippea sp. KM1', 'Arcobacter sp. L', 'Gordonia neofelifaecis NRRL B-59395', 'Diplocarpon rosae', 'Salpingoeca rosetta', 'Arenimonas metalli CF5-1', 'Paraburkholderia dilworthii', 'Fusarium proliferatum', 'Palaeococcus pacificus DY20341', 'Bacillus sp. 17376', 'Fonsecaea multimorphosa CBS 102226', 'Leuconostoc sp. C2', 'Deinococcus wulumuqiensis R12', 'Aquimarina agarivorans', 'Morus notabilis', 'Ruegeria conchae', 'Lacinutrix sp. 5H-3-7-4', 'Glaciecola sp. 4H-3-7+YE-5', 'Dokdonia sp. 4H-3-7-5', 'Bifidobacterium reuteri DSM 23975', 'Heterobasidion irregulare', 'Mycoplasma parvum str. Indiana', 'Staphylococcus argenteus M21126', 'Vulcanisaeta moutnovskia 768-28', 'Ruegeria halocynthiae', 'Gillisia sp. CAL575', 'Staphylococcus agnetis', 'Lebetimonas sp. JS170', 'Polymorphum gilvum SL003B-26A1', 'Vibrio sp. HENC-03', 'Erosia sp. biolep03', 'Candidatus Kinetoplastibacterium desouzaii TCC079E', 'Candidatus Kinetoplastibacterium galatii TCC219', 'Candidatus Kinetoplastibacterium oncopeltii TCC290E', 'Desmospora sp. 8437', 'Porphyromonas sp. KLE 1280', 'Streptomyces himastatinicus ATCC 53653', 'Halomonas sp. TD01', 'Methylophaga lonarensis MPL', 'Selenomonas sp. F0473', 'Streptococcus sp. F0441', 'Streptococcus sp. F0442', 'Sedimentitalea nanhaiensis DSM 24252', 'Megasphaera sp. UPII 135-E', 'Cryobacterium roopkundense', 'Daldinia sp. EC12', 'Hypoxylon sp. CI-4A', 'Psychrobacter sp. 1501(2011)', 'Leisingera sp. ANG1', 'Candidatus Pelagibacter sp. IMCC9063', 'Verrucosispora maris AB-18-032', 'Fimbriimonas ginsengisoli Gsoil 348', 'Ogataea parapolymorpha DL-1', 'Metallosphaera cuprina Ar-4', 'Listeria weihenstephanensis FSL R9-0317', 'Defluviitoga tunisiensis', 'Candidatus Nitrosarchaeum limnium SFB1', 'Sphingomonas sp. S17', 'Pusillimonas sp. T7-7', 'Pyrococcus yayanosii CH1', 'Candidatus Tremblaya phenacola PAVE', 'Exophiala sideris', 'Nannospalax galili', 'Endozoicomonas montiporae', 'Pseudomonas sp. StFLB209', 'Acinetobacter sp. P8-3-8', 'Sphingomonas sp. KC8', 'Caloramator sp. ALD01', 'Campylobacter volucris LMG 24379', 'Corynebacterium nuruki S6-4', 'Bacillus timonensis', 'Brevibacterium senegalense', 'Kurthia sp. Dielmo', 'Kurthia massiliensis', 'Kurthia senegalensis', 'Exophiala aquamarina CBS 119918', 'Marinobacter adhaerens HP15', 'Thioalkalivibrio sulfidiphilus HL-EbGr7', 'Nitrososphaera viennensis EN76', 'Paenibacillus sp. HW567', 'Legionella massiliensis', 'Deferrisoma camini S3R1', 'Dehalobacter sp. FTH1', 'Idiomarina sp. A28L', 'Bradyrhizobium sp. WSM2793', 'Bradyrhizobium sp. WSM3983', 'Mesorhizobium sp. WSM3224', 'Mesorhizobium sp. WSM3626', 'Bradyrhizobium sp. ARR65', 'Drosophila rhopaloa', 'Ensifer sp. WSM1721', 'Candidatus Arthromitus sp. SFB-rat-Yit', 'Wickerhamomyces ciferrii', 'Aureobasidium subglaciale EXF-2481', 'Clostridium sp. SY8519', 'Rhizobium sp. IBUN', 'Ochrovirga pacifica', 'Thermococcus sp. 4557', 'Acidiphilium sp. PM', 'Demequina mangrovi', 'Citricoccus sp. CH26A', 'Oceaniovalibus guishaninsula JLT2003', 'Aminicenantes bacterium SCGC AAA252-A02', 'Zymoseptoria brevis', 'Zymoseptoria tritici', 'Candidatus Moranella endobia PCIT', 'Paracoccidioides lutzii', 'Anditalea andensis', 'Paenibacillus sp. Aloe-11', 'Verticillium alfalfae VaMs.102', 'Acetobacteraceae bacterium AT-5844', 'Thermoplasmatales archaeon BRNA1', 'Methylotenera versatilis 301', 'Psychrobacter sp. TB67', 'Grimontia indica', 'Nocardia sp. BMG51109', 'Ensifer sp. BR816', 'Azospirillum baldaniorum', 'Amycolatopsis halophila YIM 93223', 'Aspergillus luchuensis IFO 4308', 'Halonotius sp. J07HN4', 'Bacillus sp. NSP22.2', 'Tetrapisispora blattae', 'Caballeronia grimmiae', 'Lachancea dasiensis CBS 10888', 'Porticoccus hydrocarbonoclasticus MCTG13d', 'Armillaria solidipes', 'Pantoea rwandensis', 'Thiolapillus brandeum', 'Acetobacter okinawensis JCM 25146', 'Staphylococcus sp. HGB0015', 'Paenisporosarcina sp. HGH0030', 'Streptomyces sp. HGB0020', 'Parabacteroides sp. HGS0025', 'Bacteroides sp. HPS0048', 'Coprococcus sp. HPP0074', 'Coprococcus sp. HPP0048', 'Serinicoccus profundi MCCC 1A05965', 'Haemophilus sputorum CCUG 13788', 'Paenibacillus sp. HGH0039', 'Corynebacterium sp. HFH0082', 'Rhizobium mesoamericanum STM3625', 'Leucobacter chromiiresistens JG 31', 'Citrobacter sp. S-77', 'Saccharomyces eubayanus', 'Candidatus Aquiluna sp. IMCC13023', 'Hepatospora eriocheir', 'Enterospora canceri', 'Aquimarina agarilytica ZC1', 'Bartonella sp. DB5-6', 'Streptococcus sp. SK140', 'Streptococcus sp. SK643', 'Methylobacterium sp. GXF4', 'Arthrobacter sp. PAO19', 'Burkholderia sp. YI23', 'Coprobacter fastidiosus NSB1', 'Limnohabitans sp. Rim28', 'Limnohabitans sp. Rim47', 'Arthrobacter sp. MA-N2', 'Paracoccus sp. N5', 'Methylopila sp. M107', 'Methylobacterium sp. 10', 'Methylobacterium sp. 77', 'Methylophilaceae bacterium 11', 'Pyrobaculum ferrireducens', 'Actinomyces sp. ICM39', 'Clostridium sp. MSTE9', 'Rickettsia philipii str. 364D', 'Paenirhodobacter enshiensis', 'Penicillium rubens', 'Thermus sp. CCB_US3_UF1', 'Metallosphaera yellowstonensis MK1', 'Atopobium sp. BV3Ac4', 'Propionimicrobium sp. BV2F7', 'Peptoniphilus sp. BV3C26', 'Coriobacteriaceae bacterium BV3Ac1', 'Megasphaera sp. BV3C16-1', 'Psychrobacter sp. PAMC 21119', 'Sphingomonas sp. PAMC 26605', 'Sphingomonas sp. PAMC 26617', 'Methylophilus sp. 5', 'Arthrobacter sp. 31Y', 'Hoeflea sp. 108', 'Vibrio sp. EJY3', 'Elizabethkingia anophelis NUHP1', 'Brevibacillus massiliensis', 'Actinomyces sp. ph3', 'Halomonas sp. GFAJ-1', 'Arthrobacter sp. Rue61a', 'Rhizobium grahamii CCGE 502', 'Sphingopyxis sp. LC363', 'Methylopila sp. 73B', 'Mycobacterium sp. 141', 'Actinomadura flavalba DSM 45200', 'Corynebacterium doosanense CAU 212 = DSM 45436', 'Gordonia kroppenstedtii DSM 45133', 'Fodinicurvata fenggangensis DSM 21160', 'Fodinicurvata sediminis DSM 21159', 'Halomonas zhanjiangensis DSM 21076', 'Hirschia maritima DSM 19733', 'Pedobacter oryzae DSM 19973', 'Ponticaulis koreensis DSM 19734', 'Rubellimicrobium mesophilum DSM 19309', 'Thiomicrorhabdus sp. Kp2', 'Gonapodya prolifera JEL478', 'SAR86 cluster bacterium SAR86A', 'SAR86 cluster bacterium SAR86B', 'Magnetococcus marinus MC-1', 'Treponema sp. JC4', 'Pseudomonas sp. P179', 'Limimaricola cinnabarinus LL-001', 'Bosea sp. 117', 'Bradyrhizobium sp. DOA9', 'Paenibacillus beijingensis', 'Bacillus sp. JS', 'Paraglaciecola arctica BSs20135', 'Weissella oryzae SG25', 'Marine Group I thaumarchaeote SCGC AB-629-I23', 'Nitrospina sp. AB-629-B18', 'Dehalobacter sp. CF', 'Sphaerochaeta globosa str. Buddy', 'Sphaerochaeta pleomorpha str. Grapes', 'Flavobacterium sp. 83', 'Methylobacterium sp. 88A', 'Xanthobacter sp. 126', 'Arthrobacter sp. 35W', 'Bacillus sp. 37MA', 'Rhizobium sp. CCGE 510', 'Melioribacter roseus P3M-2', 'Alkalihalobacillus ligniniphilus', 'Cellvibrio sp. BR', 'Klebsiella michiganensis E718', 'Nocardiopsis sp. CNT312', 'Streptomyces sp. CNH099', 'Saccharomonospora sp. CNQ490', 'Xanthomarina gelatinilytica', 'Endozoicomonas numazuensis', 'Clostridium arbusti SL206', 'Mycobacterium paraintracellulare', 'Lactobacillus curieae', 'Pseudomassariella vexata', 'Homolaphlyctis polyrhiza', 'Novosphingobium sp. AP12', 'Sphingobium sp. AP49', 'Rhizobium sp. CF080', 'Rhizobium sp. CF122', 'Flavobacterium sp. CF136', 'Herbaspirillum sp. CF444', 'Pseudomonas sp. GM21', 'Herbaspirillum sp. YR522', 'Phyllobacterium sp. YR531', 'Tritrichomonas foetus', 'Acinetobacter sp. CIP 101934', 'Acinetobacter sp. CIP 101966', 'Acinetobacter sp. CIP 102082', 'Acinetobacter sp. CIP 102129', 'Acinetobacter sp. CIP 102136', 'Acinetobacter sp. CIP 102143', 'Acinetobacter sp. CIP 102159', 'Acinetobacter sp. CIP 102529', 'Acinetobacter sp. CIP 102637', 'Acinetobacter sp. CIP 51.11', 'Acinetobacter sp. CIP 53.82', 'Acinetobacter sp. CIP 56.2', 'Acinetobacter sp. CIP 64.7', 'Acinetobacter sp. CIP A162', 'Lysinibacillus varians', 'Dehalobacter sp. DCA', 'Ornithinibacillus scapharcae TW25', 'Achromobacter arsenitoxydans SY8', 'Acinetobacter oleivorans DR1', 'Geminisphaera colitermitum TAV2', 'Pseudomonas furukawaii', 'Arthrobacter sp. 9MFCol3.1', 'Leifsonia sp. 109', 'Tsukamurella sp. 1534', 'Arthrobacter sp. 161MFSha2.1', 'Arthrobacter sp. 162MFSha1.1', 'Microbacterium sp. 292MF', 'Nematocida sp. 1 ERTm2', 'Streptomyces sp. LaPpAH-108', 'Streptomyces sp. MspMP-M5', 'Moorea producens 3L', 'Streptococcus sp. I-G2', 'Streptococcus sp. I-P16', 'Streptomyces sp. HmicA12', 'Tumebacillus flagellatus', 'Streptomyces sp. LaPpAH-95', 'Streptomyces sp. Amel2xE9', 'Streptomyces sp. ATexAB-D23', 'Streptomyces sp. BoleA5', 'Streptomyces sp. PsTaAH-124', 'Streptomyces sp. FxanaC1', 'Mycobacterium sp. 155', 'Thermotoga sp. Cell2', 'Thermotoga sp. 2812B', 'Arthrobacter sp. 135MFCol5.1', 'Thioalkalivibrio sp. ALJT', 'Thioalkalivibrio sp. ALD1', 'Thioalkalivibrio sp. ALMg11', 'Thioalkalivibrio sp. ALE31', 'Thiomonas sp. FB-Cd', 'Prevotella sp. 10(H)', 'Desulfurobacterium sp. TC5-1', 'Persephonella sp. IF05-L8', 'Persephonella sp. KM09-Lau-8', 'Kosakonia sacchari SP1', 'Thioalkalivibrio sp. ALJ7', 'Thioalkalivibrio sp. ALJ11', 'Thioalkalivibrio sp. ALJ16', "Leptospirillum sp. Group II 'C75'", 'Ustilaginoidea virens', 'Bordetella sp. FB-8', 'Nocardia sp. BMG111209', 'Brucella sp. 63/311', 'Ruminococcus bicirculans', 'Candidatus Nasuia deltocephalinicola str. NAS-ALF', 'Euryhalocaulis caribicus', 'Streptococcus sp. ACC21', 'Ruminococcus champanellensis 18P13 = JCM 17042', 'Pseudomonas donghuensis', 'Clostridium sp. 12(A)', 'Cronobacter condimenti 1330', 'Richelia intracellularis HH01', 'Imtechella halotolerans K1', 'Methylotenera sp. 73s', 'Sulfurovum sp. AR', 'Enterobacter sp. R4-368', 'Halomonas xinjiangensis', 'Draconibacterium orientale', 'Xanthobacteraceae bacterium 501b', 'Mycobacterium sp. MOTT36Y', 'Mycobacterium sp. H4Y', 'Streptomyces pratensis ATCC 33331', 'Bacillus sp. 123MFChir2', 'Nocardia sp. CNY236', 'Streptomyces sp. CNT372', 'Streptomyces sp. CNY243', 'Brucella sp. F5/06', 'Brucella sp. 56/94', 'Citrobacter sp. KTE30', 'Escherichia sp. KTE114', 'Citrobacter sp. KTE151', 'Escherichia sp. KTE11', 'Escherichia sp. KTE31', 'Citrobacter sp. KTE32', 'Vitrella brassicaformis CCMP3155', 'Rhodobacteraceae bacterium PD-2', 'Streptomyces sp. 142MFCol3.1', 'Streptomyces sp. 351MFTsu5.1', 'Streptomyces sp. 303MFCol5.2', 'Nocardia sp. 348MFTsu5.1', 'Mycobacterium sp. 360MFTsu5.1', 'Terracoccus sp. 273MFTsu3.1', 'Oxytricha trifallax', 'Sulfurimonas hongkongensis', 'Catenovulum agarivorans DS-2', 'Fischerella sp. PCC 9431', 'Fischerella sp. PCC 9605', 'Geitlerinema sp. PCC 7407', 'Gloeocapsa sp. PCC 7428', 'Microcoleus sp. PCC 7113', 'Oscillatoria sp. PCC 10802', 'Chamaesiphon minutus PCC 6605', 'Synechococcus sp. PCC 7502', 'Leptolyngbya sp. PCC 6406', 'Colletotrichum sublineola', 'Fischerella sp. PCC 9339', 'Sphingopyxis sp. MC1', 'Herbaspirillum sp. GW103', 'Methanocella conradii HZ254', 'Methanocella arvoryzae MRE50', 'Peptoniphilus rhinitidis 1-13', 'Sulfurimonas gotlandica GD1', 'Agrobacterium fabrum str. C58', 'Alcanivorax nanhaiticus', 'Microbacterium sp. C448', 'Komagataeibacter medellinensis NBRC 3288', 'Halomonas huangheensis', 'Bacillus xiamenensis', 'Bacillus zhangzhouensis', 'Arenitalea lutea', 'Candidatus Photodesmus blepharus', 'Mycoplasma feriruminatoris', 'Pseudomonas sp. M47T1', 'Cladophialophora psammophila', 'Deinococcus swuensis', 'Escherichia sp. KTE52', 'Klebsiella sp. KTE92', 'Escherichia sp. KTE96', 'Escherichia sp. KTE159', 'Myroides injenensis M09-0166', 'Pyrococcus sp. ST04', 'Mesotoga prima MesG1.Ag.4.2', 'Thioclava dalianensis', 'Blattabacterium sp. (Blaberus giganteus)', 'Rhodovulum sp. PH10', 'Flavobacterium sp. ACAM 123', 'Burkholderia sp. lig30', 'Lactobacillus hokkaidonensis JCM 18461', 'Snodgrassella alvi', 'Gilliamella apicola', 'Corvus moneduloides', 'Clostridium sp. Maddingley MBC34-26', 'Paenibacillus sp. OSY-SE', 'Mangrovimonas yunxiaonensis', 'Arthrobacter sp. M2012083', 'Janthinobacterium sp. HH01', 'Thermogladius calderae 1633', 'Anaerovibrio sp. RM50', 'Ruminobacter sp. RM87', 'Bacteriovorax sp. Seq25_V', 'Bacteriovorax sp. BAL6_X', 'Flavobacterium sp. F52', 'Lactobacillus oryzae JCM 18671', 'Halopiger salifodinae', 'Achlya hypogyna', 'Lactobacillus hominis DSM 23910 = CRBIP 24.179', 'Geobacter daltonii FRC-32', 'Acidaminococcus sp. HPA0509', 'Actinomyces sp. HPA0247', 'Corynebacterium sp. KPL1814', 'Corynebacterium sp. KPL1817', 'Corynebacterium sp. KPL1818', 'Corynebacterium sp. KPL1821', 'Corynebacterium sp. KPL1824', 'Corynebacterium sp. KPL1855', 'Corynebacterium sp. KPL1856', 'Corynebacterium sp. KPL1857', 'Corynebacterium sp. KPL1859', 'Corynebacterium sp. KPL1860', 'Dermabacter sp. HFH0086', 'Propionibacterium sp. HGH0353', 'Propionibacterium sp. KPL1838', 'Propionibacterium sp. KPL1844', 'Propionibacterium sp. KPL1852', 'Pseudomonas sp. HPB0071', 'Streptococcus sp. HPH0090', 'Streptomyces sp. HPH0547', 'Veillonella sp. HPA0037', 'Corynebacterium sp. KPL1986', 'Corynebacterium sp. KPL1989', 'Corynebacterium sp. KPL1995', 'Corynebacterium sp. KPL1996', 'Corynebacterium sp. KPL1998', 'Corynebacterium sp. KPL2004', 'Propionibacterium sp. KPL2005', 'Propionibacterium sp. KPL2009', 'Streptomyces sp. CNR698', 'Novosphingobium sp. MBES04', 'Pseudomonas sp. Lz4W', 'Gallaecimonas xiamenensis 3-C-1', 'Idiomarina xiamenensis 10-D-4', 'Sphingobium sp. C100', 'Hyphomonas sp. L-53-1-40', 'Pseudomonas sp. UW4', 'Marinomonas profundimaris', 'Celeribacter indicus', 'Commensalibacter sp. MX01', 'Colletotrichum orchidophilum', 'Streptomyces sp. AA0539', 'Gemmata massiliana', 'Pseudoxanthomonas sp. GW2', 'Chelatococcus sp. GW1', 'Dyadobacter tibetensis Y620-1', 'Enterobacteriaceae bacterium B14', 'Acidocella sp. MX-AZ02', 'Diaporthe ampelina', 'Thermus tengchongensis YIM 77401', 'Amphibacillus jilinensis Y1', 'Clostridium bornimense', 'Acinetobacter sp. NIPH 542', 'Acinetobacter sp. NIPH 298', 'Acinetobacter sp. CIP 64.2', 'Acinetobacter sp. NIPH 1847', 'Acinetobacter sp. NIPH 3623', 'Acinetobacter sp. CIP 110321', 'Acinetobacter sp. CIP 70.18', 'Acinetobacter sp. ANC 3880', 'Acinetobacter sp. NIPH 1867', 'Acinetobacter sp. ANC 4105', 'Acinetobacter sp. NIPH 284', 'Acinetobacter sp. ANC 3862', 'Acinetobacter sp. NIPH 2168', 'Acinetobacter sp. ANC 3929', 'Acinetobacter sp. NIPH 2100', 'Acinetobacter sp. NIPH 713', 'Acinetobacter sp. NIPH 899', 'Acinetobacter sp. NIPH 236', 'Acinetobacter sp. NIPH 758', 'Acinetobacter sp. ANC 3789', 'Cupriavidus sp. BIS7', 'Roseomonas sp. B5', 'Xylona heveae TC161', 'Octadecabacter antarcticus 307', 'Streptomyces sp. GBA 94-10', 'Brucella inopinata BO1', 'Lactobacillus mellifer', 'Lactobacillus kullabergensis', 'Lactobacillus helsingborgensis', 'Lactobacillus kimbladii', 'Lactobacillus melliventris', 'Lactobacillus mellis', 'Acinetobacter nectaris CIP 110549', 'Actinomyces sp. S4-C9', 'Arcanobacterium sp. S3PF19', 'Peptostreptococcus sp. MV1', 'Methanobacterium sp. Maddingley MBC34', 'Altibacter lentus', 'Corynebacterium humireducens NBRC 106098 = DSM 45392', 'Enterobacteriaceae bacterium LSJC7', 'Mangrovibacter sp. MFB070', 'Pantoea sp. A4', 'Dickeya sp. DW 0440', 'Oscillibacter sp. KLE 1728', 'Oscillibacter sp. KLE 1745', 'Blautia sp. KLE 1732', 'Clostridium sp. KLE 1755', 'Streptomyces rapamycinicus NRRL 5491', 'Actinomyces sp. oral taxon 877 str. F0543', 'Capnocytophaga sp. oral taxon 863 str. F0517', 'Leptotrichia sp. oral taxon 879 str. F0557', 'Prevotella sp. F0091', 'Paenibacillus sp. FSL H7-689', 'Paenibacillus sp. FSL R7-277', 'Leptolyngbya sp. KIOST-1', 'Sphingobacterium deserti', 'Flavobacterium sp. WG21', 'Cupriavidus sp. GA3-3', 'Alkalibacterium sp. AK22', 'Candidatus Nitrosopumilus sediminis', 'Salimicrobium jeotgali', 'Bradyrhizobium sp. DFCI-1', 'Flaviramulus ichthyoenteri Th78', 'Lachancea sp. CBS 6924', 'Lachancea mirantina', 'Paenisporosarcina sp. TG-14', 'Nitratireductor pacificus pht-3B', 'Thermotoga sp. Mc24', 'Lactobacillus shenzhenensis LY-73', 'Clohesyomyces aquaticus', 'Desulfuromonas sp. TF', 'Corynebacterium ihumii', 'Megasphaera massiliensis', 'Nesterenkonia massiliensis', 'Nosocomiicoccus massiliensis', 'Enorma timonensis', 'Desulfobacula sp. TS', 'Clostridiales bacterium VE202-13', 'Clostridiales bacterium VE202-18', 'Clostridiales bacterium VE202-09', 'Clostridiales bacterium VE202-08', 'Clostridiales bacterium VE202-14', 'Clostridiales bacterium VE202-21', 'Marinobacterium sp. AK27', 'Geobacillus sp. GHH01', 'Chryseobacterium sp. JM1', 'Chryseobacterium sp. FH1', 'Staphylococcus sp. E463', 'Pacificimonas flava', 'Gayadomonas joobiniege G7', 'Ralstonia sp. AU12-08', 'Eubacterium sp. 14-2', 'Lachnospiraceae bacterium M18-1', 'Lachnospiraceae bacterium MD335', 'Firmicutes bacterium M10-2', 'Oscillibacter sp. 1-3', 'Dorea sp. 5-2', 'Lachnospiraceae bacterium MD308', 'Lachnospiraceae bacterium 10-1', 'Parabacteroides sp. ASF519', 'Anaerotruncus sp. G3(2012)', 'Candidatus Pantoea carbekii', 'Haloquadratum sp. J07HQX50', 'Halonotius sp. J07HN6', 'Halorubrum sp. J07HR59', 'Sodalis praecaptivus', 'Dokdonia sp. PRO95', 'Bacillus massiliogorillae', 'Luteimonas huabeiensis HB2', 'Campylobacter iguaniorum', 'Magnetospirillum caucaseum', 'Mariniradius saccharolyticus AK6', 'Lachancea lanzarotensis', 'Borreliella chilensis', 'Nocardiopsis potens DSM 45234', 'Rhizobium sp. 2MFCol3.1', 'Halobacillus sp. BAB-2008', 'Paramicrosporidium saccamoebae', 'Arsenophonus endosymbiont str. Hangzhou of Nilaparvata lugens', 'Microbacterium sp. UCD-TDU', 'Parvularcula oceani', 'Blastomonas sp. AAP53', 'Sandarakinorhabdus sp. AAP62', 'Porphyrobacter sp. AAP82', 'Candidatus Sulfuricurvum sp. RIFRC-1', 'Imhoffiella purpurea', 'Gillisia sp. Hel_I_29', 'Maribacter sp. Hel_I_7', 'Polaribacter sp. Hel1_85', 'Polaribacter sp. Hel_I_88', 'Muricauda sp. MAR_2010_75', 'Salegentibacter sp. Hel_I_6', 'Pseudomonas sp. FGI182', "Leptospirillum sp. Group IV 'UBA BS'", 'Streptomyces sp. 769', 'Phascolarctobacterium sp. CAG:207', 'Phascolarctobacterium sp. CAG:266', 'Oscillibacter ruminantium GH1', 'Edwardsiella piscicida C07-087', 'Candidatus Endolissoclinum faulkneri L2', 'Pseudomonas sp. URMO17WK12:I8', 'Streptomyces sp. PAMC 26508', 'Nafulsella turpanensis ZLM-10', 'Lysinibacillus manganicus DSM 26584', 'Thioalkalivibrio sp. ALE6', 'Thioalkalivibrio sp. ALE19', 'Thioalkalivibrio sp. AKL19', 'Frischella perrara', 'Sediminibacterium sp. C3', 'Acidobacteriaceae bacterium KBS 83', 'Acidobacteriaceae bacterium KBS 89', 'Pantoea sp. IMH', 'Pseudomonas sp. G5(2012)', 'Peptoniphilus timonensis JC401', 'Rhodococcus sp. AW25M09', 'Acidovorax sp. MR-S7', 'Thioalkalivibrio sp. ALR17-21', 'Flavobacterium sp. KJJ', 'Pedobacter sp. R20-19', 'Megasphaera sp. NM10', 'Liberibacter crescens BT-1', 'Mycobacterium sp. VKM Ac-1817D', 'Paenibacillus antibioticophila', 'Candidatus Hepatobacter penaei', 'Acidovorax sp. JHL-9', 'Escherichia sp. KTE172', 'Hippea alviniae EP5-r', 'Synechococcus sp. KORDI-100', 'Gorillibacterium massiliense', 'Butyrivibrio sp. AE2015', 'Butyrivibrio sp. VCD2006', 'Butyrivibrio sp. AE3009', 'Butyrivibrio sp. XPD2006', 'Butyrivibrio sp. FC2001', 'Butyrivibrio sp. AE3006', 'Prevotella sp. AGR2160', 'Butyrivibrio sp. WCD3002', 'Butyrivibrio sp. VCB2006', 'Butyrivibrio sp. LC3010', 'Butyrivibrio sp. WCD2001', 'Butyrivibrio sp. XBB1001', 'Butyrivibrio sp. NC3005', 'Butyrivibrio sp. MC2013', 'Meira miltonrushii', 'Hyphomonas pacifica', 'Hyphomonas sp. CY54-11-8', 'Hyphomonas beringensis', 'Hyphomonas chukchiensis', 'Hyphomonas atlantica', 'Asticcacaulis sp. AC460', 'Asticcacaulis sp. AC402', 'Asticcacaulis sp. AC466', 'Frankia sp. Iso899', 'Tolumonas lignilytica', 'Nocardioides sp. Iso805N', 'Paenibacillus sp. A9', 'Planktomarina temperata RCA23', 'Actinomyces sp. S6-Spd3', 'Tissierellia bacterium S7-1-4', 'Prevotella sp. S7-1-8', 'Pandoraea sp. SD6-2', 'Brachyspira hampsonii 30446', 'Mesorhizobium sp. L2C084A000', 'Mesorhizobium sp. LNJC398B00', 'Prevotella sp. S7 MS 2', 'Bacillus massiliosenegalensis JC6', 'Achromobacter insuavis AXX-A', 'Arcticibacter svalbardensis MN12-7', 'Streptomyces sp. CNT318', 'Streptomyces sp. TAA040', 'Anaerococcus senegalensis JC48', 'Alistipes senegalensis JC50', 'Actinomyces timonensis DSM 23838', 'Nitrosospira lacus', 'Magnetospira sp. QH-2', 'Streptomyces sp. TAA204', 'Candidatus Methanomethylophilus alvus Mx1201', 'Dietzia sp. UCD-THP', 'Kocuria sp. UCD-OTCP', 'Leucobacter sp. UCD-THU', 'Halopiger djelfimassiliensis', 'Halopiger goleimassiliensis', 'Pseudomonas sp. ATCC 13867', 'Photobacterium gaetbulicola Gung47', 'Thermodesulfobacterium geofontis OPF15', 'Parageobacillus genomosp. 1', 'Aquimarina pacifica', 'Mesorhizobium sp. STM 4661', 'Intestinimonas butyriciproducens', 'Myxococcus hansupus', 'Afipia sp. OHSU_I-C4', 'Bradyrhizobium sp. OHSU_III', 'Psychrobacter sp. JCM 18900', 'Mesorhizobium sp. URHA0056', 'Microbacterium sp. URHA0036', 'Marmoricola sp. URHB0036', 'Mycobacterium sp. URHD0025', 'Alteromonas sp. ALT199', 'Bradyrhizobium sp. URHA0002', 'Streptomyces sp. TAA486', 'Methanocaldococcus bathoardescens', 'Caldisalinibacter kiritimatiensis', 'Cellulomonas sp. KRMCY2', 'Clostridium sp. ASBs410', 'Geovibrio sp. L21-Ace-BES', 'Microbacterium sp. KROCY2', 'Oceanicola sp. HL-35', 'Marinobacter nanhaiticus D15-8W', 'Sporosarcina sp. EUR3 2.2.2', 'Alcanivorax pacificus W11-5', 'Termitomyces sp. J132', 'Streptomyces hokutonensis', 'Desulfohalovibrio reitneri', 'Salinispira pacifica', 'Arthrobacter sp. Br18', 'Arthrobacter sp. H14', 'Thermocrinis sp. GBS', 'Aureispira sp. CCB-QB1', 'Peniophora sp. CONT', 'Perkinsela sp. CCAP 1560/4', 'Streptococcus sp. HSISM1', 'Streptococcus sp. HSISB1', 'Streptococcus sp. HSISS1', 'Streptococcus sp. HSISS2', 'Streptococcus sp. HSISS3', 'Enterococcus sp. HSIEG1', 'Blattabacterium sp. (Nauphoeta cinerea)', 'Archaeoglobus sulfaticallidus PM70-1', 'Aquimarina atlantica', 'Thioclava atlantica', 'Candidatus Mycoplasma girerdii', 'Mesorhizobium sp. NBIMC_P2-C3', 'Clostridiales bacterium oral taxon 876 str. F0540', 'Mitsuokella sp. oral taxon 131 str. W9106', 'Peptostreptococcaceae bacterium oral taxon 113 str. W5053', 'Selenomonas sp. oral taxon 892 str. F0426', 'Rhodococcus defluvii', 'Mycobacterium sp. TKK-01-0059', 'Serratia sp. FS14', 'Prolemur simus', 'Thermoactinomyces daqus', 'Enterobacter sp. MGH 1', 'Enterobacter sp. MGH 3', 'Enterobacter sp. MGH 6', 'Enterobacter sp. MGH 7', 'Enterobacter sp. MGH 10', 'Enterobacter sp. MGH 15', 'Enterobacter sp. MGH 22', 'Enterobacter sp. MGH 23', 'Enterobacter sp. MGH 24', 'Enterobacter sp. MGH 25', 'Enterobacter sp. MGH 33', 'Enterobacter sp. MGH 37', 'Enterobacter sp. MGH 38', 'Enterobacter sp. BWH 37', 'Enterobacter sp. BIDMC 26', 'Enterobacter sp. BIDMC 27', 'Enterobacter sp. BIDMC 28', 'Enterobacter sp. BIDMC 29', 'Enterobacter sp. BIDMC 30', 'Novosphingobium lindaniclasticum LE124', 'Cycloclasticus zancles 78-ME', 'Thermus caliditerrae', 'Auricularia subglabra TFB-10046 SS5', 'Sphingobium baderi LL03', 'Candidatus Saccharimonas aalborgensis', 'Salinarchaeum sp. Harcht-Bsk1', 'Bifidobacterium moukalabense DSM 27321', 'Tepidicaulis marinus', 'Spiribacter salinus M19-40', 'Spiribacter curvatus', 'Sphingobium bisphenolivorans', 'Polaribacter sp. Hel1_33_49', 'Calothrix sp. 336/3', 'Bacillus sp. UNC438CL73TsuS30', 'Luminiphilus syltensis NOR5-1B', 'Flavobacterium enshiense DK69', 'Brucella sp. 04-5288', 'Sulfitobacter geojensis', 'Sulfitobacter noctilucicola', 'Sulfitobacter noctilucae', 'Saccharibacter sp. AM169', 'Epichloe mollis', 'Winogradskyella psychrotolerans RS-3', 'Halomonas sp. A3H3', 'Bacillus sp. EB01', 'Paucisalibacillus sp. EB02', 'Bacillus ndiopicus', 'Bacillus dielmoensis', 'Anaerosalibacter massiliensis', 'Bacteroides neonati', 'Pseudoalteromonas piratica', 'Arthrobacter sp. AK-YN10', 'Cyclobacterium qasimii M12-11B', 'Synechococcus sp. UTEX 2973', 'Thioclava indica', 'Bacteriovorax sp. BSW11_IV', 'Peptoniphilus mikwangii', 'Roseovarius sp. MCTG156(2b)', 'Arcobacter sp. AF1028', 'Arcobacter lanthieri', 'Bradyrhizobium diazoefficiens USDA 110', 'Rhodococcus sp. PML026', 'Hymenobacter sp. APR13', 'Batrachochytrium salamandrivorans', 'Lutibaculum baratangense AMV1', 'Thermofilum adornatum', 'Zygosaccharomyces parabailii', 'Rhodobacteraceae bacterium HIMB11', 'Fonsecaea erecta', 'Mycobacterium sp. UM_WGJ', 'Mycobacterium sp. UM_WWY', 'Firmicutes bacterium ASF500', 'Dyella jiangningensis', 'Gemmatimonas phototrophica', 'Desulfonauticus sp. A7A', 'Sphingomonas sp. FUKUSWIS1', 'Methanobacterium sp. MB1', 'Spirosoma radiotolerans', 'Streptomyces sp. URHA0041', 'Geodermatophilaceae bacterium URHB0048', 'Mesorhizobium sp. URHC0008', 'Cellulomonas sp. URHE0023', 'Bradyrhizobium sp. URHD0069', 'Blastococcus sp. URHD0036', 'Halomonas sp. 23_GOM-1509m', 'Sulfitobacter sp. 20_GPM-1509m', 'Intrasporangiaceae bacterium URHB0013', 'Ahrensia sp. 13_GOM-1096m', 'Tenacibaculum sp. 47A_GOM-205m', 'Mycobacterium sp. URHB0044', 'Alcanivorax sp. 43B_GOM-46m', 'Solirubrobacterales bacterium URHD0059', 'Dongia sp. URHE0060', 'Geodermatophilaceae bacterium URHA0031', 'Rhodospirillales bacterium URHD0088', 'Paenibacillus darwinianus', 'Streptomycetaceae bacterium MP113-05', 'Aliihoeflea sp. 2WW', 'Brevibacterium sp. VCM10', 'Caulobacteraceae bacterium PMMR1', 'Sporosarcina sp. D27', 'Thermogemmatispora carboxidivorans', 'Thermorudis peleae', 'Acidobacterium ailaaui', 'Methyloceanibacter caenitepidi', 'Francisella sp. W12-1067', 'Lysobacter arseniciresistens ZS79', 'Hymenobacter sp. DG25B', 'Leptolyngbya sp. Heron Island J', 'Exiguobacterium chiriqhucha RW-2', 'Sphingobacterium paucimobilis HER1398', 'Methylophilus sp. OH31', 'Staphylococcus sp. M0480', 'Clostridium sp. Ade.TY', 'Pseudogymnoascus sp. VKM F-3808', 'Kalmanozyma brasiliensis', 'Prevotella sp. HUN102', 'Eubacterium sp. AB3007', 'Flavimarina sp. Hel_I_48', 'Leeuwenhoekiella sp. MAR_2009_132', 'Sediminibacter sp. Hel_I_10', 'Ruminococcaceae bacterium AE2021', 'Lachnospiraceae bacterium AC2031', 'Bifidobacterium sp. 7101', 'Bifidobacterium sp. A11', 'Candidatus Saccharibacteria bacterium RAAC3_TM7_1', 'Thermosynechococcus sp. NK55a', 'Paenibacillus sp. MAEPY2', 'Haloferula sp. BvORR071', 'Verrucomicrobium sp. BvORR034', 'Marinobacter sp. ES-1', 'Leucobacter sp. PH1c', 'Serratia sp. H1n', 'Alcanivorax sp. P2S70', 'Halomonas sp. PBN3', 'Candidatus Micropelagos thuwalensis', 'Exiguobacterium sp. MH3', 'Ophiocordyceps australis', 'Bacteroidales bacterium CF', 'Flavobacterium limnosediminis JC2902', 'Sulfitobacter pseudonitzschiae', 'Streptomyces sp. A02', 'Verrucomicrobium sp. BvORR106', 'Corynebacterium glyciniphilum AJ 3170', 'Candidatus Methanomassiliicoccus intestinalis Issoire-Mx1', 'Synechococcus sp. NKBG15041c', 'Betaproteobacteria bacterium MOLA814', 'Bacillus sp. MB2021', 'Butyrivibrio sp. FCS014', 'Butyrivibrio sp. MC2021', 'Prevotella sp. MA2016', 'Oribacterium sp. FC2011', 'Pseudobutyrivibrio sp. LB2011', 'Lachnospiraceae bacterium AC2028', 'Lachnospiraceae bacterium AC3007', 'Lachnospiraceae bacterium MA2020', 'Lachnospiraceae bacterium MC2017', 'Youngiibacter fragilis 232.1', 'Candidatus Tachikawaea gelatinosa', 'Candidatus Nitrosopelagicus brevis', 'Bacteroides sp. Ga6A2', 'Treponema sp. C6A8', 'Oribacterium sp. P6A1', 'Prevotella sp. P6B1', 'Pseudobutyrivibrio sp. MD2005', 'Ruminococcus sp. FC2018', 'Selenomonas sp. ND2010', 'Serratia sp. DD3', 'Shinella sp. DD12', 'Lachnospiraceae bacterium C6A11', 'Lachnospiraceae bacterium FE2018', 'Lachnospiraceae bacterium MD2004', 'Lachnospiraceae bacterium NC2004', 'Lachnospiraceae bacterium ND2006', 'Lachnospiraceae bacterium P6A3', 'Lachnospiraceae bacterium P6B14', 'Lachnospiraceae bacterium V9D3004', 'Lachnospiraceae bacterium YSB2008', 'Propionibacteriaceae bacterium P6A17', 'Ruminococcaceae bacterium AB4001', 'Methyloglobulus morosus KoM1', 'Rhizobiales bacterium YIM 77505', 'Gammaproteobacteria bacterium MOLA455', 'Corynebacterium jeddahense', 'Clostridium saudiense', 'Pseudomonas sp. TKP', 'Candidatus Walczuchella monophlebidarum', 'Marinobacter sp. MCTG268', 'Halomonas sp. TG39a', 'Oceanicola sp. MCTG156(1a)', 'Gloeobacter kilaueensis JS1', 'Defluviimonas sp. 20V17', 'Streptococcus sp. VT 162', 'Pseudogymnoascus sp. VKM F-3775', 'Pseudogymnoascus sp. VKM F-4246', 'Pseudogymnoascus sp. VKM F-4281 (FW-2241)', 'Pseudogymnoascus sp. VKM F-4513 (FW-928)', 'Pseudogymnoascus sp. VKM F-4514 (FW-929)', 'Pseudogymnoascus sp. VKM F-4515 (FW-2607)', 'Pseudogymnoascus sp. VKM F-4516 (FW-969)', 'Pseudogymnoascus sp. VKM F-4517 (FW-2822)', 'Pseudogymnoascus sp. VKM F-103', 'Pseudogymnoascus sp. VKM F-4518 (FW-2643)', 'Pseudogymnoascus sp. VKM F-4519 (FW-2642)', 'Pseudogymnoascus sp. VKM F-4520 (FW-2644)', 'Marinobacter similis', 'Marinobacter salarius', 'Kurthia huakuii LAM0618', 'Bacillus sp. SJS', 'Hyphomicrobium nitrativorans NL23', 'Candidatus Entotheonella factor', 'Candidatus Entotheonella gemina', 'Afipia sp. P52-10', 'Geobacillus icigianus', 'Candidatus Halobonum tyrrellensis G22', 'Mannheimia sp. USDA-ARS-USMARC-1261', 'Mucinivorans hirudinis', 'Methanosarcina sp. Kolksee', 'Methanosarcina sp. MTP4', 'Methanosarcina sp. WH1', 'Methanosarcina sp. WWM596', 'Acinetobacter bohemicus ANC 3994', 'Alcanivorax sp. 97CO-5', 'Candidatus Symbiobacter mobilis CR', 'Pseudogymnoascus sp. VKM F-3557', 'Citrobacter sp. MGH 55', 'Pseudomonas sp. BAY1663', 'Talaromyces atroroseus', 'Clostridium sp. K25', 'Aquimarina megaterium XH134', 'Candidatus Protochlamydia massiliensis', 'Candidatus Rubidus massiliensis', 'Xylella taiwanensis', 'Gynuella sunshinyii YC6258', 'Sciscionella sp. SE31', 'Hymenobacter swuensis DY53', 'Bacillus sp. Pc3', 'Campylobacter corcagiensis', 'Halobellus rufus', 'Arthrobacter sp. UNC362MFTsu5.1', 'Mycobacterium sp. UNC280MFTsu5.1', 'Caulobacter sp. UNC358MFTsu5.1', 'Clostridium sp. KNHs205', 'Microbacterium sp. UNCCL10', 'Paenibacillus sp. UNC451MF', 'Phyllobacterium sp. UNC302MFCol5.2', 'Rhodococcus sp. UNC23MFCrub1.1', 'Rhodococcus sp. UNC363MFTsu5.1', 'Sphingomonas sp. UNC305MFCol5.2', 'Thermus amyloliquefaciens', 'Bacillus sp. TS-2', 'Microbacterium sp. MRS-1', 'Microbacterium sp. Cr-K32', 'Microbacterium sp. Cr-K20', 'Pseudomonas sp. RL', 'Chryseobacterium hispalense DSM 25574', 'Microbulbifer sp. HZ11', 'Candidatus Accumulibacter sp. BA-93', 'Cellulomonas sp. HZM', 'Chlamydia avium 10DC88', 'Chlamydia gallinacea 08-1274/3', 'Halapricum salinum', 'Caballeronia jiangsuensis', 'Serpentinomonas raichei', 'Serpentinomonas mccroryi', 'Candidatus Phaeomarinobacter ectocarpi', 'Lachnospiraceae bacterium AC2029', 'Candidatus Nitrososphaera evergladensis SR1', 'Geomicrobium sp. JCM 19037', 'Geomicrobium sp. JCM 19038', 'Bacillus sp. JCM 19046', 'Paraphaeosphaeria sporulosa', 'Weeksella massiliensis', 'Haemophilus massiliensis', 'Neobacillus jeddahensis', 'Jeotgalicoccus saudimassiliensis', 'Metalysinibacillus saudimassiliensis', 'Actibacterium atlanticum', 'Pseudooceanicola atlanticus', 'Pseudoalteromonas sp. SCSIO_11900', 'Virgibacillus massiliensis', 'Oceanobacillus jeddahense', 'Brucella papionis', 'Klebsiella quasipneumoniae subsp. quasipneumoniae UCICRE 14', 'Actinosporangium sp. NRRL B-3428', 'Glycomyces sp. NRRL B-16210', 'Saccharothrix sp. NRRL B-16314', 'Streptomyces sp. NRRL F-2580', 'Streptomyces sp. NRRL F-2890', 'Streptomyces sp. NRRL F-5008', 'Streptomyces sp. NRRL F-5053', 'Streptomyces sp. NRRL F-5065', 'Streptomyces sp. NRRL F-5123', 'Streptomyces sp. NRRL F-5126', 'Streptomyces sp. NRRL F-5135', 'Streptomyces sp. NRRL F-525', 'Streptomyces sp. NRRL F-5630', 'Streptomyces sp. NRRL F-6677', 'Streptomyces sp. NRRL S-118', 'Streptomyces sp. NRRL S-149', 'Streptomyces sp. NRRL S-1777', 'Streptomyces sp. NRRL S-237', 'Streptomyces sp. NRRL S-337', 'Streptomyces sp. NRRL S-340', 'Streptomyces sp. NRRL S-37', 'Streptomyces sp. NRRL S-474', 'Streptomyces sp. NRRL S-646', 'Streptomyces sp. NRRL S-87', 'Streptomyces sp. NRRL S-920', 'Streptomyces sp. NRRL WC-3626', 'Streptomyces sp. NRRL WC-3742', 'Streptomyces sp. NRRL WC-3773', 'Micromonospora parva', 'Aeromicrobium massiliense JC14', 'Peptoniphilus grossensis ph5', 'Peptoniphilus senegalensis JC140', "Oceanobacillus massiliensis str. N'diop", 'Paenibacillus senegalensis JC66', 'Clostridium senegalense JC122', 'Cellulomonas massiliensis JC225', 'Noviherbaspirillum massiliense JC206', 'Timonella senegalensis JC301', 'Burkholderia sp. 2002721687', 'Bacillus massilioanorexius AP8', 'Bartonella senegalensis OS02', 'Holdemania massiliensis AP2', 'Thioalkalivibrio sp. HK1', 'Burkholderiales bacterium GJ-E10', 'Lacinutrix jangbogonensis', 'Rhodovulum sp. NI22', 'Kineothrix alysoides', 'Alistipes ihumii AP11', 'Candidatus Stoquefichus massiliensis AP9', 'Clostridium ihumii AP5', 'Candidatus Blastococcus massiliensis AP3', 'Streptomyces sp. Tu 6176', 'Sphingomonas sp. RIT328', 'Pseudomonas sp. RIT357', 'Prochlorococcus sp. scB241_528O2', 'Prochlorococcus sp. scB245a_520K10', 'Talaromyces cellulolyticus', 'Basilea psittacipulmonis DSM 24701', 'Falsirhodobacter sp. alg1', 'Burkholderia sp. K24', 'Enorma massiliensis phI', 'Kallipyga massiliensis ph2', 'Senegalimassilia anaerobia JC110', 'Lysinibacillus sp. BF-4', 'Mizugakiibacter sediminis', 'Deinococcus phoenicis', 'Streptomyces sp. NRRL B-24720', 'Peptostreptococcaceae bacterium VA2', 'Halomonas sp. HL-48', 'Marinobacter sp. HL-58', 'Oceanicaulis sp. HL-87', 'Porphyrobacter sp. HL-46', 'Curtobacterium sp. S6', 'Spirochaeta lutea', 'Pantoea sp. PSNIH2', 'Pantoea sp. PSNIH1', 'Psychroserpens jangbogonensis', 'Exiguobacterium sp. AB2', 'Rhodoferax saidenbachensis ED16', 'Cadophora sp. DSE1049', 'Selenomonas sp. AE3005', 'Ferriphaselus sp. R-1', 'Ghiorsea bivora', 'Mitosporidium daphniae', 'Martelella endophytica', 'Candidatus Sodalis pierantonius str. SOPE', 'Clostridium sp. HMP27', 'Desulfosporosinus sp. HMP52', 'Corynebacterium sp. ATCC 6931', 'Pseudomonas sp. Ant30-3', 'Deinococcus sp. RL', 'Trichoderma guizhouense', 'Flavobacterium gilvum', 'Flavobacterium seoulense', 'Gammaproteobacteria bacterium MFB021', 'Arthrobacter sp. PAMC 25486', 'Mesoaciditoga lauensis cd-1655R = DSM 25116', 'Pseudomonas sp. WCS374', 'Penicillium cf. griseofulvum UFMGCB 6741', 'Candidatus Evansia muelleri', 'Cyanobium sp. CACIAM 14', 'Listeriaceae bacterium FSL A5-0209', 'Prochlorococcus sp. MIT 0601', 'Prochlorococcus sp. MIT 0602', 'Prochlorococcus sp. MIT 0701', 'Bacillus rubiinfantis', 'Clostridium sp. CL-6', 'Clostridium sp. CL-2', 'Bacillus andreraoultii', 'Pseudomonas saudiphocaensis', 'Clostridium amazonitimonense', 'Candidatus Moduliflexus flocculans', 'Candidatus Vecturithrix granuli', 'Paenibacillus sp. TCA20', 'Rhizobium sp. YR295', 'Rhizobium sp. YR519', 'Chryseobacterium sp. CF284', 'Rhizobium sp. CF097', 'Rhizobium sp. CF394', 'Rhizobium sp. OK494', 'Luteibacter sp. 9143', 'Luteibacter sp. 9135', 'Massilia sp. 9096', 'Burkholderia sp. 9120', 'Campylobacter sp. RM16704', 'Paenibacillus tyrfis', 'Prochlorococcus sp. MIT 0604', 'Prochlorococcus sp. MIT 0801', 'Oribacterium parvum ACB8', 'Oribacterium asaccharolyticum ACB7', 'Alistipes inops', 'Devosia sp. LC5', 'Methylotenera sp. L2L1', 'Pseudomonas sp. AAC', 'Sphingopyxis sp. LC81', 'Bosea sp. LC85', 'Massilia sp. LC238', 'Veillonella seminalis ACS-216-V-Col6b', 'Polaromonas sp. CG9_12', 'Halomonas sp. KO116', 'Chitinivibrio alkaliphilus ACht1', 'Blochmannia endosymbiont of Polyrhachis (Hedomyrma) turneri', 'Blochmannia endosymbiont of Camponotus (Colobopsis) obliquus', 'Candidatus Schmidhempelia bombi str. Bimp', 'Thermococcus eurythermalis', 'Flavobacterium sp. Fl', 'Butyrivibrio sp. AE3004', 'Rachicladosporium antarcticum', 'Jeotgalibacillus malaysiensis', 'Candidatus Arthromitus sp. SFB-mouse-NL', 'Acinetobacter sp. HR7', 'Pseudorhizobium pelagicum', 'Candidatus Nitrosopumilus koreensis AR1', 'Bosea sp. UNC402CLCol', 'Ruminococcus sp. HUN007', 'Sphingopyxis fribergensis', 'Porphyromonas sp. COT-239 OH1446', 'Porphyromonas sp. COT-290 OH860', 'Shewanella mangrovi', 'Idiomarina atlantica', 'Vibrio sp. ER1A', 'Porphyromonadaceae bacterium COT-184 OH4590', 'Anopheles coluzzii', 'Oscillibacter sp. ER4', 'Candidatus Thermochlorobacteriaceae bacterium GBChlB', 'Chloroflexus sp. MS-G', 'Sphingobium sp. ba1', 'Ceraceosorus guamensis', 'Pseudomonas sp. ML96', 'Serratia sp. Ag1', 'Planococcus sp. PAMC 21323', 'Rickettsiales bacterium Ac37b', 'Thalassospira australica', 'Acinetobacter seifertii', 'Palleronia rufa', 'Coriobacteriaceae bacterium 68-1-3', 'Torrubiella hemipterigena', 'Achromobacter sp. RTa', 'Rhizobium sp. YS-1r', 'Devosia sp. 17-2-E-8', 'Thalassotalea sp. ND16A', 'Paenibacillus sp. FSL P4-0081', 'Paenibacillus sp. FSL R5-0345', 'Paenibacillus sp. FSL R5-0912', 'Paenibacillus sp. FSL R7-0273', 'Paenibacillus sp. FSL R7-0331', 'Paenibacillus sp. FSL H7-0357', 'Paenibacillus sp. FSL H7-0737', 'Sphingopyxis sp. MWB1', 'Sulfurospirillum sp. SCADC', 'Sulfuricurvum sp. MLSB', 'Alteromonas sp. LOR', 'Micromonospora sp. HK10', 'Aquabacterium sp. NJ1', 'Sphingobacterium sp. ML3W', 'Treponema sp. OMZ 838', 'Deinococcus sp. YIM 77859', 'Clostridium sp. KNHs214', 'Myxosarcina sp. GI1', 'Candidatus Izimaplasma sp. HR1', 'Candidatus Izimaplasma sp. HR2', 'Oleiagrimonas soli', 'Lactobacillus sp. wkB10', 'Lactobacillus sp. wkB8', 'Sphingomonas sp. 35-24ZXX', 'Hoeflea sp. BAL378', 'Francisella sp. FSC1006', 'Helicobacter sp. MIT 11-5569', 'Campylobacter sp. MIT 97-5078', 'Sphingomonas taxi', 'Sphingomonas sp. 37zxx', 'Sphingobacteriaceae bacterium DW12', 'Thermofilum uzonense', 'Listeria booriae', 'Caenorhabditis tropicalis', 'Fermentimonas caenicola', 'Rhodococcus sp. B7740', 'Shewanella sp. ECSMB14101', 'Sulfurospirillum sp. MES', 'Rugosibacter aromaticivorans', 'Bacillus sp. X1(2014)', 'Paenibacillus sp. IHBB 10380', 'Paracoccus sp. PAMC 22219', 'Phaeobacter sp. S60', 'Jaminaea rosea', 'Bacillus sp. BH072', 'Bacillus sp. YP1', 'Candidatus Methanoplasma termitum', 'Dickeya undicola', 'Nitrosopumilus adriaticus', 'Pseudomonas sp. HMSC05H02', 'Neisseria sp. HMSC06F02', 'Candidatus Methylopumilus planktonicus', 'Nitrosopumilus piranensis', 'Fusobacterium hwasookii ChDC F128', 'Myroides sp. A21', 'Agrobacterium arsenijevicii', 'Pseudomonas sp. 10B238', 'Haloarcula sp. CBA1115', 'Enterobacteriaceae bacterium ATCC 29904', 'Candidatus Nitrosotenuis cloacae', 'Halanaeroarchaeum sulfurireducens', 'Sinocyclocheilus anshuiensis', 'Candidatus Filomicrobium marinum', 'Sphingomonas hengshuiensis', 'Pseudomonas sp. MRSN12121', 'Vibrio sp. S234-5', 'Psychromicrobium lacuslunae', 'Bacillus sp. LM 4-2', 'Sulfuricella sp. T08', 'Verrucomicrobia bacterium IMCC26134', 'Chania multitudinisentens RB-25', 'Bacillus paralicheniformis ATCC 9945a', 'Metarhizium rileyi RCEF 4871', 'Metarhizium majus ARSEF 297', 'Blattabacterium cuenoti BPAA', 'Lachancea quebecensis', 'Emmonsia sp. CAC-2015a', 'Blastomyces percursus', 'Phialophora attinorum', 'Violaceomyces palustris', 'Paramormyrops kingsleyae', 'Blastomyces gilchristii SLH14081', 'Pseudomicrostroma glucosiphilum', 'Wallemia mellicola CBS 633.66', 'Baudoinia panamericana UAMH 10762', 'Leucoagaricus sp. SymC.cos', 'Pezoloma ericae', 'Neocallimastix californiae', 'Piromyces finnis', 'Anaeromyces robustus', 'Mesorhizobium erdmanii USDA 3471', 'Nematocida displodere', 'Enterobacter roggenkampii EC_38VIM1', 'Edwardsiella anguillarum ET080813', 'Gopherus evgoodei', 'Dacryopinax primogenitus', 'Cryptococcus gattii VGII LA55', 'Cryptococcus gattii VGIV IND107', 'Amphiamblys sp. WSBS2006', 'Carlito syrichta', 'Pseudocercospora fijiensis CIRAD86', 'Testicularia cyperi', 'Xanthomonas cannabis pv. phaseoli', 'Planoprotostelium fungivorum', 'Fortiea contorta PCC 7126', 'Pectobacterium parmentieri WPP163', 'Geobacillus genomosp. 3', 'Bifiguratus adelaidae', 'Emergomyces pasteurianus Ep9510', 'Dinothrombium tinctorium', 'Rachicladosporium sp. CCFEE 5018', 'Xanthomonas phaseoli pv. phaseoli', 'Cordyceps sp. RAO-2017', 'Ophiocordyceps camponoti-rufipedis', 'Ooceraea biroi', 'Malassezia vespertilionis', 'Coniella lustricola', 'Globisporangium ultimum DAOM BR144', 'Blastomyces silverae', 'Mesorhizobium japonicum MAFF 303099', 'Rutstroemia sp. NJR-2017a WRK4', 'Rutstroemia sp. NJR-2017a BVV2', 'Rutstroemia sp. NJR-2017a BBW', 'Cervus hanglu yarkandensis', 'Lactobacillus paragasseri JV-V03', 'Photorhabdus laumondii subsp. laumondii TTO1', 'Pyrrhoderma noxium', 'Hondaea fermentalgiana', 'Yamadazyma tenuis ATCC 10573', 'Hyaloscypha bicolor E', 'Hyaloscypha variabilis F', 'Nothophytophthora sp. Chile5', 'Strigops habroptila', 'Fusarium odoratissimum NRRL 54006', 'Gloeothece citriformis PCC 7424', 'Gloeothece verrucosa PCC 7822', 'Crocosphaera subtropica ATCC 51142', 'Crocosphaera chwakensis CCY0110', 'Rippkaea orientalis PCC 8802', 'Thermothielavioides terrestris NRRL 8126', 'Podospora anserina S mat+', 'Dacryopinax sp. DJM 731 SSP-1', 'Akanthomyces lecanii RCEF 1005', 'Fusarium vanettenii 77-13-4']], map_from_organism: Union[Literal['auto'], str, int, Literal['Azorhizobium caulinodans ORS 571', 'Buchnera aphidicola str. G002 (Myzus persicae)', 'Cellulomonas gilvus ATCC 13127', 'Dictyoglomus thermophilum H-6-12', 'Methylophilus methylotrophus DSM 46235 = ATCC 53528', 'Pelobacter carbinolicus DSM 2380', 'Shewanella putrefaciens CN-32', 'Myxococcus fulvus HW-1', 'Myxococcus xanthus DK 1622', 'Stigmatella aurantiaca DW4/3-1', 'Cystobacter fuscus DSM 2262', 'Chondromyces apiculatus DSM 436', 'Sorangium cellulosum So0157-2', 'Vitreoscilla stercoraria DSM 513', 'Herpetosiphon aurantiacus DSM 785', 'Simonsiella muelleri ATCC 29453', 'Hyphomonas jannaschiana VP2', 'Flectobacillus major DSM 103', 'Cyclobacterium marinum DSM 745', 'Runella slithyformis DSM 19594', 'Spirosoma linguale DSM 74', 'Rubinisphaera brasiliensis DSM 5305', 'Planctopirus limnophila DSM 3776', 'Gimesia maris DSM 8797', 'Blastopirellula marina DSM 3645', 'Pirellula staleyi DSM 6068', 'Isosphaera pallida ATCC 43644', 'Methylocystis parvus OBBP', 'Borreliella burgdorferi B31', 'Borrelia hermsii DAH', 'Borrelia parkeri SLO', 'Borrelia turicatae 91E135', 'Borrelia anserina BA2', 'Sediminispirochaeta bajacaliforniensis DSM 16054', 'Spirochaeta thermophila DSM 6192', 'Treponema denticola ATCC 35405', 'Brachyspira hyodysenteriae WA1', 'Treponema pallidum subsp. pallidum str. Nichols', 'Treponema phagedenis F0421', 'Treponema bryantii NK4A124', 'Treponema saccharophilum DSM 2985', 'Treponema succinifaciens DSM 2489', "Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'", 'Leptospira interrogans serovar Lai str. 56601', 'Leptospira borgpetersenii serovar Hardjo-bovis str. L550', 'Leptospirillum ferrooxidans C2-3', 'Leptonema illini DSM 21528', 'Novispirillum itersonii subsp. itersonii ATCC 12639', 'Aquaspirillum serpens DSM 68', 'Azospirillum sp. B510', 'Campylobacter coli 76339', 'Campylobacter fetus subsp. venerealis NCTC 10354', 'Campylobacter jejuni subsp. jejuni 414', 'Campylobacter concisus 13826', 'Campylobacter curvus 525.92', 'Campylobacter lari RM2100', 'Campylobacter rectus RM3267', 'Campylobacter showae CSUNSWCD', 'Campylobacter sputorum biovar sputorum', 'Helicobacter pylori 26695', 'Helicobacter acinonychis str. Sheeba', 'Helicobacter cinaedi CCUG 18818 = ATCC BAA-847', 'Helicobacter felis ATCC 49179', 'Helicobacter fennelliae MRY12-0050', 'Helicobacter mustelae 12198', 'Pseudoalteromonas haloplanktis ATCC 14393', 'Brucella abortus 2308', 'Brucella ovis ATCC 25840', 'Elizabethkingia meningoseptica ATCC 13253 = NBRC 12535', 'Flavobacterium aquatile LMG 4008 = ATCC 11947', 'Empedobacter brevis NBRC 14943 = ATCC 43319', 'Chryseobacterium gleum ATCC 35910', 'Psychroflexus gondwanensis ACAM 44', 'Chryseobacterium indologenes NBRC 14944', 'Myroides odoratus DSM 2801', 'Sphingobacterium spiritivorum ATCC 33861', 'Francisella cf. tularensis subsp. novicida 3523', 'Paracoccus denitrificans PD1222', 'Thermus aquaticus Y51MC23', 'Thermus thermophilus HB8', 'Meiothermus ruber DSM 1279', 'Xanthobacter autotrophicus Py2', 'Comamonas testosteroni KF-1', 'Pseudomonas aeruginosa PAO1', 'Pseudoalteromonas atlantica T6c', 'Burkholderia cepacia', 'Brevundimonas diminuta 470-4', 'Pseudomonas fluorescens NCIMB 11764', 'Pseudomonas fragi B25', 'Pseudomonas mendocina NK-01', 'Pseudomonas pseudoalcaligenes AD6', 'Pseudomonas putida KT2440', 'Ralstonia solanacearum GMI1000', 'Pseudomonas stutzeri MF28', 'Pseudomonas syringae pv. syringae B728a', 'Ralstonia pickettii DTP0602', 'Burkholderia glumae BGR1', 'Xanthomonas campestris pv. campestris', 'Xanthomonas translucens DAR61454', 'Xanthomonas citri pv. citri str. 306', 'Xanthomonas oryzae pv. oryzae PXO99A', 'Azotobacter chroococcum NCIMB 8003', 'Azotobacter vinelandii DJ', 'Agrobacterium radiobacter K84', 'Agrobacterium rhizogenes', 'Agrobacterium vitis S4', 'Bradyrhizobium japonicum', 'Sinorhizobium fredii USDA 257', 'Mesorhizobium loti CJ3sym', 'Sinorhizobium meliloti 1021', 'Rhizobium leguminosarum bv. viciae GB30', 'Rhizobium tropici CIAT 899', 'Neorhizobium galegae bv. orientalis str. HAMBI 540', 'Methylobacillus flagellatus KT', 'Methylobacillus glycogenes JCM 2850', 'Methylorubrum extorquens AM1', 'Methylococcus capsulatus str. Bath', 'Methylomonas methanica MC09', 'Methylosinus trichosporium OB3b', 'Acetobacter aceti ATCC 23746', 'Komagataeibacter hansenii ATCC 23769', 'Acetobacter pasteurianus 3P3', 'Gluconobacter oxydans H24', 'Legionella pneumophila str. Paris', 'Legionella hackeliae', 'Legionella longbeachae NSW150', 'Tatlockia micdadei', 'Fluoribacter dumoffii NY 23', 'Acinetobacter baumannii', 'Acinetobacter calcoaceticus ANC 3680', 'Moraxella catarrhalis O35E', 'Neisseria cinerea ATCC 14685', 'Neisseria flavescens NRL30031/H210', 'Neisseria gonorrhoeae NCCP11945', 'Neisseria lactamica 020-06', 'Neisseria meningitidis MC58', 'Neisseria mucosa ATCC 25996', 'Neisseria polysaccharea ATCC 43768', 'Neisseria sicca ATCC 29256', 'Neisseria elongata subsp. glycolytica ATCC 29315', 'Neisseria macacae ATCC 33926', 'Thermomicrobium roseum DSM 5159', 'Kingella denitrificans ATCC 33394', 'Kingella kingae ATCC 23330', 'Kingella oralis ATCC 51147', 'Alcaligenes faecalis', 'Bordetella bronchiseptica RB50', 'Bordetella parapertussis Bpp5', 'Bordetella pertussis Tohama I', 'Bordetella avium 197N', 'Acidiphilium angustum ATCC 35903', 'Acidiphilium cryptum JF-5', 'Acidocella facilis ATCC 35904', 'Ochrobactrum anthropi ATCC 49188', 'Polaribacter irgensii 23-P', 'Beijerinckia indica subsp. indica ATCC 9039', 'Chromobacterium violaceum ATCC 12472', 'Eikenella corrodens ATCC 23834', 'Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821', 'Citrobacter koseri ATCC BAA-895', 'Citrobacter freundii MGH 56', 'Klebsiella aerogenes KCTC 2190', 'Pantoea agglomerans', 'Enterobacter cloacae subsp. cloacae ATCC 13047', 'Erwinia amylovora CFBP1430', 'Pantoea ananatis LMG 20103', 'Pectobacterium carotovorum subsp. carotovorum PC1', 'Dickeya chrysanthemi Ech1591', 'Escherichia coli K-12', 'Shimwellia blattae DSM 4481 = NBRC 105725', 'Escherichia fergusonii B253', 'Atlantibacter hermannii NBRC 105704', 'Pseudescherichia vulneris NBRC 102420', 'Hafnia alvei FB1', 'Klebsiella oxytoca', 'Klebsiella pneumoniae', 'Morganella morganii subsp. morganii KT', 'Proteus mirabilis HI4320', 'Proteus vulgaris', 'Providencia rettgeri DSM 1131', 'Providencia stuartii ATCC 25827', 'Serratia liquefaciens ATCC 27592', 'Serratia marcescens subsp. marcescens Db11', 'Serratia odorifera DSM 4582', 'Shigella boydii CDC 3083-94', 'Shigella dysenteriae 1617', 'Shigella flexneri 2a str. 301', 'Shigella sonnei Ss046', 'Xenorhabdus nematophila ATCC 19061', 'Yersinia enterocolitica LC20', 'Yersinia intermedia ATCC 29909', 'Yersinia pestis CO92', 'Yersinia pseudotuberculosis', 'Edwardsiella tarda ATCC 15947 = NBRC 105688', 'Aeromonas hydrophila subsp. hydrophila ATCC 7966', 'Aeromonas salmonicida subsp. salmonicida A449', 'Aeromonas media WS', 'Aeromonas veronii B565', 'Photobacterium phosphoreum ANT-2200', 'Photobacterium angustum S14', 'Vibrio alginolyticus NBRC 15630 = ATCC 17749', 'Vibrio cholerae O395', 'Aliivibrio fischeri ES114', 'Vibrio parahaemolyticus RIMD 2210633', 'Vibrio proteolyticus NBRC 13287', 'Vibrio vulnificus', 'Grimontia hollisae CIP 101886', 'Vibrio mimicus MB451', 'Vibrio campbellii ATCC BAA-1116', 'Vibrio diazotrophicus NBRC 103148', 'Plesiomonas shigelloides 302-73', 'Aggregatibacter actinomycetemcomitans HK1651', 'Actinobacillus pleuropneumoniae serovar 1 str. 4074', 'Actinobacillus suis H91-0380', 'Actinobacillus capsulatus DSM 19761', 'Actinobacillus equuli subsp. equuli', 'Actinobacillus ureae ATCC 25976', 'Haemophilus haemolyticus M21639', 'Haemophilus influenzae Rd KW20', 'Avibacterium paragallinarum 221', 'Haemophilus parainfluenzae T3T1', 'Histophilus somni 129PT', 'Aggregatibacter aphrophilus NJ8700', 'Haemophilus paraphrohaemolyticus HK411', 'Glaesserella parasuis ZJ0906', 'Aggregatibacter segnis ATCC 33393', 'Pasteurella multocida', 'Gallibacterium anatis UMN179', 'Pasteurella bettyae CCUG 2042', 'Pasteurella dagmatis ATCC 43325', 'Rodentibacter pneumotropicus', 'Anaplasma centrale str. Israel', 'Anaplasma marginale str. St. Maries', 'Bartonella bacilliformis KC583', 'Coxiella burnetii RSA 493', 'Ehrlichia ruminantium str. Welgevonden', 'Rickettsia conorii str. Malish 7', 'Rickettsia prowazekii str. Madrid E', 'Rickettsia rickettsii str. Iowa', 'Orientia tsutsugamushi str. Boryong', 'Rickettsia typhi str. Wilmington', 'Rickettsia akari str. Hartford', 'Rickettsia australis str. Cutlack', 'Rickettsia canadensis str. McKiel', 'Bartonella quintana str. Toulouse', 'Bartonella elizabethae F9251 = ATCC 49927', 'Chlamydia trachomatis D/UW-3/CX', 'Bacteroides fragilis 3_1_12', 'Bacteroides thetaiotaomicron VPI-5482', 'Bacteroides uniformis ATCC 8492', 'Bacteroides vulgatus ATCC 8482', 'Parabacteroides distasonis ATCC 8503', 'Campylobacter gracilis RM3268', 'Sebaldella termitidis ATCC 33386', 'Campylobacter ureolyticus', 'Butyrivibrio fibrisolvens ND3005', 'Fibrobacter succinogenes subsp. succinogenes S85', 'Porphyromonas gingivalis ATCC 33277', 'Prevotella ruminicola 23', 'Prevotella loescheii DSM 19665 = JCM 12249 = ATCC 15930', 'Wolinella succinogenes DSM 1740', 'Oxalobacter formigenes HOxBLS', 'Fusobacterium gonidiaformans ATCC 25563', 'Fusobacterium mortiferum ATCC 9817', 'Fusobacterium nucleatum subsp. nucleatum ATCC 25586', 'Fusobacterium perfoetens ATCC 29250', 'Faecalibacterium prausnitzii A2-165', 'Fusobacterium russii ATCC 25533', 'Fusobacterium varium ATCC 27725', 'Fusobacterium necrophorum subsp. funduliforme ATCC 51357', 'Fusobacterium periodonticum ATCC 33693', 'Fusobacterium ulcerans ATCC 49185', 'Syntrophomonas wolfei subsp. wolfei str. Goettingen G311', 'Dichelobacter nodosus VCS1703A', 'Desulfocurvibacter africanus subsp. africanus str. Walvis Bay', 'Desulfovibrio desulfuricans ND132', 'Desulfovibrio fructosivorans JJ', 'Desulfovibrio gigas DSM 1382 = ATCC 19364', 'Desulfovibrio salexigens DSM 2638', 'Desulfovibrio vulgaris str. Hildenborough', 'Thermodesulfobacterium thermophilum DSM 1276', 'Desulfovibrio longus DSM 6739', 'Desulfobulbus propionicus DSM 2032', 'Desulfococcus multivorans DSM 2059', 'Desulfomicrobium baculatum DSM 4028', 'Desulfovibrio piger ATCC 29098', 'Acidaminococcus fermentans DSM 20731', 'Megasphaera elsdenii DSM 20460', 'Nitrobacter hamburgensis X14', 'Nitrobacter winogradskyi Nb-255', 'Nitrosomonas europaea ATCC 19718', 'Nitrosomonas eutropha C91', 'Acidithiobacillus ferrooxidans ATCC 23270', 'Starkeya novella DSM 506', 'Thiomonas intermedia K12', 'Halothiobacillus neapolitanus c2', 'Thermithiobacillus tepidarius DSM 3134', 'Acidithiobacillus thiooxidans ATCC 19377', 'Thiobacillus thioparus DSM 505', 'Thiomicrospira pelophila DSM 1534', 'Hydrogenobacter thermophilus TK-6', 'Ehrlichia canis str. Jake', 'Ehrlichia chaffeensis str. Arkansas', 'Anaplasma phagocytophilum str. HZ', 'Neorickettsia risticii str. Illinois', 'Neorickettsia sennetsu str. Miyayama', 'Bdellovibrio bacteriovorus HD100', 'Herbaspirillum seropedicae SmR1', 'Selenomonas ruminantium AB3002', 'Cellulophaga lytica DSM 7489', 'Saccharicrinis fermentans DSM 9555 = JCM 21142', 'Pedobacter heparinus DSM 2366', 'Cytophaga hutchinsonii ATCC 33406', 'Flavobacterium johnsoniae UW101', 'Marinilabilia salmonicolor JCM 21150', 'Flavobacterium hydatis', 'Solitalea canadensis DSM 3403', 'Flavobacterium columnare ATCC 49512', 'Bernardetia litoralis DSM 6794', 'Marivirga tractuosa DSM 4126', 'Saprospira grandis str. Lewin', 'Weeksella virosa DSM 16922', 'Bergeyella zoohelcum ATCC 43767', 'Capnocytophaga gingivalis ATCC 33624', 'Capnocytophaga ochracea F0287', 'Capnocytophaga sputigena ATCC 33612', 'Beggiatoa alba B18LD', 'Microscilla marina ATCC 23134', 'Thiothrix nivea DSM 5205', 'Afipia clevelandensis ATCC 49720', 'Afipia felis ATCC 53690', 'Erythrobacter longus', 'Allochromatium vinosum DSM 180', 'Halorhodospira halochloris str. A', 'Halorhodospira halophila SL1', 'Rhodobacter capsulatus SB 1003', 'Rhodobacter sphaeroides 2.4.1', 'Rhodomicrobium vannielii ATCC 17100', 'Rhodopseudomonas palustris CGA009', 'Phaeospirillum fulvum MGU-K5', 'Phaeospirillum molischianum DSM 120', 'Pararhodospirillum photometricum DSM 122', 'Rhodospirillum rubrum ATCC 11170', 'Rhodovibrio salinarum DSM 9154', 'Chlorobium limicola DSM 245', 'Chlorobium phaeovibrioides DSM 265', 'Chlorobium phaeobacteroides DSM 266', 'Chlorobaculum tepidum TLS', 'Pelodictyon luteolum DSM 273', 'Prosthecochloris aestuarii DSM 271', 'Chloroflexus aurantiacus J-10-fl', 'Chlorogloeopsis fritschii PCC 6912', 'Microcystis aeruginosa NIES-843', 'Synechocystis sp. PCC 6714', 'Synechocystis sp. PCC 6803 substr. Kazusa', 'Planktothrix agardhii NIVA-CYA 126/8', 'Anabaena cylindrica PCC 7122', 'Leptolyngbya boryana PCC 6306', 'Tolypothrix sp. PCC 7601', 'Trichodesmium erythraeum IMS101', 'Prochlorococcus marinus str. AS9601', 'Prochlorothrix hollandica PCC 9006 = CALU 1027', 'Nitrosococcus oceani ATCC 19707', 'Nitrosospira multiformis ATCC 25196', 'Leuconostoc gelidum subsp. gasicomitatum LMG 18811', 'Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293', 'Leuconostoc lactis', 'Oenococcus oeni PSU-1', 'Weissella paramesenteroides ATCC 33313', 'Leuconostoc fallax KCTC 3537', 'Leuconostoc carnosum JB16', 'Pediococcus acidilactici DSM 20284', 'Pediococcus pentosaceus ATCC 25745', 'Finegoldia magna ATCC 53516', 'Peptostreptococcus anaerobius VPI 4330 = DSM 2949', 'Ruminococcus albus 8', 'Ruminococcus flavefaciens FD-1', 'Micrococcus luteus NCTC 2665', 'Dermacoccus nishinomiyaensis', 'Kytococcus sedentarius DSM 20547', 'Staphylococcus aureus subsp. aureus Mu50', 'Staphylococcus carnosus subsp. carnosus TM300', 'Staphylococcus epidermidis RP62A', 'Staphylococcus haemolyticus JCSC1435', 'Staphylococcus hyicus', 'Staphylococcus intermedius NCTC 11048', 'Staphylococcus simulans UMC-CNS-990', 'Staphylococcus xylosus', 'Staphylococcus hominis SK119', 'Staphylococcus warneri L37603', 'Staphylococcus sciuri subsp. sciuri Z8', 'Deinococcus radiodurans R1', 'Streptococcus gordonii str. Challis substr. CH1', 'Streptococcus oralis subsp. tigurinus AZ_3a', 'Streptococcus salivarius 57.I', 'Streptococcus sanguinis SK1057', 'Streptococcus suis R61', 'Streptococcus thermophilus LMG 18311', 'Streptococcus mutans UA159', 'Streptococcus sobrinus W1703', 'Streptococcus agalactiae LMG 14747', 'Streptococcus pneumoniae R6', 'Streptococcus pyogenes', 'Streptococcus downei F0415', 'Streptococcus parasanguinis ATCC 903', 'Blautia hansenii DSM 20583', 'Faecalicoccus pleomorphus DSM 20574', 'Streptococcus anginosus DORA_7', 'Streptococcus canis FSL Z3-227', 'Streptococcus criceti HS-6', 'Streptococcus dysgalactiae subsp. equisimilis AC-2713', 'Streptococcus equinus ATCC 9812', 'Streptococcus equi subsp. zooepidemicus', 'Streptococcus intermedius B196', 'Streptococcus macacae NCTC 11558', 'Streptococcus porcinus str. Jelinkova 176', 'Streptococcus ratti FA-1 = DSM 20564', 'Streptococcus vestibularis F0396', 'Streptococcus ferus DSM 20646', 'Streptococcus iniae', 'Streptococcus parauberis NCFD 2020', 'Streptococcus uberis 0140J', 'Enterococcus faecalis V583', 'Enterococcus faecium C68', 'Enterococcus gallinarum EG2', 'Enterococcus hirae ATCC 9790', 'Enterococcus columbae DSM 7374 = ATCC 51263', 'Enterococcus sulfureus ATCC 49903', 'Lactococcus lactis subsp. cremoris SK11', 'Lactococcus garvieae DCC43', 'Lactococcus piscium MKFS47', 'Lactococcus raffinolactis 4877', 'Aerococcus urinae ACS-120-V-Col10a', 'Aerococcus viridans ATCC 11563 = CCUG 4311', 'Gemella haemolysans M341', 'Atopobium minutum 10063974', 'Atopobium parvulum DSM 20469', 'Atopobium rimae ATCC 49626', 'Bacillus amyloliquefaciens Y2', 'Aneurinibacillus aneurinilyticus ATCC 12856', 'Bacillus anthracis str. Ames', 'Brevibacillus brevis X23', 'Bacillus cereus', 'Bacillus coagulans 36D1', 'Bacillus firmus DS1', 'Bacillus licheniformis DSM 13 = ATCC 14580', 'Bacillus megaterium QM B1551', 'Bacillus mycoides KBAB4', 'Paenibacillus polymyxa SC2', 'Bacillus psychrosaccharolyticus ATCC 23296', 'Bacillus pumilus SAFR-032', 'Bacillus sp. (in: Bacteria)', 'Bacillus akibai JCM 9157', 'Bacillus cellulosilyticus DSM 2522', 'Lysinibacillus sphaericus OT4b.31', 'Bacillus subtilis subsp. subtilis str. 168', 'Parageobacillus thermoglucosidasius C56-YS93', 'Bacillus thuringiensis serovar kurstaki', 'Bacillus alcalophilus ATCC 27647 = CGMCC 1.3604', 'Amphibacillus xylanus NBRC 15112', 'Alicyclobacillus acidoterrestris ATCC 49025', 'Bacillus atrophaeus 1942', 'Geobacillus kaustophilus HTA426', 'Paenibacillus larvae subsp. larvae DSM 25430', 'Brevibacillus laterosporus DSM 25', 'Bacillus methanolicus PB1', 'Peribacillus simplex BA2H3', 'Bacillus smithii 7_3_47FAA', 'Virgibacillus halodenitrificans 1806', 'Clostridium acetobutylicum ATCC 824', 'Paraclostridium bifermentans WYM', 'Clostridium botulinum A2 str. Kyoto', 'Clostridium butyricum E4 str. BoNT E BL5262', 'Clostridium cellulovorans 743B', 'Clostridioides difficile', 'Ruminiclostridium josui JCM 17888', 'Clostridium pasteurianum BC1', 'Clostridium perfringens ATCC 13124', 'Paeniclostridium sordellii VPI 9048', 'Clostridium sp. ATCC 29733', 'Clostridium sporogenes PA 3679', 'Thermoclostridium stercorarium subsp. stercorarium DSM 8532', 'Acetoanaerobium sticklandii', 'Clostridium tetani 12124569', 'Hungateiclostridium thermocellum ATCC 27405', 'Thermoanaerobacter thermohydrosulfuricus WC1', 'Thermoanaerobacterium thermosaccharolyticum DSM 571', 'Clostridium tyrobutyricum DSM 2637 = ATCC 25755 = JCM 11008', 'Clostridium beijerinckii NCIMB 8052', 'Ruminiclostridium cellulolyticum H10', 'Moorella thermoacetica ATCC 39073', 'Clostridium cadaveris AGR2141', 'Clostridium kluyveri DSM 555', 'Clostridium ljungdahlii DSM 13528', 'Clostridioides mangenotii TR', 'Clostridium novyi B str. NCTC 9691', 'Erysipelatoclostridium ramosum DSM 1402', 'Clostridium scatologenes', 'Clostridium tetanomorphum DSM 665', 'Gottschalkia acidurici 9a', 'Peptoclostridium litorale DSM 5388', 'Clostridium baratii str. Sullivan', 'Desulfosporosinus orientis DSM 765', 'Desulfotomaculum ruminis DSM 2154', 'Desulfotomaculum nigrificans DSM 574', 'Halobacillus halophilus DSM 2266', 'Sporosarcina ureae DSM 2281', 'Leifsonia xyli subsp. cynodontis DSM 46306', 'Lactobacillus acidophilus 30SC', 'Lactobacillus brevis ATCC 367', 'Lactobacillus buchneri ATCC 11577', 'Lactobacillus casei BL23', 'Weissella confusa LBAE C39-2', 'Lactobacillus delbrueckii subsp. bulgaricus 2038', 'Lactobacillus helveticus CNRZ32', 'Lactobacillus hilgardii DSM 20176 = ATCC 8290', 'Lactobacillus pentosus KCA1', 'Lactobacillus plantarum WCFS1', 'Lactobacillus gasseri ATCC 33323 = JCM 1131', 'Lactobacillus paracasei subsp. paracasei ATCC 25302', 'Lactobacillus reuteri 100-23', 'Lactobacillus sakei subsp. sakei 23K', 'Lactobacillus amylovorus GRL 1112', 'Lactobacillus animalis', 'Lactobacillus coryniformis subsp. coryniformis KCTC 3167 = DSM 20001', 'Lactobacillus farciminis KCTC 3681 = DSM 20184', 'Lactobacillus fermentum IFO 3956', 'Lactobacillus fructivorans KCTC 3543 = DSM 20203', 'Weissella halotolerans DSM 20190', 'Lactobacillus murinus ASF361', 'Lactobacillus ruminis ATCC 27782', 'Lactobacillus salivarius UCC118', 'Lactobacillus sanfranciscensis TMW 1.1304', 'Kandleria vitulina MC3001', 'Fructobacillus fructosus KCTC 3544', 'Lactobacillus oris F0423', 'Lactobacillus vaginalis DSM 5837 = ATCC 49540', 'Listeria ivanovii subsp. londoniensis', 'Listeria monocytogenes EGD-e', 'Listeria seeligeri serovar 1/2b str. SLCC3954', 'Listeria grayi DSM 20601', 'Listeria innocua Clip11262', 'Listeria welshimeri serovar 6b str. SLCC5334', 'Renibacterium salmoninarum ATCC 33209', 'Erysipelothrix rhusiopathiae str. Fujisawa', 'Alloiococcus otitis ATCC 51267', 'Actinomyces naeslundii str. Howell 279', 'Actinomyces viscosus C505', 'Actinomyces israelii DSM 43320', 'Schaalia odontolytica ATCC 17982', 'Trueperella pyogenes TP8', 'Arthrobacter globiformis NBRC 12137', 'Bifidobacterium adolescentis', 'Bifidobacterium bifidum NCIMB 41171', 'Bifidobacterium angulatum DSM 20098 = JCM 7096', 'Bifidobacterium asteroides PRL2011', 'Bifidobacterium breve UCC2003', 'Bifidobacterium catenulatum DSM 16992 = JCM 1194 = LMG 11043', 'Bifidobacterium coryneforme', 'Bifidobacterium cuniculi', 'Bifidobacterium dentium Bd1', 'Bifidobacterium indicum LMG 11587 = DSM 20214', 'Bifidobacterium magnum', 'Bifidobacterium minimum', 'Bifidobacterium pseudolongum subsp. globosum', 'Corynebacterium ammoniagenes DSM 20306', 'Brevibacterium linens BL2', 'Cellulomonas fimi ATCC 484', 'Cellulosimicrobium cellulans J36', 'Cellulomonas flavigena DSM 20109', 'Oerskovia turbata', 'Corynebacterium diphtheriae PW8', 'Corynebacterium glutamicum', 'Corynebacterium pseudotuberculosis', 'Corynebacterium callunae DSM 20147', 'Corynebacterium variabile DSM 44702', 'Peptoclostridium acidaminophilum DSM 3953', 'Holdemanella biformis DSM 3989', 'Eubacterium limosum KIST612', 'Thermodesulfobacterium commune DSM 2178', 'Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1', 'Cutibacterium acnes KPA171202', 'Acidipropionibacterium acidipropionici ATCC 4875', 'Acidipropionibacterium jensenii DSM 20535', 'Pseudopropionibacterium propionicum F0230a', 'Acidipropionibacterium thoenii DSM 20276', 'Mycobacterium avium subsp. avium', 'Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841', 'Mycobacterium intracellulare ATCC 13950', 'Mycobacterium kansasii 732', 'Mycobacterium leprae TN', 'Mycolicibacterium phlei RIVM601174', 'Mycolicibacterium smegmatis MC2 155', 'Mycobacterium tuberculosis H37Rv', 'Mycobacteroides chelonae', 'Mycobacterium marinum M', 'Mycobacterium asiaticum DSM 44297', 'Mycolicibacterium neoaurum VKM Ac-1815D', 'Mycolicibacterium thermoresistibile ATCC 19527', 'Mycolicibacterium chubuense NBB4', 'Mycolicibacterium farcinogenes', 'Mycolicibacterium gilvum PYR-GCK', 'Mycobacterium ulcerans Agy99', 'Mycolicibacterium vaccae ATCC 25954', 'Amycolatopsis methanolica 239', 'Nocardia otitidiscaviarum NBRC 14405', 'Nocardia asteroides NBRC 15531', 'Rhodococcus fascians', 'Rhodococcus rhodochrous ATCC 21198', 'Rhodococcus ruber Chol-4', 'Rhodococcus erythropolis PR4', 'Saccharopolyspora erythraea NRRL 2338', 'Actinopolyspora halophila DSM 43834', 'Saccharomonospora viridis DSM 43017', 'Frankia alni ACN14a', 'Geodermatophilus obscurus DSM 43160', 'Actinoplanes missouriensis 431', 'Actinoplanes utahensis', 'Streptomyces albus subsp. albus', 'Kitasatospora aureofaciens', 'Streptomyces bikiniensis', 'Streptomyces coelicolor A3(2)', 'Streptomyces fradiae', 'Streptomyces glaucescens', 'Streptomyces griseus subsp. griseus NBRC 13350', 'Streptomyces hygroscopicus subsp. jinggangensis 5008', 'Streptomyces lividans 1326', 'Streptomyces scabiei 87.22', 'Streptomyces viridochromogenes DSM 40736', 'Streptomyces halstedii', 'Streptomyces purpureus KA281', 'Streptomyces sclerotialus', 'Streptomyces virginiae', 'Streptomyces cellulosae', 'Streptomyces chartreusis NRRL 12338', 'Actinomadura atramentaria DSM 43919', 'Actinomadura madurae LIID-AJ290', 'Microtetraspora glauca', 'Streptosporangium roseum DSM 43021', 'Streptosporangium amethystogenes', 'Thermobispora bispora DSM 43833', 'Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111', 'Nocardiopsis prasina DSM 43845', 'Thermomonospora curvata DSM 43183', 'Thermobifida fusca YX', 'Microbacterium testaceum StLB037', 'Curtobacterium flaccumfaciens UCD-AKU', 'Tropheryma whipplei str. Twist', 'Pimelobacter simplex', 'Rothia dentocariosa ATCC 17931', 'Mobiluncus curtisii ATCC 43063', 'Mobiluncus mulieris 28-1', 'Gordonia bronchialis DSM 43247', 'Gordonia terrae', 'Sphaerobacter thermophilus DSM 20745', 'Tsukamurella paurometabola DSM 20162', 'Kitasatospora setae KM-6054', 'Pseudonocardia autotrophica', 'Mycoplasma arginini 7264', 'Mycoplasma capricolum subsp. capricolum ATCC 27343', 'Mycoplasma gallisepticum', 'Mycoplasma genitalium G37', 'Mycoplasma hominis', 'Mycoplasma hyopneumoniae J', 'Mycoplasma hyorhinis SK76', 'Mycoplasma mycoides subsp. mycoides SC str. PG1', 'Mycoplasma pneumoniae', 'Mycoplasma leachii PG50', 'Mycoplasma pulmonis', 'Mycoplasma synoviae 53', 'Mycoplasma agalactiae PG2', 'Mycoplasma arthritidis 158L3-1', 'Mycoplasma bovigenitalium 51080', 'Mycoplasmopsis californica', 'Mycoplasma fermentans PG18', 'Mycoplasma iowae 695', 'Mycoplasma mobile', 'Mycoplasma putrefaciens Mput9231', 'Mycoplasma flocculare ATCC 27399', 'Ureaplasma urealyticum serovar 7 str. ATCC 27819', 'Spiroplasma melliferum IPMB4A', 'Spiroplasma apis B31', 'Spiroplasma mirum ATCC 29335', 'Spiroplasma taiwanense CT-1', 'Acholeplasma laidlawii PG-8A', 'Acholeplasma modicum ATCC 29102', 'Mesoplasma florum L1', 'Methanobrevibacter smithii ATCC 35061', 'Methanohalophilus mahii DSM 5219', 'Methanothermus fervidus DSM 2088', 'Methanothermococcus thermolithotrophicus DSM 2095', 'Methanococcus vannielii SB', 'Methanococcus voltae A3', 'Methanotorris igneus Kol 5', 'Methanocaldococcus jannaschii DSM 2661', 'Methanoculleus marisnigri JR1', 'Methanofollis liminatans DSM 4140', 'Methanospirillum hungatei JF-1', 'Methanomicrobium mobile BP', 'Methanosarcina barkeri str. Fusaro', 'Methanosarcina mazei Go1', 'Methanosarcina thermophila TM-1', 'Methanosarcina acetivorans C2A', 'Methanosarcina vacuolata Z-761', 'Methanothrix soehngenii GP6', 'Methanothrix thermoacetophila PT', 'Methanococcoides methylutens MM1', 'Archaeoglobus fulgidus DSM 4304', 'Haloarcula marismortui ATCC 43049', 'Halobacterium salinarum NRC-1', 'Haloferax volcanii DS2', 'Halorubrum lacusprofundi ATCC 49239', 'Halorubrum saccharovorum DSM 1137', 'Halococcus morrhuae DSM 1307', 'Haloferax mediterranei ATCC 33500', 'Natronomonas pharaonis DSM 2160', 'Pyrococcus furiosus DSM 3638', 'Thermococcus litoralis DSM 5473', 'Thermofilum pendens Hrk 5', 'Thermoproteus tenax Kra 1', 'Desulfurococcus mucosus DSM 2162', 'Pyrobaculum islandicum DSM 4184', 'Staphylothermus marinus F1', 'Sulfolobus acidocaldarius DSM 639', 'Saccharolobus solfataricus P2', 'Desulfobacter curvatus DSM 3379', 'Desulfobacter postgatei 2ac9', 'Desulfobacterium autotrophicum HRM2', 'Thermoplasma acidophilum DSM 1728', 'Methanoplanus limicola DSM 2279', 'Methanosphaera stadtmanae DSM 3091', 'Methanopyrus kandleri AV19', 'Methanohalobium evestigatum Z-7303', 'Thermoanaerobacter kivui', 'Halanaerobium praevalens DSM 2228', 'Thermotoga maritima MSB8', 'Thermotoga neapolitana DSM 4359', 'Solemya velum gill symbiont', 'Haliscomenobacter hydrossis DSM 1100', 'Flexistipes sinusarabici DSM 4947', 'Desulfomonile tiedjei DSM 6799', 'Xylella fastidiosa 9a5c', 'Acetonema longum DSM 6540', 'Sporomusa ovata DSM 2662', 'Thermosipho africanus TCF52B', 'Fervidobacterium islandicum', 'Fervidobacterium nodosum Rt17-B1', 'Teredinibacter turnerae T7901', 'Roseobacter denitrificans OCh 114', 'Gardnerella vaginalis 6119V5', 'Citrus sinensis', 'Cardiobacterium hominis ATCC 15826', 'Hirschia baltica ATCC 49814', 'Symbiobacterium thermophilum IAM 14863', 'Verrucomicrobium spinosum DSM 4136 = JCM 18804', 'Marinobacter hydrocarbonoclasticus VT8', 'Halomonas elongata DSM 2581', 'Carnobacterium divergens DSM 20623', 'Carnobacterium gallinarum DSM 4847', 'Carnobacterium mobile DSM 4848', 'Carnobacterium maltaromaticum LMA28', 'Carnobacterium funditum DSM 5970', 'Synergistes jonesii', 'Chondrus crispus', 'Phaeodactylum tricornutum', 'Ectocarpus siliculosus', 'Cryptomonas paramecium', 'Emiliania huxleyi', 'Symbiodinium microadriaticum', 'Chlamydomonas reinhardtii', 'Volvox carteri', 'Auxenochlorella protothecoides', 'Marchantia polymorpha', 'Physcomitrium patens', 'Cannabis sativa', 'Actinidia chinensis var. chinensis', 'Theobroma cacao', 'Carica papaya', 'Citrullus lanatus', 'Cucumis melo', 'Cucumis sativus', 'Populus trichocarpa', 'Arabidopsis thaliana', 'Brassica napus', 'Brassica rapa', 'Brassica oleracea', 'Malus domestica', 'Prunus dulcis', 'Prunus persica', 'Cajanus cajan', 'Cicer arietinum', 'Glycine max', 'Glycine soja', 'Lupinus angustifolius', 'Medicago truncatula', 'Phaseolus vulgaris', 'Vigna angularis', 'Manihot esculenta', 'Ricinus communis', 'Linum usitatissimum', 'Daucus carota subsp. sativus', 'Capsicum annuum', 'Solanum lycopersicum', 'Nicotiana sylvestris', 'Nicotiana tabacum', 'Nicotiana tomentosiformis', 'Nicotiana benthamiana', 'Solanum commersonii', 'Solanum tuberosum', 'Olea europaea', 'Erythranthe guttata', 'Sesamum indicum', 'Helianthus annuus', 'Cynara cardunculus var. scolymus', 'Nelumbo nucifera', 'Hordeum vulgare', 'Oryza longistaminata', 'Oryza rufipogon', 'Oryza sativa Japonica Group', 'Oryza brachyantha', 'Oryza nivara', 'Oryza punctata', 'Oryza glaberrima', 'Setaria italica', 'Setaria viridis', 'Sorghum bicolor', 'Triticum aestivum', 'Triticum turgidum subsp. durum', 'Triticum urartu', 'Zea mays', 'Ananas comosus', 'Musa acuminata', 'Pneumocystis carinii', 'Plasmopara halstedii', 'Phytophthora infestans', 'Phytophthora nicotianae', 'Phytophthora parasitica', 'Phytophthora megakarya', 'Phytophthora palmivora var. palmivora', 'Phycomyces blakesleeanus', 'Schizosaccharomyces pombe 972h-', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces octosporus', 'Cyberlindnera jadinii', 'Pichia kudriavzevii', 'Kluyveromyces marxianus DMKU3-1042', 'Lachancea waltii', 'Pachysolen tannophilus NRRL Y-2460', 'Millerozyma farinosa', 'Komagataella pastoris', 'Scheffersomyces stipitis', 'Pichia membranifaciens NRRL Y-2026', 'Wickerhamomyces anomalus', 'Meyerozyma guilliermondii', 'Saccharomyces bayanus', 'Saccharomyces cerevisiae S288C', 'Lachancea kluyveri', 'Torulaspora delbrueckii CBS 1146', 'Yarrowia lipolytica CLIB122', 'Zygosaccharomyces bailii CLIB 213', 'Lachancea fermentati', 'Zygosaccharomyces rouxii', 'Debaryomyces hansenii', 'Kockovaella imperatae', 'Brettanomyces bruxellensis', 'Taphrina deformans PYCC 5710', 'Bipolaris maydis', 'Bipolaris zeicola', 'Leptosphaeria maculans', 'Histoplasma capsulatum', 'Blastomyces dermatitidis', 'Acremonium chrysogenum ATCC 11550', 'Aspergillus aculeatus', 'Aspergillus clavatus', 'Aspergillus flavus', 'Aspergillus niger', 'Aspergillus oryzae', 'Penicillium camemberti', 'Penicillium chrysogenum', 'Penicillium roqueforti', 'Amorphotheca resinae ATCC 22711', 'Ascosphaera apis ARSEF 7405', 'Claviceps purpurea 20.1', 'Epichloe typhina E8', 'Cryphonectria parasitica', 'Fusarium fujikuroi', 'Neurospora crassa OR74A', 'Sordaria macrospora k-hell', 'Ophiostoma ulmi', 'Sclerotinia sclerotiorum 1980 UF-70', 'Cryptococcus neoformans var. neoformans JEC21', 'Cryptococcus depauperatus CBS 7841', 'Tremella mesenterica', 'Exidia glandulosa HHB12029', 'Ustilago maydis 521', 'Microbotryum violaceum', 'Tilletiaria anomala UBC 951', 'Rhodotorula toruloides', 'Puccinia graminis f. sp. tritici CRL 75-36-700-3', 'Phanerochaete chrysosporium', 'Pleurotus ostreatus var. ostreatus', 'Trametes versicolor FP-101664 SS1', 'Schizophyllum commune', 'Agaricus bisporus', 'Coprinopsis cinerea', 'Lentinula edodes', 'Suillus luteus UH-Slu-Lm8-n1', 'Ascochyta rabiei', 'Colletotrichum orbiculare', 'Candida albicans SC5314', 'Candida maltosa', 'Candida parapsilosis', 'Diutina rugosa', 'Candida tropicalis', 'Coccidioides immitis', 'Fusarium oxysporum', 'Fusarium culmorum CS7071', 'Fusarium graminearum', 'Metarhizium anisopliae ARSEF 549', 'Rhodotorula glutinis', 'Trichoderma harzianum', 'Trichoderma longibrachiatum ATCC 18648', 'Trichophyton rubrum', 'Aureobasidium pullulans EXF-150', 'Alternaria alternata', 'Phialophora americana', 'Saitoella complicata NRRL Y-17804', 'Cryptococcus wingfieldii CBS 7118', 'Grifola frondosa', 'Laetiporus sulphureus 93-53', 'Trametes cinnabarina', 'Leishmania braziliensis MHOM/BR/75/M2904', 'Leishmania donovani BPK282A1', 'Leishmania major', 'Leishmania mexicana MHOM/GT/2001/U1103', 'Leishmania infantum JPCM5', 'Leishmania panamensis', 'Leptomonas seymouri', 'Leishmania tarentolae', 'Trypanosoma brucei brucei', 'Trypanosoma cruzi', 'Trypanosoma equiperdum', 'Trypanosoma rangeli SC58', 'Trichomonas vaginalis', 'Giardia lamblia ATCC 50803', 'Acanthamoeba castellanii str. Neff', 'Entamoeba histolytica', 'Naegleria gruberi', 'Dictyostelium purpureum', 'Eimeria acervulina', 'Eimeria tenella', 'Eimeria maxima', 'Cryptosporidium parvum Iowa II', 'Cryptosporidium muris', 'Toxoplasma gondii ME49', 'Plasmodium berghei', 'Plasmodium chabaudi', 'Plasmodium cynomolgi strain B', 'Plasmodium falciparum 3D7', 'Plasmodium gallinaceum', 'Plasmodium knowlesi strain H', 'Plasmodium reichenowi', 'Plasmodium vivax Sal-1', 'Plasmodium fragile', 'Plasmodium malariae', 'Plasmodium vinckei', 'Plasmodium yoelii yoelii', 'Babesia bovis T2Bo', 'Babesia bigemina', 'Theileria equi', 'Theileria annulata', 'Theileria parva', 'Paramecium tetraurelia', 'Tetrahymena thermophila', 'Ichthyophthirius multifiliis', 'Stylonychia lemnae', 'Stentor coeruleus', 'Exophiala dermatitidis', 'Encephalitozoon cuniculi', 'Hydra vulgaris', 'Schistosoma japonicum', 'Schistosoma mansoni', 'Schistosoma haematobium', 'Echinococcus multilocularis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Ascaris suum', 'Brugia malayi', 'Onchocerca volvulus', 'Meloidogyne hapla', 'Bursaphelenchus xylophilus', 'Trichinella spiralis', 'Helobdella robusta', 'Aplysia californica', 'Biomphalaria glabrata', 'Crassostrea virginica', 'Mizuhopecten yessoensis', 'Daphnia pulex', 'Tigriopus californicus', 'Ixodes scapularis', 'Blattella germanica', 'Acyrthosiphon pisum', 'Bemisia tabaci', 'Tribolium castaneum', 'Bombyx mori', 'Aedes aegypti', 'Aedes albopictus', 'Anopheles gambiae', 'Anopheles albimanus', 'Anopheles dirus', 'Anopheles arabiensis', 'Culex pipiens', 'Culex quinquefasciatus', 'Lutzomyia longipalpis', 'Loa loa', 'Ceratitis capitata', 'Drosophila ananassae', 'Drosophila erecta', 'Drosophila grimshawi', 'Drosophila melanogaster', 'Drosophila mojavensis', 'Drosophila persimilis', 'Drosophila pseudoobscura pseudoobscura', 'Drosophila sechellia', 'Drosophila simulans', 'Drosophila virilis', 'Drosophila yakuba', 'Drosophila willistoni', 'Drosophila saltans', 'Musca domestica', 'Lucilia cuprina', 'Glossina morsitans morsitans', 'Glossina austeni', 'Glossina fuscipes fuscipes', 'Glossina palpalis gambiensis', 'Glossina pallidipes', 'Nasonia vitripennis', 'Apis mellifera', 'Lingula anatina', 'Strongylocentrotus purpuratus', 'Ciona intestinalis', 'Branchiostoma floridae', 'Branchiostoma lanceolatum', 'Petromyzon marinus', 'Eptatretus burgeri', 'Callorhinchus milii', 'Latimeria chalumnae', 'Lepisosteus oculatus', 'Clupea harengus', 'Danio rerio', 'Carassius auratus', 'Cyprinus carpio', 'Astyanax mexicanus', 'Ictalurus punctatus', 'Electrophorus electricus', 'Esox lucius', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Salmo salar', 'Salmo trutta', 'Gadus morhua', 'Fundulus heteroclitus', 'Poecilia reticulata', 'Xiphophorus maculatus', 'Oryzias latipes', 'Cyclopterus lumpus', 'Oreochromis niloticus', 'Haplochromis burtoni', 'Astatotilapia calliptera', 'Sparus aurata', 'Lates calcarifer', 'Xenopus tropicalis', 'Chelonia mydas', 'Chelydra serpentina', 'Chrysemys picta', 'Alligator mississippiensis', 'Crocodylus porosus', 'Sphenodon punctatus', 'Laticauda laticaudata', 'Notechis scutatus', 'Pseudonaja textilis', 'Dromaius novaehollandiae', 'Struthio camelus', 'Apteryx haastii', 'Apteryx owenii', 'Anas platyrhynchos', 'Anser cygnoides', 'Cairina moschata domestica', 'Chaetura pelagica', 'Columba livia', 'Falco peregrinus', 'Aquila chrysaetos chrysaetos', 'Haliaeetus albicilla', 'Numida meleagris', 'Gallus gallus', 'Pavo cristatus', 'Phasianus colchicus', 'Chrysolophus pictus', 'Meleagris gallopavo', 'Serinus canaria', 'Parus major', 'Phalacrocorax carbo', 'Phoenicopterus ruber ruber', 'Aptenodytes forsteri', 'Pygoscelis adeliae', 'Calypte anna', 'Ornithorhynchus anatinus', 'Sarcophilus harrisii', 'Notamacropus eugenii', 'Choloepus hoffmanni', 'Dasypus novemcinctus', 'Erinaceus europaeus', 'Echinops telfairi', 'Pteropus alecto', 'Callithrix jacchus', 'Cercocebus atys', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Papio anubis', 'Theropithecus gelada', 'Mandrillus leucophaeus', 'Gorilla gorilla gorilla', 'Pan paniscus', 'Pan troglodytes', 'Pongo abelii', 'Homo sapiens', 'Canis lupus familiaris', 'Vulpes vulpes', 'Ursus thibetanus thibetanus', 'Ursus americanus', 'Ailuropoda melanoleuca', 'Mustela putorius', 'Felis catus', 'Panthera leo', 'Panthera onca', 'Panthera pardus', 'Panthera tigris', 'Zalophus californianus', 'Odobenus rosmarus', 'Leptonychotes weddellii', 'Orcinus orca', 'Tursiops truncatus', 'Delphinapterus leucas', 'Physeter catodon', 'Balaenoptera acutorostrata', 'Balaenoptera musculus', 'Trichechus manatus', 'Loxodonta africana', 'Equus asinus asinus', 'Equus caballus', 'Procavia capensis', 'Orycteropus afer', 'Sus scrofa', 'Camelus dromedarius', 'Bison bison bison', 'Bos taurus', 'Capra hircus', 'Ovis aries', 'Ochotona princeps', 'Oryctolagus cuniculus', 'Marmota marmota marmota', 'Urocitellus parryii', 'Dipodomys ordii', 'Cricetulus griseus', 'Mesocricetus auratus', 'Peromyscus maniculatus', 'Meriones unguiculatus', 'Mus caroli', 'Mus musculus', 'Mus pahari', 'Mus spretus', 'Mus spicilegus', 'Rattus norvegicus', 'Cavia porcellus', 'Octodon degus', 'Heterocephalus glaber', 'Saccoglossus kowalevskii', 'Trichoplax adhaerens', 'Sagitta elegans', 'Atta cephalotes', 'Blastocystis hominis', 'Danaus plexippus', 'Lynx lynx', 'Melopsittacus undulatus', 'Myzus persicae', 'Rhodnius prolixus', 'Tilletia caries', 'Tilletia controversa', 'Amborella trichopoda', 'Anaerobiospirillum succiniciproducens DSM 6400', 'Arthrobotrys oligospora ATCC 24927', 'Burkholderia mallei ATCC 23344', 'Dicentrarchus labrax', 'Monodelphis domestica', 'Parastagonospora nodorum SN15', 'Solenopsis invicta', 'Sphingomonas paucimobilis', 'Sphingobium yanoikuyae', 'Syncephalastrum racemosum', 'Pelodiscus sinensis', 'Utricularia gibba', 'Natrialba magadii ATCC 43099', 'Pyrobaculum aerophilum str. IM2', 'Brachypodium distachyon', 'Naumovozyma castellii', 'Naumovozyma dairenensis CBS 421', 'Saccharomyces paradoxus', 'Saccharomyces pastorianus Weihenstephan 34/70', 'Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993', 'Penicillium expansum', 'Verticillium dahliae VdLs.17', 'Schizopora paradoxa', 'Puccinia coronata var. avenae f. sp. avenae', 'Puccinia sorghi', 'Puccinia striiformis', 'Saimiri boliviensis', 'Erpetoichthys calabaricus', 'Mnemiopsis leidyi', 'Encephalitozoon hellem ATCC 50504', 'Nosema bombycis CQ1', 'Strigomonas culicis', 'Bifidobacterium animalis subsp. lactis BB-12', 'Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505', 'Lysinibacillus fusiformis ZC1', 'Staphylococcus lugdunensis HKU09-01', 'Streptococcus mitis B6', 'Lactobacillus curvatus CRL 705', 'Saccharopolyspora rectivirgula', 'Acidothermus cellulolyticus 11B', 'Lachnospira multipara ATCC 19207', 'Rubrivivax gelatinosus IL144', 'Nostoc sp. PCC 7524', 'Campylobacter upsaliensis RM3195', 'Legionella anisa str. Linanisette', 'Legionella sainthelensi ATCC 35248 = DSM 19231', 'Acinetobacter lwoffii SH145', 'Neisseria weaveri LMG 5135', 'Burkholderia gladioli BSR3', 'Mesorhizobium huakuii 7653R', "Alteromonas macleodii str. 'Black Sea 11'", 'Francisella philomiragia subsp. philomiragia ATCC 25017', 'Bacteroides eggerthii DSM 20697', 'Tannerella forsythia 92A2', 'Porphyromonas levii DSM 23370', 'Porphyromonas macacae', 'Bacteroides ovatus ATCC 8483', 'Alistipes putredinis DSM 17216', 'Odoribacter splanchnicus DSM 20712', 'Porphyromonas asaccharolytica DSM 20707', 'Porphyromonas endodontalis ATCC 35406', 'Prevotella bivia DNF00188', 'Prevotella buccae ATCC 33574', 'Prevotella buccalis ATCC 35310', 'Prevotella corporis DSM 18810 = JCM 8529', 'Prevotella denticola F0289', 'Prevotella disiens JCM 6334 = ATCC 29426', 'Prevotella intermedia 17', 'Prevotella melaninogenica ATCC 25845', 'Prevotella nigrescens ATCC 33563', 'Prevotella oralis ATCC 33269', 'Prevotella oris C735', 'Prevotella oulorum JCM 14966', 'Prevotella veroralis F0319', 'Rikenella microfusus DSM 15922', 'Cronobacter sakazakii ATCC BAA-894', 'Serratia proteamaculans 568', 'Yersinia kristensenii', 'Vibrio metschnikovii CIP 69.14', 'Vibrio nigripulchritudo SOn1', 'Vibrio orientalis CIP 102891 = ATCC 33934', 'Candidatus Photodesmus katoptron', 'Acetohalobium arabaticum DSM 5501', 'Capnocytophaga canimorsus Cc5', 'Capnocytophaga cynodegmi DSM 19736', 'Arcobacter butzleri RM4018', 'Arcobacter nitrofigilis DSM 7299', 'Sphingomonas parapaucimobilis NBRC 15100', 'Desulfobacula toluolica Tol2', 'Mycoplasma penetrans', 'Colwellia psychrerythraea', 'Carnobacterium alterfunditum DSM 5972', 'Geobacter metallireducens GS-15', 'Ornithobacterium rhinotracheale DSM 15997', 'Cobetia marina', 'Thermodesulfovibrio yellowstonii DSM 11347', 'Arcanobacterium haemolyticum DSM 20595', 'Anolis carolinensis', 'Herbidospora cretacea', 'Clavibacter michiganensis subsp. sepedonicus', 'Komagataeibacter xylinus E25', 'Neisseria subflava NJ9703', 'Burkholderia pseudomallei K96243', 'Tarenaya hassleriana', 'Talaromyces stipitatus ATCC 10500', 'Talaromyces islandicus', 'Allomyces macrogynus', 'Elephantulus edwardii', 'Cyprinodon variegatus', 'Thermoanaerobacterium saccharolyticum JW/SL-YS485', 'Salmonella enterica subsp. enterica serovar Typhimurium str. LT2', 'Mycoplasma bovis PG45', 'Kluyveromyces lactis', 'Alternaria brassicicola', 'Drosophila eugracilis', 'Drosophila takahashii', 'Phlebotomus papatasi', 'Panthera uncia', 'Ursus maritimus', 'Eptesicus fuscus', 'Vombatus ursinus', 'Mytilus galloprovincialis', 'Crassostrea gigas', 'Neospora caninum', 'Haloarcula japonica DSM 6131', 'Natronococcus occultus SP4', 'Methanococcoides burtonii DSM 6242', 'Pyrococcus abyssi GE5', 'Streptomyces cattleya NRRL 8057 = DSM 46488', 'Streptomyces griseoluteus', 'Paenarthrobacter nicotinovorans 231Sha2.1M6', 'Corynebacterium otitidis ATCC 51513', 'Thermoanaerobacter brockii subsp. finnii Ako-1', 'Thermoanaerobacterium xylanolyticum LX-11', 'Ruminiclostridium cellobioparum subsp. termitidis CT1112', 'Cellulosilyticum lentocellum DSM 5427', 'Tyzzerella nexilis DSM 1787', 'Ruminiclostridium papyrosolvens DSM 2782', 'Clostridium paraputrificum AGR2156', 'Staphylococcus caprae M23864:W1', 'Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292', 'Staphylococcus capitis C87', 'Gemella morbillorum M424', 'Dolosigranulum pigrum ATCC 51524', 'Microlunatus phosphovorus NM-1', 'Helicobacter canis NCTC 12740', 'Legionella oakridgensis ATCC 33761 = DSM 21215', 'Acinetobacter haemolyticus MTCC 9819', 'Psychrobacter phenylpyruvicus DSM 7000 = NBRC 102152', 'Pseudomonas savastanoi pv. phaseolicola 1448A', 'Xanthomonas albilineans GPE PC73', 'Bradyrhizobium elkanii WSM2783', 'Rhizobium etli CIAT 652', 'Rhizobium leucaenae USDA 9039', 'Brucella melitensis bv. 1 str. 16M', 'Brucella neotomae 5K33', 'Brucella suis 1330', 'Veillonella parvula DSM 2008', 'Pectobacterium atrosepticum SCRI1043', 'Yersinia aldovae ATCC 35236', 'Yersinia frederiksenii ATCC 33641', 'Yersinia rohdei', 'Yersinia ruckeri', 'Vibrio furnissii NCTC 11218', 'Vibrio navarrensis', 'Vibrio splendidus ZS-139', 'Vibrio tubiashii ATCC 19109', 'Mycoplasma haemofelis Ohio2', 'Turneriella parva DSM 21527', 'Borreliella afzelii PKo', 'Borreliella garinii BgVir', 'Borrelia crocidurae DOU', 'Cytophaga aurantiaca DSM 3654', 'Flavobacterium succinicans LMG 10402', 'Pelobacter propionicus DSM 2379', 'Lawsonia intracellularis PHE/MN1-00', 'Rhodothermus marinus DSM 4252', 'Acholeplasma axanthum ATCC 25176', 'Mycoplasma canadense', 'Mycoplasma canis PG 14', 'Mycoplasma meleagridis', 'Mycoplasma ovipneumoniae 14811', 'Taylorella equigenitalis MCE9', 'Janthinobacterium lividum', 'Dioscorea cayenensis subsp. rotundata', 'Gossypium raimondii', 'Vitis vinifera', 'Lipomyces starkeyi NRRL Y-11557', 'Lachancea cidri', 'Hanseniaspora uvarum DSM 2768', 'Penicillium vulpinum', 'Gaeumannomyces graminis', 'Trichoderma virens', 'Neurospora discreta FGSC 8579', 'Laccaria bicolor', 'Calocera cornea HHB12733', 'Rhodotorula graminis WP1', 'Sporothrix schenckii', 'Tolypocladium inflatum', 'Phytophthora cactorum', 'Drosophila elegans', 'Drosophila emarginata', 'Drosophila ficusphila', 'Drosophila kikkawai', 'Drosophila neocordata', 'Drosophila prosaltans', 'Drosophila sturtevanti', 'Anopheles merus', 'Anopheles stephensi', 'Bombus terrestris', 'Opisthocomus hoazin', 'Fulmarus glacialis', 'Bubo bubo', 'Nothoprocta perdicaria', 'Tinamus major', 'Bos grunniens', 'Bos indicus x Bos taurus', 'Vicugna pacos', 'Microcebus murinus', 'Otolemur garnettii', 'Oryzias melastigma', 'Takifugu rubripes', 'Caenorhabditis remanei', 'Perkinsus marinus ATCC 50983', 'Enterocytozoon bieneusi H348', 'Colletotrichum graminicola M1.001', 'Caldicellulosiruptor bescii DSM 6725', 'Halothermothrix orenii H 168', 'Amycolatopsis orientalis DSM 40040 = KCTC 9412', 'Amycolatopsis lurida NRRL 2430', 'Absiella dolichum DSM 3991', 'Eggerthia catenaformis OT 569 = DSM 20559', 'Methylobacterium radiotolerans JCM 2831', 'Helicobacter hepaticus ATCC 51449', 'Synechococcus elongatus', 'Synechococcus sp. PCC 7002', 'Synechococcus sp. WH 7803', 'Calothrix sp. PCC 6303', 'Calothrix sp. PCC 7103', 'Tetranychus urticae', 'Xiphophorus couchianus', 'Neolamprologus brichardi', 'Desulfurella acetivorans A63', 'Winkia neuii subsp. neuii DSM 8576', 'Cutibacterium avidum 44067', 'Cutibacterium granulosum TM11', 'Propionimicrobium lymphophilum ACS-093-V-SCH5', 'Sporolactobacillus laevolacticus DSM 442', 'Anaerococcus hydrogenalis DSM 7454', 'Peptoniphilus indolicus ATCC 29427', 'Peptoniphilus lacrimalis 315-B', 'Anaerococcus lactolyticus ATCC 51172', 'Parvimonas micra ATCC 33270', 'Anaerococcus prevotii DSM 20548', 'Blautia producta', 'Anaerococcus tetradius ATCC 35098', 'Anaerococcus vaginalis ATCC 51170', 'Coprococcus eutactus ATCC 27759', 'Bartonella doshiae NCTC 12862 = ATCC 700133', 'Bartonella grahamii as4aup', 'Bartonella taylorii 8TBB', 'Bartonella vinsonii subsp. arupensis Pm136co', 'Candidatus Kinetoplastibacterium crithidii TCC036E', 'Acidithiobacillus caldus ATCC 51756', 'Gloeobacter violaceus PCC 7421', 'Acidobacterium capsulatum ATCC 51196', 'Entamoeba invadens IP1', 'Eremothecium gossypii ATCC 10895', 'Aspergillus terreus', 'Uncinocarpus reesii 1704', 'Purpureocillium lilacinum', 'Gambusia affinis', 'Coriobacterium glomerans PW2', 'Catenuloplanes japonicus', 'Brevibacterium casei S18', 'Streptomyces galbus', 'Streptomyces avermitilis MA-4680 = NBRC 14893', 'Bifidobacterium thermophilum', 'Actinopolyspora mortivallis DSM 44261', 'Amycolatopsis mediterranei U32', 'Anoxybacillus flavithermus subsp. yunnanensis str. E13', 'Geobacillus thermodenitrificans NG80-2', 'Geobacillus thermoleovorans CCB_US3_UF5', 'Kyrpidia tusciae DSM 2912', 'Enterococcus avium ATCC 14025', 'Acetobacterium woodii DSM 1030', 'Lactobacillus johnsonii NCC 533', 'Leuconostoc citreum KM20', 'Leuconostoc pseudomesenteroides 4882', 'Melissococcus plutonius ATCC 35311', 'Rickettsia amblyommatis str. GAT-30V', 'Rickettsia bellii OSU 85-389', 'Rickettsia montanensis str. OSU 85-930', 'Rickettsia rhipicephali str. 3-7-female6-CWPP', 'Neorickettsia helminthoeca str. Oregon', 'Gluconacetobacter diazotrophicus PA1 5', 'Paracoccus aminophilus JCM 7686', 'Paracoccus versutus', 'Azospirillum halopraeferens DSM 3675', 'Rhodospirillum centenum SW', 'Candidatus Liberibacter asiaticus str. gxpsy', 'Leptothrix cholodnii SP-6', 'Rahnella aquatilis CIP 78.65 = ATCC 33071', 'Variovorax paradoxus 110B', 'Riemerella anatipestifer RA-GD', 'Pedobacter antarcticus 4BY', 'Pelodictyon phaeoclathratiforme BU-1', 'Sphaerotilus natans subsp. natans DSM 6575', 'Streptobacillus moniliformis DSM 12112', 'Lotus japonicus', 'Mixia osmundae', 'Blumeria graminis', 'Trichophyton tonsurans', 'Trichophyton violaceum', 'Conidiobolus coronatus NRRL 28638', 'Strongyloides ratti', 'Anopheles melas', 'Anopheles quadriannulatus', 'Heliconius melpomene plesseni', 'Chinchilla lanigera', 'Thalassiosira pseudonana', 'Nosema apis BRL 01', 'Eubacterium brachy ATCC 33089', 'Eubacterium nodatum ATCC 33099', 'Daphnia magna', 'Geobacter sulfurreducens PCA', 'Stomoxys calcitrans', 'Streptomyces griseoflavus Tu4000', 'Streptomyces mobaraensis NBRC 13819 = DSM 40847', 'Acholeplasma oculi', 'Naja naja', 'Heliobacterium modesticaldum Ice1', 'Citrobacter amalonaticus', 'Epichloe festucae', 'Macrophomina phaseolina MS6', 'Sporichthya polymorpha DSM 43042', 'Dactylosporangium aurantiacum', 'Corynebacterium kutscheri', 'Corynebacterium pilosum DSM 20521', 'Bifidobacterium choerinum', "Peanut witches'-broom phytoplasma NTU2011", 'Coprothermobacter proteolyticus DSM 5265', 'Rickettsia africae ESF-5', 'Rickettsia helvetica C9P9', 'Rickettsia japonica YH', 'Rickettsia massiliae str. AZT80', 'Rickettsia parkeri str. Portsmouth', 'Rickettsia sibirica 246', 'Rickettsia slovaca str. D-CWPP', 'Ehrlichia muris AS145', 'Nitrococcus mobilis Nb-231', 'Nitrosospira briensis C-128', 'Nitrospina gracilis 3/211', 'Rhodovulum sulfidophilum DSM 1374', 'Bordetella holmesii ATCC 51541', 'Helicobacter heilmannii ASB1.4', 'Helicobacter pullorum MIT 98-5489', 'Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933', 'Hungateiclostridium cellulolyticum CD2', 'Bilophila wadsworthia ATCC 49260', 'Holophaga foetida DSM 6591', 'Bacillus thermoamylovorans', 'Ipomoea triloba', 'Cyberlindnera fabianii', 'Vanderwaltozyma polyspora DSM 70294', 'Fusarium poae', 'Cantharellus cibarius var. cibarius', 'Ganoderma sinense ZZ0214-1', 'Mucor circinelloides', 'Megaselia scalaris', 'Pelecanus crispus', 'Plasmodium ovale curtisi', 'Globisporangium irregulare', 'Aspergillus fischeri NRRL 181', 'Penicillium coprophilum', 'Penicillium digitatum', 'Dermabacter hominis 1368', 'Clostridium saccharoperbutylacetonicum N1-4(HMT)', 'Pseudomonas cichorii JBC1', 'Gaeumannomyces tritici', 'Mycobacteroides abscessus', 'Mycobacterium genavense ATCC 51234', 'Mycolicibacterium rhodesiae JS60', 'Gordonia aichiensis NBRC 108223', 'Gordonia amarae NBRC 15530', 'Gordonia sputi NBRC 100414', 'Clostridium celatum DSM 1785', 'Clostridium intestinale URNW', 'Desulfitobacterium dehalogenans ATCC 51507', 'Brucella canis ATCC 23365', 'Thiobacillus denitrificans DSM 12475', 'Paraburkholderia xenovorans LB400', 'Porphyromonas cangingivalis', 'Porphyromonas canoris', 'Clavispora lusitaniae', 'Lodderomyces elongisporus', 'Glossina brevipalpis', 'Kryptolebias marmoratus', 'Suricata suricatta', 'Gavia stellata', 'Aotus nancymaae', 'Nocardia brasiliensis ATCC 700358', 'Nocardia brevicatena NBRC 12119', 'Nocardia carnea NBRC 14403', 'Nocardia farcinica IFM 10152', 'Nocardia nova SH22a', 'Nocardia transvalensis NBRC 15921', 'Tupaia belangeri', 'Plasmodiophora brassicae', 'Helicobacter bilis ATCC 43879', 'Pisolithus tinctorius Marx 270', 'Laceyella sacchari 1-1', 'Marichromatium purpuratum 984', 'Cavia aperea', 'Thermus scotoductus SA-01', 'Octopus bimaculoides', 'Clostridium algidicarnis', 'Aegilops tauschii', 'Candidatus Phytoplasma mali AT', 'Talaromyces marneffei ATCC 18224', 'Enterococcus casseliflavus EC20', 'Cryptococcus gattii EJB2', 'Heterorhabditis bacteriophora', 'Rhytidhysteron rufulum', 'Rhodococcus opacus', 'Methanosarcina siciliae C2J', 'Chaetomium globosum', 'Rhynchosporium secalis', 'Corynebacterium accolens ATCC 49725', 'Corynebacterium genitalium ATCC 33030', 'Corynebacterium jeikeium K411', 'Photobacterium damselae subsp. damselae CIP 102761', 'Streptomyces pristinaespiralis ATCC 25486', 'Corynebacterium pseudogenitalium ATCC 33035', 'Corynebacterium vitaeruminis DSM 20294', 'Gluconobacter frateurii NBRC 103465', 'Rhodococcus rhodnii LMG 5362', 'Shewanella algae JCM 14758', 'Bartonella henselae str. Houston-1', 'Erysipelothrix tonsillarum DSM 14972', 'Eragrostis curvula', 'Phascolarctos cinereus', 'Alligator sinensis', 'Panicum virgatum', 'Gopherus agassizii', 'Neolentinus lepideus HHB14362 ss-1', 'Micromonas pusilla', 'Fraxinus excelsior', 'Acholeplasma palmae J233', 'Methanococcus maripaludis C6', 'Tuber melanosporum Mel28', 'Faecalitalea cylindroides ATCC 27803', 'Agathobaculum desmolans ATCC 43058', 'Dorea formicigenerans 4_6_53AFAA', 'Anaerobutyricum hallii DSM 3353', 'Eubacterium ramulus ATCC 29099', 'Eubacterium ventriosum ATCC 27560', 'Eubacterium xylanophilum ATCC 35991', 'Mesorhizobium ciceri biovar biserrulae WSM1271', 'Cellvibrio mixtus subsp. mixtus J3-8', 'Methanosalsum zhilinae DSM 4017', 'Mayetiola destructor', 'Hydrogenovibrio crunogenus XCL-2', 'Sulfurimonas denitrificans DSM 1251', 'Blattabacterium sp. (Mastotermes darwiniensis) str. MADAR', 'Methylomicrobium album BG8', 'Veillonella atypica KON', 'Veillonella dispar ATCC 17748', 'Corynebacterium glucuronolyticum ATCC 51867', 'Erythrobacter litoralis HTCC2594', 'Legionella moravica DSM 19234', 'Hypsizygus marmoreus', 'Helcococcus kunzii ATCC 51366', 'Bipolaris victoriae FI3', 'Neurospora tetrasperma', 'Oligotropha carboxidovorans OM5', 'Oryza glumipatula', 'Oryza meridionalis', 'Monodon monoceros', 'Lonchura striata domestica', 'Fusarium avenaceum', 'Acinetobacter johnsonii SH046', 'Acinetobacter junii', 'Acinetobacter radioresistens SH164', 'Junco hyemalis', 'Aliivibrio salmonicida LFI1238', 'Penicillium italicum', 'Nosema ceranae BRL01', 'Streptomyces nodosus', 'Stenotrophomonas maltophilia K279a', 'Fonsecaea pedrosoi CBS 271.37', 'Acinetobacter sp. CIP-A165', 'Daedalea quercina L-15889', 'Fistulina hepatica ATCC 64428', 'Fomitopsis pinicola', 'Stereum hirsutum', 'Ruminococcus bromii L2-63', 'Ruminococcus callidus ATCC 27760', 'Blautia obeum ATCC 29174', 'Leptotrichia buccalis C-1013-b', 'Sutterella wadsworthensis HGA0223', 'Botrytis cinerea', 'Sporobolomyces roseus IAM 13481', 'Actinosynnema mirum DSM 43827', 'Lentzea albidocapillata', 'Xenorhabdus bovienii SS-2004', 'Xenorhabdus poinarii G6', 'Claviceps paspali', 'Claviceps fusiformis', 'Balansia obtecta', 'Thioploca ingrica', 'Borrelia duttonii Ly', 'Rhopalosiphum padi', 'Saccharomonospora azurea SZMC 14600', 'Saccharomonospora cyanea NA-134', 'Saccharomonospora glauca K62', 'Aspergillus carbonarius ITEM 5010', 'Elsinoe australis', 'Penicilliopsis zonata CBS 506.65', 'Ewingella americana ATCC 33852', 'Anopheles atroparvus', 'Seriola dumerili', 'Lomentospora prolificans', 'Bathycoccus prasinos', 'Candidatus Microthrix parvicella RN1', 'Amanita muscaria Koide BX008', 'Porphyromonas catoniae F0037', 'Enterococcus saccharolyticus subsp. saccharolyticus ATCC 43076', 'Drosophila bipectinata', 'Pneumocystis jirovecii SE8', 'Ureaplasma diversum NCTC 246', 'Phocoena sinus', 'Prunus avium', 'Streptomyces acidiscabies 84-104', 'Tuber magnatum', 'Tuber borchii', 'Desulfovibrio termitidis HI1', 'Sorex araneus', 'Rubrobacter radiotolerans', 'Phoenix dactylifera', 'Aciculosporium take MAFF-241224', 'Candida dubliniensis', 'Vittaforma corneae ATCC 50505', 'Halobacteroides halobius DSM 5150', 'Roseobacter litoralis Och 149', 'Lichtheimia corymbifera', 'Desulfofundulus thermocisternus DSM 10259', 'Pygocentrus nattereri', 'Halomonas salina', 'Streptomyces collinus Tu 365', 'Gelatoporia subvermispora B', 'Epichloe amarillans E57', 'Corynebacterium argentoratense DSM 44202', 'Ammonifex degensii KC4', 'Staphylococcus lentus F1142', 'Rickettsia felis URRWXCal2', 'Methanococcus aeolicus Nankai-3', 'Anopheles christyi', 'Tilletia indica', 'Sulfolobus islandicus REY15A', 'Rhopalosiphum maidis', 'Anopheles darlingi', 'Ictidomys tridecemlineatus', 'Capronia epimyces', 'Capronia coronata', 'Pseudomonas alcaligenes NBRC 14159', 'Butyrivibrio proteoclasticus P6B7', 'Prauserella rugosa', 'Kutzneria albida DSM 43870', 'Cathartes aura', 'Zosterops lateralis melanops', 'Halanaerobium saccharolyticum subsp. saccharolyticum DSM 6643', 'Pseudoalteromonas citrea DSM 8771', 'Pseudoalteromonas luteoviolacea B = ATCC 29581', 'Pseudoalteromonas rubra DSM 6842', 'Paenarthrobacter aurescens TC1', 'Brachybacterium faecium DSM 4810', 'Jonesia denitrificans DSM 20603', 'Rothia mucilaginosa DY-18', 'Metallosphaera sedula DSM 5348', 'Monopterus albus', 'Streptomyces wedmorensis', 'Corynebacterium amycolatum SK46', 'Rhodococcus hoagii 103S', 'Corynebacterium matruchotii ATCC 14266', 'Corynebacterium propinquum DSM 44285', 'Corynebacterium striatum ATCC 6940', 'Corynebacterium urealyticum DSM 7109', 'Tolumonas auensis DSM 9187', 'Johnsonella ignava ATCC 51276', 'Catonella morbi ATCC 51271', 'Caldicellulosiruptor saccharolyticus DSM 8903', 'Enterococcus cecorum DSM 20682 = ATCC 43198', 'Enterococcus dispar ATCC 51266', 'Ferrimonas balearica DSM 9799', 'Aureococcus anophagefferens', 'Streptomyces megasporus', 'Trichomonascus ciferrii', 'Paenibacillus alvei TS-15', 'Paenibacillus durus', 'Paenibacillus macerans', 'Bradyrhizobium oligotrophicum S58', 'Caldanaerobius polysaccharolyticus DSM 13641', 'Erythrura gouldiae', 'Zonotrichia albicollis', 'Eimeria mitis', 'Borrelia persica No12', 'Borrelia recurrentis A1', 'Natronococcus amylolyticus DSM 10524', 'Nitrosomonas cryotolerans ATCC 49181', 'Sulfurospirillum barnesii SES-3', 'Geothrix fermentans DSM 14018', 'Dictyostelium discoideum', 'Natronobacterium gregoryi SP2', 'Legionella fairfieldensis ATCC 49588', 'Legionella lansingensis DSM 19556 = ATCC 49751', 'Legionella shakespearei DSM 23087', 'Bipolaris sorokiniana', 'Pyrenophora tritici-repentis Pt-1C-BFP', 'Cyanidioschyzon merolae', 'Tolypocladium capitatum', 'Capnocytophaga granulosa ATCC 51502', 'Leucothrix mucor DSM 2157', 'Eremothecium cymbalariae', 'Eremothecium sinecaudum', 'Nematostella vectensis', 'Mycoplasma conjunctivae HRC/581', 'Mycoplasma bovoculi M165/69', 'Mycoplasma alkalescens 14918', 'Brevibacillus borstelensis 3096-7', 'Wickerhamiella sorbophila', 'Babjeviella inositovora NRRL Y-12698', 'Streptococcus cristatus AS 1.3089', 'Vibrio scophthalmi LMG 19158', 'Desulfohalobium retbaense DSM 5692', 'Nadsonia fulvescens', 'Butyrivibrio crossotus DSM 2876', 'Staphylococcus pasteuri SP1', 'Granulicatella adiacens ATCC 49175', 'Abiotrophia defectiva ATCC 49176', 'Staphylococcus chromogenes MU 970', 'Pseudobutyrivibrio ruminis CF1b', 'Anabaena sp. 90', 'Weissella hellenica', 'Pseudomonas avellanae BPIC 631', 'Mycolicibacterium hassiacum DSM 44199', 'Thermoanaerobacter wiegelii Rt8.B1', 'Spirochaeta africana DSM 8902', 'Sphingobium chlorophenolicum', 'Reticulomyxa filosa', 'Orenia marismortui DSM 5156', 'Parabacteroides merdae ATCC 43184', 'Bacteroides stercoris ATCC 43183', 'Thermosipho melanesiensis BI429', 'Suhomyces tanzawaensis', 'Aureobasidium melanogenum', 'Pseudomonas nitroreducens HBP1', 'Entamoeba dispar', 'Cenarchaeum symbiosum A', 'Dethiosulfovibrio peptidovorans DSM 11002', 'Desulfovibrio bastinii DSM 16055', 'Massilia timonae CCUG 45783', 'Neogobius melanostomus', 'Armillaria gallica', 'Armillaria ostoyae', 'Borrelia miyamotoi LB-2001', 'Rickettsia peacockii str. Rustic', 'Lautropia mirabilis ATCC 51599', 'Bacteroides caccae ATCC 43185', 'Mycoplasma alligatoris A21JP2', 'Lactobacillus rhamnosus GG', 'Streptomyces olivaceus', 'Bibersteinia trehalosi USDA-ARS-USMARC-189', 'Atkinsonella hypoxylon', 'Streptomyces sulphureus DSM 40104', 'Streptomyces lydicus', 'Lactobacillus crispatus ST1', 'Epichloe baconii ATCC 200745', 'Mycobacterium triplex', 'Micromonospora aurantiaca ATCC 27029', 'Pseudomonas amygdali pv. mori str. 301020', 'Pseudomonas corrugata CFBP 5454', 'Pseudomonas fulva 12-X', 'Pseudomonas synxantha BG33R', 'Pseudomonas luteola XLDN4-9', 'Serratia fonticola AU-AP2C', 'Vibrio cyclitrophicus FF75', 'Oreochromis aureus', 'Hyphomicrobium zavarzinii ATCC 27496', 'Acinetobacter pittii PHEA-2', 'Xanthomonas fragariae LMG 25863', 'Neolecta irregularis DAH-3', 'Penicillium freii', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Orchesella cincta', 'Geospiza fortis', 'Novosphingobium aromaticivorans DSM 12444', 'Sporisorium scitamineum', 'Candidatus Arthromitus sp. SFB-mouse-Japan', 'Kineosporia aurantiaca JCM 3230', 'Marinobacterium stanieri S30', 'Psychroserpens burtonensis DSM 12212', 'Rubrobacter xylanophilus DSM 9941', 'Desulfitobacterium hafniense Y51', 'Coffea canephora', 'Nicotiana attenuata', 'Holospora obtusa F1', 'Mycoplasma crocodyli MP145', 'Rhizobium sullae WSM1592', 'Thermoplasma volcanium GSS1', 'Charadrius vociferus', 'Pinctada fucata', 'Arabis alpina', 'Helicobacter trogontum', 'Actinobacillus minor NM305', 'Eubacterium saphenum ATCC 49989', 'Catagonus wagneri', 'Treponema maltophilum ATCC 51939', 'Ureibacillus thermosphaericus str. Thermo-BF', 'Syntrophobotulus glycolicus DSM 8271', 'Wigglesworthia glossinidia endosymbiont of Glossina morsitans morsitans (Yale colony)', 'Kluyvera ascorbata ATCC 33433', 'Eimeria brunetti', 'Eimeria praecox', 'Jaculus jaculus', 'Castor canadensis', 'Mycoplasma auris 15026', 'Mycoplasma yeatsii 13926', 'Trichoderma reesei', 'Ciona savignyi', 'Spraguea lophii 42_110', 'Haloarcula hispanica ATCC 33960', 'Kluyveromyces dobzhanskii CBS 2104', 'Nakaseomyces delphensis', 'Nakaseomyces bacillisporus', 'Tetragenococcus halophilus NBRC 12172', 'Tortispora caseinolytica', 'Meiothermus silvanus DSM 9946', 'Calidithermus chliarophilus DSM 9957', 'Acinetobacter venetianus RAG-1 = CIP 110063', 'Mitsuokella multacida DSM 20544', 'Prevotella dentalis DSM 3688', 'Lactobacillus gallinarum DSM 10532 = JCM 2011', 'Sarcoptes scabiei', 'Plasmodium inui San Antonio 1', 'Brachyspira pilosicoli 95/1000', 'Erysiphe necator', 'Sulfitobacter sp. EE-36', 'Sagittula stellata E-37', 'Haliaeetus leucocephalus', 'Bartonella alsatica IBS 382', 'Caldicellulosiruptor kristjanssonii I77R1B', 'Caldicellulosiruptor lactoaceticus 6A', 'Schaalia georgiae DSM 6843', 'Scophthalmus maximus', 'Desulfonatronovibrio hydrogenovorans DSM 9292', 'Desulfospira joergensenii DSM 10085', 'Enterococcus durans ATCC 6056', 'Enterococcus mundtii QU 25', 'Intrasporangium calvum DSM 43043', 'Brevibacterium mcbrellneri ATCC 49030', 'Hamadaea tsunoensis DSM 44101', 'Hyphomicrobium denitrificans 1NES1', 'Pseudomonas coronafaciens pv. oryzae str. 1_6', 'Pseudomonas resinovorans NBRC 106553', 'Xanthomonas axonopodis pv. vasculorum', 'Treponema lecithinolyticum ATCC 700332', 'Treponema socranskii subsp. socranskii VPI DR56BR1116 = ATCC 35536', 'Thermobrachium celere DSM 8682', 'Thermodesulfobacterium hveragerdense DSM 12571', 'Gordonia hirsuta DSM 44140 = NBRC 16056', 'Treponema paraluiscuniculi Cuniculi A', 'Nocardiopsis alba ATCC BAA-2165', 'Blautia hydrogenotrophica DSM 10507', 'Nakamurella multipartita DSM 44233', 'Mycolicibacterium mageritense DSM 44476 = CIP 104973', 'Pyrenophora teres', 'Sulfobacillus acidophilus TPY', 'Acidimicrobium ferrooxidans DSM 10331', 'Hanseniaspora valbyensis NRRL Y-1626', 'Octadecabacter arcticus 238', 'Pyrococcus horikoshii OT3', 'Peptoniphilus harei ACS-146-V-Sch2b', 'Pseudonocardia asaccharolytica DSM 44247 = NBRC 16224', 'Thermococcus zilligii AN1', 'Methanolacinia petrolearia DSM 11571', 'Pristionchus pacificus', 'Colobus angolensis palliatus', 'Ascoidea rubescens DSM 1968', 'Hyperthermus butylicus DSM 5456', 'Pyrolobus fumarii 1A', 'Thermosphaera aggregans DSM 11486', 'Ferroglobus placidus DSM 10642', 'Raoultella ornithinolytica B6', 'Chroococcidiopsis thermalis PCC 7203', 'Pleurocapsa sp. PCC 7327', 'Spirulina subsalsa PCC 9445', 'Mesitornis unicolor', 'Cariama cristata', 'Eurypyga helias', 'Streptomyces venezuelae ATCC 10712', 'Salmonella bongori N268-08', 'Streptococcus thoraltensis DSM 12221', 'Deinococcus proteolyticus MRP', 'Sciurus vulgaris', 'Flavobacterium branchiophilum FL-15', 'Epichloe elymi E56', 'Caldicellulosiruptor owensensis OL', 'Sediminispirochaeta smaragdinae DSM 11293', 'Pectobacterium betavasculorum', 'Ruegeria lacuscaerulensis ITI-1157', 'Thermonema rossianum DSM 10300', 'Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628', 'Pistacia vera', 'Magnetospirillum gryphiswaldense MSR-1 v2', 'Guillardia theta', 'Actinomyces graevenitzii C83', 'Dehalobacter restrictus DSM 9455', 'Vibrio anguillarum', 'Cuculus canorus', 'Thermococcus barophilus MP', 'Malurus cyaneus samueli', 'Streptomyces toyocaensis', 'Tyto alba', 'Hanseniaspora guilliermondii', 'Hanseniaspora osmophila', 'Bartonella clarridgeiae 73', 'Xanthomonas arboricola pv. celebensis', 'Xanthomonas cassavae CFBP 4642', 'Xanthomonas hortorum pv. carotae str. M081', 'Xanthomonas sacchari', 'Xanthomonas campestris pv. musacearum NCPPB 4379', 'Xanthomonas vesicatoria ATCC 35937', 'Protomyces lactucaedebilis', 'Aeropyrum pernix K1', 'Cottoperca gobio', 'Labrus bergylta', 'Rhizobium gallicum bv. gallicum R602sp', 'Rhizobium giardinii bv. giardinii H152', 'Eubacterium infirmum F0142', 'Glaciecola punicea ACAM 611', 'Shewanella frigidimarina NCIMB 400', 'Helicobacter bizzozeronii CIII-1', 'Afipia broomeae ATCC 49717', 'Thermus oshimai JL-2', 'Psychroflexus torquis ATCC 700755', 'Lactobacillus zeae DSM 20178 = KCTC 3804', 'Acanthisitta chloris', 'Mycoplasma suis str. Illinois', 'Apaloderma vittatum', 'Colius striatus', 'Merops nubicus', 'Trifolium pratense', 'Sulfurospirillum arcachonense DSM 9755', 'Rhizobium mongolense USDA 1844', 'Halomicrobium mukohataei DSM 12286', 'Enterococcus asini ATCC 700915', 'Fragaria vesca subsp. vesca', 'Burkholderia thailandensis MSMB43', 'Daktulosphaira vitifoliae', 'Spirillospora albida', 'Desulfofundulus kuznetsovii DSM 6115', 'Desulfofarcimen acetoxidans DSM 771', 'Desulfovibrio alaskensis G20', 'Treponema medium ATCC 700293', 'Archaeoglobus veneficus SNP6', 'Rhizopus microsporus', 'Streptomyces celluloflavus', 'Kitasatospora azatica KCTC 9699', 'Kitasatospora mediocidica KCTC 9733', 'Debaryomyces fabryi', 'Encephalitozoon intestinalis ATCC 50506', 'Trichoderma citrinoviride', 'Tilletiopsis washingtonensis', 'Rickettsiella grylli', 'Streptococcus macedonicus ACA-DC 198', 'Myotis lucifugus', 'Rhinolophus ferrumequinum', 'Actinotignum schaalii FB123-CNA-2', 'Pantholops hodgsonii', 'Corynespora cassiicola Philippines', 'Cellulophaga algicola DSM 14237', 'Desulfotomaculum reducens MI-1', 'Helicobacter rodentium ATCC 700285', 'Arabidopsis lyrata', 'Taeniopygia guttata', 'Candidatus Phytoplasma australiense', 'Alcanivorax borkumensis SK2', 'Angomonas deanei', 'Sphingomonas echinoides ATCC 14820', 'Paenibacillus alginolyticus DSM 5050 = NBRC 15375', 'Paenibacillus curdlanolyticus YK9', 'Paenibacillus peoriae KCTC 3763', 'Ficedula albicollis', 'Cyanobium gracile PCC 6307', 'Synechococcus sp. WH 7805', 'Prevotella pallens ATCC 700821', 'Penicillium polonicum', 'Penicillium solitum', 'Penicillium nalgiovense', 'Shewanella violacea DSS12', 'Shewanella amazonensis SB2B', 'Shewanella sp. MR-4', 'Shewanella sp. MR-7', 'Lactobacillus paraplantarum', 'Burkholderia vietnamiensis G4', 'Chlorocebus sabaeus', 'Halogeometricum borinquense DSM 11551', 'Phaeobacter gallaeciensis DSM 26640', 'Desulfobacca acetoxidans DSM 11109', 'Saccharopolyspora spinosa NRRL 18395', 'Sanguibacter keddieii DSM 10542', 'Shewanella woodyi ATCC 51908', 'Holdemania filiformis DSM 12042', 'Monilinia laxa', 'Varanus komodoensis', 'Ophiostoma piceae', 'Lynx canadensis', 'Dehalococcoides mccartyi 195', 'Coniosporium apollinis', 'Corynebacterium durum F0235', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Paenibacillus mucilaginosus KNP414', 'Acholeplasma brassicae', 'Enterobacter asburiae LF7a', 'Lelliottia amnigena CHS 78', 'Pluralibacter gergoviae', 'Amphilophus citrinellus', 'Nomascus leucogenys', 'Natronorubrum bangense JCM 10635', 'Hucho hucho', 'Borreliella valaisiana Tom4006', 'Acidiphilium multivorum AIU301', 'Haloterrigena turkmenica DSM 5511', 'Shewanella baltica OS117', 'Anopheles funestus', 'Saccharum spontaneum', 'Natronorubrum tibetense GA33', 'Calocera viscosa TUFC12733', 'Zobellia galactanivorans', 'Aquifex aeolicus VF5', 'Melanopsichium pennsylvanicum 4', 'Trichophyton benhamiae', 'Nannizzia gypsea CBS 118893', 'Microsporum canis CBS 113480', 'Trichophyton verrucosum', 'Trichophyton equinum', 'Desulfovibrio oxyclinae DSM 11498', 'Trichoderma atroviride', "Sodalis glossinidius str. 'morsitans'", 'Hydrogenovibrio kuenenii DSM 12350', 'Sideroxydans lithotrophicus ES-1', 'Demetria terragena DSM 11295', 'Nevskia ramosa DSM 11499', 'Bacillus pseudomycoides DSM 12442', 'Anabas testudineus', 'Desulfurobacterium thermolithotrophum DSM 11699', 'Podarcis muralis', 'Coleofasciculus chthonoplastes PCC 7420', 'Carnimonas nigrificans ATCC BAA-78', 'Dothistroma septosporum', 'Synechococcus sp. CC9311', 'Rhizopus oryzae', 'Mortierella alpina ATCC 32222', 'Lobosporangium transversale', 'Natrialba asiatica DSM 12278', 'Tetragenococcus muriaticus DSM 15685', 'Borreliella bissettii DN127', 'Terasakiella pusilla DSM 6293', 'Marinospirillum minutulum DSM 6287', 'Alcanivorax jadensis T9', 'Corynebacterium ulcerans BR-AD22', 'Pythium aphanidermatum DAOM BR444', 'Halothece sp. PCC 7418', 'Mycoplasma wenyonii str. Massachusetts', 'Oryza barthii', 'Actinoalloteichus cyanogriseus', 'Meiothermus cerbereus DSM 11376', 'Sulfurospirillum deleyianum DSM 6946', 'Desulfocapsa sulfexigens DSM 10523', 'Serendipita indica', 'Erwinia tracheiphila PSU-1', 'Pseudomonas knackmussii B13', 'Wolbachia sp. wRi', 'Lachnoclostridium phytofermentans ISDg', 'Gleimia europaea ACS-120-V-Col10b', 'Komagataeibacter intermedius AF2', 'Pantoea stewartii', 'Streptomyces niger', 'Streptomyces violens', 'Papilio xuthus', 'Streptomyces roseoverticillatus', 'Sulfurospirillum multivorans DSM 12446', 'Streptomyces afghaniensis 772', 'Streptomyces atroolivaceus', 'Streptomyces bicolor', 'Streptomyces catenulae', 'Streptomyces griseorubens', 'Trypanosoma theileri', 'Streptomyces alboflavus', 'Streptomyces aureocirculatus', 'Streptomyces filamentosus NRRL 15998', 'Streptomyces flavidovirens DSM 40150', 'Streptomyces lavenduligriseus', 'Streptomyces mutabilis', 'Kitasatospora purpeofusca', 'Streptomyces resistomycificus', 'Streptomyces varsoviensis', 'Rheinheimera baltica DSM 14885', 'Streptomyces viridosporus ATCC 14672', 'Phytophthora sojae', 'Methanocaldococcus infernus ME', 'Edwardsiella ictaluri 93-146', 'Citrobacter farmeri GTC 1319', 'Citrobacter rodentium ICC168', 'Citrobacter sedlakii NBRC 105722', 'Actinobacillus succinogenes 130Z', 'Lentzea aerocolonigenes', 'Streptomyces cyaneogriseus subsp. noncyanogenus', 'Streptomyces durhamensis', 'Streptomyces flavochromogenes', 'Streptomyces fulvissimus DSM 40593', 'Streptomyces griseoaurantiacus M045', 'Streptomyces iakyrus', 'Streptomyces katrae', 'Streptomyces pyridomyceticus', 'Streptomyces violaceusniger Tu 4113', 'Moschus moschiferus', 'Streptomyces albulus', 'Sphaerobolus stellatus SS14', 'Scleroderma citrinum Foug A', 'Rasamsonia emersonii CBS 393.64', 'Theileria orientalis', 'Streptococcus peroris ATCC 700780', 'Streptococcus infantis SK970', 'Deinococcus geothermalis DSM 11300', 'Anopheles farauti', 'Synechococcus sp. WH 5701', 'Enterobacter cancerogenus ATCC 35316', 'Dickeya paradisiaca Ech703', 'Aquamicrobium defluvii', 'Gasterosteus aculeatus', 'Microplitis demolitor', 'Pseudomonas sp. VLB120', 'Chara braunii', 'Caulobacter henricii', 'Petrotoga mobilis SJ95', 'Natrinema pellirubrum DSM 15624', 'Natrinema pallidum DSM 3751', 'Treponema vincentii ATCC 35580', 'Penicillium oxalicum 114-2', 'Selenomonas sputigena ATCC 35185', 'Trichophyton soudanense CBS 452.61', 'Macrococcus caseolyticus JCSC5402', 'Ostreococcus tauri', 'Edhazardia aedis USNM 41457', 'Pyrobaculum neutrophilum V24Sta', 'Pseudomonas plecoglossicida NB2011', 'Nodularia spumigena CCY9414', 'Shewanella oneidensis MR-1', 'Shewanella pealeana ATCC 700345', 'Flexithrix dorotheae DSM 6795', 'Lewinella cohaerens DSM 23179', 'Lewinella persica DSM 23188', 'Eucalyptus grandis', 'Paxillus involutus ATCC 200175', 'Staphylococcus vitulinus F1028', 'Vibrio halioticoli NBRC 102217', 'Mesorhizobium amorphae CCNWGS0123', 'Enterococcus malodoratus ATCC 43197', 'Enterococcus raffinosus ATCC 49464', 'Tolypocladium ophioglossoides CBS 100239', 'Lonsdalea quercina subsp. quercina', 'Waddlia chondrophila WSU 86-1044', 'Naematelia encephala', 'Hypholoma sublateritium FD-334 SS-4', 'Kocuria rhizophila P7-4', 'Bos mutus', 'Sphaeroforma arctica JP610', 'Thielaviopsis punctulata', 'Lepeophtheirus salmonis', 'Citromicrobium bathyomarinum JL354', 'Ophiocordyceps sinensis', 'Trachipleistophora hominis', 'Bacillus mojavensis RO-H-1 = KCTC 3706', 'Drosophila austrosaltans', 'Drosophila lusaltans', 'Drosophila milleri', 'Nannochloropsis gaditana CCMP526', 'Achromobacter piechaudii HLE', 'Sporisorium reilianum', 'Boechera stricta', 'Eutrema salsugineum', 'Dechloromonas agitata is5', 'Streptomyces seoulensis', 'Thiocystis violascens DSM 198', 'Emmonsia crescens UAMH 3008', 'Cordyceps militaris', 'Piromyces sp. E2', 'Methanocaldococcus vulcanius M7', 'Thermaerobacter marianensis DSM 12885', 'Photobacterium profundum SS9', 'Brevundimonas bacteroides DSM 4726', 'Brevundimonas subvibrioides ATCC 15264', 'Maricaulis maris MCS10', 'Hyphomonas polymorpha PS728', 'Sulfitobacter guttiformis KCTC 32187', 'Thraustotheca clavata', 'Rosa chinensis', 'Stachybotrys chartarum IBT 7711', 'Pseudomonas balearica DSM 6083', 'Anopheles maculatus', 'Anopheles sinensis', 'Oncorhynchus tshawytscha', 'Paraburkholderia caribensis MBA4', 'Saccharomonospora xinjiangensis XJ-54', 'Sinocyclocheilus grahami', 'Pseudomonas mandelii PD30', 'Castellaniella defragrans 65Phen', 'Anas zonorhyncha', 'Thermocrinis ruber DSM 12173', 'Mycolicibacterium tusciae JS617', 'Mannheimia haemolytica M42548', 'Thauera linaloolentis 47Lol = DSM 12138', 'Thauera terpenica 58Eu', 'Alloprevotella tannerae ATCC 51259', 'Prevotella enoeca JCM 12259', 'Vibrio rumoiensis 1S-45', 'Campylobacter hominis ATCC BAA-381', 'Cellulophaga baltica 13', 'Mycetocola saprophilus', 'Streptomyces vitaminophilus DSM 41686', 'Sinorhizobium arboris LMG 14919', 'Pseudomonas monteilii SB3078', 'Malassezia globosa CBS 7966', 'Malassezia sympodialis ATCC 42132', 'Myroides odoratimimus H1bi', 'Solibacillus silvestris StLB046', 'Streptococcus constellatus subsp. pharyngis SK1060 = CCUG 46377', 'Hebeloma cylindrosporum h7', 'Caldivirga maquilingensis IC-167', 'Asticcacaulis biprosthecum C19', 'Sphingobium herbicidovorans NBRC 16415', 'Malassezia pachydermatis', 'Cylindrospermopsis raciborskii CS-505', 'Wolbachia endosymbiont of Drosophila simulans wNo', 'Rosellinia necatrix', 'Sclerotinia borealis F-4128', 'Dendroctonus ponderosae', 'Plasmodium gonderi', 'Leersia perrieri', 'Bifidobacterium subtile', 'Prevotella albensis DSM 11370 = JCM 12258', 'Succinispira mobilis DSM 6222', 'Oidiodendron maius', 'Parascardovia denticolens DSM 10105 = JCM 12538', 'Scardovia inopinata F0304', 'Pseudomonas mosselii SJ10', 'Mycobacterium canettii CIPT 140070017', 'Bifidobacterium gallicum DSM 20093 = LMG 11596', 'Bifidobacterium gallinarum', 'Bifidobacterium merycicum', 'Bifidobacterium ruminantium', 'Streptomyces somaliensis DSM 40738', 'Pectobacterium odoriferum', 'Neonectria ditissima', 'Bifidobacterium pullorum DSM 20433', 'Rhizobium undicola ORS 992 = ATCC 700741', 'Thermothelomyces thermophilus', 'Asticcacaulis excentricus CB 48', 'Podila verticillata', 'Desulfosporosinus meridiei DSM 13257', 'Chitinophaga pinensis DSM 2588', 'Epichloe brachyelytri', 'Microtus ochrogaster', 'Cimex lectularius', 'Bacillus clausii KSM-K16', 'Bacillus pseudofirmus OF4', 'Erwinia pyrifoliae Ep1/96', 'Coniophora puteana', 'Piloderma croceum F 1598', 'Thioflavicoccus mobilis 8321', 'Aphis gossypii', 'Haliangium ochraceum DSM 14365', 'Wolbachia endosymbiont strain TRS of Brugia malayi', 'Aliivibrio wodanis', 'Moritella viscosa', 'Delftia acidovorans SPH-1', 'Acidovorax avenae subsp. avenae ATCC 19860', 'Acidovorax citrulli AAC00-1', 'Cryptosporangium arvum DSM 44712', 'Hylemonella gracilis str. Niagara R', 'Simplicispira psychrophila DSM 11588', 'Colletotrichum higginsianum', 'Acanthochromis polyacanthus', 'Amphiprion ocellaris', 'Treponema brennaborense DSM 12168', 'Hyphomonas adhaerens MHS-3', 'Hyphomonas johnsonii MHS-2', 'Hyphomonas neptunium ATCC 15444', 'Hyphomonas oceanitis SCH89', 'Wolfiporia cocos MD-104 SS10', 'Desulfovibrio alcoholivorans DSM 5433', 'Parageobacillus caldoxylosilyticus CIC9', 'Aminomonas paucivorans DSM 12260', 'Desulfovibrio aminophilus DSM 12254', 'Thermanaerovibrio acidaminovorans DSM 6589', 'Aminobacterium mobile DSM 12262', 'Aminobacterium colombiense DSM 12261', 'Frateuria aurantia DSM 6220', 'Monosiga brevicollis', 'Kitasatospora cheerisanensis KCTC 2395', 'Vagococcus lutrae LBD1', 'Arabidopsis halleri subsp. gemmifera', 'Capsella rubella', 'Picrophilus torridus DSM 9790', 'Atopobium vaginae DSM 15829', 'Centipeda periodontii DSM 2778', 'Phlebiopsis gigantea 11061_1 CR5-6', 'Facklamia languida CCUG 37842', 'Paracoccus pantotrophus J46', 'Anaerovibrio lipolyticus LB2005', 'Anaeroarcus burkinensis DSM 6283', 'Trichosporon asahii', 'Pseudanabaena sp. PCC 7367', 'Streptococcus ovis DSM 16829', 'Pythium arrhenomanes ATCC 12531', 'Buttiauxella agrestis ATCC 33320', 'Budvicia aquatica DSM 5075 = ATCC 35567', 'Leminorella grimontii ATCC 33999 = DSM 5078', 'Tatumella ptyseos ATCC 33301', 'Serratia grimesii', 'Serratia plymuthica', 'Methanocaldococcus fervens AG86', 'Sulfitobacter mediterraneus', 'Prevotella brevis P6B11', 'Gordonia rhizosphera NBRC 16068', 'Myxococcus stipitatus DSM 14675', 'Linepithema humile', 'Parachlamydia acanthamoebae UV-7', 'Chlamydia psittaci 10_1398_11', 'Chlamydia abortus S26/3', 'Chlamydia felis Fe/C-56', 'Chlamydia caviae GPIC', 'Chlamydia pneumoniae TW-183', 'Chlamydia suis MD56', 'Chlamydia muridarum str. Nigg', 'Simkania negevensis Z', 'Leclercia adecarboxylata ATCC 23216 = NBRC 102595', 'Lactobacillus amylolyticus DSM 11664', 'Succinimonas amylolytica DSM 2873', 'Succinivibrio dextrinosolvens H5', 'Methanobrevibacter ruminantium M1', 'Trypanosoma conorhini', 'Methanocorpusculum labreanum Z', 'Methanoculleus bourgensis MS2', 'Clostridium autoethanogenum DSM 10061', 'Clostridium haemolyticum NCTC 9693', 'Gordonia alkanivorans NBRC 16433', 'Slackia exigua ATCC 700122', 'Slackia heliotrinireducens DSM 20476', 'Eggerthella lenta DSM 2243', 'Gemella sanguinis M325', 'Gemella bergeri ATCC 700627', 'Archaeoglobus profundus DSM 5631', 'Magnetospirillum magneticum AMB-1', 'Cryptobacterium curtum DSM 15641', 'Brachyspira intermedia PWS/A', 'Brachyspira murdochii DSM 12563', 'Hippea maritima DSM 10411', 'Lysobacter antibioticus', 'Synechococcus sp. WH 8102', 'Taylorella asinigenitalis MCE3', 'Gordonia polyisoprenivorans VH2', 'Staphylothermus hellenicus DSM 12710', 'Candidatus Odyssella thessalonicensis L13', 'Anthracocystis flocculosa', 'Moesziomyces antarcticus', 'Moesziomyces aphidis DSM 70725', 'Beutenbergia cavernae DSM 12333', 'Desulfotalea psychrophila LSv54', 'Corvus brachyrhynchos', 'Pseudarthrobacter chlorophenolicus A6', 'Clogmia albipunctata', 'Mannheimia varigena USDA-ARS-USMARC-1296', 'Plasmodium relictum', 'Thauera sp. MZ1T', 'Citrus clementina', 'Triticum dicoccoides', 'Achromobacter xylosoxidans A8', 'Bartonella tribocorum CIP 105476', 'Thermacetogenium phaeum DSM 12270', 'Sphaerulina musiva', 'Serpula lacrymans', 'Chlamydia pecorum E58', 'Cladophialophora carrionii', 'Rhinocladiella mackenziei CBS 650.93', 'Arenibacter latericius DSM 15913', 'Syntrophothermus lipocalidus DSM 12680', 'Phaseolibacter flectens ATCC 12775', 'Saccharophagus degradans 2-40', 'Mycoplasma dispar', 'Bacillus flexus T6186-2', 'Bacillus halodurans C-125', 'Propionispira raffinosivorans DSM 20765', 'Camarhynchus parvulus', 'Facklamia sourekii ATCC 700629', 'Burkholderia multivorans ATCC 17616', 'Selaginella moellendorffii', 'Treponema primitia ZAS-2', 'Eremococcus coleocola DSM 15696', 'Thermus igniterrae ATCC 700962', 'Thermus antranikianii DSM 12462', 'Dorea longicatena AGR2136', 'Cyclospora cayetanensis', 'Megaselia abdita', 'Caulobacter segnis ATCC 21756', 'Ceratocystis platani', 'Borreliella spielmanii A14S', 'Streptomyces yeochonensis CN732', 'Gordonia amicalis CCMA-559', 'Corynebacterium terpenotabidum Y-11', 'Ruegeria pomeroyi DSS-3', 'Laccaria amethystina LaAM-08-1', 'Bubalus bubalis', 'Cladophialophora bantiana CBS 173.52', 'Moraxella caprae DSM 19149', 'Oligella ureolytica DSM 18253', 'Oligella urethralis DNF00040', 'Absidia repens', 'Camelina sativa', 'Moritella marina ATCC 15381', 'Hydrogenovibrio sp. Milos-T1', 'Thiomicrorhabdus sp. Milos-T2', 'Enterovibrio calviensis 1F-211', 'Polistes canadensis', 'Synechococcus sp. PCC 7335', 'Aspergillus udagawae', 'Candidatus Paracaedibacter acanthamoebae', 'Mucor ambiguus', 'Candidatus Portiera aleyrodidarum BT-QVLC', 'Exophiala spinifera', 'Hortaea werneckii', 'Catharus ustulatus', 'Bartonella koehlerae C-29', 'Thiomicrospira aerophila AL3', 'Metarhizium album ARSEF 1941', 'Metarhizium acridum CQMa 102', 'Herbaspirillum frisingense GSF30', 'Fischerella muscicola PCC 7414', 'Ketogulonicigenium vulgare WSH-001', 'Pandoraea apista', 'Pandoraea pnomenusa', 'Pandoraea pulmonicola', 'Pandoraea sputorum', 'Pseudaminobacter salicylatoxidans KCT001', 'Edwardsiella hoshinae NBRC 105699 = ATCC 33379', 'Fervidobacterium pennivorans DSM 9078', 'Exserohilum turcicum', 'Roseivivax halodurans JCM 10272', 'Myzus cerasi', 'Thermotoga petrophila RKU-1', 'Thermotoga naphthophila RKU-10', 'Coturnix japonica', 'Cryptosporidium meleagridis', 'Thermicanus aegyptius DSM 12793', 'Shewanella sp. ANA-3', 'Rhizophagus clarus', 'Ramlibacter tataouinensis TTB310', 'Tolypocladium paradoxum', 'Mola mola', 'Dyadobacter fermentans DSM 18053', 'Bordetella petrii', 'Ochrobactrum intermedium LMG 3301', 'Besnoitia besnoiti', 'Desulfurococcus amylolyticus 1221n', 'Gavialis gangeticus', 'Helicobacter pametensis ATCC 51478', 'Burkholderia cenocepacia J2315', 'Pseudomonas sp. M1', 'Legionella fallonii LLAP-10', 'Flavobacterium psychrophilum JIP02/86', 'Salvator merianae', 'Lactobacillus hamsteri DSM 5661 = JCM 6256', 'Halobacteriovorax marinus SJ', 'Eutypa lata', 'Phaethon lepturus', 'Lactobacillus sp. ASF360', 'Clostridium sp. MD294', 'Eubacterium plexicaudatum ASF492', 'Ferroplasma acidarmanus fer1', 'Acetomicrobium mobile DSM 13181', 'Lactobacillus mucosae LM1', 'Periconia macrospinosa', 'Bacillus sp. OxB-1', 'Drechmeria coniospora', 'Mycolicibacterium septicum DSM 44393', 'Phlebia centrifuga', 'Pyrobaculum oguniense TE7', 'Hammondia hammondi', 'Flavobacterium frigidarium DSM 17623', 'Calothrix sp. PCC 7507', 'Spermophilus dauricus', 'Tetraodon nigroviridis', 'Austwickia chelonae NBRC 105200', 'Onion yellows phytoplasma', 'Chloroherpeton thalassium ATCC 35110', 'Verticillium longisporum', 'Madurella mycetomatis', 'Falco tinnunculus', 'Wolbachia endosymbiont of Onchocerca ochengi', 'Fusarium pseudograminearum CS3096', 'Choanephora cucurbitarum', 'Hesseltinella vesiculosa', 'Bipolaris oryzae', 'Methanomethylovorans hollandica DSM 15978', 'Trichoderma asperellum CBS 433.97', 'Saprolegnia parasitica CBS 223.65', 'Aequorivita sublithincola DSM 14238', 'Trichophyton interdigitale H6', 'Candidatus Blochmannia pennsylvanicus str. BPEN', 'Burkholderia ubonensis MSMB22', 'Tetrasphaera elongata Lp2', 'Glarea lozoyensis ATCC 20868', 'Prunus mume', 'Stanieria cyanosphaera PCC 7437', 'Xenococcus sp. PCC 7305', 'Leptolyngbya sp. PCC 7375', 'Desulfallas gibsoniae DSM 7213', 'Solobacterium moorei DSM 22971', 'Gloeocapsa sp. PCC 73106', 'Cyanobacterium stanieri PCC 7202', 'Streptococcus infantarius subsp. infantarius CJ18', 'Proteus penneri ATCC 35198', 'Streptococcus didelphis DSM 15616', 'Acromyrmex echinatior', 'Vavraia culicis subsp. floridensis', 'Gleimia coleocanis DSM 15436', 'Actinomyces urogenitalis DSM 15434', 'Nostoc sp. PCC 7120 = FACHB-418', 'Pogona vitticeps', 'Saccharothrix espanaensis DSM 44229', 'Saccharothrix syringae', 'Riemerella columbina DSM 16469', 'Rhodococcus pyridinivorans SB3094', 'Bordetella hinzii ATCC 51730', 'Oscillochloris trichoides DG-6', 'Penicillium brasilianum', 'Postia placenta Mad-698-R', 'Gloeophyllum trabeum', 'Camponotus floridanus', 'Serratia sp. ATCC 39006', 'Helicobacter suis HS1', 'Cryptococcus amylolentus', 'Adineta vaga', 'Nothobranchius furzeri', 'Ralstonia mannitolilytica', 'Streptacidiphilus neutrinimicus', 'Streptacidiphilus carbonis', 'Streptacidiphilus albus', 'Desulfohalotomaculum alkaliphilum DSM 12257', 'Valsa mali var. pyri', 'Methylibium petroleiphilum PM1', 'Epicoccum nigrum', 'Cryptotermes secundus', 'Anaerostipes caccae DSM 14662', 'Leucosporidium creatinivorum', 'Frankia casuarinae', 'Thermoanaerobacter siderophilus SR4', 'Maylandia zebra', 'Pseudoflavonifractor capillosus ATCC 29799', 'Cupriavidus necator H16', 'Ensifer adhaerens OV14', 'Acinetobacter bereziniae', 'Acinetobacter guillouiae NIPH 991', 'Acinetobacter sp. RUH2624', 'Chelonoidis abingdonii', 'Tenacibaculum maritimum NCIMB 2154', 'Methylosinus sp. LW3', 'Methylosinus sp. PW1', 'Opitutus terrae PB90-1', 'Thermanaerovibrio velox DSM 12556', 'Thermoanaerobacter italicus Ab9', 'Corynebacterium falsenii DSM 44353', 'Coprothermobacter platensis DSM 11748', 'Acinetobacter ursingii DSM 16037 = CIP 107286', 'Acinetobacter schindleri NIPH 900', 'Rickettsia monacensis', 'Hippocampus comes', 'Anaerovorax odorimutans DSM 5092', 'Leptotrichia trevisanii DSM 22070', 'Varroa destructor', 'Myotis brandtii', 'Galerina marginata CBS 339.88', 'Spizellomyces punctatus', 'Lactobacillus jensenii 115-3-CHN', 'Batrachochytrium dendrobatidis JAM81', 'Catenaria anguillulae PL171', 'Serendipita vermifera MAFF 305830', 'Nocardioides sp. CF8', 'Sinorhizobium medicae WSM419', 'Gregarina niphandrodes', 'Pelotomaculum thermopropionicum SI', 'Mycolicibacterium vanbaalenii PYR-1', 'Synechococcus sp. CC9605', 'Synechococcus sp. CC9616', 'Eragrostis tef', 'Porphyromonas gulae', 'Muricauda ruestringensis DSM 13258', 'Bartonella birtlesii E11', 'Kineosphaera limosa NBRC 100340', 'Leptolyngbya sp. PCC 7376', 'Sulfurisphaera tokodaii str. 7', 'Ignatzschineria larvae DSM 13226', 'Aphanomyces astaci', 'Saprolegnia diclina', 'Anopheles minimus', 'Ramularia collo-cygni', 'Enterococcus villorum ATCC 700913', 'Streptococcus australis ATCC 700641', 'Pseudocercospora musae', 'Pseudoramibacter alactolyticus ATCC 23263', 'Melitaea cinxia', 'Bradyrhizobium sp. Tv2a-2', 'Scleropages formosus', 'Actinoplanes globisporus DSM 43857', 'Tetrapisispora phaffii CBS 4417', 'Geoglobus ahangari', 'Dichomitus squalens LYAD-421 SS1', 'Candidatus Carsonella ruddii DC', 'Cordyceps fumosorosea ARSEF 2679', 'Saccharomyces kudriavzevii', 'Saccharomyces mikatae', 'Bradyrhizobium sp. ORS 278', 'Methylobacterium nodulans ORS 2060', 'Alkaliphilus transvaalensis ATCC 700919', 'Streptococcus orisratti DSM 15617', 'Streptomyces auratus AGR0001', 'Mycoplasmopsis columbinum SF7', 'Phoronis australis', 'Globisporangium iwayamae', 'Coprococcus catus GD/7', 'Lactobacillus psittaci DSM 15354', 'Cryptosporidium andersoni', 'Tilletia walkeri', 'Fusarium verticillioides', 'Sphingopyxis alaskensis RB2256', 'Denitrovibrio acetiphilus DSM 12809', 'Pleurocapsa sp. PCC 7319', 'Pseudanabaena sp. PCC 6802', 'Picoides pubescens', 'Beauveria brongniartii RCEF 3172', 'Oscillatoria acuminata PCC 6304', 'Arthrospira platensis NIES-39', 'Nicotiana noctiflora var. noctiflora', 'Bulleidia extructa W1219', 'Lipotes vexillifer', 'Cupriavidus metallidurans CH34', 'Pseudothermotoga thermarum DSM 5069', 'Syntrophobacter fumaroxidans MPOB', 'Microcoleus vaginatus FGP-2', 'Bacillus sonorensis L12', 'Marinomonas mediterranea MMB-1', 'Ustilago hordei Uh4857-4', 'Brucella pinnipedialis B2/94', 'Brucella ceti M644/93/1', 'Roseiflexus castenholzii DSM 13941', 'Ferrimicrobium acidiphilum DSM 19497', 'Helicocarpus griseus UAMH5409', 'Schaalia suimastitidis DSM 15538', 'Pediculus humanus corporis', 'Pyrobaculum arsenaticum DSM 13514', 'Sphingobium xenophagum QYY', 'Tauraco erythrolophus', 'Pannonibacter phragmitetus DSM 14782', 'Photobacterium sp. SKA34', 'Paracoccidioides brasiliensis', 'Diaphorina citri', 'Pseudomonas psychrophila HA-4', 'Cercospora beticola', 'Alicyclobacillus herbarius DSM 13609', 'Oryzias javanicus', 'Helicobacter canadensis MIT 98-5491', 'Bordetella trematum', 'Nocardiopsis xinjiangensis YIM 90004', 'Thiolinea disciformis DSM 14473', 'Thiofilum flexile DSM 14609', 'Drosophila biarmipes', 'Halodesulfovibrio aestuarii DSM 10141', 'Providencia alcalifaciens DSM 30120', 'Thermotoga sp. RQ7', 'Thermotoga sp. RQ2', 'Strigamia maritima', 'Nipponia nippon', 'Catelliglobosispora koreensis DSM 44566', 'Drosophila santomea', 'Phytophthora lateralis MPF4', 'Arthrospira maxima CS-328', 'Carboxydothermus hydrogenoformans Z-2901', 'Halobiforma nitratireducens JCM 10879', 'Galdieria sulphuraria', 'Corynebacterium capitovis DSM 44611', 'Schaalia turicensis ACS-279-V-Col4', 'Thiomicrorhabdus arctica DSM 13458', 'Kineococcus radiotolerans SRS30216 = ATCC BAA-149', 'Bombus impatiens', 'Candidatus Glomeribacter gigasporarum BEG34', 'Nocardia veterana NBRC 100344', 'Anser brachyrhynchus', 'Pteropus vampyrus', 'Rhodococcus jostii RHA1', 'Exiguobacterium antarcticum B7', 'Citrobacter youngae ATCC 29220', 'Caldilinea aerophila DSM 14535 = NBRC 104270', 'Nitrosococcus halophilus Nc 4', 'Methylocapsa acidiphila B2', 'Frankliniella occidentalis', 'Leisingera methylohalidivorans DSM 14336', 'Olsenella uli DSM 7084', 'Phytomonas sp. isolate EM1', 'Phytomonas sp. isolate Hart1', 'Corynebacterium freneyi DNF00450', 'Acinetobacter parvus NIPH 1103', 'Acinetobacter gyllenbergii NIPH 230', 'Paraburkholderia fungorum', 'Ministeria vibrans', 'Actinoplanes sp. SE50/110', 'Ureaplasma parvum serovar 3 str. ATCC 27815', 'Selenomonas flueggei ATCC 43531', 'Selenomonas infelix ATCC 43532', 'Selenomonas noxia ATCC 43541', 'Paenibacillus daejeonensis DSM 15491', 'Nocardia cyriacigeorgica GUH-2', 'Geobacillus vulcani PSS1', 'Idiomarina loihiensis L2TR', 'Caenorhabditis brenneri', 'Bacillus endophyticus 2102', 'Zootermopsis nevadensis', 'Thermocrinis albus DSM 14484', 'Knoellia sinensis KCTC 19936', 'Mycoplasma haemocanis str. Illinois', 'Kocuria polaris', 'Atopobacter phocae ATCC BAA-285', 'Leuconostoc kimchii IMSNU 11154', 'Methylosinus sp. LW4', 'Weissella cibaria KACC 11862', 'Facklamia ignava CCUG 37419', 'Granulicatella elegans ATCC 700633', 'Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)', 'Candidatus Regiella insecticola LSR1', "Serratia symbiotica str. 'Cinara cedri'", 'Blastococcus saxobsidens DD2', 'Helicobacter cetorum MIT 00-7128', 'Olsenella profusa F0195', 'Sistotremastrum niveocremeum HHB9708', 'Isoptericola variabilis 225', 'Plicaturopsis crispa FD-325 SS-3', 'Teleopsis dalmanni', 'Anopheles culicifacies', 'Shimazuella kribbensis DSM 45090', 'Lachnobacterium bovis', 'Nicotiana cordifolia', 'Candidatus Mycoplasma haemolamae str. Purdue', 'Nocardiopsis kunsanensis DSM 44524', 'Cylindrospermum stagnale PCC 7417', 'Desulfitobacterium metallireducens DSM 15288', 'Zobellia uliginosa', 'Filifactor alocis ATCC 35896', 'Eubacterium sulci ATCC 35585', 'Diuraphis noxia', 'Sipha flava', 'Pogonomyrmex barbatus', 'Mobiluncus holmesii ATCC 35242', 'Leifsonia aquatica H1aii', 'Stegastes partitus', 'Methanothermobacter thermautotrophicus str. Delta H', 'Methanothermobacter marburgensis str. Marburg', 'Rathayibacter toxicus DSM 7488', 'Thermosynechococcus elongatus BP-1', 'Halorhabdus utahensis DSM 12940', 'Pseudoloma neurophilia', 'Salinibacter ruber DSM 13855', 'Streptomyces griseofuscus', 'Azovibrio restrictus DSM 23866', 'Azospira oryzae PS', 'Collinsella stercoris DSM 13279', 'Collinsella intestinalis DSM 13280', 'Agrobacterium albertimagni AOL15', 'Thiomicrospira cyclica ALM1', 'Limnospira indica PCC 8005', 'Paracoccus yeei ATCC BAA-599', 'Carnobacterium inhibens subsp. gilichinskyi', 'Lactobacillus iners AB-1', 'Magnaporthiopsis poae', 'Pyricularia grisea', 'Paraburkholderia phymatum STM815', 'Lactobacillus ingluviei str. Autruche 4', 'Sulfuricurvum kujiense DSM 16994', 'Lactobacillus kunkeei', 'Wallemia sebi', 'Streptococcus urinalis 2285-97', 'Phialocephala scopiformis', 'Marinitoga piezophila KA3', 'Streptococcus lutetiensis 033', 'Halonatronum saccharophilum DSM 13868', 'Gemella cuniculi DSM 15828', 'Sporothrix insectorum RCEF 264', 'Escovopsis weberi', 'Pseudomonas sp. MT-1', 'Treponema azotonutricium ZAS-9', 'Pseudoalteromonas ruthenica CP76', 'Bacteroides coprosuis DSM 18011', 'Afipia birgiae 34632', 'Xenophilus azovorans DSM 13620', 'Pseudopedobacter saltans DSM 12145', 'Chloroflexus aggregans DSM 9485', 'Lactobacillus suebicus DSM 5007 = KCTC 3549', 'Thioalkalivibrio thiocyanoxidans ARh 4', 'Burkholderia ambifaria AMMD', 'Burkholderia dolosa PC543', 'Sphingomonas melonis DAPP-PG 224', 'Corynebacterium efficiens YS-314', 'Desulforegula conservatrix Mb1Pa', 'Oceanicaulis alexandrii DSM 11625', 'Alysiella crassa DSM 2578', 'Conchiformibius steedae DSM 2580', 'Kozakia baliensis', 'Moniliophthora perniciosa FA553', 'Sporocytophaga myxococcoides', 'Nitrosomonas sp. AL212', 'Hungatella hathewayi DSM 13479', 'Turicibacter sanguinis PC909', 'Thiorhodospira sibirica ATCC 700588', 'Trametes pubescens', 'Enterococcus phoeniculicola ATCC BAA-412', 'Cellvibrio japonicus Ueda107', 'Bartonella bovis 91-4', 'Bacillus toyonensis BCT-7112', 'Gallibacterium genomosp. 1', 'Enterococcus moraviensis ATCC BAA-383', 'Enterococcus haemoperoxidus ATCC BAA-382', 'Streptococcus entericus DSM 14446', 'Methanothermococcus okinawensis IH1', 'Caulobacter vibrioides NA1000', 'Actinokineospora enzanensis DSM 44649', 'Acaryochloris marina MBIC11017', 'Anaeroglobus geminatus F0357', 'Tulasnella calospora MUT 4182', 'Cyanistes caeruleus', 'Alteromonadales bacterium TW-7', 'Flavobacteria bacterium BBFL7', 'Dysgonomonas gadei ATCC BAA-286', 'Corynebacterium imitans', 'Aphanomyces invadans', 'Jeotgalicoccus psychrophilus DSM 19085', 'Helicobacter winghamensis ATCC BAA-430', 'Leptomonas pyrrhocoris', 'Leptotrichia wadei F0279', 'Leptotrichia hofstadii F0254', 'Leptotrichia shahii DSM 19757', 'Leptotrichia goodfellowii F0264', 'Pseudomonas parafulva NBRC 16636 = DSM 17004', 'Pseudomonas cremoricolorata', 'Vigna radiata var. radiata', 'Phaeomoniella chlamydospora', 'Chromohalobacter salexigens DSM 3043', 'Hahella chejuensis KCTC 2396', 'Folsomia candida', 'Betta splendens', 'Cedecea davisae DSM 4568', 'Novosphingobium resinovorum', 'Trametes coccinea BRFM310', 'Diaporthe helianthi', 'Bifidobacterium scardovii', 'Terrapene carolina triunguis', 'Cedecea neteri', 'Enterobacter sp. MGH 2', 'Megamonas hypermegale DSM 1672', 'Providencia rustigianii DSM 4541', 'Trabulsiella guamensis ATCC 49490', 'Yokenella regensburgei ATCC 43003', 'Collimonas fungivorans Ter331', 'Roseibacterium elongatum DSM 19469', 'Embleya scabrispora DSM 41855', 'Paraburkholderia sacchari', 'Paenibacillus terrae HPL-003', 'Thalassiosira oceanica', 'Microbacterium gubbeenense DSM 15944', 'Nanoarchaeum equitans Kin4-M', 'Ignicoccus hospitalis KIN4/I', 'Corynebacterium casei LMG S-19264', 'Enterococcus gilvus ATCC BAA-350', 'Enterococcus pallens ATCC BAA-351', 'Sphingomonas wittichii RW1', 'Paenibacillus borealis', 'Acidithiobacillus ferrivorans SS3', 'Auricularia delicata', 'Thermodesulfobacterium hydrogeniphilum', 'Planococcus antarcticus DSM 14505', 'Anaeromyxobacter dehalogenans 2CP-C', 'Erythrobacter sp. SD-21', 'Amphiprion percula', 'Corynebacterium kroppenstedtii DSM 44385', 'Corynebacterium lipophiloflavum DSM 44291', 'Corynebacterium mastitidis DSM 44356', 'Corynebacterium camporealensis', 'Corynebacterium singulare', 'Beta vulgaris', 'Aspergillus nidulans FGSC A4', 'Thermococcus cleftensis', 'Wolbachia endosymbiont of Drosophila melanogaster', 'Dysgonomonas mossii DSM 22836', 'Algicola sagamiensis DSM 14643', 'Anabaena sp. PCC 7108', 'Phytophthora ramorum', 'Lactobacillus fuchuensis DSM 14340 = JCM 11249', 'Vulcanisaeta distributa DSM 14429', 'Blattabacterium sp. (Cryptocercus punctulatus) str. Cpu', 'Cupriavidus taiwanensis LMG 19424', 'Mycobacterium sp. MCS', 'Mycobacterium sp. JLS', 'Weissella koreensis KACC 15510', 'Prevotella copri DSM 18205', 'Bartonella schoenbuchensis m07a', 'Synechococcus sp. WH 8109', 'Synechococcus sp. WH 8016', 'Roseburia intestinalis L1-82', 'Thermobaculum terrenum ATCC BAA-798', 'Pseudoalteromonas translucida TAC125', 'Allofustis seminis DSM 15817', 'Ilyobacter polytropus DSM 2926', 'Anaerolinea thermophila UNI-1', 'Candidatus Ishikawaella capsulata Mpkobe', 'Marvinbryantia formatexigens DSM 14469', 'Laribacter hongkongensis HLHK9', 'Salinispora tropica CNB-440', 'Salinispora arenicola CNS-205', 'Legionella drancourtii LLAP12', 'Metarhizium guizhouense ARSEF 977', 'Gelidibacter mesophilus DSM 14095', 'Novosphingobium tardaugens NBRC 16725', 'Exiguobacterium undae DSM 14481', 'Corynebacterium aurimucosum ATCC 700975', 'Anaerotruncus colihominis DSM 17241', 'Saccharospirillum impatiens DSM 12546', 'Clostridium saccharobutylicum DSM 13864', 'Paenibacillus stellifer', 'Epichloe aotearoae', 'Staphylococcus pettenkoferi VCU012', 'Vibrio brasiliensis LMG 20546', 'Vibrio kanaloae 5S-149', 'Methanosarcina lacustris Z-7289', 'Sulfurihydrogenibium subterraneum DSM 15120', 'Halosimplex carlsbadense 2-9-1', 'Mycoplasma anatis 1340', 'Mycoplasma cynos C142', 'Tistrella mobilis KA081020-065', 'Mycoplasma ovis str. Michigan', 'Oceanobacillus picturae', 'Thermodesulfatator indicus DSM 15286', 'Rothia aeria F0184', 'Elizabethkingia miricola', 'Thermococcus sibiricus MM 739', 'Bradyrhizobium sp. th.b2', 'Meiothermus taiwanensis DSM 14542', 'Echeneis naucrates', 'Brachybacterium paraconglomeratum LC44', 'Methylobacter tundripaludum SV96', 'Gemmatimonas aurantiaca T-27', 'Gordonia sihwensis NBRC 108236', 'Ordospora colligata OC4', 'Allobaculum stercoricanis DSM 13633', 'Gordonia paraffinivorans NBRC 108238', 'Thermaerobacter subterraneus DSM 13965', 'Buceros rhinoceros', 'Nestor notabilis', 'Streptococcus sinensis', 'Pseudoalteromonas agarivorans S816', 'Beauveria bassiana', 'Halomonas halocynthiae DSM 14573', 'Lactobacillus malefermentans DSM 5705 = KCTC 3548', 'Python bivittatus', 'Coniochaeta ligniaria NRRL 30616', 'Anaerophaga thermohalophila DSM 12881', 'Pseudothermotoga lettingae TMO', 'Shuttleworthia satelles DSM 14600', 'Facklamia hominis ACS-120-V-Sch10', 'Leptospirillum ferriphilum ML-04', 'Pisolithus microcarpus 441', 'Acetobacter malorum', 'Clostridium colicanis 209318', 'Alicycliphilus denitrificans K601', 'Culicoides sonorensis', 'Sphingomonas elodea ATCC 31461', 'Rhizopogon vesiculosus', 'Cyanobium sp. PCC 7001', 'Robinsoniella peoriensis', 'Salinisphaera shabanensis E1L3A', 'Proteocatella sphenisci DSM 23131', 'Carnobacterium pleistocenium FTR1', 'Pseudopodoces humilis', 'Salarias fasciatus', 'Pyrobaculum calidifontis JCM 11548', 'Schaalia cardiffensis F0333', 'Cyanoderma ruficeps', 'Desulfococcus oleovorans Hxd3', 'Lactobacillus coleohominis 101-4-CHN', 'Pseudodesulfovibrio aespoeensis Aspo-2', 'Erwinia billingiae Eb661', 'Rubritepida flocculans DSM 14296', 'Kribbella flavida DSM 17836', 'Oceanobacillus iheyensis HTE831', 'Oryzias sinensis', 'Stemphylium lycopersici', 'Pseudo-nitzschia multistriata', 'Pseudomonas mediterranea CFBP 5447', 'Schaalia vaccimaxillae DSM 15804', 'Thermodesulfobium narugense DSM 14796', 'Thermoproteus uzoniensis 768-20', 'Crocinitomix catalasitica ATCC 23190', 'Varibaculum cambriense DORA_20', 'Knoellia subterranea KCTC 19937', 'Corallococcus coralloides DSM 2259', 'Desulfovibrio magneticus RS-1', 'Prevotella oryzae DSM 17970', 'Prevotella paludivivens DSM 17968 = JCM 13650', 'Paludibacter propionicigenes WB4', 'Chrysochloris asiatica', 'Fragilariopsis cylindrus CCMP1102', 'Xylanimonas cellulosilytica DSM 15894', 'Marinithermus hydrothermalis DSM 14884', 'Candidatus Baumannia cicadellinicola', 'Bartonella washoeensis Sb944nv', 'Thioalkalivibrio nitratireducens DSM 14787', 'Sneathia amnii', 'Oceanithermus profundus DSM 14977', 'Caldithrix abyssi DSM 13497', 'Methylocystis sp. SC2', 'Labrenzia aggregata IAM 12614', 'Megasphaera micronuciformis F0359', 'Acidaminococcus intestini RyC-MR95', 'Veillonella montpellierensis DNF00314', 'Chlamydotis macqueenii', 'Paracoccus zeaxanthinifaciens ATCC 21588', 'Pediococcus claussenii ATCC BAA-344', 'Thalassolituus oleivorans MIL-1', 'Thermococcus gammatolerans EJ3', 'Mitsuokella jalaludinii DSM 13811', 'Enterovibrio norvegicus FF-33', 'Leptosomus discolor', 'Egretta garzetta', 'Dermacoccus sp. Ellin185', 'Oleispira antarctica RB-8', 'Cetobacterium somerae ATCC BAA-474', 'Candidatus Tremblaya princeps PCIT', 'Paenibacillus graminis', 'Paenibacillus odorifer', 'Babesia ovata', 'Paenibacillus elgii B69', 'Prevotella marshii DSM 16973 = JCM 13450', 'Prevotella micans F0438', 'Bradyrhizobium sp. Ec3.3', 'Mycobacterium sp. KMS', 'Actinotignum urinale DSM 15805', 'Idiomarina baltica OS145', 'Vibrio coralliilyticus ATCC BAA-450', 'Desulfovibrio hydrothermalis AM13 = DSM 14728', 'Rhodococcus aetherivorans', 'Leifsonia rubra CMS 76R', 'Conexibacter woesei DSM 14684', 'Epilithonimonas tenax DSM 16811', 'Fluviicola taffensis DSM 16823', 'Corynebacterium atypicum', 'Plesiocystis pacifica SIR-1', 'Lynx pardinus', 'Chthoniobacter flavus Ellin428', 'Shewanella denitrificans OS217', 'Rhodoferax ferrireducens T118', 'Capsaspora owczarzaki ATCC 30864', 'Streptomyces niveus NCIMB 11891', 'Lactobacillus versmoldensis DSM 14857 = KCTC 3814', 'Athene cunicularia', 'Cardiobacterium valvarum F0432', 'Sphingomonas sp. ATCC 31555', 'Sinorhizobium americanum CCGM7', 'Chroomonas mesostigmatica CCMP1168', 'Haematobacter massiliensis', 'Synechococcus sp. PCC 7336', 'Synechococcus sp. PCC 6312', 'Thermococcus nautili', 'Gillisia limnaea DSM 15749', 'Caldimonas manganoxidans ATCC BAA-369', 'Microdochium bolleyi', 'Nocardioides sp. JS614', 'Caballeronia sordidicola', 'Bradyrhizobium sp. Ai1a-2', 'Porphyrobacter cryptus DSM 12079', 'Actinoplanes friuliensis DSM 7358', 'Deferribacter desulfuricans SSM1', 'Alkanindiges illinoisensis DSM 15370', 'Paraglaciecola mesophila KMM 241', 'Psychroflexus tropicus DSM 15496', 'Haemophilus aegyptius ATCC 11116', 'Streptococcus pasteurianus ATCC 43144', 'Candidatus Pelagibacter ubique HTCC7217', 'Anoxybacillus gonensis', 'Talaromyces verruculosus', 'Calidris pugnax', 'Candidatus Paraburkholderia kirkii UZHbot1', 'Coccidioides posadasii RMSCC 3488', 'Microbacterium paraoxydans 77MFTsu3.2', 'Methylocella silvestris BL2', 'Anopheles epiroticus', 'Nicotiana obtusifolia', 'Caldisphaera lagunensis DSM 15908', 'Pseudomonas poae RE*1-1-14', 'Strix occidentalis caurina', 'Lysinibacillus odysseyi 34hs-1 = NBRC 100172', 'Jaapia argillacea MUCL 33604', 'Punctularia strigosozonata', 'Sulfurimonas autotrophica DSM 16294', 'Actinobaculum massiliense ACS-171-V-Col2', 'Acinetobacter baylyi ADP1', 'Acinetobacter bouvetii DSM 14964 = CIP 107468', 'Acinetobacter gerneri', 'Acinetobacter tandoii', 'Acinetobacter tjernbergiae', 'Acinetobacter towneri', 'Tepidiphilus margaritifer DSM 15129', 'Longispora albida DSM 44784', 'Candidatus Blochmannia floridanus', 'Melampsora larici-populina 98AG31', 'Dickeya dadantii 3937', 'Dickeya zeae Ech586', 'Alicyclobacillus pomorum DSM 14955', 'Bacteroides massiliensis B84634 = Timone 84634 = DSM 17679 = JCM 13223', 'Roseomonas cervicalis ATCC 49957', 'Herminiimonas arsenicoxydans', 'Nitratireductor aquibiodomus NL21 = JCM 21793', 'Mastacembelus armatus', 'Novosphingobium pentaromativorans US6-1', 'Panicum hallii', 'Gymnopus luxurians FD-317 M1', 'Sulfurovum lithotrophicum', 'Bermanella marisrubri', 'Neptuniibacter caesariensis', 'Parvularcula bermudensis HTCC2503', 'Alkaliphilus metalliredigens QYMF', 'Puccinia triticina 1-1 BBBD Race 1', 'Amycolatopsis japonica', 'Amycolatopsis balhimycina FH 1894', 'Amycolatopsis vancoresmycina', 'Plasmodium coatneyi', 'Carnobacterium sp. 17-4', 'Fomitiporia mediterranea', 'Escherichia albertii KF1', 'Nocardia niigatensis NBRC 100131', 'Chaetomium thermophilum', "Candidatus Mycoplasma haemominutum 'Birmingham 1'", 'Marinobacter lipolyticus SM19', 'Afifella pfennigii DSM 17143', 'Corchorus capsularis', 'Nymphaea colorata', 'Thiorhodococcus drewsii AZ1', 'Sandarakinorhabdus limnophila DSM 17366', 'Parambassis ranga', 'Hanseniaspora opuntiae', 'Allokutzneria albata', 'Conchiformibius kuhniae DSM 17694', 'Accipiter nisus', 'Colwellia piezophila ATCC BAA-637', 'Mycobacterium sp. JS623', 'Exophiala mesophila', 'Halomonas campaniensis', 'Shewanella waksmanii ATCC BAA-643', 'Subdoligranulum variabile DSM 15176', 'Anaerofustis stercorihominis DSM 17244', 'Alistipes finegoldii DSM 17242', 'Komagataeibacter rhaeticus AF1', 'Exophiala oligosperma', 'Acaromyces ingoldii', 'Larimichthys crocea', 'Treponema caldarium DSM 7334', 'Erwinia sp. Ejp617', 'Thermomonas fusca DSM 15424', 'Roseovarius mucosus DSM 17069', 'Enhygromyxa salina', 'Dinoroseobacter shibae DFL 12 = DSM 16493', 'Pseudomonas rhizosphaerae', 'Polaromonas naphthalenivorans CJ2', 'Stenotrophomonas rhizophila', 'Bifidobacterium longum NCC2705', 'Spiroplasma chrysopicola DF-1', 'Spiroplasma culicicola AES-1', 'Spiroplasma diminutum CUAS-1', 'Spiroplasma sabaudiense Ar-1343', 'Spiroplasma syrphidicola EA-1', 'Clostridium carboxidivorans P7', 'Microvirga flocculans ATCC BAA-817', 'Marinospirillum insulare DSM 21763', 'Neomegalonema perideroedes DSM 15528', 'Fulvimarina pelagi HTCC2506', 'Anoplophora glabripennis', 'Bifidobacterium psychraerophilum', 'Bacillus vietnamensis', 'Dialister invisus DSM 15470', 'Aquilegia coerulea', 'Brachybacterium muris UCD-AY4', 'Micromonospora sp. ATCC 39149', 'Aeromicrobium marinum DSM 15272', 'Rhodanobacter fulvus Jip2', 'Gemmobacter nectariphilus DSM 15620', 'Bathymodiolus platifrons', 'Bacillus bataviensis LMG 21833', 'Bacillus vireti LMG 21834', 'Thalassospira xiamenensis M-5 = DSM 17429', 'Treponema putidum', 'Kordia algicida OT-1', 'Moniliophthora roreri', 'Mastigocladopsis repens PCC 10914', 'Synechococcus sp. RS9916', 'Synechococcus sp. RS9917', 'Polytolypa hystricis UAMH7299', 'Phaeobacter inhibens DSM 17395', 'Frankia elaeagni', 'Natrinema altunense', 'Kocuria marina', 'Phaeoacremonium minimum', 'Halomonas boliviensis LC1', 'Hymenobacter norwichensis DSM 15439', 'Exiguobacterium oxidotolerans JCM 12280', 'Methylorubrum populi BJ001', 'Buteo japonicus', 'Methanobrevibacter sp. AbM4', 'Pyrus x bretschneideri', 'Lottia gigantea', 'Geobacter bemidjiensis Bem', 'Geopsychrobacter electrodiphilus DSM 16401', 'Enhydrobacter aerosaccus SK60', 'Corynebacterium halotolerans YIM 70093 = DSM 44683', 'Erysiphe pulchra', 'Myotis davidii', 'Sulfitobacter indolifex HEL-45', 'Yaniella halotolerans DSM 15476', 'Paenibacillus sanguinis 2301083 = DSM 16941', 'Paenibacillus massiliensis 2301065 = DSM 16942', 'Fictibacillus gelatini DSM 15865', 'Comamonas aquatica NBRC 14918', 'Aestuariibacter salexigens DSM 15300', 'Salvia miltiorrhiza', 'Algoriphagus mannitolivorans DSM 15301', 'Rickettsia heilongjiangensis 054', 'Grosmannia clavigera kw1407', 'Bigelowiella natans', 'Corynebacterium ciconiae DSM 44920', 'Lactobacillus antri DSM 16041', 'Lactobacillus ultunensis DSM 16047', 'Paenibacillus lactis 154', 'Nocardia higoensis NBRC 100133', 'Nocardia pneumoniae NBRC 100136', 'Prevotella shahii DSM 15611 = JCM 12083', 'Prevotella salivae DSM 15606', 'Thermovibrio ammonificans HB-1', 'Arenibacter certesii DSM 19833', 'Flavobacterium frigoris PS1', 'Arsenicicoccus bolidensis DSM 15745', "Aster yellows witches'-broom phytoplasma AYWB", 'Streptococcus minor DSM 17118', 'Halobiforma lacisalsi AJ5', 'Aeropyrum camini SY1 = JCM 12091', 'Methylophaga aminisulfidivorans MP', 'Scardovia wiggsiae F0424', 'Lactobacillus rossiae DSM 15814', 'Saccharibacter floricola DSM 15669', 'Streptococcus devriesei DSM 19639', 'Beijerinckia mobilis', 'Desulfobulbus japonicus DSM 18378', 'Dyella japonica A8', 'Phanerochaete carnosa HHB-10118-sp', 'Belliella baltica DSM 15883', 'Effusibacillus pohliae DSM 22757', 'Halomonas alkaliantarctica', 'Synechococcus sp. CB0101', 'Acidovorax sp. JS42', 'Desulfitobacterium dichloroeliminans LMG P-21439', 'Candidatus Kinetoplastibacterium blastocrithidii (ex Strigomonas culicis)', 'Candidatus Midichloria mitochondrii IricVA', 'Corynebacterium caspium DSM 44850', 'Pseudoalteromonas sp. SM9913', 'Amanita thiersii Skay4041', 'Streptacidiphilus jiangxiensis', 'Alcanivorax sp. DG881', 'Marinobacter algicola DG893', 'Diplodia corticola', 'Chryseobacterium formosense', 'Candidatus Scalindua brodae', 'Lactobacillus kitasatonis DSM 16761 = JCM 1039', 'Oribacterium sinus F0268', 'Pseudomonas alkylphenolica', 'Pseudomonas psychrotolerans L19', 'Erythrobacter sp. NAP1', 'Lactobacillus vini DSM 20605', 'Akkermansia muciniphila ATCC BAA-835', 'Nocardiopsis valliformis DSM 45023', 'Nocardiopsis ganjiahuensis DSM 45031', 'Mycobacterium parascrofulaceum ATCC BAA-614', 'Pterocles gutturalis', 'Woodsholea maritima DSM 17123', 'Halobacillus dabanensis', 'Pseudonocardia dioxanivorans CB1190', 'Crinalium epipsammum PCC 9333', 'Helcococcus sueciensis DSM 17243', 'Amazona collaria', 'Ostreococcus lucimarinus CCE9901', 'Xenoturbella bocki', 'Acidilobus saccharovorans 345-15', 'Prevotella bergensis DSM 17361', 'Thioalkalivibrio thiocyanodenitrificans ARhD 1', 'Burkholderia sp. Ch1-1', 'Pseudomonas lutea', 'Methylohalobius crimeensis 10Ki', 'Klebsiella variicola UCI 18', 'Cynoglossus semilaevis', 'Thiocapsa marina 5811', 'Candidatus Paracaedimonas acanthamoebae', 'Candidatus Paracaedibacter symbiosus', 'Hoeflea phototrophica DFL-43', 'Nautilia profundicola AmH', 'Fictibacillus macauensis ZFHKF-1', 'Wallemia ichthyophaga', 'Yoonia vestfoldensis SKA53', "Acidomyces sp. 'richmondensis'", 'Enterococcus italicus DSM 15952', 'Bacillus bogoriensis ATCC BAA-922', 'Wolbachia endosymbiont of Cimex lectularius', 'Staphylococcus equorum subsp. equorum Mu2', 'Tupaia chinensis', 'Bacteroides cellulosilyticus WH2', 'Thermococcus sp. AM4', 'Serinicoccus marinus DSM 15273', 'Candidatus Jettenia caeni', 'Cupriavidus pinatubonensis JMP134', 'Mucispirillum schaedleri ASF457', 'Psychrobacter aquaticus CMS 56', 'Nocardia testacea NBRC 100365', 'Coccomyxa subellipsoidea', 'Cardinium endosymbiont cEper1 of Encarsia pergandiella', 'Deinococcus frigens DSM 12807', 'Deinococcus marmoris DSM 12784', 'Candidatus Blochmannia vafer str. BVAF', 'Candidatus Blochmannia chromaiodes str. 640', 'Pseudomonas syringae pv. tomato str. DC3000', 'Oceanicola granulosus HTCC2516', 'Robiginitalea biformata HTCC2501', 'Vibrio ezurae NBRC 102218', 'Saccharomyces boulardii (nom. inval.)', 'Clytia hemisphaerica', 'Mahella australiensis 50-1 BON', 'Paraburkholderia phenoliruptrix BR3459a', 'Natronolimnohabitans innermongolicus JCM 12255', 'Ethanoligenens harbinense YUAN-3', 'Owenweeksia hongkongensis DSM 17368', 'Verruconis gallopava', 'Streptomyces sp. C', 'Fonsecaea monophora', 'Solimonas variicoloris DSM 15731', 'Bacillus fordii DSM 16014 = CIP 108821', 'Streptococcus castoreus DSM 17536', 'Paeniglutamicibacter gangotriensis Lz1y', 'Arcobacter cibarius LMG 21996', 'Glycomyces arizonensis DSM 44726', 'Parvibaculum lavamentivorans DS-1', 'Glutamicibacter arilaitensis Re117', 'Gulosibacter molinativorax DSM 13485', 'Lentisphaera araneosa HTCC2155', 'Sphingomonas phyllosphaerae 5.2', 'Nocardia aobensis NBRC 100429', 'Nocardia concava NBRC 100430', 'Pleomorphomonas koreensis DSM 23070', 'Roseomonas gilardii subsp. rosea ATCC BAA-691', 'Streptococcus pseudopneumoniae IS7493', 'Otus sunia', 'Kitasatospora arboriphila', 'Corynebacterium resistens DSM 45100', 'Mycolicibacterium cosmeticum', 'Halomonas anticariensis FP35 = DSM 16096', 'Desulfatibacillum alkenivorans AK-01', 'Nocardia takedensis NBRC 100417', 'Dechloromonas aromatica RCB', 'Microbulbifer agarilyticus S89', 'Campylobacter insulaenigrae NCTC 12927', 'Nitrosomonas sp. Is79A3', 'Intestinibacter bartlettii DSM 16795', 'Paraburkholderia phytofirmans PsJN', 'Mycobacterium liflandii 128FXT', 'Cavenderia fasciculata', 'Thermosinus carboxydivorans Nor1', 'Pleomorphomonas oryzae DSM 16300', 'Kangiella koreensis DSM 16069', 'Kangiella aquimarina DSM 16071', 'Marinobacter daepoensis DSM 16072', 'Lysobacter concretionis Ko07 = DSM 16239', 'Acinetobacter beijerinckii CIP 110307', 'Jonesia quinghaiensis DSM 15701', 'Salipiger mucosus DSM 16094', 'Wolbachia endosymbiont of Culex quinquefasciatus Pel', 'Viridibacillus arenosi FSL R5-213', 'Crocosphaera watsonii WH 8501', 'Pneumocystis murina', 'Marinomonas ushuaiensis DSM 15871', 'Gordonia effusa NBRC 100432', 'Algoriphagus marincola DSM 16067', 'Botryobasidium botryosum', 'Capsella grandiflora', 'Oceanimonas smirnovii ATCC BAA-899', 'Acholeplasma equifetale ATCC 29724', 'Acholeplasma granularum ATCC 19168', 'Acholeplasma hippikon ATCC 29725', 'Trichormus variabilis ATCC 29413', 'Byssochlamys spectabilis No. 5', 'Salinimonas chungwhensis DSM 16280', 'Pontibacillus chungwhensis BH030062', 'Silanimonas lenta DSM 16282', 'Desulfurispora thermophila DSM 16022', 'Desulfallas alcoholivorax DSM 16058', 'Rhodopirellula baltica SH 1', 'Anoxybacillus tepidamans PS2', 'Methylovorus glucosetrophus SIP3-4', 'Pseudocohnilembus persalinus', 'Chryseobacterium antarcticum', 'Porphyromonas gingivicanis', 'Chelativorans sp. BNC1', 'Microbulbifer variabilis ATCC 700307', 'Thalassobacter stenotrophicus', 'Granulicoccus phenolivorans DSM 17626 = NBRC 107789 = JCM 15570', 'Neisseria bacilliformis ATCC BAA-1200', 'Lactobacillus kefiranofaciens ZW3', 'Paenibacillus wynnii', 'Nitratifractor salsuginis DSM 16511', 'Microbotryum intermedium', 'Streptococcus marimammalium DSM 18627', 'Sporolactobacillus terrae DSM 11697', 'Atopococcus tabaci DSM 17538', 'Bartonella rattimassiliensis 15908', 'Marinobacter sp. ELB17', 'Fangia hongkongensis FSC776 = DSM 21703', 'Methylomicrobium alcaliphilum 20Z', 'Shewanella sediminis HAW-EB3', 'Shewanella halifaxensis HAW-EB4', 'Flavobacterium antarcticum DSM 19726', 'Arthrobacter castelli DSM 16402', 'Nostoc punctiforme PCC 73102', 'Olleya marilimosa CAM030', 'Actinomyces dentalis DSM 19115', 'Hyaloperonospora arabidopsidis', 'Pontibacillus marinus BH030004 = DSM 16465', 'Candida orthopsilosis Co 90-125', 'Candida metapsilosis', 'Sphaerochaeta coccoides DSM 17374', 'Exiguobacterium marinum DSM 16307', 'Microbacterium oleivorans', 'Chlorobaculum parvum NCIB 8327', 'Limimaricola hongkongensis DSM 17492', 'Opitutaceae bacterium TAV1', 'Acidobacteriaceae bacterium TAA 166', 'Collimonas arenae', 'Aquimarina muelleri DSM 19832', 'Gramella echinicola DSM 19838', 'Novosphingopyxis baekryungensis DSM 16222', 'Agromyces italicus DSM 16388', 'Antrostomus carolinensis', 'Nocardiopsis baichengensis YIM 90130', 'Pochonia chlamydosporia 170', 'Azorhizobium doebereinerae UFLA1-100', 'Candidatus Amoebophilus asiaticus 5a2', 'Caenorhabditis japonica', 'Rozella allomycis CSF55', 'Porphyromonas uenonis 60-3', 'Prevotella multiformis DSM 16608', 'Nocardia jiangxiensis NBRC 101359', 'Sander lucioperca', 'Kosakonia radicincitans DSM 16656', 'Pseudoalteromonas sp. Bsw20308', 'Staphylococcus pseudintermedius ED99', 'Stackebrandtia nassauensis DSM 44728', 'Capitella teleta', 'Phenylobacterium zucineum HLK1', 'Streptomyces flavovariabilis', 'Alcanivorax dieselolei B5', 'Thioclava pacifica DSM 10166', 'Acetobacter nitrogenifigens DSM 23921 = LMG 23498', 'Streptomyces roseochromogenus subsp. oscitans DS 12.976', 'Streptomyces xylophagus', 'Streptomyces sviceus ATCC 29083', 'Streptomyces fulvoviolaceus', 'Streptomyces thermolilacinus SPC6', 'Micromonospora lupini str. Lupac 08', 'Hahella ganghwensis DSM 17046', 'Episyrphus balteatus', 'Alkaliflexus imshenetskii DSM 15055', 'Segniliparus rotundus DSM 44985', 'Segniliparus rugosus ATCC BAA-974', 'Hellea balneolensis DSM 19091', 'Haliea salexigens DSM 19537', 'Balneola vulgaris DSM 17893', 'Amycolatopsis rifamycinica', 'Bradyrhizobium sp. BTAi1', 'Kordiimonas gwangyangensis DSM 19435 = JCM 12864', 'Microbotryum lychnidis-dioicae p1A1 Lamole', 'Hungateiclostridium clariflavum DSM 19732', 'Microbotryum aff. violaceum TUB 011817', 'Bacteroides helcogenes P 36-108', 'Nocardia exalbida NBRC 100660', "Penicillium sp. 'occitanis'", 'Comamonas granuli NBRC 101663', 'Arthrobacter sp. FB24', 'Jannaschia sp. CCS1', 'Aminiphilus circumscriptus DSM 16581', 'Photorhabdus asymbiotica', 'Bartonella melophagi K-2C', 'Bacteroides salyersiae WAL 10018 = DSM 18765 = JCM 12988', 'Bacteroides nordii CL02T12C05', 'Acaricomes phytoseiuli DSM 14247', 'Erythrobacter vulgaris', 'Thermosediminibacter oceani DSM 16646', 'Ruegeria sp. TM1040', 'Dactylococcopsis salina PCC 8305', 'Flavonifractor plautii 1_3_50AFAA', 'Lysinibacillus massiliensis 4400831 = CIP 108448 = CCUG 49529', 'Martelella mediterranea DSM 17316', 'Haloquadratum walsbyi J07HQW2', 'Cyphellophora europaea', 'Desulfovibrio alkalitolerans DSM 16529', 'Agromyces subbeticus DSM 16689', 'Proteiniphilum acetatigenes DSM 18083', 'Rubellimicrobium thermophilum DSM 16684', 'Candidatus Hepatoplasma crinochetorum Av', 'Micromonas commoda', 'Polaromonas sp. JS666', 'Caldalkalibacillus thermarum TA2.A1', 'Patulibacter minatonensis DSM 18081', 'Frankia sp. EAN1pec', 'Frankia inefficax', 'Frankia saprophytica', 'Pseudoalteromonas spongiae UST010723-006', 'Denticeps clupeoides', 'Leptotrombidium deliense', 'Adhaeribacter aquaticus DSM 16391', 'Francisella orientalis str. Toba 04', 'Rhodococcus triatomae BKS 15-14', 'Glaciecola nitratireducens FR1064', 'Lachancea meyersii CBS 8951', 'Catellicoccus marimammalium M35/04/3', 'Bacillus lehensis G1', 'Roseburia hominis A2-183', 'Methanosaeta harundinacea 6Ac', 'Seriola lalandi dorsalis', 'Advenella mimigardefordensis DPN7', 'Corynebacterium tuscaniense DNF00037', 'Halobacillus kuroshimensis DSM 18393', 'Pundamilia nyererei', 'Lactobacillus apis', 'Lactobacillus harbinensis DSM 16991', 'Catenulispora acidiphila DSM 44928', 'Actinospica robiniae DSM 44927', 'Thauera sp. 27', 'Endozoicomonas elysicola', 'Pusillimonas noertemannii BS8', 'Marinimicrobium agarilyticum DSM 16975', 'Calidithermus timidus DSM 17022', 'Lactobacillus apodemi DSM 16634 = JCM 16172', 'Chryseobacterium vrystaatense', 'Aphis glycines', 'Gracilibacillus boraciitolerans JCM 21714', 'Sinocyclocheilus rhinocerous', 'Apteryx rowi', 'Bacillus boroniphilus JCM 21738', 'Dialister microaerophilus UPII 345-E', 'Chrysiogenes arsenatis DSM 11915', 'Persephonella marina EX-H1', 'Sulfurihydrogenibium azorense Az-Fu1', 'Candidatus Liberibacter americanus str. Sao Paulo', 'Deinococcus apachensis DSM 19763', 'Deinococcus maricopensis DSM 21211', 'Deinococcus pimensis DSM 21231', 'Bacteroides plebeius DSM 17135', 'Bacteroides coprocola DSM 17136', 'Bacteroides pyogenes JCM 10003', 'Neofusicoccum parvum', 'Prevotella multisaccharivorax DSM 17128', 'Advenella kashmirensis W13003', 'Deinococcus deserti VCD115', 'Modiolus philippinarum', 'Linnemannia elongata AG-77', 'Paraburkholderia terrae NBRC 100964', 'Thermococcus kodakarensis KOD1', 'Paraburkholderia mimosarum LMG 23256 = NBRC 106338', 'Flavobacterium indicum GPTSA100-9 = DSM 17447', 'Emticicia oligotrophica DSM 17448', 'Pseudomonas entomophila L48', 'Streptococcus massiliensis DSM 18628', 'Croceibacter atlanticus HTCC2559', 'Janibacter sp. HTCC2649', 'Dokdonia sp. MED134', 'Polaribacter sp. MED152', 'Maribacter sp. HTCC2170', 'Lyngbya sp. PCC 8106', 'Synechococcus sp. BL107', 'Bacillus sp. NRRL B-14911', 'Geobacter lovleyi SZ', 'Drechslerella stenobrocha 248', 'Nitrobacter sp. Nb-311A', 'Oceanicaulis sp. HTCC2633', 'Pseudooceanicola batsensis HTCC2597', 'Roseobacter sp. MED193', 'Roseovarius nubinhibens ISM', 'Roseovarius sp. 217', 'Sphingomonas sp. SKA58', 'Sulfitobacter sp. NAS-14.1', 'Rhodobacteraceae bacterium HTCC2083', 'Alteromonas mediterranea', 'Marinomonas sp. MED121', 'Pseudoalteromonas tunicata D2', 'Psychromonas sp. CNPT3', 'Vibrio sp. MED222', 'Prolixibacter bellariivorans ATCC BAA-1284', 'Mariprofundus ferrooxydans PV-1', 'Pseudoxanthomonas suwonensis 11-1', 'Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069', 'Belgica antarctica', 'Leadbetterella byssophila DSM 17132', 'Syntrophus aciditrophicus SB', 'Synechococcus sp. RCC307', 'Synechococcus sp. CC9902', 'Microbispora sp. ATCC PTA-5024', 'Rubrivivax benzoatilyticus JA2 = ATCC BAA-35', 'Kuraishia capsulata', 'Enterococcus caccae ATCC BAA-1240', 'Nostoc sp. PCC 7107', 'Mycolicibacterium rufum', 'Mycolicibacterium aromaticivorans JS19b1 = JCM 16368', 'Clostridium sulfidigenes', 'Pyricularia oryzae 70-15', 'Bradyrhizobium sp. WSM1743', 'Bradyrhizobium sp. WSM1253', 'Bradyrhizobium sp. WSM471', 'Nonlabens sediminis', 'Clostridium lundense DSM 17049', 'Formosa agariphila KMM 3901', 'Gordonia soli NBRC 108243', 'Pseudocercospora eumusae', 'Synechococcus sp. JA-3-3Ab', "Synechococcus sp. JA-2-3B'a(2-13)", 'Lepidothrix coronata', 'Pseudomonas moraviensis R28-S', 'Pseudomonas simiae', 'Wheat blue dwarf phytoplasma', 'Porphyromonas somerae DSM 23386', 'Sharpea azabuensis DSM 18934', 'Sphingomonas sp. BHC-A', 'Leptolyngbya valderiana BDU 20041', 'Paenibacillus sp. JDR-2', 'Bacillus infantis NRRL B-14911', 'Kwoniella bestiolae CBS 10118', 'Kwoniella dejecticola CBS 10117', 'Moelleriella libera RCEF 2490', 'Phytophthora kernoviae', 'Coxiella endosymbiont of Amblyomma americanum', 'Paraglaciecola psychrophila 170', 'Pseudozyma hubeiensis', 'Candidatus Accumulibacter phosphatis clade IIA str. UW-1', 'Bifidobacterium crudilactis', 'Syntrophorhabdus aromaticivorans UI', 'Nonlabens dokdonensis DSW-6', 'Parabacteroides goldsteinii dnLKV18', 'Alistipes onderdonkii WAL 8169 = DSM 19147', 'Alistipes shahii WAL 8301', 'Manacus vitellinus', 'Rhizoclosmatium globosum', 'Flavobacterium saliperosum S13', 'Bacteroides intestinalis DSM 17393', 'Amycolatopsis jejuensis', 'Nitrospira defluvii', 'Psychrobacter cryohalolentis K5', 'Kamptonema formosum PCC 6407', 'Sphingobium japonicum UT26S', 'Clostridium drakei', 'Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7', 'Candidatus Solibacter usitatus Ellin6076', 'Halococcus hamelinensis 100A6', 'Truepera radiovictrix DSM 17093', 'Exiguobacterium sibiricum 255-15', 'Hirsutella minnesotensis 3608', 'Alkalihalobacillus okhensis', 'Psychrobacter arcticus 273-4', 'Rickettsia tamurae', 'Ignisphaera aggregans DSM 17230', 'Methylobacterium oryzae CBMB20', 'Halococcus thailandensis JCM 13552', 'Thermovirga lienii DSM 17291', 'Candidatus Sulcia muelleri PSPU', 'Rhodonellum psychrophilum GCM71 = DSM 17998', 'Oenococcus kitaharae DSM 17330', 'Pyronema omphalodes', 'Chlorobium chlorochromatii CaD3', 'Gordonia sp. KTR9', 'Halorubrum ezzemoulense DSM 17463', 'Pseudodonghicola xiamenensis DSM 18339', 'Bacteroides finegoldii DSM 17565', 'Nitrosopumilus maritimus SCM1', 'Erwinia tasmaniensis Et1/99', 'Mycobacterium colombiense CECT 3035', 'Desulfosporosinus youngiae DSM 17734', 'Criblamydia sequanensis CRIB-18', 'Thermodesulfovibrio thiophilus DSM 17215', 'Tuberibacillus calidus DSM 17572', 'Spathaspora passalidarum NRRL Y-27907', 'Amorphus coralli DSM 19760', 'Desulfovibrio frigidus DSM 17176', 'Ascodesmis nigricans', 'Peptostreptococcus stomatis DSM 17678', 'Agrococcus lahaulensis DSM 17612', 'Methylophilaceae bacterium B1', 'Burkholderia oklahomensis', 'Thermococcus onnurineus NA1', 'Pyrococcus sp. NA2', 'Paenibacillus barengoltzii G22', 'Salipiger bermudensis HTCC2601', 'Flavobacterium soli DSM 19725', 'Kutzneria sp. 744', 'Podiceps cristatus', 'Geobacter pickeringii', 'Amycolatopsis benzoatilytica AK 16/65', 'Lysobacter daejeonensis GH1-9', 'Echinicola pacifica DSM 19836', 'Moraxella boevrei DSM 14165', 'Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896', 'Rhodanobacter spathiphylli B39', 'Streptomyces davaonensis JCM 4913', 'Exophiala xenobiotica', 'Streptacidiphilus oryzae TH49', 'Rhizobium favelukesii', 'Spironucleus salmonicida', 'Desulfovirgula thermocuniculi DSM 16036', 'Cercospora zeina', 'Psychrobacter sp. PRwf-1', 'Micavibrio aeruginosavorus ARL-13', 'Corynebacterium marinum DSM 44953', 'Flavobacterium daejeonense DSM 17708', 'Flavobacterium suncheonense GH29-5 = DSM 17707', 'Roseobacter sp. AzwK-3b', 'Alkalilimnicola ehrlichii MLHE-1', 'Oscillibacter valericigenes Sjm18-20', 'Salinispora pacifica CNT003', 'Geobacter uraniireducens Rf4', 'Xenorhabdus doucetiae', 'Shewanella sp. W3-18-1', 'Halostagnicola larsenii XH-48', 'Arenimonas malthae CC-JY-1', 'Niastella koreensis GR20-10', 'Streptomyces sp. Tu6071', 'Limnoperna fortunei', 'Alloscardovia criceti DSM 17774', 'Bifidobacterium tsurumiense', 'Micromonospora chokoriensis', 'Phocaeicola dorei', 'Lactobacillus parabrevis ATCC 53295', 'Cercospora berteroae', 'Psychromonas ingrahamii 37', 'Roseiflexus sp. RS-1', 'Microbacterium indicum DSM 19969', 'Acidovorax sp. KKS102', 'Methanoregula boonei 6A8', 'Streptomyces olindensis', 'Pseudomonas extremaustralis 14-3 substr. 14-3b', 'Shewanella loihica PV-4', 'Smaragdicoccus niigatensis DSM 44881 = NBRC 103563', 'Methylotenera mobilis 13', 'Bryobacter aggregatus MPL3', 'Zavarzinella formosa DSM 19928', 'Schlesneria paludicola DSM 18645', 'Leeuwenhoekiella blandensis MED217', 'Roseburia inulinivorans DSM 16841', 'Exiguobacterium sp. AT1b', 'Rubritalea marina DSM 17716', 'Tieghemostelium lacteum', 'Streptococcus pseudoporcinus SPIN 20026', 'Pseudarthrobacter phenanthrenivorans Sphe3', 'Streptomyces vietnamensis', 'Flavobacterium reichenbachii', 'Candidatus Protochlamydia amoebophila UWE25', 'Kaistia granuli DSM 23481', 'Prevotella stercorea DSM 18206', 'Ktedonobacter racemifer DSM 44963', 'Dyella ginsengisoli LA-4', 'Janibacter hoylei PVAS-1', 'Verminephrobacter eiseniae EF01-2', 'Granulibacter bethesdensis CGDNIH1', 'Endocarpon pusillum Z07020', 'Ferrimonas futtsuensis DSM 18154', 'Chryseobacterium caeni DSM 17710', 'Pelosinus fermentans DSM 17108', 'Frankia discariae', 'Belnapia moabensis DSM 16746', 'Paenibacillus sabinae T27', 'Ruania albidiflava DSM 18029', 'Caulobacter sp. K31', 'Haladaptatus paucihalophilus DX253', 'Yersinia similis', 'Phycicoccus jejuensis', 'Rhodobacterales bacterium HTCC2255', 'Pelusios castaneus', 'Blattabacterium sp. (Periplaneta americana) str. BPLAN', 'Blattabacterium sp. (Blatta orientalis) str. Tarazona', 'Rheinheimera perlucida DSM 18276', 'Paenibacillus terrigena DSM 21567', 'Mesonia mobilis DSM 19841', 'Haloterrigena limicola JCM 13563', 'Gallionella capsiferriformans ES-2', 'Arenimonas composti TR7-09 = DSM 18010', 'Flavobacterium filum DSM 17961', 'Brevundimonas aveniformis DSM 17977', 'Erwinia typographi', 'Bacteroides xylanisolvens XB1A', 'Rhodobacter sp. SW2', 'Fischerella thermalis PCC 7521', 'Bartonella tamiae Th239', 'Rivularia sp. PCC 7116', 'Campylobacter cuniculorum DSM 23162 = LMG 24588', 'Reinekea blandensis MED297', 'Janthinobacterium sp. Marseille', 'Pseudooceanicola nanhaiensis DSM 18065', 'Sphaeramia orbicularis', 'Natranaerobius thermophilus JW/NM-WN-LF', 'Haloplanus natans DSM 17983', 'Gordonia shandongensis DSM 45094', 'Olivibacter sitiensis DSM 17696', 'Zhouia amylolytica AD3', 'Paracoccus halophilus', 'Bacteroides barnesiae DSM 18169 = JCM 13652', 'Phocaeicola salanitronis DSM 18170', 'Thermobacillus composti KWC4', 'Methyloversatilis universalis FAM5', 'Novosphingobium nitrogenifigens DSM 19370', 'Cyanobacterium aponinum PCC 10605', 'Streptomyces bingchenggensis BCW-1', 'Vibrio sinaloensis DSM 21326', 'Propithecus coquereli', 'Aciduliprofundum boonei T469', 'Paenibacillus fonticola DSM 21315', 'Niabella aurantiaca DSM 17617', 'Pseudomonas protegens CHA0', 'Cohnella laeviribosi DSM 21336', 'Lactobacillus namurensis str. Chizuka 01', 'Streptococcus ictaluri 707-05', 'Hydrogenobaculum sp. Y04AAS1', 'Lachancea thermotolerans', 'Amycolatopsis nigrescens CSC17Ta-90', 'Algiphilus aromaticivorans DG1253', 'Verrucomicrobiae bacterium DG1235', 'Erythrobacter sp. JL475', 'Ornithinimicrobium pekingense DSM 21552', 'Bacillus aidingensis DSM 18341', 'Cycloclasticus sp. P1', 'Pseudophaeobacter arcticus DSM 23566', 'Thermophagus xiamenensis', 'Paraburkholderia ferrariae NBRC 106233', 'Prevotella timonensis 4401737 = DSM 22865 = JCM 15640', 'Methanobacterium arcticum', 'Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)', 'Moraxella bovoculi 237', 'Bacteroides coprophilus DSM 18228 = JCM 13818', 'Nitratiruptor sp. SB155-2', 'Sulfurovum sp. NBC37-1', 'Halovivax ruber XH-70', 'Halopiger xanaduensis SH-6', 'Parabacteroides johnsonii CL02T12C29', 'Cupriavidus sp. amp6', 'Natronorubrum sulfidifaciens JCM 14089', 'Rhodobacteraceae bacterium HTCC2150', 'Labrenzia alexandrii DFL-11', 'Algoriphagus machipongonensis', 'Bartonella australis Aust/NH1', 'Roseobacter sp. SK209-2-6', 'Hydnomerulius pinastri MD-312', 'Stachybotrys chlorohalonata IBT 40285', 'Wenxinia marina DSM 24838', 'Lactobacillus farraginis DSM 18382 = JCM 14108', 'Lactobacillus parafarraginis F0439', 'Echinicola vietnamensis DSM 17526', 'Actinocatenispora sera', 'Ehrlichia sp. HF', 'Vibrio sp. 16', 'Roseobacter sp. GAI101', 'Roseobacter sp. CCS2', 'Pedobacter sp. BAL39', 'Flavobacteria bacterium BAL38', 'Brevundimonas sp. BAL3', 'Stenotrophomonas sp. SKA14', 'Flavobacteriales bacterium ALC-1', 'Roseovarius sp. TM1035', 'Lysobacter defluvii IMMIB APB-9 = DSM 18482', 'Alicyclobacillus macrosporangiidus CPP55', 'Alicyclobacillus contaminans DSM 17975', 'Paraburkholderia nodosa DSM 21604', 'Sphingomonas jaspsi DSM 18422', 'Deinococcus misasensis DSM 22328', 'Methylophaga thiooxydans DMS010', 'Perlucidibaca piscinae DSM 21586', 'Terriglobus roseus DSM 18391', 'Uliginosibacterium gangwonense DSM 18521', 'Halalkalibacillus halophilus DSM 18494', 'Mesoflavibacter zeaxanthinifaciens S86', 'Gracilibacillus lacisalsi DSM 19029', 'Pestalotiopsis fici', 'Congregibacter litoralis KT71', 'Porphyromonas crevioricanis', 'Bhargavaea cecembensis DSE10', 'Cylindrobasidium torrendii FP15055 ss-10', 'Lactobacillus ceti DSM 22408', 'Coraliomargarita akajimensis DSM 45221', 'Bartonella rochalimae ATCC BAA-1498', 'Cyanothece sp. PCC 7425', 'Gilvimarinus chinensis DSM 19667', 'Brachybacterium phenoliresistens', 'Aspergillus ruber CBS 135680', 'Acinetobacter brisouii ANC 4119', 'Aestuariimicrobium kwangyangense DSM 21549', 'Thioalkalivibrio sp. K90mix', 'Lactobacillus hayakitensis DSM 18933 = JCM 14209', 'Andreprevotia chitinilytica DSM 18519', 'Sphingomonas sanxanigenens DSM 19645 = NX02', 'Marmoricola aequoreus', 'Lachnospiraceae bacterium 28-4', 'Lachnospiraceae bacterium 3-1', 'Lachnospiraceae bacterium A2', 'Lachnospiraceae bacterium A4', 'Barnesiella viscericola DSM 18177', 'Segetibacter koreensis DSM 18137', 'Proteiniclasticum ruminis DSM 24773', 'Agrilactobacillus composti DSM 18527 = JCM 14202', 'Helicobacter macacae MIT 99-5501', 'Trichoderma gamsii', 'Zunongwangia profunda SM-A87', 'Desulfocurvus vexinensis DSM 17965', 'Thermoanaerobacter sp. X514', 'Enterobacter sp. 638', 'Streptococcus merionis DSM 19192', 'Pontibacter korlensis', 'Marinomonas sp. MWYL1', 'Amphimedon queenslandica', 'Wohlfahrtiimonas chitiniclastica DSM 18708', 'Corynebacterium ureicelerivorans', 'Aureimonas ureilytica DSM 18598 = NBRC 106430', 'Candidatus Riesia pediculicola USDA', 'Actinomycetospora chiangmaiensis DSM 45062', 'Haloferax mucosum ATCC BAA-1512', 'Sphingobacterium sp. PM2-P1-29', 'Virgibacillus sp. SK37', 'Shewanella piezotolerans WP3', 'Maritimibacter alkaliphilus HTCC2654', 'Nonomuraea coxensis DSM 45129', 'Anaeromyxobacter sp. Fw109-5', 'Marinobacterium litorale DSM 23545', 'Geminicoccus roseus DSM 18922', 'Alicyclobacillus acidocaldarius subsp. acidocaldarius Tc-4-1', 'Leisingera daeponensis DSM 23529', 'Streptacidiphilus rugosus AM-16', 'Bacillus sp. m3-13', 'Natrinema sp. J7-2', 'Sphingomonas astaxanthinifaciens DSM 22298', 'Stegodyphus mimosarum', 'Prevotella pleuritidis JCM 14110', 'Streptomyces xiamenensis', 'Bacillus coahuilensis m4-4', 'Nocardioidaceae bacterium Broad-1', 'Clostridiisalibacter paucivorans DSM 22131', 'Treponema pedis str. T A4', 'Blastobotrys adeninivorans', 'Periophthalmus magnuspinnatus', 'Coprococcus comes ATCC 27758', 'Gordonia malaquae NBRC 108250', 'Gramella forsetii KT0803', 'Halogeometricum pallidum JCM 14848', 'Clostridium sp. SS2/1', 'Clostridium sp. M62/1', 'Clostridium sp. L2-50', 'Chryseobacterium daeguense DSM 19388', 'Entamoeba nuttalli P19', 'Paracoccus sp. TRP', 'Intrasporangium oryzae NRRL B-24470', 'Desulfotomaculum hydrothermale Lam5 = DSM 18033', 'Mycetohabitans rhizoxinica HKI 454', 'Candidatus Vesicomyosocius okutanii', 'Solimonas soli DSM 21787', 'Cronobacter turicensis z3032', 'Halalkalicoccus jeotgali B3', 'Halorubrum halophilum', 'Caldicellulosiruptor hydrothermalis 108', 'Caldicellulosiruptor kronotskyensis 2002', 'Lysobacter dokdonensis DS-58', 'Planococcus donghaensis MPA1U2', 'Actinopolyspora erythraea', 'Pseudoxanthomonas spadix BD-a59', 'Solimonas flava DSM 18980', 'Nodosilinea nodulosa PCC 7104', 'Rhodanobacter thiooxydans LCS2', 'Natronomonas moolapensis 8.8.11', 'Burkholderia sp. KJ006', 'Penicillium antarcticum', 'Selenomonas bovis DSM 23594', 'Notospermus geniculatus', 'Neptunomonas japonica DSM 18939', 'Methanosarcina horonobensis HB-1 = JCM 15518', 'Blautia wexlerae DSM 19850', 'Salinicoccus albus DSM 19776', 'Nevskia soli DSM 19509', 'Prevotella amnii CRIS 21A-A', 'Alloscardovia omnicolens DSM 21503', 'Yersinia massiliensis CCUG 53443', 'Microvirga lupini', 'Lactobacillus equicursoris DSM 19284 = JCM 14600 = CIP 110162', 'Diplodia seriata', 'Methanolobus psychrophilus R15', 'Paraburkholderia bryophila 376MFSha3.1', 'Sphingobium ummariense RL-3', 'Sulfitobacter donghicola DSW-25 = KCTC 12864 = JCM 14565', 'Chryseobacterium oranimense G311', 'Chryseobacterium halperniae', 'Chryseobacterium luteum', 'Stenoxybacter acetivorans DSM 19021', 'Mucilaginibacter paludis DSM 18603', 'Basidiobolus meristosporus CBS 931.73', 'Elusimicrobium minutum Pei191', 'Rhizobium sp. IRBG74', 'Helicobacter japonicus', 'Calidris pygmaea', 'Thiomonas arsenitoxydans', 'Methylobacterium sp. 4-46', 'Flavobacterium subsaxonicum WB 4.1-42 = DSM 21790', 'Algoriphagus vanfongensis DSM 17529', 'Nocardia rhamnosiphila', 'Bacillus chagannorensis DSM 18086', 'Salsuginibacillus kocurii DSM 18087', 'Humibacter albus DSM 18994', 'Desulfurivibrio alkaliphilus AHT 2', 'Dethiobacter alkaliphilus AHT 1', 'Moritella dasanensis ArB 0140', 'Candidatus Riesia pediculischaeffi PTSU', 'Jonquetella anthropi E3_33 E1', 'Dactylellina haptotyla', 'Halorhabdus tiamatea SARL4B', 'Baudoinia compniacensis', 'Spirosoma luteum DSM 19990', 'Spirosoma spitsbergense DSM 19989', 'Paenibacillus ginsengihumi DSM 21568', 'Kazachstania africana CBS 2517', 'Deinococcus peraridilitoris DSM 19664', 'Nocardioides halotolerans DSM 19273', 'Streptococcus sp. C150', 'Idiomarina salinarum', 'Fibularhizoctonia sp. CBS 109695', 'Sulfurihydrogenibium sp. YO3AOP1', 'Streptacidiphilus jeojiense', 'Robiginitomaculum antarcticum DSM 21748', 'Brucella sp. UK1/97', 'Brucella sp. F23/97', 'Brucella sp. F96/2', 'Brucella sp. UK40/99', 'Brucella sp. F8/99', 'Brucella sp. F5/99', 'Megamonas funiformis YIT 11815', 'Sutterella parvirubra YIT 11816', 'Ruminococcus gauvreauii DSM 19829', 'Streptococcus henryi DSM 19005', 'Streptococcus caballi DSM 19004', 'Candidatus Pelagibacter sp. HTCC7211', 'Pseudovibrio sp. JE062', 'Rhodobacterales bacterium Y4I', 'Ruegeria sp. R11', 'Prevotella maculosa DSM 19339 = JCM 15638', 'Promicromonospora kroppenstedtii DSM 19349', 'Pseudomonas sp. Chol1', 'Gouania willdenowi', 'Corynebacterium timonense 5401744', 'Corynebacterium massiliense DSM 45435', 'Hofstenia miamia', 'Knoellia aerolata DSM 18566', 'Geobacter sp. M18', 'Geobacter sp. M21', 'Bradyrhizobium sp. Cp5.3', 'Brucella microti CCM 4915', 'Sporolactobacillus vineae DSM 21990 = SL153', 'Maribacter forsetii DSM 18668', 'Gryllotalpicola ginsengisoli DSM 22003', 'Rickettsia endosymbiont of Ixodes scapularis', 'Psychromonas ossibalaenae ATCC BAA-1528', 'Reyranella massiliensis 521', 'Leptobrachium leishanense', 'Chryseobacterium soli', 'Adlercreutzia equolifaciens DSM 19450', 'Eudoraea adriatica DSM 19308', 'Niabella soli DSM 19437', 'Anaeromyxobacter sp. K', 'Epichloe gansuensis', 'Simiduia agarivorans SA1 = DSM 21679', 'Rhizobium selenitireducens ATCC BAA-1503', 'Microbacterium profundi', 'Propionibacterium sp. 5_U_42AFAA', 'Veillonella sp. 6_1_27', 'Rudanella lutea DSM 19387', 'Microbacterium luticocti DSM 19459', 'Streptomyces scopuliridis RB72', 'Pseudoclavibacter soli DSM 23366', 'Amphritea japonica ATCC BAA-1530', 'Neovison vison', 'Roseomonas aerilata DSM 19363', 'Desulfarculus baarsii DSM 2075', 'Kwoniella pini CBS 10737', 'Bdellovibrio exovorus JSS', 'Haladaptatus cibarius D43', 'Henriciella marina DSM 19595', 'Joostella marina DSM 19592', 'Halomonas lutea DSM 23508', 'Paraprevotella clara YIT 11840', 'Paraprevotella xylaniphila YIT 11841', 'Kiloniella laminariae DSM 19542', 'Chthonomonas calidirosea T49', 'Gracilimonas tropica DSM 19535', 'Spongiibacter tropicus DSM 19543', 'Glaciecola sp. HTCC2999', 'Chryseobacterium gregarium DSM 19109', 'Xanthomonas campestris pv. vesicatoria str. 85-10', 'Bizionia argentinensis JUB59', 'Saccharibacillus sacchari DSM 19268', 'Candidatus Cloacimonas acidaminovorans str. Evry', 'Streptococcus plurextorum DSM 22810', 'Rhizoctonia solani AG-8 WAC10335', 'Bacteroides sp. 1_1_30', 'Bacteroides sp. 3_1_23', 'Bacteroides sp. 3_1_33FAA', 'Bacteroides sp. 3_2_5', 'Bacteroides sp. 4_1_36', 'Bacteroides sp. 4_3_47FAA', 'Bacteroides sp. 9_1_42FAA', 'Clostridium sp. 7_2_43FAA', 'Desulfovibrio sp. 3_1_syn3', 'Escherichia sp. 1_1_43', 'Escherichia sp. 4_1_40B', 'Eubacterium sp. 3_1_31', 'Micromonospora sp. M42', 'Ruminococcus sp. 5_1_39BFAA', 'Synergistes sp. 3_1_syn1', 'Veillonella sp. 3_1_44', 'Clostridiales bacterium 1_7_47FAA', 'Erysipelotrichaceae bacterium 2_2_44A', 'Elioraea tepidiphila DSM 17972', 'Chloracidobacterium thermophilum B', 'Planomicrobium glaciei CHR43', 'Saccharibacillus kuerlensis DSM 22868', 'Kribbella catacumbae DSM 19601', 'Komagataella phaffii GS115', 'Ogataea polymorpha NCYC 495 leu1.1', 'Lactobacillus nodensis DSM 19682 = JCM 14932 = NBRC 107160', 'Actinomyces massiliensis F0489', 'Alkaliphilus oremlandii OhILAs', 'Babesia sp. Xinjiang', 'Pontibacillus yanchengensis Y32', 'Paxillus rubicundulus Ve08.2h10', 'Veillonella magna DSM 19857', 'Hemiselmis andersenii', 'Streptomyces sp. Mg1', 'Streptomyces sp. SPB074', 'Acinetobacter sp. Ver3', 'Singulisphaera acidiphila DSM 18658', 'Ilumatobacter coccineus YM16-304', 'Lachnoanaerobaculum saburreum F0468', 'Rhodobacteraceae bacterium KLH11', 'Sistotremastrum suecicum HHB10207 ss-3', 'Bacteroides sp. 1_1_14', 'Bacteroides sp. 2_1_22', 'Bacteroides sp. 2_1_33B', 'Bacteroides sp. 2_2_4', 'Parabacteroides sp. 20_3', 'Bacteroides sp. 3_1_19', 'Bacteroides sp. 3_1_40A', 'Coprobacillus sp. 8_2_54BFAA', 'Streptococcus sp. 2_1_36FAA', 'Burkholderiales bacterium 1_1_47', 'Erysipelotrichaceae bacterium 6_1_45', 'Prevotella histicola JCM 15637 = DNF00424', 'Cladophialophora yegresii', 'Gracilibacillus halophilus YIM-C55.5', 'Salinimicrobium terrae DSM 17865', 'Pantoea vagans C9-1', 'Gordonibacter pamelaeae 7-10-1-b', 'Geobacillus sp. WCH70', 'Dasania marina DSM 21967', 'Bifidobacterium bombi DSM 19703', 'Haloplasma contractile SSD-17B', 'Candidatus Desulforudis audaxviator MP104C', 'Nitratireductor basaltis', 'Nitrosococcus watsonii C-113', 'Colletotrichum gloeosporioides', 'Methanosphaerula palustris E1-9c', 'Pedobacter borealis DSM 19626', 'Pseudohaliea rubra DSM 19751', 'Leisingera aquimarina DSM 24565', 'Modestobacter marinus', 'Bacteroides graminisolvens DSM 19988 = JCM 15093', 'Aliiglaciecola lipolytica E3', 'Calditerrivibrio nitroreducens DSM 19672', 'Verrucomicrobia bacterium LP2A', 'Haematomicrobium sanguinis DSM 21259', 'Brevibacterium ravenspurgense 5401308 = CCUG 53855', 'Gluconobacter morbifer G707', 'Commensalibacter intestini A911', 'Myroides profundi', 'Bartonella rattaustraliani AUST/NH4', 'Lactobacillus otakiensis DSM 19908 = JCM 15040', 'Lactobacillus kisonensis F0435', 'Paenibacillus sp. Y412MC10', 'Galeopterus variegatus', 'Oscillatoria nigro-viridis PCC 7112', 'Burkholderia lata', 'Lactobacillus fabifermentans T30PCM01', 'Cystoisospora suis', 'Geoalkalibacter subterraneus', 'Paenibacillus riograndensis SBR5', 'Sphingobium sp. YBL2', 'Pelosinus sp. UFO1', 'Dialister succinatiphilus YIT 11850', 'Barnesiella intestinihominis YIT 11860', 'Parasutterella excrementihominis YIT 11859', 'Acinetobacter soli', 'Aequorivita capsosiphonis DSM 23843', 'Shewanella marina JCM 15074', 'Corynebacterium ulceribovis DSM 45146', 'Flavobacteria bacterium MS024-2A', 'Serratia sp. SCBI', 'Campylobacter peloridis LMG 23910', 'Desulfonatronospira thiodismutans ASO3-1', 'Halarchaeum acidiphilum MH1-52-1', 'Mesorhizobium metallidurans STM 2683', 'Corynebacterium sputi DSM 45148', 'Marinobacter sp. BSs20148', 'Litoreibacter arenae DSM 19593', 'Leucobacter chironomi DSM 19883', 'Brachymonas chironomi DSM 19884', 'Megamonas rupellensis DSM 19944', 'Bacillus velezensis FZB42', 'Dyadobacter alkalitolerans DSM 23607', 'Rhizobium alamii', 'Chryseobacterium palustre DSM 21579', 'Psychrobacter sp. TB15', 'Arthrobacter sp. TB 23', 'Spirosoma panaciterrae DSM 21099', 'Thermoanaerobacter pseudethanolicus ATCC 33223', 'Thauera sp. 63', 'Campylobacter subantarcticus LMG 24377', 'Candidatus Nitrososphaera gargensis Ga9.2', 'Brevibacillus panacihumi W25', 'Arenimonas oryziterrae DSM 21050 = YC6267', 'Flavobacterium rivuli WB 3.3-2 = DSM 21788', 'Borreliella finlandensis', 'Candidatus Korarchaeum cryptofilum OPF8', 'Tepidanaerobacter acetatoxydans Re1', 'Metarhizium brunneum ARSEF 3297', 'Streptomyces avicenniae', 'Glaciibacter superstes DSM 21135', 'Citreicella sp. SE45', 'Porphyromonas bennonis DSM 23058 = JCM 16335', 'Thermodesulfatator atlanticus DSM 21156', 'Butyricicoccus pullicaecorum 1.2', 'Thalassospira profundimaris WP0211', 'Deinococcus gobiensis I-0', 'Eggerthella sp. YY7918', 'Streptococcus porci DSM 23759', 'Aeromonas diversa CDC 2478-85', 'Salisaeta longa DSM 21114', 'Flavobacterium sasangense DSM 21067', 'Kushneria aurantia DSM 21353', 'Jejuia pallidilutea', 'Haloterrigena salina JCM 13891', 'Novosphingobium acidiphilum DSM 19966', 'Chromera velia CCMP2878', 'Rheinheimera sp. A13L', 'Leisingera caerulea DSM 24564', 'Cinara cedri', 'Peptoniphilus duerdenii ATCC BAA-1640', 'Cloacibacillus evryensis DSM 19522', 'Bradyrhizobium genosp. SA-4 str. CB756', 'Pedobacter sp. V48', 'Oceanimonas sp. GK1', 'Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2', 'Methylacidiphilum infernorum V4', 'Vibrio azureus NBRC 104587', 'Dictyoglomus turgidum DSM 6724', 'Caloramator australicus RC3', 'Lacticigenium naphtae DSM 19658', 'Prevotella falsenii DSM 22864 = JCM 15124', 'Nesterenkonia alba DSM 19423', 'Muricauda lutaonensis', 'Providencia burhodogranariea DSM 19968', 'Providencia sneebia DSM 19967', 'Jeotgalicoccus marinus DSM 19772', 'Pontibacillus litoralis JSM 072002', 'Pontibacillus halophilus JSM 076056 = DSM 19796', 'Pantoea sp. aB', 'Citromicrobium sp. JLT1363', 'Bifidobacterium mongoliense DSM 21395', 'Lactobacillus sucicola DSM 21376 = JCM 15457', 'Alcanivorax hongdengensis A-11-3', 'Deinococcus aquatilis DSM 23025', 'Elaphomyces granulatus', 'Ectothiorhodospira sp. PHS-1', 'Brucella sp. NVSL 07-0026', 'Brucella sp. 83/13', 'Acinetobacter sp. NIPH 817', 'Pseudomonas caeni DSM 24390', 'Sphingobium lactosutens DS20', 'Trichophyton mentagrophytes', 'Marinobacter santoriniensis NKSG1', 'Acinetobacter sp. ATCC 27244', 'Thiothrix lacustris DSM 21227', 'Haloglycomyces albus DSM 45210', 'Oceanibaculum indicum P24', 'Listeria marthii FSL S4-120', 'Thecamonas trahens', 'Rhodoluna lacicola', 'Pelagibacterium halotolerans B2', 'Flavobacteriaceae bacterium 3519-10', 'Actinopolymorpha alba DSM 45243', 'Mesorhizobium australicum WSM2073', 'Psychrobacter lutiphocae DSM 21542', 'Rudaea cellulosilytica DSM 22992', 'Thermus islandicus DSM 21543', 'Corynebacterium lubricantis DSM 45231', 'Peronospora effusa', 'Actinoplanes subtropicus', 'Geobacillus sp. Y412MC61', 'Actinomyces johnsonii F0510', 'Butyricimonas synergistica DSM 23225', 'Thioalkalivibrio sp. AKL11', 'Thioalkalivibrio sp. ALJ24', 'Alishewanella jeotgali KCTC 22429', 'Paraoerskovia marina DSM 21750', 'Sporothrix brasiliensis 5110', 'Hydrogenobaculum sp. 3684', 'Hydrogenobaculum sp. HO', 'Hydrogenobaculum sp. SN', 'Mycobacterium vulneris', 'Phycisphaera mikurensis NBRC 102666', 'Pseudogulbenkiania ferrooxidans 2002', 'Geobacillus sp. Y412MC52', 'Pseudonocardia acaciae DSM 45401', 'Aromatoleum aromaticum EbN1', 'Caldicoprobacter oshimai DSM 21659', 'Sediminimonas qiaohouensis DSM 21189', 'Salinarimonas rosea DSM 21201', 'Erysipelotrichaceae bacterium 5_2_54FAA', 'Ruminococcaceae bacterium D16', 'Cryptococcus gattii VGIII', 'Dehalogenimonas lykanthroporepellens BL-DC-9', 'Pseudomonas pelagia CL-AP6', 'Vibrio breoganii 1C10', 'Alishewanella agri BL06', 'Cobetia crustatorum', 'Halomonas jeotgali Hwa', 'Photobacterium leiognathi lrivu.4.1', 'Chlorella variabilis', 'Thiomonas sp. CB2', 'Flavobacterium chungangense LMG 26729', 'Galbibacter marinus', 'Staphylococcus massiliensis S46', 'Novosphingobium sp. Rr 2-17', 'Bacteroides sp. D1', 'Bacteroides sp. D2', 'Clostridium sp. D5', 'Coprobacillus sp. D7', 'Candidatus Liberibacter solanacearum CLso-ZC1', 'Propionibacterium acidifaciens DSM 21887', 'Corynebacterium freiburgense DSM 45254', 'Chryseobacterium piperi', 'Lentibacillus jeotgali', 'Salinicoccus carnicancri Crm', 'Aeromonas lacus', 'Aureobasidium namibiae CBS 147.97', 'Lysinibacillus sinduriensis BLB-1 = JCM 15800', 'Aliagarivorans taiwanensis DSM 22990', 'Prevotella sp. C561', 'Streptococcus sp. C300', 'Streptococcus sp. M143', 'Streptococcus sp. M334', 'Acidianus hospitalis W1', 'Salinisphaera hydrothermalis C41B8', 'Parabacteroides sp. D13', 'Scedosporium apiospermum', 'Geoglobus acetivorans', "Saccharomycetaceae sp. 'Ashbya aceri'", 'Metarhizium robertsii ARSEF 23', 'Dickeya poaceiphila', 'Cladophialophora immunda', 'Pseudoalteromonas lipolytica SCSIO 04301', 'Methanocella paludicola SANAE', 'Ochrobactrum rhizosphaerae SJY1', 'Psychrobacter sp. G', 'Encephalitozoon romaleae SJ-2008', 'Absidia idahoensis var. thermophila', 'Thermoanaerobacter sp. X513', 'Francisella salina', 'Candidatus Hodgkinia cicadicola Dsem', 'Pandoraea oxalativorans', 'Bacillus gaemokensis', 'Bacillus manliponensis', 'Parabacteroides gordonii MS-1 = DSM 23371', 'Pseudomonas taeanensis MS-3', 'Corynebacterium maris DSM 45190', 'Phialocephala subalpina', 'Polynucleobacter necessarius STIR1', 'Polynucleobacter asymbioticus QLW-P1DMWA-1', 'Streptomyces iranensis', 'Indibacter alkaliphilus LW1', 'Enterorhabdus mucosicola DSM 19490', 'Bacillus cytotoxicus NVH 391-98', 'Geobacillus sp. Y4.1MC1', 'Thermococcus paralvinellae', 'Rubidibacter lacunae KORDI 51-2', 'Thermoanaerobacter mathranii subsp. mathranii str. A3', 'Synechococcus sp. KORDI-49', 'Synechococcus sp. KORDI-52', 'Bacteroides sp. D20', 'Bacteroides sp. D22', 'Nematocida parisii', 'Oceanobacillus manasiensis', 'Terribacillus aidingensis', 'Myripristis murdjan', 'Pseudomonas chlororaphis', 'Rhizophagus irregularis', 'Patulibacter americanus DSM 16676', 'Kazachstania naganishii', 'Brevundimonas naejangsanensis', 'Prevotella fusca JCM 17724', 'Prevotella scopos JCM 17725', 'Alteromonas australica', 'Methylacidiphilum fumariolicum SolV', 'Streptomyces sp. SPB78', 'Streptomyces sp. AA4', 'Ignavibacterium album JCM 16511', 'Roseivivax isoporae LMG 25204', 'Piliocolobus tephrosceles', 'Pantoea sp. At-9b', 'Pantoea sp. Sc1', 'Mesorhizobium opportunistum WSM2075', 'Allofrancisella guangzhouensis', 'Rhodopirellula sp. SWK7', 'Prevotella aurantiaca JCM 15754', 'Desulfovibrio sp. U5L', 'Brenneria sp. EniD312', 'Corynebacterium pyruviciproducens ATCC BAA-1742', 'Fibroporia radiculosa', 'Meiothermus rufus DSM 22234', 'Neisseria wadsworthii 9715', 'Neisseria shayeganii 871', 'Dinoponera quadriceps', 'Asaia platycodi SF2.1', 'Harpegnathos saltator', 'Arenibacter algicola', 'Polycyclovorans algicola TG408', 'Methylocystis sp. ATCC 49242', 'Blattabacterium sp. (Blattella germanica) str. Bge', 'Bacteroides clarus YIT 12056', 'Bacteroides fluxus YIT 12057', 'Bacteroides oleiciplenus YIT 12058', 'Alistipes indistinctus YIT 12060', 'Odoribacter laneus YIT 12061', 'Slackia piriformis YIT 12062', 'Collinsella tanakaei YIT 12063', 'Succinatimonas hippei YIT 12066', 'Phascolarctobacterium succinatutens YIT 12067', 'Sphingobium sp. SYK-6', 'Sphingomonas sp. Mn802worker', 'Tomitella biformata AHU 1821', 'Thiorhodovibrio sp. 970', 'Saccharomonospora marina XMU15', 'Acinetobacter rudis CIP 110305', 'Thalassobium sp. R2A62', 'Prevotella saccharolytica F0055', 'Bifidobacterium bohemicum DSM 22767', 'Bifidobacterium actinocoloniiforme DSM 22766', 'Pyramidobacter piscolens W5455', 'Acidobacteriaceae bacterium KBS 146', 'Hoyosella subflava DQS3-9A1', 'Lactobacillus florum 2F', 'Burkholderia sp. CCGE1001', 'Burkholderia sp. CCGE1003', 'Clostridium sp. DL-VIII', 'Neisseria sp. oral taxon 014 str. F0314', 'Tatumella morbirosei', 'Silicibacter sp. TrichCH4B', 'Methanocaldococcus sp. FS406-22', 'Streptomyces sp. e14', 'Enterocytozoon hepatopenaei', 'Plasmodium gaboni', 'Methylobacterium sp. MB200', 'Micromonospora sp. L5', 'Cesiribacter andamanensis AMV16', 'Clostridium sp. ATCC BAA-442', 'Actinomyces sp. oral taxon 848 str. F0332', 'Acetomicrobium hydrogeniformans ATCC BAA-1850', 'Anaerostipes hadrus DSM 3319', 'Actinoplanes sp. N902-109', 'Sulfuricella denitrificans skB26', 'Fibrella aestuarina BUZ 2', 'Aurantimonas manganoxydans SI85-9A1', 'Kosmotoga olearia TBF 19.5.1', 'Actinomyces sp. oral taxon 180 str. F0310', 'Fretibacterium fastidiosum', 'Oribacterium sp. oral taxon 078 str. F0262', 'Bacteroidetes oral taxon 274 str. F0058', 'Peptoniphilus sp. oral taxon 386 str. F0131', 'Paenibacillus sp. oral taxon 786 str. D14', 'Prevotella sp. oral taxon 299 str. F0039', 'Prevotella sp. oral taxon 317 str. F0108', 'Actinomyces sp. oral taxon 849 str. F0330', 'Albugo laibachii', 'Prevotella sp. oral taxon 472 str. F0295', 'Pseudogymnoascus destructans 20631-21', 'Pandoraea vervacti', 'Halanaerobium hydrogeniformans', 'Ruminococcus sp. SR1/5', 'Flavobacterium beibuense F44-8', 'Candidatus Koribacter versatilis Ellin345', 'Ralstonia sp. 5_2_56FAA', 'Lachnospiraceae bacterium 1_1_57FAA', 'Lachnospiraceae bacterium 2_1_58FAA', 'Lachnospiraceae bacterium 6_1_63FAA', 'Lachnospiraceae bacterium 5_1_57FAA', 'Lachnospiraceae bacterium 3_1_57FAA_CT1', 'Lachnospiraceae bacterium 7_1_58FAA', 'Lachnospiraceae bacterium 9_1_43BFAA', 'Lachnospiraceae bacterium 5_1_63FAA', 'Pseudomonas sp. H2', 'Lachnospiraceae bacterium 1_4_56FAA', 'Lachnospiraceae bacterium 6_1_37FAA', 'Erysipelotrichaceae bacterium 21_3', 'Erysipelotrichaceae bacterium 3_1_53', 'Parabacteroides sp. D25', 'Porphyromonas sp. 31_2', 'Paraburkholderia acidipaludis NBRC 101816', 'Olsenella sp. oral taxon 809 str. F0356', 'Brachybacterium squillarum M-6-3', "Candidatus Parvarchaeum acidiphilum ARMAN-4_'5-way FS'", "Candidatus Parvarchaeum acidophilus ARMAN-5_'5-way FS'", 'Fibrisoma limi BUZ 3', 'Methylocapsa aurea', 'Leucobacter salsicius M1-8', 'Borreliella bavariensis PBi', 'Bacillus oceanisediminis 2691', 'Dietzia alimentaria 72', 'Campylobacter sp. 10_1_50', 'Clostridium sp. 7_3_54FAA', 'Coprobacillus sp. 3_3_56FAA', 'Desulfovibrio sp. 6_1_46AFAA', 'Eggerthella sp. 1_3_56FAA', 'Klebsiella sp. 4_1_44FAA', 'Neisseria sp. GT4A_CT1', 'Tannerella sp. 6_1_58FAA_CT1', 'Lachnospiraceae bacterium 3_1_46FAA', 'Lachnospiraceae bacterium 8_1_57FAA', 'Subdoligranulum sp. 4_3_54A2FAA', 'Bacillus sp. 7_6_55CFAA_CT2', 'Bacillus sp. BT1B_CT2', 'Bacillus sp. 2_A_57_CT2', 'Aquimarina macrocephali JAMB N27', 'Afipia sp. 1NLS2', 'Rhodanobacter denitrificans', 'Bacillus sp. 1NLA3E', 'Raphidiopsis brookii D9', 'Thelohanellus kitauei', 'Geminocystis herdmanii PCC 6308', 'Paenibacillus pini JCM 16418', 'Candidatus Profftella armatura', 'Microvirga aerilata', 'Candidatus Uzinura diaspidicola str. ASNER', 'Candidatus Methylomirabilis oxyfera', 'Leptotrichia sp. oral taxon 225 str. F0581', 'Alloprevotella rava F0323', 'Propionibacterium sp. oral taxon 192 str. F0372', 'Selenomonas artemidis F0399', 'Veillonella sp. oral taxon 158 str. F0412', 'Veillonella sp. oral taxon 780 str. F0422', 'Enterorhabdus caecimuris B7', 'Bacteroides sartorii dnLKV3', 'Microbacterium yannicii PS01', 'Cardinium endosymbiont cBtQ1 of Bemisia tabaci', 'Aciduliprofundum sp. MAR08-339', 'Candidatus Babela massiliensis', 'Bacteroides faecis MAJ27', 'Vibrio sp. RC586', 'Lachancea nothofagi', 'Fervidicoccus fontis Kam940', 'Sphingomonas sp. PR090111-T3T-6A', 'Pseudomonas sp. S9', 'Lichtheimia ramosa', 'Oribacterium sp. NK2B42', 'Colletotrichum fructicola Nara gc5', 'Rhizobium vignae', 'Geobacillus sp. C56-T3', 'Fonticula alba', 'Caldisericum exile AZM16c01', 'Vibrio atlanticus LGP32', 'Enterobacteriaceae bacterium strain FGI 57', 'Halogranum salarium B-1', 'Bilophila sp. 4_1_30', "Marssonina brunnea f. sp. 'multigermtubi' MB_m1", 'Virgibacillus alimentarius', 'Megasphaera genomosp. type_1 str. 28L', 'Vibrio caribbeanicus ATCC BAA-2122', 'Vibrio sp. N418', 'Novosphingobium sp. PP1Y', 'Saccharomyces arboricola H-6', 'Capnocytophaga sp. oral taxon 329 str. F0087', 'Actinomyces sp. oral taxon 171 str. F0337', 'Colletotrichum chlorophyti', 'Colletotrichum tofieldiae', 'Bradyrhizobiaceae bacterium SG-6C', 'Frankia sp. QA3', 'Actinomyces sp. oral taxon 178 str. F0338', 'Capnocytophaga sp. oral taxon 338 str. F0234', 'Colletotrichum fioriniae', 'Streptomyces sp. GXT6', 'Actinomyces sp. oral taxon 170 str. F0386', 'Actinomyces sp. oral taxon 172 str. F0311', 'Actinomyces sp. oral taxon 175 str. F0384', 'Actinomyces sp. oral taxon 181 str. F0379', 'Actinomyces sp. oral taxon 448 str. F0400', 'Aggregatibacter sp. oral taxon 458 str. W10330', 'Atopobium sp. oral taxon 199 str. F0494', 'Atopobium sp. oral taxon 810 str. F0209', 'Capnocytophaga sp. oral taxon 324 str. F0483', 'Capnocytophaga sp. oral taxon 326 str. F0382', 'Capnocytophaga sp. oral taxon 332 str. F0381', 'Capnocytophaga sp. oral taxon 336 str. F0502', 'Capnocytophaga sp. oral taxon 380 str. F0488', 'Fusobacterium sp. oral taxon 370 str. F0437', 'Leptotrichia sp. oral taxon 215 str. W9775', 'Microbacterium sp. oral taxon 186 str. F0373', 'Neisseria sp. oral taxon 020 str. F0370', 'Oribacterium sp. oral taxon 108 str. F0425', 'Peptoniphilus sp. oral taxon 375 str. F0436', 'Porphyromonas sp. oral taxon 278 str. W7784', 'Prevotella sp. oral taxon 306 str. F0472', 'Prevotella sp. oral taxon 473 str. F0040', 'Selenomonas sp. oral taxon 137 str. F0430', 'Selenomonas sp. oral taxon 138 str. F0429', 'Selenomonas sp. oral taxon 149 str. 67H29BP', 'Streptococcus sp. oral taxon 056 str. F0418', 'Streptococcus sp. oral taxon 058 str. F0407', 'Streptococcus sp. oral taxon 071 str. 73H25AP', 'Actinobaculum sp. oral taxon 183 str. F0552', 'Lachnospiraceae bacterium oral taxon 082 str. F0431', 'Lachnospiraceae oral taxon 107 str. F0167', 'Parvimonas sp. oral taxon 393 str. F0440', 'Candidatus Atelocyanobacterium thalassa isolate SIO64986', 'Alteromonas naphthalenivorans', 'Ensifer sojae CCBAU 05684', 'Caldicellulosiruptor obsidiansis OB47', 'Hyphopichia burtonii NRRL Y-1933', 'Hyphomicrobium sp. MC1', 'Plasmodium sp. DRC-Itaito', 'Nitratireductor indicus C115', 'Acidovorax ebreus TPSY', 'Vibrio genomosp. F10 str. ZF-129', 'Anncaliia algerae PRA109', 'Leptothrix ochracea L12', 'Rahnella sp. Y9602', 'Delftia sp. Cs1-4', 'Melanaphis sacchari', 'Collinsella sp. 4_8_47FAA', 'Lachnospiraceae bacterium 2_1_46FAA', 'Sphingobacterium sp. 21', 'Methylocystis sp. SB2', 'Ahrensia sp. R2A130', 'Roseibium sp. TrichSKD4', 'Sphingomonas sp. MM-1', 'Olleya sp. VCSM12', 'Mobilicoccus pelagius NBRC 104925', 'Aspergillus fumigatus Af293', 'Oceanobacillus kimchii X50', 'Azoarcus sp. KH32C', 'Pseudogulbenkiania sp. NH8B', 'Thioalkalivibrio sp. ALSr1', 'Sulfuritalea hydrogenivorans sk43H', 'Klebsiella sp. MS 92-3', 'Coprococcus sp. ART55/1', 'Halobacterium sp. DL1', 'Escherichia sp. TW09308', 'Winogradskyella sp. PG-2', 'Photobacterium aphoticum', 'Methylophaga nitratireducenticrescens', 'Methylophaga frappieri', 'Clostridium sp. BNL1100', 'Bacillus sp. WP8', 'Acinetobacter indicus CIP 110367', 'Burkholderia insecticola', 'Burkholderia sp. RPE67', 'Sporosarcina newyorkensis 2681', 'Massilia consociata', 'Bifidobacterium callitrichos DSM 23973', 'Bifidobacterium stellenboschense', 'Bifidobacterium biavatii DSM 23969', 'Siansivirga zeaxanthinifaciens CC-SAMT-1', 'Haemophilus sp. oral taxon 851 str. F0397', 'Paraburkholderia bannensis NBRC 103871', 'Moraxella macacae 0408225', 'Pyrenochaeta sp. DS3sAY3a', 'Stagonospora sp. SRC1lsM3a', 'Vibrio jasicida MWB 21', 'Citreicella sp. 357', 'Candidatus Puniceispirillum marinum IMCC1322', 'Serratia sp. AS12', 'Serratia sp. AS13', 'Sinorhizobium sp. CCBAU 05631', 'Opitutaceae bacterium TAV5', 'Burkholderiaceae bacterium PBA', 'Nesterenkonia sp. F', 'Sugiyamaella lignohabitans', 'Peptoanaerobacter stomatis', 'Stomatobaculum longum', 'Kipferlia bialata', 'Fonsecaea nubica', 'Cryptosporidium ubiquitum', 'Trichoderma parareesei', 'Caenispirillum salinarum AK4', 'Agrobacterium sp. H13-3', 'Gemmatirosa kalamazoonesis', 'Streptomyces sp. SirexAA-E', 'Thermincola potens JR', 'Burkholderiales bacterium JOSHI_001', 'Microvirga lotononidis', 'Oscillatoriales cyanobacterium C42_A2020_001', 'Schizosaccharomyces cryophilus', 'Methanothermobacter sp. CaT2', 'Chloroflexus sp. Y-396-1', 'Methanobacterium paludis', 'Ogataea angusta', 'Terriglobus saanensis SP1PR4', 'Bacteroides stercorirosoris JCM 17103', 'Lactobacillus pasteurii DSM 23907 = CRBIP 24.76', 'Celeribacter baekdonensis B30', 'Mycolicibacter sinensis', 'Peptoniphilus sp. 1-1', 'Methyloferula stellata AR4', 'Ruminococcus sp. NK3A76', 'Clostridiales bacterium NK3B98', 'Erysipelotrichaceae bacterium NK3D112', 'Lachnospiraceae bacterium NK4A136', 'Lachnospiraceae bacterium NK4A144', 'Lachnospiraceae bacterium NK4A179', 'Methanobacterium lacus', 'Chryseobacterium sp. StRB126', 'Pseudodesulfovibrio piezophilus C1TLV30', 'Cutaneotrichosporon oleaginosum', 'Plasmodium sp. gorilla clade G2', 'Fulvivirga imtechensis AK7', 'Methanoregula formicica SMSP', 'Schleiferia thermophila str. Yellowstone', 'Candidatus Zinderia insecticola CARI', 'Mageeibacillus indolicus UPII9-5', 'Fukomys damarensis', 'Desulfosporosinus acidiphilus SJ4', 'Methylovorus sp. MP688', 'Candidatus Nanosalina sp. J07AB43', 'Candidatus Nanosalinarum sp. J07AB56', 'Plautia stali symbiont', 'Nonlabens ulvanivorans', 'Phytopythium vexans DAOM BR484', 'Clostridium sp. HGF2', 'Alistipes sp. HGB5', 'Fusarium sp. FOSC 3-a', 'Actinokineospora spheciospongiae', 'SAR116 cluster alpha proteobacterium HIMB100', 'Pseudovibrio sp. FO-BEG1', 'Caldanaerobacter subterraneus subsp. tengcongensis MB4', 'Mycolicibacterium iranicum UM_TJL', 'Desulfosporosinus sp. OT', 'Knoellia flava TL1', 'Kangiella geojedonensis', 'Rhynchosporium commune', 'Rhynchosporium agropyri', 'Asinibacterium sp. OR53', 'Balearica regulorum', 'Synechocystis sp. PCC 7509', 'Bartonella florencae', 'Pseudomonas brassicacearum', 'Nonlabens marinus S1-08', 'Serratia sp. M24T3', 'Desulfosarcina sp. BuS5', 'Aminobacter sp. J41', 'Bacillus sp. J33', 'Bacillus sp. J37', 'Chelativorans sp. J32', 'Paenibacillus sp. J14', 'Paracoccus sp. J39', 'Luteimonas sp. J29', 'Nocardioides sp. J54', 'Rhizopus delemar', 'Mogibacterium sp. CM50', 'Desulfurispirillum indicum S5', 'Marinomonas posidonica IVIA-Po-181', 'Actinomyces sp. ICM47', 'Atopobium sp. BS2', 'Selenomonas sp. FOBRC6', 'Selenomonas sp. FOBRC9', 'Shuttleworthia sp. MSX8B', 'Streptococcus sp. CM6', 'Veillonella sp. AS16', 'Lachnoanaerobaculum sp. OBRC5-5', 'Lachnoanaerobaculum sp. MSX33', 'Casaltella massiliensis', 'Fenollaria massiliensis', 'Levyella massiliensis', 'Anaerococcus provencensis', 'Bacteroidetes bacterium SCGC AAA027-N21', 'Granulicella mallensis MP5ACTX8', 'Granulicella tundricola MP5ACTX9', 'Desulfovibrio sp. X2', 'Burkholderia sp. WSM2230', 'Hippea jasoniae', 'Hippea sp. KM1', 'Arcobacter sp. L', 'Gordonia neofelifaecis NRRL B-59395', 'Diplocarpon rosae', 'Salpingoeca rosetta', 'Arenimonas metalli CF5-1', 'Paraburkholderia dilworthii', 'Fusarium proliferatum', 'Palaeococcus pacificus DY20341', 'Bacillus sp. 17376', 'Fonsecaea multimorphosa CBS 102226', 'Leuconostoc sp. C2', 'Deinococcus wulumuqiensis R12', 'Aquimarina agarivorans', 'Morus notabilis', 'Ruegeria conchae', 'Lacinutrix sp. 5H-3-7-4', 'Glaciecola sp. 4H-3-7+YE-5', 'Dokdonia sp. 4H-3-7-5', 'Bifidobacterium reuteri DSM 23975', 'Heterobasidion irregulare', 'Mycoplasma parvum str. Indiana', 'Staphylococcus argenteus M21126', 'Vulcanisaeta moutnovskia 768-28', 'Ruegeria halocynthiae', 'Gillisia sp. CAL575', 'Staphylococcus agnetis', 'Lebetimonas sp. JS170', 'Polymorphum gilvum SL003B-26A1', 'Vibrio sp. HENC-03', 'Erosia sp. biolep03', 'Candidatus Kinetoplastibacterium desouzaii TCC079E', 'Candidatus Kinetoplastibacterium galatii TCC219', 'Candidatus Kinetoplastibacterium oncopeltii TCC290E', 'Desmospora sp. 8437', 'Porphyromonas sp. KLE 1280', 'Streptomyces himastatinicus ATCC 53653', 'Halomonas sp. TD01', 'Methylophaga lonarensis MPL', 'Selenomonas sp. F0473', 'Streptococcus sp. F0441', 'Streptococcus sp. F0442', 'Sedimentitalea nanhaiensis DSM 24252', 'Megasphaera sp. UPII 135-E', 'Cryobacterium roopkundense', 'Daldinia sp. EC12', 'Hypoxylon sp. CI-4A', 'Psychrobacter sp. 1501(2011)', 'Leisingera sp. ANG1', 'Candidatus Pelagibacter sp. IMCC9063', 'Verrucosispora maris AB-18-032', 'Fimbriimonas ginsengisoli Gsoil 348', 'Ogataea parapolymorpha DL-1', 'Metallosphaera cuprina Ar-4', 'Listeria weihenstephanensis FSL R9-0317', 'Defluviitoga tunisiensis', 'Candidatus Nitrosarchaeum limnium SFB1', 'Sphingomonas sp. S17', 'Pusillimonas sp. T7-7', 'Pyrococcus yayanosii CH1', 'Candidatus Tremblaya phenacola PAVE', 'Exophiala sideris', 'Nannospalax galili', 'Endozoicomonas montiporae', 'Pseudomonas sp. StFLB209', 'Acinetobacter sp. P8-3-8', 'Sphingomonas sp. KC8', 'Caloramator sp. ALD01', 'Campylobacter volucris LMG 24379', 'Corynebacterium nuruki S6-4', 'Bacillus timonensis', 'Brevibacterium senegalense', 'Kurthia sp. Dielmo', 'Kurthia massiliensis', 'Kurthia senegalensis', 'Exophiala aquamarina CBS 119918', 'Marinobacter adhaerens HP15', 'Thioalkalivibrio sulfidiphilus HL-EbGr7', 'Nitrososphaera viennensis EN76', 'Paenibacillus sp. HW567', 'Legionella massiliensis', 'Deferrisoma camini S3R1', 'Dehalobacter sp. FTH1', 'Idiomarina sp. A28L', 'Bradyrhizobium sp. WSM2793', 'Bradyrhizobium sp. WSM3983', 'Mesorhizobium sp. WSM3224', 'Mesorhizobium sp. WSM3626', 'Bradyrhizobium sp. ARR65', 'Drosophila rhopaloa', 'Ensifer sp. WSM1721', 'Candidatus Arthromitus sp. SFB-rat-Yit', 'Wickerhamomyces ciferrii', 'Aureobasidium subglaciale EXF-2481', 'Clostridium sp. SY8519', 'Rhizobium sp. IBUN', 'Ochrovirga pacifica', 'Thermococcus sp. 4557', 'Acidiphilium sp. PM', 'Demequina mangrovi', 'Citricoccus sp. CH26A', 'Oceaniovalibus guishaninsula JLT2003', 'Aminicenantes bacterium SCGC AAA252-A02', 'Zymoseptoria brevis', 'Zymoseptoria tritici', 'Candidatus Moranella endobia PCIT', 'Paracoccidioides lutzii', 'Anditalea andensis', 'Paenibacillus sp. Aloe-11', 'Verticillium alfalfae VaMs.102', 'Acetobacteraceae bacterium AT-5844', 'Thermoplasmatales archaeon BRNA1', 'Methylotenera versatilis 301', 'Psychrobacter sp. TB67', 'Grimontia indica', 'Nocardia sp. BMG51109', 'Ensifer sp. BR816', 'Azospirillum baldaniorum', 'Amycolatopsis halophila YIM 93223', 'Aspergillus luchuensis IFO 4308', 'Halonotius sp. J07HN4', 'Bacillus sp. NSP22.2', 'Tetrapisispora blattae', 'Caballeronia grimmiae', 'Lachancea dasiensis CBS 10888', 'Porticoccus hydrocarbonoclasticus MCTG13d', 'Armillaria solidipes', 'Pantoea rwandensis', 'Thiolapillus brandeum', 'Acetobacter okinawensis JCM 25146', 'Staphylococcus sp. HGB0015', 'Paenisporosarcina sp. HGH0030', 'Streptomyces sp. HGB0020', 'Parabacteroides sp. HGS0025', 'Bacteroides sp. HPS0048', 'Coprococcus sp. HPP0074', 'Coprococcus sp. HPP0048', 'Serinicoccus profundi MCCC 1A05965', 'Haemophilus sputorum CCUG 13788', 'Paenibacillus sp. HGH0039', 'Corynebacterium sp. HFH0082', 'Rhizobium mesoamericanum STM3625', 'Leucobacter chromiiresistens JG 31', 'Citrobacter sp. S-77', 'Saccharomyces eubayanus', 'Candidatus Aquiluna sp. IMCC13023', 'Hepatospora eriocheir', 'Enterospora canceri', 'Aquimarina agarilytica ZC1', 'Bartonella sp. DB5-6', 'Streptococcus sp. SK140', 'Streptococcus sp. SK643', 'Methylobacterium sp. GXF4', 'Arthrobacter sp. PAO19', 'Burkholderia sp. YI23', 'Coprobacter fastidiosus NSB1', 'Limnohabitans sp. Rim28', 'Limnohabitans sp. Rim47', 'Arthrobacter sp. MA-N2', 'Paracoccus sp. N5', 'Methylopila sp. M107', 'Methylobacterium sp. 10', 'Methylobacterium sp. 77', 'Methylophilaceae bacterium 11', 'Pyrobaculum ferrireducens', 'Actinomyces sp. ICM39', 'Clostridium sp. MSTE9', 'Rickettsia philipii str. 364D', 'Paenirhodobacter enshiensis', 'Penicillium rubens', 'Thermus sp. CCB_US3_UF1', 'Metallosphaera yellowstonensis MK1', 'Atopobium sp. BV3Ac4', 'Propionimicrobium sp. BV2F7', 'Peptoniphilus sp. BV3C26', 'Coriobacteriaceae bacterium BV3Ac1', 'Megasphaera sp. BV3C16-1', 'Psychrobacter sp. PAMC 21119', 'Sphingomonas sp. PAMC 26605', 'Sphingomonas sp. PAMC 26617', 'Methylophilus sp. 5', 'Arthrobacter sp. 31Y', 'Hoeflea sp. 108', 'Vibrio sp. EJY3', 'Elizabethkingia anophelis NUHP1', 'Brevibacillus massiliensis', 'Actinomyces sp. ph3', 'Halomonas sp. GFAJ-1', 'Arthrobacter sp. Rue61a', 'Rhizobium grahamii CCGE 502', 'Sphingopyxis sp. LC363', 'Methylopila sp. 73B', 'Mycobacterium sp. 141', 'Actinomadura flavalba DSM 45200', 'Corynebacterium doosanense CAU 212 = DSM 45436', 'Gordonia kroppenstedtii DSM 45133', 'Fodinicurvata fenggangensis DSM 21160', 'Fodinicurvata sediminis DSM 21159', 'Halomonas zhanjiangensis DSM 21076', 'Hirschia maritima DSM 19733', 'Pedobacter oryzae DSM 19973', 'Ponticaulis koreensis DSM 19734', 'Rubellimicrobium mesophilum DSM 19309', 'Thiomicrorhabdus sp. Kp2', 'Gonapodya prolifera JEL478', 'SAR86 cluster bacterium SAR86A', 'SAR86 cluster bacterium SAR86B', 'Magnetococcus marinus MC-1', 'Treponema sp. JC4', 'Pseudomonas sp. P179', 'Limimaricola cinnabarinus LL-001', 'Bosea sp. 117', 'Bradyrhizobium sp. DOA9', 'Paenibacillus beijingensis', 'Bacillus sp. JS', 'Paraglaciecola arctica BSs20135', 'Weissella oryzae SG25', 'Marine Group I thaumarchaeote SCGC AB-629-I23', 'Nitrospina sp. AB-629-B18', 'Dehalobacter sp. CF', 'Sphaerochaeta globosa str. Buddy', 'Sphaerochaeta pleomorpha str. Grapes', 'Flavobacterium sp. 83', 'Methylobacterium sp. 88A', 'Xanthobacter sp. 126', 'Arthrobacter sp. 35W', 'Bacillus sp. 37MA', 'Rhizobium sp. CCGE 510', 'Melioribacter roseus P3M-2', 'Alkalihalobacillus ligniniphilus', 'Cellvibrio sp. BR', 'Klebsiella michiganensis E718', 'Nocardiopsis sp. CNT312', 'Streptomyces sp. CNH099', 'Saccharomonospora sp. CNQ490', 'Xanthomarina gelatinilytica', 'Endozoicomonas numazuensis', 'Clostridium arbusti SL206', 'Mycobacterium paraintracellulare', 'Lactobacillus curieae', 'Pseudomassariella vexata', 'Homolaphlyctis polyrhiza', 'Novosphingobium sp. AP12', 'Sphingobium sp. AP49', 'Rhizobium sp. CF080', 'Rhizobium sp. CF122', 'Flavobacterium sp. CF136', 'Herbaspirillum sp. CF444', 'Pseudomonas sp. GM21', 'Herbaspirillum sp. YR522', 'Phyllobacterium sp. YR531', 'Tritrichomonas foetus', 'Acinetobacter sp. CIP 101934', 'Acinetobacter sp. CIP 101966', 'Acinetobacter sp. CIP 102082', 'Acinetobacter sp. CIP 102129', 'Acinetobacter sp. CIP 102136', 'Acinetobacter sp. CIP 102143', 'Acinetobacter sp. CIP 102159', 'Acinetobacter sp. CIP 102529', 'Acinetobacter sp. CIP 102637', 'Acinetobacter sp. CIP 51.11', 'Acinetobacter sp. CIP 53.82', 'Acinetobacter sp. CIP 56.2', 'Acinetobacter sp. CIP 64.7', 'Acinetobacter sp. CIP A162', 'Lysinibacillus varians', 'Dehalobacter sp. DCA', 'Ornithinibacillus scapharcae TW25', 'Achromobacter arsenitoxydans SY8', 'Acinetobacter oleivorans DR1', 'Geminisphaera colitermitum TAV2', 'Pseudomonas furukawaii', 'Arthrobacter sp. 9MFCol3.1', 'Leifsonia sp. 109', 'Tsukamurella sp. 1534', 'Arthrobacter sp. 161MFSha2.1', 'Arthrobacter sp. 162MFSha1.1', 'Microbacterium sp. 292MF', 'Nematocida sp. 1 ERTm2', 'Streptomyces sp. LaPpAH-108', 'Streptomyces sp. MspMP-M5', 'Moorea producens 3L', 'Streptococcus sp. I-G2', 'Streptococcus sp. I-P16', 'Streptomyces sp. HmicA12', 'Tumebacillus flagellatus', 'Streptomyces sp. LaPpAH-95', 'Streptomyces sp. Amel2xE9', 'Streptomyces sp. ATexAB-D23', 'Streptomyces sp. BoleA5', 'Streptomyces sp. PsTaAH-124', 'Streptomyces sp. FxanaC1', 'Mycobacterium sp. 155', 'Thermotoga sp. Cell2', 'Thermotoga sp. 2812B', 'Arthrobacter sp. 135MFCol5.1', 'Thioalkalivibrio sp. ALJT', 'Thioalkalivibrio sp. ALD1', 'Thioalkalivibrio sp. ALMg11', 'Thioalkalivibrio sp. ALE31', 'Thiomonas sp. FB-Cd', 'Prevotella sp. 10(H)', 'Desulfurobacterium sp. TC5-1', 'Persephonella sp. IF05-L8', 'Persephonella sp. KM09-Lau-8', 'Kosakonia sacchari SP1', 'Thioalkalivibrio sp. ALJ7', 'Thioalkalivibrio sp. ALJ11', 'Thioalkalivibrio sp. ALJ16', "Leptospirillum sp. Group II 'C75'", 'Ustilaginoidea virens', 'Bordetella sp. FB-8', 'Nocardia sp. BMG111209', 'Brucella sp. 63/311', 'Ruminococcus bicirculans', 'Candidatus Nasuia deltocephalinicola str. NAS-ALF', 'Euryhalocaulis caribicus', 'Streptococcus sp. ACC21', 'Ruminococcus champanellensis 18P13 = JCM 17042', 'Pseudomonas donghuensis', 'Clostridium sp. 12(A)', 'Cronobacter condimenti 1330', 'Richelia intracellularis HH01', 'Imtechella halotolerans K1', 'Methylotenera sp. 73s', 'Sulfurovum sp. AR', 'Enterobacter sp. R4-368', 'Halomonas xinjiangensis', 'Draconibacterium orientale', 'Xanthobacteraceae bacterium 501b', 'Mycobacterium sp. MOTT36Y', 'Mycobacterium sp. H4Y', 'Streptomyces pratensis ATCC 33331', 'Bacillus sp. 123MFChir2', 'Nocardia sp. CNY236', 'Streptomyces sp. CNT372', 'Streptomyces sp. CNY243', 'Brucella sp. F5/06', 'Brucella sp. 56/94', 'Citrobacter sp. KTE30', 'Escherichia sp. KTE114', 'Citrobacter sp. KTE151', 'Escherichia sp. KTE11', 'Escherichia sp. KTE31', 'Citrobacter sp. KTE32', 'Vitrella brassicaformis CCMP3155', 'Rhodobacteraceae bacterium PD-2', 'Streptomyces sp. 142MFCol3.1', 'Streptomyces sp. 351MFTsu5.1', 'Streptomyces sp. 303MFCol5.2', 'Nocardia sp. 348MFTsu5.1', 'Mycobacterium sp. 360MFTsu5.1', 'Terracoccus sp. 273MFTsu3.1', 'Oxytricha trifallax', 'Sulfurimonas hongkongensis', 'Catenovulum agarivorans DS-2', 'Fischerella sp. PCC 9431', 'Fischerella sp. PCC 9605', 'Geitlerinema sp. PCC 7407', 'Gloeocapsa sp. PCC 7428', 'Microcoleus sp. PCC 7113', 'Oscillatoria sp. PCC 10802', 'Chamaesiphon minutus PCC 6605', 'Synechococcus sp. PCC 7502', 'Leptolyngbya sp. PCC 6406', 'Colletotrichum sublineola', 'Fischerella sp. PCC 9339', 'Sphingopyxis sp. MC1', 'Herbaspirillum sp. GW103', 'Methanocella conradii HZ254', 'Methanocella arvoryzae MRE50', 'Peptoniphilus rhinitidis 1-13', 'Sulfurimonas gotlandica GD1', 'Agrobacterium fabrum str. C58', 'Alcanivorax nanhaiticus', 'Microbacterium sp. C448', 'Komagataeibacter medellinensis NBRC 3288', 'Halomonas huangheensis', 'Bacillus xiamenensis', 'Bacillus zhangzhouensis', 'Arenitalea lutea', 'Candidatus Photodesmus blepharus', 'Mycoplasma feriruminatoris', 'Pseudomonas sp. M47T1', 'Cladophialophora psammophila', 'Deinococcus swuensis', 'Escherichia sp. KTE52', 'Klebsiella sp. KTE92', 'Escherichia sp. KTE96', 'Escherichia sp. KTE159', 'Myroides injenensis M09-0166', 'Pyrococcus sp. ST04', 'Mesotoga prima MesG1.Ag.4.2', 'Thioclava dalianensis', 'Blattabacterium sp. (Blaberus giganteus)', 'Rhodovulum sp. PH10', 'Flavobacterium sp. ACAM 123', 'Burkholderia sp. lig30', 'Lactobacillus hokkaidonensis JCM 18461', 'Snodgrassella alvi', 'Gilliamella apicola', 'Corvus moneduloides', 'Clostridium sp. Maddingley MBC34-26', 'Paenibacillus sp. OSY-SE', 'Mangrovimonas yunxiaonensis', 'Arthrobacter sp. M2012083', 'Janthinobacterium sp. HH01', 'Thermogladius calderae 1633', 'Anaerovibrio sp. RM50', 'Ruminobacter sp. RM87', 'Bacteriovorax sp. Seq25_V', 'Bacteriovorax sp. BAL6_X', 'Flavobacterium sp. F52', 'Lactobacillus oryzae JCM 18671', 'Halopiger salifodinae', 'Achlya hypogyna', 'Lactobacillus hominis DSM 23910 = CRBIP 24.179', 'Geobacter daltonii FRC-32', 'Acidaminococcus sp. HPA0509', 'Actinomyces sp. HPA0247', 'Corynebacterium sp. KPL1814', 'Corynebacterium sp. KPL1817', 'Corynebacterium sp. KPL1818', 'Corynebacterium sp. KPL1821', 'Corynebacterium sp. KPL1824', 'Corynebacterium sp. KPL1855', 'Corynebacterium sp. KPL1856', 'Corynebacterium sp. KPL1857', 'Corynebacterium sp. KPL1859', 'Corynebacterium sp. KPL1860', 'Dermabacter sp. HFH0086', 'Propionibacterium sp. HGH0353', 'Propionibacterium sp. KPL1838', 'Propionibacterium sp. KPL1844', 'Propionibacterium sp. KPL1852', 'Pseudomonas sp. HPB0071', 'Streptococcus sp. HPH0090', 'Streptomyces sp. HPH0547', 'Veillonella sp. HPA0037', 'Corynebacterium sp. KPL1986', 'Corynebacterium sp. KPL1989', 'Corynebacterium sp. KPL1995', 'Corynebacterium sp. KPL1996', 'Corynebacterium sp. KPL1998', 'Corynebacterium sp. KPL2004', 'Propionibacterium sp. KPL2005', 'Propionibacterium sp. KPL2009', 'Streptomyces sp. CNR698', 'Novosphingobium sp. MBES04', 'Pseudomonas sp. Lz4W', 'Gallaecimonas xiamenensis 3-C-1', 'Idiomarina xiamenensis 10-D-4', 'Sphingobium sp. C100', 'Hyphomonas sp. L-53-1-40', 'Pseudomonas sp. UW4', 'Marinomonas profundimaris', 'Celeribacter indicus', 'Commensalibacter sp. MX01', 'Colletotrichum orchidophilum', 'Streptomyces sp. AA0539', 'Gemmata massiliana', 'Pseudoxanthomonas sp. GW2', 'Chelatococcus sp. GW1', 'Dyadobacter tibetensis Y620-1', 'Enterobacteriaceae bacterium B14', 'Acidocella sp. MX-AZ02', 'Diaporthe ampelina', 'Thermus tengchongensis YIM 77401', 'Amphibacillus jilinensis Y1', 'Clostridium bornimense', 'Acinetobacter sp. NIPH 542', 'Acinetobacter sp. NIPH 298', 'Acinetobacter sp. CIP 64.2', 'Acinetobacter sp. NIPH 1847', 'Acinetobacter sp. NIPH 3623', 'Acinetobacter sp. CIP 110321', 'Acinetobacter sp. CIP 70.18', 'Acinetobacter sp. ANC 3880', 'Acinetobacter sp. NIPH 1867', 'Acinetobacter sp. ANC 4105', 'Acinetobacter sp. NIPH 284', 'Acinetobacter sp. ANC 3862', 'Acinetobacter sp. NIPH 2168', 'Acinetobacter sp. ANC 3929', 'Acinetobacter sp. NIPH 2100', 'Acinetobacter sp. NIPH 713', 'Acinetobacter sp. NIPH 899', 'Acinetobacter sp. NIPH 236', 'Acinetobacter sp. NIPH 758', 'Acinetobacter sp. ANC 3789', 'Cupriavidus sp. BIS7', 'Roseomonas sp. B5', 'Xylona heveae TC161', 'Octadecabacter antarcticus 307', 'Streptomyces sp. GBA 94-10', 'Brucella inopinata BO1', 'Lactobacillus mellifer', 'Lactobacillus kullabergensis', 'Lactobacillus helsingborgensis', 'Lactobacillus kimbladii', 'Lactobacillus melliventris', 'Lactobacillus mellis', 'Acinetobacter nectaris CIP 110549', 'Actinomyces sp. S4-C9', 'Arcanobacterium sp. S3PF19', 'Peptostreptococcus sp. MV1', 'Methanobacterium sp. Maddingley MBC34', 'Altibacter lentus', 'Corynebacterium humireducens NBRC 106098 = DSM 45392', 'Enterobacteriaceae bacterium LSJC7', 'Mangrovibacter sp. MFB070', 'Pantoea sp. A4', 'Dickeya sp. DW 0440', 'Oscillibacter sp. KLE 1728', 'Oscillibacter sp. KLE 1745', 'Blautia sp. KLE 1732', 'Clostridium sp. KLE 1755', 'Streptomyces rapamycinicus NRRL 5491', 'Actinomyces sp. oral taxon 877 str. F0543', 'Capnocytophaga sp. oral taxon 863 str. F0517', 'Leptotrichia sp. oral taxon 879 str. F0557', 'Prevotella sp. F0091', 'Paenibacillus sp. FSL H7-689', 'Paenibacillus sp. FSL R7-277', 'Leptolyngbya sp. KIOST-1', 'Sphingobacterium deserti', 'Flavobacterium sp. WG21', 'Cupriavidus sp. GA3-3', 'Alkalibacterium sp. AK22', 'Candidatus Nitrosopumilus sediminis', 'Salimicrobium jeotgali', 'Bradyrhizobium sp. DFCI-1', 'Flaviramulus ichthyoenteri Th78', 'Lachancea sp. CBS 6924', 'Lachancea mirantina', 'Paenisporosarcina sp. TG-14', 'Nitratireductor pacificus pht-3B', 'Thermotoga sp. Mc24', 'Lactobacillus shenzhenensis LY-73', 'Clohesyomyces aquaticus', 'Desulfuromonas sp. TF', 'Corynebacterium ihumii', 'Megasphaera massiliensis', 'Nesterenkonia massiliensis', 'Nosocomiicoccus massiliensis', 'Enorma timonensis', 'Desulfobacula sp. TS', 'Clostridiales bacterium VE202-13', 'Clostridiales bacterium VE202-18', 'Clostridiales bacterium VE202-09', 'Clostridiales bacterium VE202-08', 'Clostridiales bacterium VE202-14', 'Clostridiales bacterium VE202-21', 'Marinobacterium sp. AK27', 'Geobacillus sp. GHH01', 'Chryseobacterium sp. JM1', 'Chryseobacterium sp. FH1', 'Staphylococcus sp. E463', 'Pacificimonas flava', 'Gayadomonas joobiniege G7', 'Ralstonia sp. AU12-08', 'Eubacterium sp. 14-2', 'Lachnospiraceae bacterium M18-1', 'Lachnospiraceae bacterium MD335', 'Firmicutes bacterium M10-2', 'Oscillibacter sp. 1-3', 'Dorea sp. 5-2', 'Lachnospiraceae bacterium MD308', 'Lachnospiraceae bacterium 10-1', 'Parabacteroides sp. ASF519', 'Anaerotruncus sp. G3(2012)', 'Candidatus Pantoea carbekii', 'Haloquadratum sp. J07HQX50', 'Halonotius sp. J07HN6', 'Halorubrum sp. J07HR59', 'Sodalis praecaptivus', 'Dokdonia sp. PRO95', 'Bacillus massiliogorillae', 'Luteimonas huabeiensis HB2', 'Campylobacter iguaniorum', 'Magnetospirillum caucaseum', 'Mariniradius saccharolyticus AK6', 'Lachancea lanzarotensis', 'Borreliella chilensis', 'Nocardiopsis potens DSM 45234', 'Rhizobium sp. 2MFCol3.1', 'Halobacillus sp. BAB-2008', 'Paramicrosporidium saccamoebae', 'Arsenophonus endosymbiont str. Hangzhou of Nilaparvata lugens', 'Microbacterium sp. UCD-TDU', 'Parvularcula oceani', 'Blastomonas sp. AAP53', 'Sandarakinorhabdus sp. AAP62', 'Porphyrobacter sp. AAP82', 'Candidatus Sulfuricurvum sp. RIFRC-1', 'Imhoffiella purpurea', 'Gillisia sp. Hel_I_29', 'Maribacter sp. Hel_I_7', 'Polaribacter sp. Hel1_85', 'Polaribacter sp. Hel_I_88', 'Muricauda sp. MAR_2010_75', 'Salegentibacter sp. Hel_I_6', 'Pseudomonas sp. FGI182', "Leptospirillum sp. Group IV 'UBA BS'", 'Streptomyces sp. 769', 'Phascolarctobacterium sp. CAG:207', 'Phascolarctobacterium sp. CAG:266', 'Oscillibacter ruminantium GH1', 'Edwardsiella piscicida C07-087', 'Candidatus Endolissoclinum faulkneri L2', 'Pseudomonas sp. URMO17WK12:I8', 'Streptomyces sp. PAMC 26508', 'Nafulsella turpanensis ZLM-10', 'Lysinibacillus manganicus DSM 26584', 'Thioalkalivibrio sp. ALE6', 'Thioalkalivibrio sp. ALE19', 'Thioalkalivibrio sp. AKL19', 'Frischella perrara', 'Sediminibacterium sp. C3', 'Acidobacteriaceae bacterium KBS 83', 'Acidobacteriaceae bacterium KBS 89', 'Pantoea sp. IMH', 'Pseudomonas sp. G5(2012)', 'Peptoniphilus timonensis JC401', 'Rhodococcus sp. AW25M09', 'Acidovorax sp. MR-S7', 'Thioalkalivibrio sp. ALR17-21', 'Flavobacterium sp. KJJ', 'Pedobacter sp. R20-19', 'Megasphaera sp. NM10', 'Liberibacter crescens BT-1', 'Mycobacterium sp. VKM Ac-1817D', 'Paenibacillus antibioticophila', 'Candidatus Hepatobacter penaei', 'Acidovorax sp. JHL-9', 'Escherichia sp. KTE172', 'Hippea alviniae EP5-r', 'Synechococcus sp. KORDI-100', 'Gorillibacterium massiliense', 'Butyrivibrio sp. AE2015', 'Butyrivibrio sp. VCD2006', 'Butyrivibrio sp. AE3009', 'Butyrivibrio sp. XPD2006', 'Butyrivibrio sp. FC2001', 'Butyrivibrio sp. AE3006', 'Prevotella sp. AGR2160', 'Butyrivibrio sp. WCD3002', 'Butyrivibrio sp. VCB2006', 'Butyrivibrio sp. LC3010', 'Butyrivibrio sp. WCD2001', 'Butyrivibrio sp. XBB1001', 'Butyrivibrio sp. NC3005', 'Butyrivibrio sp. MC2013', 'Meira miltonrushii', 'Hyphomonas pacifica', 'Hyphomonas sp. CY54-11-8', 'Hyphomonas beringensis', 'Hyphomonas chukchiensis', 'Hyphomonas atlantica', 'Asticcacaulis sp. AC460', 'Asticcacaulis sp. AC402', 'Asticcacaulis sp. AC466', 'Frankia sp. Iso899', 'Tolumonas lignilytica', 'Nocardioides sp. Iso805N', 'Paenibacillus sp. A9', 'Planktomarina temperata RCA23', 'Actinomyces sp. S6-Spd3', 'Tissierellia bacterium S7-1-4', 'Prevotella sp. S7-1-8', 'Pandoraea sp. SD6-2', 'Brachyspira hampsonii 30446', 'Mesorhizobium sp. L2C084A000', 'Mesorhizobium sp. LNJC398B00', 'Prevotella sp. S7 MS 2', 'Bacillus massiliosenegalensis JC6', 'Achromobacter insuavis AXX-A', 'Arcticibacter svalbardensis MN12-7', 'Streptomyces sp. CNT318', 'Streptomyces sp. TAA040', 'Anaerococcus senegalensis JC48', 'Alistipes senegalensis JC50', 'Actinomyces timonensis DSM 23838', 'Nitrosospira lacus', 'Magnetospira sp. QH-2', 'Streptomyces sp. TAA204', 'Candidatus Methanomethylophilus alvus Mx1201', 'Dietzia sp. UCD-THP', 'Kocuria sp. UCD-OTCP', 'Leucobacter sp. UCD-THU', 'Halopiger djelfimassiliensis', 'Halopiger goleimassiliensis', 'Pseudomonas sp. ATCC 13867', 'Photobacterium gaetbulicola Gung47', 'Thermodesulfobacterium geofontis OPF15', 'Parageobacillus genomosp. 1', 'Aquimarina pacifica', 'Mesorhizobium sp. STM 4661', 'Intestinimonas butyriciproducens', 'Myxococcus hansupus', 'Afipia sp. OHSU_I-C4', 'Bradyrhizobium sp. OHSU_III', 'Psychrobacter sp. JCM 18900', 'Mesorhizobium sp. URHA0056', 'Microbacterium sp. URHA0036', 'Marmoricola sp. URHB0036', 'Mycobacterium sp. URHD0025', 'Alteromonas sp. ALT199', 'Bradyrhizobium sp. URHA0002', 'Streptomyces sp. TAA486', 'Methanocaldococcus bathoardescens', 'Caldisalinibacter kiritimatiensis', 'Cellulomonas sp. KRMCY2', 'Clostridium sp. ASBs410', 'Geovibrio sp. L21-Ace-BES', 'Microbacterium sp. KROCY2', 'Oceanicola sp. HL-35', 'Marinobacter nanhaiticus D15-8W', 'Sporosarcina sp. EUR3 2.2.2', 'Alcanivorax pacificus W11-5', 'Termitomyces sp. J132', 'Streptomyces hokutonensis', 'Desulfohalovibrio reitneri', 'Salinispira pacifica', 'Arthrobacter sp. Br18', 'Arthrobacter sp. H14', 'Thermocrinis sp. GBS', 'Aureispira sp. CCB-QB1', 'Peniophora sp. CONT', 'Perkinsela sp. CCAP 1560/4', 'Streptococcus sp. HSISM1', 'Streptococcus sp. HSISB1', 'Streptococcus sp. HSISS1', 'Streptococcus sp. HSISS2', 'Streptococcus sp. HSISS3', 'Enterococcus sp. HSIEG1', 'Blattabacterium sp. (Nauphoeta cinerea)', 'Archaeoglobus sulfaticallidus PM70-1', 'Aquimarina atlantica', 'Thioclava atlantica', 'Candidatus Mycoplasma girerdii', 'Mesorhizobium sp. NBIMC_P2-C3', 'Clostridiales bacterium oral taxon 876 str. F0540', 'Mitsuokella sp. oral taxon 131 str. W9106', 'Peptostreptococcaceae bacterium oral taxon 113 str. W5053', 'Selenomonas sp. oral taxon 892 str. F0426', 'Rhodococcus defluvii', 'Mycobacterium sp. TKK-01-0059', 'Serratia sp. FS14', 'Prolemur simus', 'Thermoactinomyces daqus', 'Enterobacter sp. MGH 1', 'Enterobacter sp. MGH 3', 'Enterobacter sp. MGH 6', 'Enterobacter sp. MGH 7', 'Enterobacter sp. MGH 10', 'Enterobacter sp. MGH 15', 'Enterobacter sp. MGH 22', 'Enterobacter sp. MGH 23', 'Enterobacter sp. MGH 24', 'Enterobacter sp. MGH 25', 'Enterobacter sp. MGH 33', 'Enterobacter sp. MGH 37', 'Enterobacter sp. MGH 38', 'Enterobacter sp. BWH 37', 'Enterobacter sp. BIDMC 26', 'Enterobacter sp. BIDMC 27', 'Enterobacter sp. BIDMC 28', 'Enterobacter sp. BIDMC 29', 'Enterobacter sp. BIDMC 30', 'Novosphingobium lindaniclasticum LE124', 'Cycloclasticus zancles 78-ME', 'Thermus caliditerrae', 'Auricularia subglabra TFB-10046 SS5', 'Sphingobium baderi LL03', 'Candidatus Saccharimonas aalborgensis', 'Salinarchaeum sp. Harcht-Bsk1', 'Bifidobacterium moukalabense DSM 27321', 'Tepidicaulis marinus', 'Spiribacter salinus M19-40', 'Spiribacter curvatus', 'Sphingobium bisphenolivorans', 'Polaribacter sp. Hel1_33_49', 'Calothrix sp. 336/3', 'Bacillus sp. UNC438CL73TsuS30', 'Luminiphilus syltensis NOR5-1B', 'Flavobacterium enshiense DK69', 'Brucella sp. 04-5288', 'Sulfitobacter geojensis', 'Sulfitobacter noctilucicola', 'Sulfitobacter noctilucae', 'Saccharibacter sp. AM169', 'Epichloe mollis', 'Winogradskyella psychrotolerans RS-3', 'Halomonas sp. A3H3', 'Bacillus sp. EB01', 'Paucisalibacillus sp. EB02', 'Bacillus ndiopicus', 'Bacillus dielmoensis', 'Anaerosalibacter massiliensis', 'Bacteroides neonati', 'Pseudoalteromonas piratica', 'Arthrobacter sp. AK-YN10', 'Cyclobacterium qasimii M12-11B', 'Synechococcus sp. UTEX 2973', 'Thioclava indica', 'Bacteriovorax sp. BSW11_IV', 'Peptoniphilus mikwangii', 'Roseovarius sp. MCTG156(2b)', 'Arcobacter sp. AF1028', 'Arcobacter lanthieri', 'Bradyrhizobium diazoefficiens USDA 110', 'Rhodococcus sp. PML026', 'Hymenobacter sp. APR13', 'Batrachochytrium salamandrivorans', 'Lutibaculum baratangense AMV1', 'Thermofilum adornatum', 'Zygosaccharomyces parabailii', 'Rhodobacteraceae bacterium HIMB11', 'Fonsecaea erecta', 'Mycobacterium sp. UM_WGJ', 'Mycobacterium sp. UM_WWY', 'Firmicutes bacterium ASF500', 'Dyella jiangningensis', 'Gemmatimonas phototrophica', 'Desulfonauticus sp. A7A', 'Sphingomonas sp. FUKUSWIS1', 'Methanobacterium sp. MB1', 'Spirosoma radiotolerans', 'Streptomyces sp. URHA0041', 'Geodermatophilaceae bacterium URHB0048', 'Mesorhizobium sp. URHC0008', 'Cellulomonas sp. URHE0023', 'Bradyrhizobium sp. URHD0069', 'Blastococcus sp. URHD0036', 'Halomonas sp. 23_GOM-1509m', 'Sulfitobacter sp. 20_GPM-1509m', 'Intrasporangiaceae bacterium URHB0013', 'Ahrensia sp. 13_GOM-1096m', 'Tenacibaculum sp. 47A_GOM-205m', 'Mycobacterium sp. URHB0044', 'Alcanivorax sp. 43B_GOM-46m', 'Solirubrobacterales bacterium URHD0059', 'Dongia sp. URHE0060', 'Geodermatophilaceae bacterium URHA0031', 'Rhodospirillales bacterium URHD0088', 'Paenibacillus darwinianus', 'Streptomycetaceae bacterium MP113-05', 'Aliihoeflea sp. 2WW', 'Brevibacterium sp. VCM10', 'Caulobacteraceae bacterium PMMR1', 'Sporosarcina sp. D27', 'Thermogemmatispora carboxidivorans', 'Thermorudis peleae', 'Acidobacterium ailaaui', 'Methyloceanibacter caenitepidi', 'Francisella sp. W12-1067', 'Lysobacter arseniciresistens ZS79', 'Hymenobacter sp. DG25B', 'Leptolyngbya sp. Heron Island J', 'Exiguobacterium chiriqhucha RW-2', 'Sphingobacterium paucimobilis HER1398', 'Methylophilus sp. OH31', 'Staphylococcus sp. M0480', 'Clostridium sp. Ade.TY', 'Pseudogymnoascus sp. VKM F-3808', 'Kalmanozyma brasiliensis', 'Prevotella sp. HUN102', 'Eubacterium sp. AB3007', 'Flavimarina sp. Hel_I_48', 'Leeuwenhoekiella sp. MAR_2009_132', 'Sediminibacter sp. Hel_I_10', 'Ruminococcaceae bacterium AE2021', 'Lachnospiraceae bacterium AC2031', 'Bifidobacterium sp. 7101', 'Bifidobacterium sp. A11', 'Candidatus Saccharibacteria bacterium RAAC3_TM7_1', 'Thermosynechococcus sp. NK55a', 'Paenibacillus sp. MAEPY2', 'Haloferula sp. BvORR071', 'Verrucomicrobium sp. BvORR034', 'Marinobacter sp. ES-1', 'Leucobacter sp. PH1c', 'Serratia sp. H1n', 'Alcanivorax sp. P2S70', 'Halomonas sp. PBN3', 'Candidatus Micropelagos thuwalensis', 'Exiguobacterium sp. MH3', 'Ophiocordyceps australis', 'Bacteroidales bacterium CF', 'Flavobacterium limnosediminis JC2902', 'Sulfitobacter pseudonitzschiae', 'Streptomyces sp. A02', 'Verrucomicrobium sp. BvORR106', 'Corynebacterium glyciniphilum AJ 3170', 'Candidatus Methanomassiliicoccus intestinalis Issoire-Mx1', 'Synechococcus sp. NKBG15041c', 'Betaproteobacteria bacterium MOLA814', 'Bacillus sp. MB2021', 'Butyrivibrio sp. FCS014', 'Butyrivibrio sp. MC2021', 'Prevotella sp. MA2016', 'Oribacterium sp. FC2011', 'Pseudobutyrivibrio sp. LB2011', 'Lachnospiraceae bacterium AC2028', 'Lachnospiraceae bacterium AC3007', 'Lachnospiraceae bacterium MA2020', 'Lachnospiraceae bacterium MC2017', 'Youngiibacter fragilis 232.1', 'Candidatus Tachikawaea gelatinosa', 'Candidatus Nitrosopelagicus brevis', 'Bacteroides sp. Ga6A2', 'Treponema sp. C6A8', 'Oribacterium sp. P6A1', 'Prevotella sp. P6B1', 'Pseudobutyrivibrio sp. MD2005', 'Ruminococcus sp. FC2018', 'Selenomonas sp. ND2010', 'Serratia sp. DD3', 'Shinella sp. DD12', 'Lachnospiraceae bacterium C6A11', 'Lachnospiraceae bacterium FE2018', 'Lachnospiraceae bacterium MD2004', 'Lachnospiraceae bacterium NC2004', 'Lachnospiraceae bacterium ND2006', 'Lachnospiraceae bacterium P6A3', 'Lachnospiraceae bacterium P6B14', 'Lachnospiraceae bacterium V9D3004', 'Lachnospiraceae bacterium YSB2008', 'Propionibacteriaceae bacterium P6A17', 'Ruminococcaceae bacterium AB4001', 'Methyloglobulus morosus KoM1', 'Rhizobiales bacterium YIM 77505', 'Gammaproteobacteria bacterium MOLA455', 'Corynebacterium jeddahense', 'Clostridium saudiense', 'Pseudomonas sp. TKP', 'Candidatus Walczuchella monophlebidarum', 'Marinobacter sp. MCTG268', 'Halomonas sp. TG39a', 'Oceanicola sp. MCTG156(1a)', 'Gloeobacter kilaueensis JS1', 'Defluviimonas sp. 20V17', 'Streptococcus sp. VT 162', 'Pseudogymnoascus sp. VKM F-3775', 'Pseudogymnoascus sp. VKM F-4246', 'Pseudogymnoascus sp. VKM F-4281 (FW-2241)', 'Pseudogymnoascus sp. VKM F-4513 (FW-928)', 'Pseudogymnoascus sp. VKM F-4514 (FW-929)', 'Pseudogymnoascus sp. VKM F-4515 (FW-2607)', 'Pseudogymnoascus sp. VKM F-4516 (FW-969)', 'Pseudogymnoascus sp. VKM F-4517 (FW-2822)', 'Pseudogymnoascus sp. VKM F-103', 'Pseudogymnoascus sp. VKM F-4518 (FW-2643)', 'Pseudogymnoascus sp. VKM F-4519 (FW-2642)', 'Pseudogymnoascus sp. VKM F-4520 (FW-2644)', 'Marinobacter similis', 'Marinobacter salarius', 'Kurthia huakuii LAM0618', 'Bacillus sp. SJS', 'Hyphomicrobium nitrativorans NL23', 'Candidatus Entotheonella factor', 'Candidatus Entotheonella gemina', 'Afipia sp. P52-10', 'Geobacillus icigianus', 'Candidatus Halobonum tyrrellensis G22', 'Mannheimia sp. USDA-ARS-USMARC-1261', 'Mucinivorans hirudinis', 'Methanosarcina sp. Kolksee', 'Methanosarcina sp. MTP4', 'Methanosarcina sp. WH1', 'Methanosarcina sp. WWM596', 'Acinetobacter bohemicus ANC 3994', 'Alcanivorax sp. 97CO-5', 'Candidatus Symbiobacter mobilis CR', 'Pseudogymnoascus sp. VKM F-3557', 'Citrobacter sp. MGH 55', 'Pseudomonas sp. BAY1663', 'Talaromyces atroroseus', 'Clostridium sp. K25', 'Aquimarina megaterium XH134', 'Candidatus Protochlamydia massiliensis', 'Candidatus Rubidus massiliensis', 'Xylella taiwanensis', 'Gynuella sunshinyii YC6258', 'Sciscionella sp. SE31', 'Hymenobacter swuensis DY53', 'Bacillus sp. Pc3', 'Campylobacter corcagiensis', 'Halobellus rufus', 'Arthrobacter sp. UNC362MFTsu5.1', 'Mycobacterium sp. UNC280MFTsu5.1', 'Caulobacter sp. UNC358MFTsu5.1', 'Clostridium sp. KNHs205', 'Microbacterium sp. UNCCL10', 'Paenibacillus sp. UNC451MF', 'Phyllobacterium sp. UNC302MFCol5.2', 'Rhodococcus sp. UNC23MFCrub1.1', 'Rhodococcus sp. UNC363MFTsu5.1', 'Sphingomonas sp. UNC305MFCol5.2', 'Thermus amyloliquefaciens', 'Bacillus sp. TS-2', 'Microbacterium sp. MRS-1', 'Microbacterium sp. Cr-K32', 'Microbacterium sp. Cr-K20', 'Pseudomonas sp. RL', 'Chryseobacterium hispalense DSM 25574', 'Microbulbifer sp. HZ11', 'Candidatus Accumulibacter sp. BA-93', 'Cellulomonas sp. HZM', 'Chlamydia avium 10DC88', 'Chlamydia gallinacea 08-1274/3', 'Halapricum salinum', 'Caballeronia jiangsuensis', 'Serpentinomonas raichei', 'Serpentinomonas mccroryi', 'Candidatus Phaeomarinobacter ectocarpi', 'Lachnospiraceae bacterium AC2029', 'Candidatus Nitrososphaera evergladensis SR1', 'Geomicrobium sp. JCM 19037', 'Geomicrobium sp. JCM 19038', 'Bacillus sp. JCM 19046', 'Paraphaeosphaeria sporulosa', 'Weeksella massiliensis', 'Haemophilus massiliensis', 'Neobacillus jeddahensis', 'Jeotgalicoccus saudimassiliensis', 'Metalysinibacillus saudimassiliensis', 'Actibacterium atlanticum', 'Pseudooceanicola atlanticus', 'Pseudoalteromonas sp. SCSIO_11900', 'Virgibacillus massiliensis', 'Oceanobacillus jeddahense', 'Brucella papionis', 'Klebsiella quasipneumoniae subsp. quasipneumoniae UCICRE 14', 'Actinosporangium sp. NRRL B-3428', 'Glycomyces sp. NRRL B-16210', 'Saccharothrix sp. NRRL B-16314', 'Streptomyces sp. NRRL F-2580', 'Streptomyces sp. NRRL F-2890', 'Streptomyces sp. NRRL F-5008', 'Streptomyces sp. NRRL F-5053', 'Streptomyces sp. NRRL F-5065', 'Streptomyces sp. NRRL F-5123', 'Streptomyces sp. NRRL F-5126', 'Streptomyces sp. NRRL F-5135', 'Streptomyces sp. NRRL F-525', 'Streptomyces sp. NRRL F-5630', 'Streptomyces sp. NRRL F-6677', 'Streptomyces sp. NRRL S-118', 'Streptomyces sp. NRRL S-149', 'Streptomyces sp. NRRL S-1777', 'Streptomyces sp. NRRL S-237', 'Streptomyces sp. NRRL S-337', 'Streptomyces sp. NRRL S-340', 'Streptomyces sp. NRRL S-37', 'Streptomyces sp. NRRL S-474', 'Streptomyces sp. NRRL S-646', 'Streptomyces sp. NRRL S-87', 'Streptomyces sp. NRRL S-920', 'Streptomyces sp. NRRL WC-3626', 'Streptomyces sp. NRRL WC-3742', 'Streptomyces sp. NRRL WC-3773', 'Micromonospora parva', 'Aeromicrobium massiliense JC14', 'Peptoniphilus grossensis ph5', 'Peptoniphilus senegalensis JC140', "Oceanobacillus massiliensis str. N'diop", 'Paenibacillus senegalensis JC66', 'Clostridium senegalense JC122', 'Cellulomonas massiliensis JC225', 'Noviherbaspirillum massiliense JC206', 'Timonella senegalensis JC301', 'Burkholderia sp. 2002721687', 'Bacillus massilioanorexius AP8', 'Bartonella senegalensis OS02', 'Holdemania massiliensis AP2', 'Thioalkalivibrio sp. HK1', 'Burkholderiales bacterium GJ-E10', 'Lacinutrix jangbogonensis', 'Rhodovulum sp. NI22', 'Kineothrix alysoides', 'Alistipes ihumii AP11', 'Candidatus Stoquefichus massiliensis AP9', 'Clostridium ihumii AP5', 'Candidatus Blastococcus massiliensis AP3', 'Streptomyces sp. Tu 6176', 'Sphingomonas sp. RIT328', 'Pseudomonas sp. RIT357', 'Prochlorococcus sp. scB241_528O2', 'Prochlorococcus sp. scB245a_520K10', 'Talaromyces cellulolyticus', 'Basilea psittacipulmonis DSM 24701', 'Falsirhodobacter sp. alg1', 'Burkholderia sp. K24', 'Enorma massiliensis phI', 'Kallipyga massiliensis ph2', 'Senegalimassilia anaerobia JC110', 'Lysinibacillus sp. BF-4', 'Mizugakiibacter sediminis', 'Deinococcus phoenicis', 'Streptomyces sp. NRRL B-24720', 'Peptostreptococcaceae bacterium VA2', 'Halomonas sp. HL-48', 'Marinobacter sp. HL-58', 'Oceanicaulis sp. HL-87', 'Porphyrobacter sp. HL-46', 'Curtobacterium sp. S6', 'Spirochaeta lutea', 'Pantoea sp. PSNIH2', 'Pantoea sp. PSNIH1', 'Psychroserpens jangbogonensis', 'Exiguobacterium sp. AB2', 'Rhodoferax saidenbachensis ED16', 'Cadophora sp. DSE1049', 'Selenomonas sp. AE3005', 'Ferriphaselus sp. R-1', 'Ghiorsea bivora', 'Mitosporidium daphniae', 'Martelella endophytica', 'Candidatus Sodalis pierantonius str. SOPE', 'Clostridium sp. HMP27', 'Desulfosporosinus sp. HMP52', 'Corynebacterium sp. ATCC 6931', 'Pseudomonas sp. Ant30-3', 'Deinococcus sp. RL', 'Trichoderma guizhouense', 'Flavobacterium gilvum', 'Flavobacterium seoulense', 'Gammaproteobacteria bacterium MFB021', 'Arthrobacter sp. PAMC 25486', 'Mesoaciditoga lauensis cd-1655R = DSM 25116', 'Pseudomonas sp. WCS374', 'Penicillium cf. griseofulvum UFMGCB 6741', 'Candidatus Evansia muelleri', 'Cyanobium sp. CACIAM 14', 'Listeriaceae bacterium FSL A5-0209', 'Prochlorococcus sp. MIT 0601', 'Prochlorococcus sp. MIT 0602', 'Prochlorococcus sp. MIT 0701', 'Bacillus rubiinfantis', 'Clostridium sp. CL-6', 'Clostridium sp. CL-2', 'Bacillus andreraoultii', 'Pseudomonas saudiphocaensis', 'Clostridium amazonitimonense', 'Candidatus Moduliflexus flocculans', 'Candidatus Vecturithrix granuli', 'Paenibacillus sp. TCA20', 'Rhizobium sp. YR295', 'Rhizobium sp. YR519', 'Chryseobacterium sp. CF284', 'Rhizobium sp. CF097', 'Rhizobium sp. CF394', 'Rhizobium sp. OK494', 'Luteibacter sp. 9143', 'Luteibacter sp. 9135', 'Massilia sp. 9096', 'Burkholderia sp. 9120', 'Campylobacter sp. RM16704', 'Paenibacillus tyrfis', 'Prochlorococcus sp. MIT 0604', 'Prochlorococcus sp. MIT 0801', 'Oribacterium parvum ACB8', 'Oribacterium asaccharolyticum ACB7', 'Alistipes inops', 'Devosia sp. LC5', 'Methylotenera sp. L2L1', 'Pseudomonas sp. AAC', 'Sphingopyxis sp. LC81', 'Bosea sp. LC85', 'Massilia sp. LC238', 'Veillonella seminalis ACS-216-V-Col6b', 'Polaromonas sp. CG9_12', 'Halomonas sp. KO116', 'Chitinivibrio alkaliphilus ACht1', 'Blochmannia endosymbiont of Polyrhachis (Hedomyrma) turneri', 'Blochmannia endosymbiont of Camponotus (Colobopsis) obliquus', 'Candidatus Schmidhempelia bombi str. Bimp', 'Thermococcus eurythermalis', 'Flavobacterium sp. Fl', 'Butyrivibrio sp. AE3004', 'Rachicladosporium antarcticum', 'Jeotgalibacillus malaysiensis', 'Candidatus Arthromitus sp. SFB-mouse-NL', 'Acinetobacter sp. HR7', 'Pseudorhizobium pelagicum', 'Candidatus Nitrosopumilus koreensis AR1', 'Bosea sp. UNC402CLCol', 'Ruminococcus sp. HUN007', 'Sphingopyxis fribergensis', 'Porphyromonas sp. COT-239 OH1446', 'Porphyromonas sp. COT-290 OH860', 'Shewanella mangrovi', 'Idiomarina atlantica', 'Vibrio sp. ER1A', 'Porphyromonadaceae bacterium COT-184 OH4590', 'Anopheles coluzzii', 'Oscillibacter sp. ER4', 'Candidatus Thermochlorobacteriaceae bacterium GBChlB', 'Chloroflexus sp. MS-G', 'Sphingobium sp. ba1', 'Ceraceosorus guamensis', 'Pseudomonas sp. ML96', 'Serratia sp. Ag1', 'Planococcus sp. PAMC 21323', 'Rickettsiales bacterium Ac37b', 'Thalassospira australica', 'Acinetobacter seifertii', 'Palleronia rufa', 'Coriobacteriaceae bacterium 68-1-3', 'Torrubiella hemipterigena', 'Achromobacter sp. RTa', 'Rhizobium sp. YS-1r', 'Devosia sp. 17-2-E-8', 'Thalassotalea sp. ND16A', 'Paenibacillus sp. FSL P4-0081', 'Paenibacillus sp. FSL R5-0345', 'Paenibacillus sp. FSL R5-0912', 'Paenibacillus sp. FSL R7-0273', 'Paenibacillus sp. FSL R7-0331', 'Paenibacillus sp. FSL H7-0357', 'Paenibacillus sp. FSL H7-0737', 'Sphingopyxis sp. MWB1', 'Sulfurospirillum sp. SCADC', 'Sulfuricurvum sp. MLSB', 'Alteromonas sp. LOR', 'Micromonospora sp. HK10', 'Aquabacterium sp. NJ1', 'Sphingobacterium sp. ML3W', 'Treponema sp. OMZ 838', 'Deinococcus sp. YIM 77859', 'Clostridium sp. KNHs214', 'Myxosarcina sp. GI1', 'Candidatus Izimaplasma sp. HR1', 'Candidatus Izimaplasma sp. HR2', 'Oleiagrimonas soli', 'Lactobacillus sp. wkB10', 'Lactobacillus sp. wkB8', 'Sphingomonas sp. 35-24ZXX', 'Hoeflea sp. BAL378', 'Francisella sp. FSC1006', 'Helicobacter sp. MIT 11-5569', 'Campylobacter sp. MIT 97-5078', 'Sphingomonas taxi', 'Sphingomonas sp. 37zxx', 'Sphingobacteriaceae bacterium DW12', 'Thermofilum uzonense', 'Listeria booriae', 'Caenorhabditis tropicalis', 'Fermentimonas caenicola', 'Rhodococcus sp. B7740', 'Shewanella sp. ECSMB14101', 'Sulfurospirillum sp. MES', 'Rugosibacter aromaticivorans', 'Bacillus sp. X1(2014)', 'Paenibacillus sp. IHBB 10380', 'Paracoccus sp. PAMC 22219', 'Phaeobacter sp. S60', 'Jaminaea rosea', 'Bacillus sp. BH072', 'Bacillus sp. YP1', 'Candidatus Methanoplasma termitum', 'Dickeya undicola', 'Nitrosopumilus adriaticus', 'Pseudomonas sp. HMSC05H02', 'Neisseria sp. HMSC06F02', 'Candidatus Methylopumilus planktonicus', 'Nitrosopumilus piranensis', 'Fusobacterium hwasookii ChDC F128', 'Myroides sp. A21', 'Agrobacterium arsenijevicii', 'Pseudomonas sp. 10B238', 'Haloarcula sp. CBA1115', 'Enterobacteriaceae bacterium ATCC 29904', 'Candidatus Nitrosotenuis cloacae', 'Halanaeroarchaeum sulfurireducens', 'Sinocyclocheilus anshuiensis', 'Candidatus Filomicrobium marinum', 'Sphingomonas hengshuiensis', 'Pseudomonas sp. MRSN12121', 'Vibrio sp. S234-5', 'Psychromicrobium lacuslunae', 'Bacillus sp. LM 4-2', 'Sulfuricella sp. T08', 'Verrucomicrobia bacterium IMCC26134', 'Chania multitudinisentens RB-25', 'Bacillus paralicheniformis ATCC 9945a', 'Metarhizium rileyi RCEF 4871', 'Metarhizium majus ARSEF 297', 'Blattabacterium cuenoti BPAA', 'Lachancea quebecensis', 'Emmonsia sp. CAC-2015a', 'Blastomyces percursus', 'Phialophora attinorum', 'Violaceomyces palustris', 'Paramormyrops kingsleyae', 'Blastomyces gilchristii SLH14081', 'Pseudomicrostroma glucosiphilum', 'Wallemia mellicola CBS 633.66', 'Baudoinia panamericana UAMH 10762', 'Leucoagaricus sp. SymC.cos', 'Pezoloma ericae', 'Neocallimastix californiae', 'Piromyces finnis', 'Anaeromyces robustus', 'Mesorhizobium erdmanii USDA 3471', 'Nematocida displodere', 'Enterobacter roggenkampii EC_38VIM1', 'Edwardsiella anguillarum ET080813', 'Gopherus evgoodei', 'Dacryopinax primogenitus', 'Cryptococcus gattii VGII LA55', 'Cryptococcus gattii VGIV IND107', 'Amphiamblys sp. WSBS2006', 'Carlito syrichta', 'Pseudocercospora fijiensis CIRAD86', 'Testicularia cyperi', 'Xanthomonas cannabis pv. phaseoli', 'Planoprotostelium fungivorum', 'Fortiea contorta PCC 7126', 'Pectobacterium parmentieri WPP163', 'Geobacillus genomosp. 3', 'Bifiguratus adelaidae', 'Emergomyces pasteurianus Ep9510', 'Dinothrombium tinctorium', 'Rachicladosporium sp. CCFEE 5018', 'Xanthomonas phaseoli pv. phaseoli', 'Cordyceps sp. RAO-2017', 'Ophiocordyceps camponoti-rufipedis', 'Ooceraea biroi', 'Malassezia vespertilionis', 'Coniella lustricola', 'Globisporangium ultimum DAOM BR144', 'Blastomyces silverae', 'Mesorhizobium japonicum MAFF 303099', 'Rutstroemia sp. NJR-2017a WRK4', 'Rutstroemia sp. NJR-2017a BVV2', 'Rutstroemia sp. NJR-2017a BBW', 'Cervus hanglu yarkandensis', 'Lactobacillus paragasseri JV-V03', 'Photorhabdus laumondii subsp. laumondii TTO1', 'Pyrrhoderma noxium', 'Hondaea fermentalgiana', 'Yamadazyma tenuis ATCC 10573', 'Hyaloscypha bicolor E', 'Hyaloscypha variabilis F', 'Nothophytophthora sp. Chile5', 'Strigops habroptila', 'Fusarium odoratissimum NRRL 54006', 'Gloeothece citriformis PCC 7424', 'Gloeothece verrucosa PCC 7822', 'Crocosphaera subtropica ATCC 51142', 'Crocosphaera chwakensis CCY0110', 'Rippkaea orientalis PCC 8802', 'Thermothielavioides terrestris NRRL 8126', 'Podospora anserina S mat+', 'Dacryopinax sp. DJM 731 SSP-1', 'Akanthomyces lecanii RCEF 1005', 'Fusarium vanettenii 77-13-4']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', consistency_score_threshold: Fraction = 0.5, filter_consistency_score: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the PhylomeDB database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

param map_to_organism

organism name or NCBI taxon ID of the target species for ortholog mapping.

type map_to_organism

str or int

param map_from_organism

organism name or NCBI taxon ID of the input genes’ source species.

type map_from_organism

str or int

param gene_id_type

the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

type gene_id_type

str or ‘auto’ (default=’auto’)

` :param consistency_score_threshold: the minimum consistency score required for an ortholog mapping to be considered valid. Consistency scores are calculated by PhylomeDB and represent the confidence of the ortholog mapping. setting consistency_score_threshold to 0 will keep all mappings. You can read more about PhylomeDB consistency score on the PhylomeDB website: orthology.phylomedb.org/help

type consistency_score_threshold

float between 0 and 1 (default=0.5)

param filter_consistency_score

if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest consistency score.

type filter_consistency_score

bool (default=True)

param non_unique_mode

How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

type non_unique_mode

‘first’, ‘last’, ‘random’, or ‘none’ (default=’first’)

param remove_unmapped_genes

if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

type remove_unmapped_genes

bool (default=False)

type inplace

bool (default=True)

param inplace

If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

return

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

number_filters(column: ColumnName, operator: Literal['greater than', 'equals', 'lesser than'], value: float, opposite: bool = False, inplace: bool = True)

Applay a number filter (greater than, equal, lesser than) on a particular column in the Filter object.

Parameters

• column (str) – name of the column to filter by

• operator (str: 'gt' / 'greater than' / '>', 'eq' / 'equals' / '=', 'lt' / 'lesser than' / '<') – the operator to filter the column by (greater than, equal or lesser than)

• value (float) – the value to filter by

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/test_deseq.csv')
>>> #keep only rows that have a value greater than 5900 in the column 'baseMean'.
>>> filt.number_filters('baseMean','gt',5900)
Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

>>> filt = filtering.Filter('tests/test_files/test_deseq.csv')
>>> #keep only rows that have a value greater than 5900 in the column 'baseMean'.
>>> filt.number_filters('baseMean','greater than',5900)
Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

>>> filt = filtering.Filter('tests/test_files/test_deseq.csv')
>>> #keep only rows that have a value greater than 5900 in the column 'baseMean'.
>>> filt.number_filters('baseMean','>',5900)
Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

padj_col

name of the adjusted p-value column

print_features()

Print the feature indices in the Filter object, sorted by their current order in the FIlter object, and separated by newline.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.sort(by='cond1',ascending=False)
>>> counts.print_features()
WBGene00007075
WBGene00043988
WBGene00043990
WBGene00007079
WBGene00007076
WBGene00043989
WBGene00007063
WBGene00007077
WBGene00007078
WBGene00007071
WBGene00007064
WBGene00007066
WBGene00007074
WBGene00043987
WBGene00007067
WBGene00014997
WBGene00044022
WBGene00077503
WBGene00077504
WBGene00077502
WBGene00007069
WBGene00044951

save_csv(alt_filename: Union[None, str, Path] = None)

Saves the current filtered data to a .csv file.

Parameters

alt_filename (str, pathlib.Path, or None (default)) – If None, file name will be generated automatically according to the filtering methods used. If it’s a string, it will be used as the name of the saved file. Example input: ‘myfilename’

save_parquet(alt_filename: Union[None, str, Path] = None)

Saves the current filtered data to a .parquet file.

Parameters

alt_filename (str, pathlib.Path, or None (default)) – If None, file name will be generated automatically according to the filtering methods used. If it’s a string, it will be used as the name of the saved file. Example input: ‘myfilename’

save_table(suffix: Literal['.csv', '.tsv', '.parquet'] = '.csv', alt_filename: Union[None, str, Path] = None)

Save the current filtered data table.

Parameters

• suffix ('.csv', '.tsv', or '.parquet' (default='.csv')) – the file suffix

• alt_filename (str, pathlib.Path, or None (default)) – If None, file name will be generated automatically according to the filtering methods used. If it’s a string, it will be used as the name of the saved file. Example input: ‘myfilename’

sort(by: Union[str, List[str]], ascending: Union[bool, List[bool]] = True, na_position: str = 'last', inplace: bool = True)

Sort the rows by the values of specified column or columns.

Parameters

• by (str or list of str) – Names of the column or columns to sort by.

• ascending (bool or list of bool (default=True)) – Sort ascending vs. descending. Specify list for multiple sort orders. If this is a list of bools, it must have the same length as ‘by’.

• na_position ('first' or 'last', default 'last') – If ‘first’, puts NaNs at the beginning; if ‘last’, puts NaNs at the end.

• inplace (bool (default=True)) – If True, perform operation in-place. Otherwise, returns a sorted copy of the Filter object without modifying the original.

Returns

None if inplace=True, a sorted Filter object otherwise.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.head()
                cond1  cond2  cond3  cond4
WBGene00007063    633    451    365    388
WBGene00007064     60     57     20     23
WBGene00044951      0      0      0      1
WBGene00007066     55    266     46     39
WBGene00007067     15     13      1      0
>>> counts.sort(by='cond1',ascending=True)
>>> counts.head()
                cond1  cond2  cond3  cond4
WBGene00044951      0      0      0      1
WBGene00077504      0      0      0      0
WBGene00007069      0      2      1      0
WBGene00077502      0      0      0      0
WBGene00077503      1      4      2      0

split_by_attribute(attributes: Union[str, List[str]], ref: Union[str, Path, Literal['predefined']] = 'predefined') → tuple

Splits the features in the Filter object into multiple Filter objects, each corresponding to one of the specified Attribute Reference Table attributes. Each new Filter object will contain only features that belong to its Attribute Reference Table attribute.

Parameters

• attributes (list of strings) – list of attribute names from the Attribute Reference Table to filter by.

• ref – filename/path of the reference table to be used as reference.

Return type

Tuple[filtering.Filter]

Returns

A tuple of Filter objects, each containing only features that match one Attribute Reference Table attribute; the Filter objects are returned in the same order the attributes were given in.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> attribute1,attribute2 = counts.split_by_attribute(['attribute1','attribute2'],
... ref='tests/attr_ref_table_for_examples.csv')
Filtered 15 features, leaving 7 of the original 22 features. Filtering result saved to new object.
Filtered 20 features, leaving 2 of the original 22 features. Filtering result saved to new object.

split_by_percentile(percentile: Fraction, column: ColumnName) → tuple

Splits the features in the Filter object into two non-overlapping Filter objects: one containing features below the specified percentile in the specfieid column, and the other containing features about the specified percentile in the specified column.

Parameters

• percentile (float between 0 and 1) – The percentile that all features above it will be filtered out.

• column (str) – Name of the DataFrame column according to which the filtering will be performed.

Return type

Tuple[filtering.Filter, filtering.Filter]

Returns

a tuple of two Filter objects: the first contains all of the features below the specified percentile, and the second contains all of the features above and equal to the specified percentile.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> below, above = d.split_by_percentile(0.75,'log2FoldChange')
Filtered 7 features, leaving 21 of the original 28 features. Filtering result saved to new object.
Filtered 21 features, leaving 7 of the original 28 features. Filtering result saved to new object.

split_fold_change_direction() → tuple

Splits the features in the DESeqFilter object into two non-overlapping DESeqFilter objects, based on the direction of their log2foldchange. The first object will contain only features with a positive log2foldchange, the second object will contain only features with a negative log2foldchange.

Return type

Tuple[filtering.DESeqFilter, filteirng.DESeqFilter]

Returns

a tuple containing two DESeqFilter objects: the first has only features with positive log2 fold change, and the other has only features with negative log2 fold change.

Examples

>>> from rnalysis import filtering
>>> d = filtering.DESeqFilter('tests/test_files/test_deseq.csv')
>>> pos, neg = d.split_fold_change_direction()
Filtered 2 features, leaving 26 of the original 28 features. Filtering result saved to new object.
Filtered 26 features, leaving 2 of the original 28 features. Filtering result saved to new object.

symmetric_difference(other: Union[Filter, set], return_type: Literal['set', 'str'] = 'set')

Returns a set/string of the WBGene indices that exist either in the first Filter object/set OR the second, but NOT in both (set symmetric difference).

Parameters

• other (Filter or set.) – a second Filter object/set to calculate symmetric difference with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the features that exist in exactly one Filter object. If ‘str’, returns a string of the features that exist in exactly one Filter object, delimited by a comma.

Return type

set or str

Returns

a set/string of the features that that exist t in exactly one Filter. (set symmetric difference).

Examples

>>> from rnalysis import filtering
>>> d = filtering.DESeqFilter("tests/test_files/test_deseq.csv")
>>> counts = filtering.CountFilter('tests/test_files/counted.csv')
>>> # calculate difference and return a set
>>> d.symmetric_difference(counts)
{'WBGene00000017', 'WBGene00077504', 'WBGene00000024', 'WBGene00000010', 'WBGene00000020',
'WBGene00007069', 'WBGene00007063', 'WBGene00007067', 'WBGene00007078', 'WBGene00000029', 'WBGene00000006',
'WBGene00007064', 'WBGene00000019', 'WBGene00000004', 'WBGene00007066', 'WBGene00014997', 'WBGene00000023',
'WBGene00007074', 'WBGene00000025', 'WBGene00043989', 'WBGene00043988', 'WBGene00000014', 'WBGene00000027',
'WBGene00000021', 'WBGene00044022', 'WBGene00007079', 'WBGene00000012', 'WBGene00000005', 'WBGene00077503',
'WBGene00000026', 'WBGene00000003', 'WBGene00000002', 'WBGene00077502', 'WBGene00044951', 'WBGene00007077',
'WBGene00000007', 'WBGene00000008', 'WBGene00007076', 'WBGene00000013', 'WBGene00043990', 'WBGene00043987',
'WBGene00007071', 'WBGene00000011', 'WBGene00000015', 'WBGene00000018', 'WBGene00000016', 'WBGene00000028',
'WBGene00007075', 'WBGene00000022', 'WBGene00000009'}

tail(n: PositiveInt = 5) → DataFrame

Return the last n rows of the Filter object. See pandas.DataFrame.tail documentation.

Parameters

n (positive int, default 5) – Number of rows to show.

Return type

pandas.DataFrame

Returns

returns the last n rows of the Filter object.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> d.tail()
                   baseMean  log2FoldChange  ...        pvalue          padj
WBGene00000025  2236.185837        2.477374  ...  1.910000e-81  1.460000e-78
WBGene00000026   343.648987       -4.037191  ...  2.320000e-75  1.700000e-72
WBGene00000027   175.142856        6.352044  ...  1.580000e-74  1.120000e-71
WBGene00000028   219.163200        3.913657  ...  3.420000e-72  2.320000e-69
WBGene00000029  1066.242402       -2.811281  ...  1.420000e-70  9.290000e-68

[5 rows x 6 columns]

>>> d.tail(8) # returns the last 8 rows
                   baseMean  log2FoldChange  ...        pvalue          padj
WBGene00000022   365.813048        6.101303  ...  2.740000e-97  2.400000e-94
WBGene00000023  3168.566714        3.906719  ...  1.600000e-93  1.340000e-90
WBGene00000024   221.925724        4.801676  ...  1.230000e-84  9.820000e-82
WBGene00000025  2236.185837        2.477374  ...  1.910000e-81  1.460000e-78
WBGene00000026   343.648987       -4.037191  ...  2.320000e-75  1.700000e-72
WBGene00000027   175.142856        6.352044  ...  1.580000e-74  1.120000e-71
WBGene00000028   219.163200        3.913657  ...  3.420000e-72  2.320000e-69
WBGene00000029  1066.242402       -2.811281  ...  1.420000e-70  9.290000e-68

[8 rows x 6 columns]

text_filters(column: ColumnName, operator: Literal['equals', 'contains', 'starts with', 'ends with'], value: str, opposite: bool = False, inplace: bool = True)

Applay a text filter (equals, contains, starts with, ends with) on a particular column in the Filter object.

Parameters

• column (str) – name of the column to filter by

• operator (str: 'eq' / 'equals' / '=', 'ct' / 'contains' / 'in', 'sw' / 'starts with', 'ew' / 'ends with') – the operator to filter the column by (equals, contains, starts with, ends with)

• value (number (int or float)) – the value to filter by

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/text_filters.csv')
>>> # keep only rows that have a value that starts with 'AC3' in the column 'name'.
>>> filt.text_filters('name','sw','AC3')
Filtered 17 features, leaving 5 of the original 22 features. Filtered inplace.

transform(function: Union[Literal['Box-Cox', 'log2', 'log10', 'ln', 'Standardize'], Callable], columns: Union[ColumnNames, Literal['all']] = 'all', inplace: bool = True, **function_kwargs)

Transform the values in the Filter object with the specified function.

Parameters

• function (Callable or str ('logx' for base-x log of the data + 1, 'box-cox' for Box-Cox transform of the data + 1, 'standardize' for standardization)) – The function or function name to be applied.

• columns (str, list of str, or 'all' (default='all')) – The columns to which the transform should be applied.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

• function_kwargs – Any additional keyworded arguments taken by the supplied function.

Returns

If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/counted.csv')
>>> filt_log10 = filt.transform('log10', inplace=False)
Transformed 22 features. Transformation result saved to new object.
>>> filt.transform(lambda x: x+1, columns=['cond1','cond4'])
Transformed 22 features. Transformed inplace.

translate_gene_ids(translate_to: Union[str, Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']], translate_from: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', remove_unmapped_genes: bool = False, inplace: bool = True)

Translates gene names/IDs from one type to another. Mapping is done using the UniProtKB Gene ID Mapping service. You can choose to optionally drop from the table all rows that failed to be translated.

Parameters

• translate_to (str) – the gene ID type to translate gene names/IDs to. For example: UniProtKB, Ensembl, Wormbase.

• translate_from (str or 'auto' (default='auto')) – the gene ID type to translate gene names/IDs from. For example: UniProtKB, Ensembl, Wormbase. If translate_from=’auto’, RNAlysis will attempt to automatically determine the gene ID type of the features in the table.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be translated will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and translated instance of the Filter object.

union(*others: Union[Filter, set], return_type: Literal['set', 'str'] = 'set')

Returns a set/string of the union of features between multiple Filter objects/sets (the features that exist in at least one of the Filter objects/sets).

Parameters

• others (Filter or set objects.) – Objects to calculate union with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the union features. If ‘str’, returns a string of the union WBGene indices, delimited by a comma.

Return type

set or str

Returns

a set/string of the WBGene indices that exist in at least one of the Filter objects.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # calculate union and return a set
>>> d.union(counts)
{'WBGene00000017', 'WBGene00000021', 'WBGene00044022', 'WBGene00077504', 'WBGene00000012',
'WBGene00000024', 'WBGene00007079', 'WBGene00000010', 'WBGene00000020', 'WBGene00000005', 'WBGene00007069',
'WBGene00007063', 'WBGene00007067', 'WBGene00077503', 'WBGene00007078', 'WBGene00000026', 'WBGene00000029',
'WBGene00000002', 'WBGene00000003', 'WBGene00000006', 'WBGene00007064', 'WBGene00077502', 'WBGene00044951',
'WBGene00000007', 'WBGene00000008', 'WBGene00000019', 'WBGene00007077', 'WBGene00000004', 'WBGene00007066',
'WBGene00007076', 'WBGene00000013', 'WBGene00014997', 'WBGene00000023', 'WBGene00043990', 'WBGene00007074',
'WBGene00000025', 'WBGene00000011', 'WBGene00043987', 'WBGene00007071', 'WBGene00000015', 'WBGene00000018',
'WBGene00043989', 'WBGene00043988', 'WBGene00000014', 'WBGene00000016', 'WBGene00000027', 'WBGene00000028',
'WBGene00007075', 'WBGene00000022', 'WBGene00000009'}

volcano_plot(alpha: Fraction = 0.1, log2fc_threshold: Optional[float] = 1, title: Union[str, Literal['auto']] = 'auto', title_fontsize: float = 16, label_fontsize: float = 16, tick_fontsize: float = 12, annotation_fontsize: float = 10, point_size: float = 10, opacity: Fraction = 0.65, interactive: bool = True, show_cursor: bool = False) → Figure

Plots a volcano plot (log2(fold change) vs -log10(adj. p-value)) of the DESeqFilter object. Significantly upregulated features are colored in red, and significantly downregulated features are colored in blue. If the plot is generated in interactive mode, data points can be labeled by clicking on them.

Parameters

• alpha (float between 0 and 1) – the significance threshold to paint data points as significantly up/down-regulated.

• log2fc_threshold (non-negative float or None (default=1)) – the absolute log2(fold change) threshold to paint data as significantly up/down-regulated. if log2fc_threshold is None, no threshold will be used.

• title (str or 'auto' (default='auto')) – The title of the plot. If ‘auto’, a title will be generated automatically.

• title_fontsize (float (default=30)) – determines the font size of the graph title.

• label_fontsize (float (default=15) :param tick_fontsize: determines the font size of the X and Y tick labels.) – determines the font size of the X and Y axis labels.

• annotation_fontsize (float (default=10)) – determines the font size of the point annotations created in interactive mode.

• opacity (determines the opacity of the points in the scatter plot. 0 indicates completely transparent, while 1 indicates completely opaque.) – float between 0 and 1 (default=0.65)

• point_size (float (default=10)) – determines the size of the points in the scatter plot

• interactive (bool (default=True)) – if True, turns on interactive mode. While in interactive mode, you can click on a data point to label it with its gene name/ID, or click on a labeled data point to unlabel it.

• show_cursor (bool (default=False)) – if True, show the cursor position on the plot during interactive mode

Return type

A matplotlib Figure

Example plot of volcano_plot()

class rnalysis.filtering.Filter(fname: Union[str, Path], drop_columns: Union[str, List[str]] = None)

Bases: object

An all-purpose Filter object.

Attributes

df: pandas DataFrame

A DataFrame that contains the DESeq output file contents. The DataFrame is modified upon usage of filter operations.

shape: tuple (rows, columns)

The dimensions of df.

columns: list

The columns of df.

fname: pathlib.Path

The path and filename for the purpose of saving df as a csv file. Updates automatically when filter operations are applied.

index_set: set

All of the indices in the current DataFrame (which were not removed by previously used filter methods) as a set.

index_string: string

A string of all feature indices in the current DataFrame separated by newline.

static _from_string(msg: str = '', delimiter: str = '\n')

Takes a manual string input from the user, and then splits it using a delimiter into a list of values.

param msg

a promprt to be printed to the user

param delimiter

the delimiter used to separate the values. Default is ‘

‘

return

A list of the comma-seperated values the user inserted.

_inplace(new_df: DataFrame, opposite: bool, inplace: bool, suffix: str, printout_operation: str = 'filter', **filter_update_kwargs)

Executes the user’s choice whether to filter in-place or create a new instance of the Filter object.

Parameters

• new_df (pd.DataFrame) – the post-filtering DataFrame

• opposite (bool) – Determines whether to return the filtration ,or its opposite.

• inplace (bool) – Determines whether to filter in-place or not.

• suffix (str) – The suffix to be added to the filename

Returns

If inplace is False, returns a new instance of the Filter object.

_set_ops(others, return_type: Literal['set', 'str'], op: Any, **kwargs)

Apply the supplied set operation (union/intersection/difference/symmetric difference) to the supplied objects.

Parameters

• others (Filter or set objects.) – the other objects to apply the set operation to

• return_type ('set' or 'str') – the return type of the output

• op (function (set.union, set.intersection, set.difference or set.symmetric_difference)) – the set operation

• kwargs – any additional keyworded arguments to be supplied to the set operation.

Returns

a set/string of indices resulting from the set operation

Return type

set or str

_sort(by: Union[str, List[str]], ascending: Union[bool, List[bool]] = True, na_position: str = 'last', inplace: bool = True)

Sort the rows by the values of specified column or columns.

Parameters

• by (str or list of str) – Names of the column or columns to sort by.

• ascending (bool or list of bool, default True) – Sort ascending vs. descending. Specify list for multiple sort orders. If this is a list of bools, it must have the same length as ‘by’.

• na_position ('first' or 'last', default 'last') – If ‘first’, puts NaNs at the beginning; if ‘last’, puts NaNs at the end.

• inplace (bool, default True) – If True, perform operation in-place. Otherwise, returns a sorted copy of the Filter object without modifying the original.

Returns

None if inplace=True, a sorted Filter object otherwise.

biotypes_from_gtf(gtf_path: Union[str, Path], attribute_name: Union[Literal['biotype', 'gene_biotype', 'transcript_biotype', 'gene_type', 'transcript_type'], str] = 'gene_biotype', feature_type: Literal['gene', 'transcript'] = 'gene', long_format: bool = False) → DataFrame

Returns a DataFrame describing the biotypes in the table and their count. The data about feature biotypes is drawn from a GTF (Gene transfer format) file supplied by the user.

Parameters

• gtf_path (str or Path) – Path to your GTF (Gene transfer format) file. The file should match the type of gene names/IDs you use in your table, and should contain an attribute describing biotype.

• attribute_name (str (default='gene_biotype')) – name of the attribute in your GTF file that describes feature biotype.

• feature_type ('gene' or 'transcript' (default='gene')) – determined whether the features/rows in your data table describe individual genes or transcripts.

:param long_format:if True, returns a short-form DataFrame, which states the biotypes in the Filter object and their count. Otherwise, returns a long-form DataFrame, which also provides descriptive statistics of each column per biotype. :rtype: pandas.DataFrame :returns: a pandas DataFrame showing the number of values belonging to each biotype, as well as additional descriptive statistics of format==’long’.

biotypes_from_ref_table(long_format: bool = False, ref: Union[str, Path, Literal['predefined']] = 'predefined') → DataFrame

Returns a DataFrame describing the biotypes in the table and their count. The data about feature biotypes is drawn from a Biotype Reference Table supplied by the user.

:param long_format:if True, returns a short-form DataFrame, which states the biotypes in the Filter object and their count. Otherwise, returns a long-form DataFrame, which also provides descriptive statistics of each column per biotype. :param ref: Name of the biotype reference table used to determine biotype. Default is ce11 (included in the package). :rtype: pandas.DataFrame :returns: a pandas DataFrame showing the number of values belonging to each biotype, as well as additional descriptive statistics of format==’long’.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> # short-form view
>>> d.biotypes_from_ref_table(ref='tests/biotype_ref_table_for_tests.csv')
                gene
biotype
protein_coding    26
pseudogene         1
unknown            1

>>> # long-form view
>>> d.biotypes_from_ref_table(long_format=True,ref='tests/biotype_ref_table_for_tests.csv')
               baseMean               ...           padj
                  count         mean  ...            75%            max
biotype                               ...
protein_coding     26.0  1823.089609  ...   1.005060e-90   9.290000e-68
pseudogene          1.0  2688.043701  ...   1.800000e-94   1.800000e-94
unknown             1.0  2085.995094  ...  3.070000e-152  3.070000e-152

[3 rows x 48 columns]

property columns: list

The columns of df.

Returns

a list of the columns in the Filter object.

Return type

list

describe(percentiles: Union[float, List[float]] = (0.01, 0.25, 0.5, 0.75, 0.99)) → DataFrame

Generate descriptive statistics that summarize the central tendency, dispersion and shape of the dataset’s distribution, excluding NaN values. For more information see the documentation of pandas.DataFrame.describe.

Parameters

percentiles (list-like of floats (default=(0.01, 0.25, 0.5, 0.75, 0.99))) – The percentiles to include in the output. All should fall between 0 and 1. The default is [.25, .5, .75], which returns the 25th, 50th, and 75th percentiles.

Returns

Summary statistics of the dataset.

Return type

Series or DataFrame

Examples

>>> from rnalysis import filtering
>>> import numpy as np
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.describe()
              cond1         cond2         cond3         cond4
count     22.000000     22.000000     22.000000     22.000000
mean    2515.590909   2209.227273   4230.227273   3099.818182
std     4820.512674   4134.948493   7635.832664   5520.394522
min        0.000000      0.000000      0.000000      0.000000
1%         0.000000      0.000000      0.000000      0.000000
25%        6.000000      6.250000      1.250000      0.250000
50%       57.500000     52.500000     23.500000     21.000000
75%     2637.000000   2479.000000   6030.500000   4669.750000
99%    15054.950000  12714.290000  21955.390000  15603.510000
max    15056.000000  12746.000000  22027.000000  15639.000000

>>> # show the deciles (10%, 20%, 30%... 90%) of the columns
>>> counts.describe(percentiles=np.arange(0.1, 1, 0.1))
              cond1         cond2         cond3         cond4
count     22.000000     22.000000     22.000000     22.000000
mean    2515.590909   2209.227273   4230.227273   3099.818182
std     4820.512674   4134.948493   7635.832664   5520.394522
min        0.000000      0.000000      0.000000      0.000000
10%        0.000000      0.200000      0.000000      0.000000
20%        1.400000      3.200000      1.000000      0.000000
30%       15.000000     15.700000      2.600000      1.000000
40%       28.400000     26.800000     14.000000      9.000000
50%       57.500000     52.500000     23.500000     21.000000
60%       82.000000    106.800000     44.000000     33.000000
70%      484.200000    395.500000    305.000000    302.500000
80%     3398.600000   3172.600000   7981.400000   6213.000000
90%     8722.100000   7941.800000  16449.500000  12129.900000
max    15056.000000  12746.000000  22027.000000  15639.000000

df

pandas.DataFrame with the data

difference(*others: Union[Filter, set], return_type: Literal['set', 'str'] = 'set', inplace: bool = False)

Keep only the features that exist in the first Filter object/set but NOT in the others. Can be done inplace on the first Filter object, or return a set/string of features.

Parameters

• others (Filter or set objects.) – Objects to calculate difference with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the features that exist only in the first Filter object. If ‘str’, returns a string of the WBGene indices that exist only in the first Filter object, delimited by a comma.

• inplace (bool, default False) – If True, filtering will be applied to the current Filter object. If False (default), the function will return a set/str that contains the intersecting features.

Return type

set or str

Returns

If inplace=False, returns a set/string of the features that exist only in the first Filter object/set (set difference).

Examples

>>> from rnalysis import filtering
>>> d = filtering.DESeqFilter("tests/test_files/test_deseq.csv")
>>> counts = filtering.CountFilter('tests/test_files/counted.csv')
>>> a_set = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> # calculate difference and return a set
>>> d.difference(counts, a_set)
{'WBGene00007063', 'WBGene00007064', 'WBGene00007066', 'WBGene00007067', 'WBGene00007069', 'WBGene00007071',
 'WBGene00007074', 'WBGene00007075', 'WBGene00007076', 'WBGene00007077', 'WBGene00007078', 'WBGene00007079',
 'WBGene00014997', 'WBGene00043987', 'WBGene00043988', 'WBGene00043989', 'WBGene00043990', 'WBGene00044022',
 'WBGene00044951', 'WBGene00077502', 'WBGene00077503', 'WBGene00077504'}

# calculate difference and filter in-place >>> d.difference(counts, a_set, inplace=True) Filtered 2 features, leaving 26 of the original 28 features. Filtered inplace.

drop_columns(columns: ColumnNames, inplace: bool = True)

Drop specific columns from the table.

Parameters

• columns (str or list of str) – The names of the column/columns to be dropped fro mthe table.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

filter_biotype_from_gtf(gtf_path: Union[str, Path], biotype: Union[Literal['protein_coding', 'pseudogene', 'lincRNA', 'miRNA', 'ncRNA', 'piRNA', 'rRNA', 'snoRNA', 'snRNA', 'tRNA'], str, List[str]] = 'protein_coding', attribute_name: Union[Literal['biotype', 'gene_biotype', 'transcript_biotype', 'gene_type', 'transcript_type'], str] = 'gene_biotype', feature_type: Literal['gene', 'transcript'] = 'gene', opposite: bool = False, inplace: bool = True)

Filters out all features that do not match the indicated biotype/biotypes (for example: ‘protein_coding’, ‘ncRNA’, etc). The data about feature biotypes is drawn from a GTF (Gene transfer format) file supplied by the user.

Parameters

• gtf_path (str or Path) – Path to your GTF (Gene transfer format) file. The file should match the type of gene names/IDs you use in your table, and should contain an attribute describing biotype.

• biotype (str or list of strings) – the biotypes which will not be filtered out.

• attribute_name (str (default='gene_biotype')) – name of the attribute in your GTF file that describes feature biotype.

• feature_type ('gene' or 'transcript' (default='gene')) – determined whether the features/rows in your data table describe individual genes or transcripts.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

filter_biotype_from_ref_table(biotype: Union[Literal['protein_coding', 'pseudogene', 'lincRNA', 'miRNA', 'ncRNA', 'piRNA', 'rRNA', 'snoRNA', 'snRNA', 'tRNA'], str, List[str]] = 'protein_coding', ref: Union[str, Path, Literal['predefined']] = 'predefined', opposite: bool = False, inplace: bool = True)

Filters out all features that do not match the indicated biotype/biotypes (for example: ‘protein_coding’, ‘ncRNA’, etc). The data about feature biotypes is drawn from a Biotype Reference Table supplied by the user.

Parameters

• biotype (string or list of strings) – the biotypes which will not be filtered out.

• ref – Name of the biotype reference file used to determine biotypes. Default is the path defined by the user in the settings.yaml file.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows whose biotype is 'protein_coding'
>>> counts.filter_biotype_from_ref_table('protein_coding',ref='tests/biotype_ref_table_for_tests.csv')
Filtered 9 features, leaving 13 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows whose biotype is 'protein_coding' or 'pseudogene'
>>> counts.filter_biotype_from_ref_table(['protein_coding','pseudogene'],ref='tests/biotype_ref_table_for_tests.csv')
Filtered 0 features, leaving 22 of the original 22 features. Filtered inplace.

filter_by_attribute(attributes: Union[str, List[str]] = None, mode: Literal['union', 'intersection'] = 'union', ref: Union[str, Path, Literal['predefined']] = 'predefined', opposite: bool = False, inplace: bool = True)

Filters features according to user-defined attributes from an Attribute Reference Table. When multiple attributes are given, filtering can be done in ‘union’ mode (where features that belong to at least one attribute are not filtered out), or in ‘intersection’ mode (where only features that belong to ALL attributes are not filtered out). To learn more about user-defined attributes and Attribute Reference Tables, read the user guide.

Parameters

• attributes (string or list of strings, which are column titles in the user-defined Attribute Reference Table.) – attributes to filter by.

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

• ref (str or pathlib.Path (default='predefined')) – filename/path of the attribute reference table to be used as reference.

• opposite (bool (default=False)) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new and filtered instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that belong to the attribute 'attribute1'
>>> counts.filter_by_attribute('attribute1',ref='tests/attr_ref_table_for_examples.csv')
Filtered 15 features, leaving 7 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that belong to the attributes 'attribute1' OR 'attribute3' (union)
>>> counts.filter_by_attribute(['attribute1','attribute3'],ref='tests/attr_ref_table_for_examples.csv')
Filtered 14 features, leaving 8 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that belong to both attributes 'attribute1' AND 'attribute3' (intersection)
>>> counts.filter_by_attribute(['attribute1','attribute3'],mode='intersection',
... ref='tests/attr_ref_table_for_examples.csv')
Filtered 19 features, leaving 3 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that DON'T belong to either 'attribute1','attribute3' or both
>>> counts.filter_by_attribute(['attribute1','attribute3'],ref='tests/attr_ref_table_for_examples.csv',
... opposite=True)
Filtered 8 features, leaving 14 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that DON'T belong to both 'attribute1' AND 'attribute3'
>>> counts.filter_by_attribute(['attribute1','attribute3'],mode='intersection',
... ref='tests/attr_ref_table_for_examples.csv',opposite=True)
Filtered 3 features, leaving 19 of the original 22 features. Filtered inplace.

filter_by_go_annotations(go_ids: Union[str, List[str]], mode: Literal['union', 'intersection'] = 'union', organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', propagate_annotations: bool = True, evidence_types: Union[Literal['any', 'experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = 'any', excluded_evidence_types: Union[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = (), databases: Union[str, Iterable[str]] = 'any', excluded_databases: Union[str, Iterable[str]] = (), qualifiers: Union[Literal['any', 'not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'any', excluded_qualifiers: Union[Literal['not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'not', opposite: bool = False, inplace: bool = True)

Filters genes according to GO annotations, keeping only genes that are annotated with a specific GO term. When multiple GO terms are given, filtering can be done in ‘union’ mode (where genes that belong to at least one GO term are not filtered out), or in ‘intersection’ mode (where only genes that belong to ALL GO terms are not filtered out).

Parameters

• go_ids (str or list of str) –

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

param organism: organism name or NCBI taxon ID for which the function will fetch GO annotations. :type organism: str or int :param gene_id_type: the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping :type gene_id_type: str or ‘auto’ (default=’auto’) :param propagate_annotations: determines the propagation method of GO annotations. ‘no’ does not propagate annotations at all; ‘classic’ propagates all annotations up to the DAG tree’s root; ‘elim’ terminates propagation at nodes which show significant enrichment; ‘weight’ performs propagation in a weighted manner based on the significance of children nodes relatively to their parents; and ‘allm’ uses a combination of all proopagation methods. To read more about the propagation methods, see Alexa et al: https://pubmed.ncbi.nlm.nih.gov/16606683/ :type propagate_annotations: ‘classic’, ‘elim’, ‘weight’, ‘all.m’, or ‘no’ (default=’elim’) :param evidence_types: only annotations with the specified evidence types will be included in the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/ :type evidence_types: str, Iterable of str, ‘experimental’, ‘phylogenetic’ ,’computational’, ‘author’, ‘curator’, ‘electronic’, or ‘any’ (default=’any’) :param excluded_evidence_types: annotations with the specified evidence types will be excluded from the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/ :type excluded_evidence_types: str, Iterable of str, ‘experimental’, ‘phylogenetic’ ,’computational’, ‘author’, ‘curator’, ‘electronic’, or None (default=None) :param databases: only annotations from the specified databases will be included in the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type databases: str, Iterable of str, or ‘any’ (default) :param excluded_databases: annotations from the specified databases will be excluded from the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type excluded_databases: str, Iterable of str, or None (default) :param qualifiers: only annotations with the speficied qualifiers will be included in the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type qualifiers: str, Iterable of str, or ‘any’ (default) :param excluded_qualifiers: annotations with the speficied qualifiers will be excluded from the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type excluded_qualifiers: str, Iterable of str, or None (default=’not’) :type opposite: bool (default=False) :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current FeatureSet object. If False, the function will return a new FeatureSet instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new, filtered instance of the FeatureSet object.

filter_by_kegg_annotations(kegg_ids: Union[str, List[str]], mode: Literal['union', 'intersection'] = 'union', organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', opposite: bool = False, inplace: bool = True)

Filters genes according to KEGG pathways, keeping only genes that belong to specific KEGG pathway. When multiple KEGG IDs are given, filtering can be done in ‘union’ mode (where genes that belong to at least one pathway are not filtered out), or in ‘intersection’ mode (where only genes that belong to ALL pathways are not filtered out).

Parameters

• kegg_ids (str or list of str) – the KEGG pathway IDs according to which the table will be filtered. An example for a legal KEGG pathway ID would be ‘path:cel04020’ for the C. elegans calcium signaling pathway.

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

param organism: organism name or NCBI taxon ID for which the function will fetch GO annotations. :type organism: str or int :param gene_id_type: the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping :type gene_id_type: str or ‘auto’ (default=’auto’) :type opposite: bool (default=False) :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new, filtered instance of the Filter object.

filter_by_row_name(row_names: Union[str, List[str]], opposite: bool = False, inplace: bool = True)

Filter out specific rows from the table by their name (index).

Parameters

• row_names (str or list of str) – list of row names to be removed from the table.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

filter_duplicate_ids(keep: Literal['first', 'last', 'neither'] = 'first', opposite: bool = False, inplace: bool = True)

Filter out rows with duplicate names/IDs (index).

Parameters

• keep ('first', 'last', or 'neither' (default='first')) – determines which of the duplicates to keep for each group of duplicates. ‘first’ will keep the first duplicate found for each group; ‘last’ will keep the last; and ‘neither’ will remove all of the values in the group.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

filter_missing_values(columns: Union[ColumnNames, Literal['all']] = 'all', opposite: bool = False, inplace: bool = True)

Remove all rows whose values in the specified columns are missing (NaN).

:param columns:name/names of the columns to check for missing values. :type opposite: bool :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/test_deseq_with_nan.csv')
>>> filt_no_nan = filt.filter_missing_values(inplace=False)
Filtered 3 features, leaving 25 of the original 28 features. Filtering result saved to new object.
>>> filt_no_nan_basemean = filt.filter_missing_values(columns='baseMean', inplace=False)
Filtered 1 features, leaving 27 of the original 28 features. Filtering result saved to new object.
>>> filt_no_nan_basemean_pval = filt.filter_missing_values(columns=['baseMean','pval'], inplace=False)
Filtered 2 features, leaving 26 of the original 28 features. Filtering result saved to new object.

filter_percentile(percentile: Fraction, column: ColumnName, opposite: bool = False, inplace: bool = True)

Removes all entries above the specified percentile in the specified column. For example, if the column were ‘pvalue’ and the percentile was 0.5, then all features whose pvalue is above the median pvalue will be filtered out.

Parameters

• percentile (float between 0 and 1) – The percentile that all features above it will be filtered out.

• column (str) – Name of the DataFrame column according to which the filtering will be performed.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> # keep only the rows whose value in the column 'log2FoldChange' is below the 75th percentile
>>> d.filter_percentile(0.75,'log2FoldChange')
Filtered 7 features, leaving 21 of the original 28 features. Filtered inplace.

>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> # keep only the rows vulse value in the column 'log2FoldChange' is above the 25th percentile
>>> d.filter_percentile(0.25,'log2FoldChange',opposite=True)
Filtered 7 features, leaving 21 of the original 28 features. Filtered inplace.

filter_top_n(by: ColumnNames, n: NonNegativeInt = 100, ascending: Union[bool, List[bool]] = True, na_position: str = 'last', opposite: bool = False, inplace: bool = True)

Sort the rows by the values of specified column or columns, then keep only the top ‘n’ rows.

Parameters

• by (name of column/columns (str/List[str])) – Names of the column or columns to sort and then filter by.

• n (int) – How many features to keep in the Filter object.

• ascending (bool or list of bools (default=True)) – Sort ascending vs. descending. Specify list for multiple sort orders. If this is a list of bools, it must have the same length as ‘by’.

• na_position ('first' or 'last', default 'last') – If ‘first’, puts NaNs at the beginning; if ‘last’, puts NaNs at the end.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of Filter.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only the 10 rows with the highest values in the columns 'cond1'
>>> counts.filter_top_n(by='cond1',n=10, ascending=False)
Filtered 12 features, leaving 10 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only the 10 rows which have the lowest values in the columns 'cond1'
>>> # and then the highest values in the column 'cond2'
>>> counts.filter_top_n(by=['cond1','cond2'],n=10, ascending=[True,False])
Filtered 12 features, leaving 10 of the original 22 features. Filtered inplace.

find_paralogs_ensembl(organism: Union[Literal['auto'], str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_percent_identity: bool = True)

Find paralogs within the same species using the Ensembl database.

Parameters

• organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_percent_identity (bool (default=True)) – if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest percent_identity score.

Returns

DataFrame describing all discovered paralog mappings.

find_paralogs_panther(organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto')

Find paralogs within the same species using the PantherDB database.

Parameters

• organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

Returns

DataFrame describing all discovered paralog mappings.

fname

filename with full path

head(n: PositiveInt = 5) → DataFrame

Return the first n rows of the Filter object. See pandas.DataFrame.head documentation.

Parameters

n (positive int, default 5) – Number of rows to show.

Returns

returns the first n rows of the Filter object.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> d.head()
                   baseMean  log2FoldChange  ...         pvalue           padj
WBGene00000002  6820.755327        7.567762  ...   0.000000e+00   0.000000e+00
WBGene00000003  3049.625670        9.138071  ...  4.660000e-302  4.280000e-298
WBGene00000004  1432.911791        8.111737  ...  6.400000e-237  3.920000e-233
WBGene00000005  4028.154186        6.534112  ...  1.700000e-228  7.800000e-225
WBGene00000006  1230.585240        7.157428  ...  2.070000e-216  7.590000e-213

[5 rows x 6 columns]

>>> d.head(3) # return only the first 3 rows
                   baseMean  log2FoldChange  ...         pvalue           padj
WBGene00000002  6820.755327        7.567762  ...   0.000000e+00   0.000000e+00
WBGene00000003  3049.625670        9.138071  ...  4.660000e-302  4.280000e-298
WBGene00000004  1432.911791        8.111737  ...  6.400000e-237  3.920000e-233

[3 rows x 6 columns]

property index_set: set

Returns all of the features in the current DataFrame (which were not removed by previously used filter methods) as a set. if any duplicate features exist in the filter object (same WBGene appears more than once), the corresponding WBGene index will appear in the returned set ONLY ONCE.

Returns

A set of WBGene names.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> myset = counts.index_set
>>> print(myset)
{'WBGene00044022', 'WBGene00077504', 'WBGene00007079', 'WBGene00007069', 'WBGene00007063',
'WBGene00007067', 'WBGene00077503', 'WBGene00007078', 'WBGene00007064', 'WBGene00077502', 'WBGene00044951',
'WBGene00007077', 'WBGene00007066', 'WBGene00007076', 'WBGene00014997', 'WBGene00043990', 'WBGene00007074',
'WBGene00043987', 'WBGene00007071', 'WBGene00043989', 'WBGene00043988', 'WBGene00007075'}

property index_string: str

Returns a string of all feature indices in the current DataFrame, sorted by their current order in the FIlter object, and separated by newline.

This includes all of the feature indices which were not filtered out by previously-used filter methods.

if any duplicate features exist in the filter object (same index appears more than once),

the corresponding index will appear in the returned string ONLY ONCE.

Returns

A string of WBGene indices separated by newlines (\n).

For example, “WBGene00000001\nWBGene00000003\nWBGene12345678”.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.sort(by='cond1',ascending=False)
>>> mystring = counts.index_string
>>> print(mystring)
WBGene00007075
WBGene00043988
WBGene00043990
WBGene00007079
WBGene00007076
WBGene00043989
WBGene00007063
WBGene00007077
WBGene00007078
WBGene00007071
WBGene00007064
WBGene00007066
WBGene00007074
WBGene00043987
WBGene00007067
WBGene00014997
WBGene00044022
WBGene00077503
WBGene00077504
WBGene00077502
WBGene00007069
WBGene00044951

intersection(*others: Union[Filter, set], return_type: Literal['set', 'str'] = 'set', inplace: bool = False)

Keep only the features that exist in ALL of the given Filter objects/sets. Can be done either inplace on the first Filter object, or return a set/string of features.

Parameters

• others (Filter or set objects.) – Objects to calculate intersection with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the intersecting features. If ‘str’, returns a string of the intersecting features, delimited by a comma.

• inplace (bool (default=False)) – If True, the function will be applied in-place to the current Filter object. If False (default), the function will return a set/str that contains the intersecting indices.

Return type

set or str

Returns

If inplace=False, returns a set/string of the features that intersect between the given Filter objects/sets.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> a_set = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> # calculate intersection and return a set
>>> d.intersection(a_set)
{'WBGene00000002', 'WBGene00000003'}

# calculate intersection and filter in-place >>> d.intersection(a_set, inplace=True) Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

majority_vote_intersection(*others: Union[Filter, set], majority_threshold: float = 0.5, return_type: Literal['set', 'str'] = 'set')

Returns a set/string of the features that appear in at least (majority_threhold * 100)% of the given Filter objects/sets. Majority-vote intersection with majority_threshold=0 is equivalent to Union. Majority-vote intersection with majority_threshold=1 is equivalent to Intersection.

Parameters

• others (Filter or set objects.) – Objects to calculate intersection with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the intersecting WBGene indices. If ‘str’, returns a string of the intersecting indices, delimited by a comma.

• majority_threshold (float (default=0.5)) – The threshold that determines what counts as majority. Features will be returned only if they appear in at least (majority_threshold * 100)% of the given Filter objects/sets.

Return type

set or str

Returns

If inplace=False, returns a set/string of the features that uphold majority vote intersection between two given Filter objects/sets.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> a_set = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> b_set = {'WBGene00000002','WBGene00000004'}
>>> # calculate majority-vote intersection and return a set
>>> d.majority_vote_intersection(a_set, b_set, majority_threshold=2/3)
{'WBGene00000002', 'WBGene00000003', 'WBGene00000004'}

map_orthologs_ensembl(map_to_organism: Union[str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']], map_from_organism: Union[Literal['auto'], str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_percent_identity: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the Ensembl database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_percent_identity (bool (default=True)) – if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest percent_identity score.

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_orthoinspector(map_to_organism: Union[str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']], map_from_organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the OrthoInspector database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_panther(map_to_organism: Union[str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']], map_from_organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_least_diverged: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the PantherDB database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_least_diverged (bool (default=True)) – if True (default), RNAlysis will only fetch ortholog mappings that were flagged as a ‘least diverged ortholog’ on the PantherDB database. You can read more about this flag on the PantherDB website: https://www.pantherdb.org/genes/

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_phylomedb(map_to_organism: Union[str, int, Literal['Azorhizobium caulinodans ORS 571', 'Buchnera aphidicola str. G002 (Myzus persicae)', 'Cellulomonas gilvus ATCC 13127', 'Dictyoglomus thermophilum H-6-12', 'Methylophilus methylotrophus DSM 46235 = ATCC 53528', 'Pelobacter carbinolicus DSM 2380', 'Shewanella putrefaciens CN-32', 'Myxococcus fulvus HW-1', 'Myxococcus xanthus DK 1622', 'Stigmatella aurantiaca DW4/3-1', 'Cystobacter fuscus DSM 2262', 'Chondromyces apiculatus DSM 436', 'Sorangium cellulosum So0157-2', 'Vitreoscilla stercoraria DSM 513', 'Herpetosiphon aurantiacus DSM 785', 'Simonsiella muelleri ATCC 29453', 'Hyphomonas jannaschiana VP2', 'Flectobacillus major DSM 103', 'Cyclobacterium marinum DSM 745', 'Runella slithyformis DSM 19594', 'Spirosoma linguale DSM 74', 'Rubinisphaera brasiliensis DSM 5305', 'Planctopirus limnophila DSM 3776', 'Gimesia maris DSM 8797', 'Blastopirellula marina DSM 3645', 'Pirellula staleyi DSM 6068', 'Isosphaera pallida ATCC 43644', 'Methylocystis parvus OBBP', 'Borreliella burgdorferi B31', 'Borrelia hermsii DAH', 'Borrelia parkeri SLO', 'Borrelia turicatae 91E135', 'Borrelia anserina BA2', 'Sediminispirochaeta bajacaliforniensis DSM 16054', 'Spirochaeta thermophila DSM 6192', 'Treponema denticola ATCC 35405', 'Brachyspira hyodysenteriae WA1', 'Treponema pallidum subsp. pallidum str. Nichols', 'Treponema phagedenis F0421', 'Treponema bryantii NK4A124', 'Treponema saccharophilum DSM 2985', 'Treponema succinifaciens DSM 2489', "Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'", 'Leptospira interrogans serovar Lai str. 56601', 'Leptospira borgpetersenii serovar Hardjo-bovis str. L550', 'Leptospirillum ferrooxidans C2-3', 'Leptonema illini DSM 21528', 'Novispirillum itersonii subsp. itersonii ATCC 12639', 'Aquaspirillum serpens DSM 68', 'Azospirillum sp. B510', 'Campylobacter coli 76339', 'Campylobacter fetus subsp. venerealis NCTC 10354', 'Campylobacter jejuni subsp. jejuni 414', 'Campylobacter concisus 13826', 'Campylobacter curvus 525.92', 'Campylobacter lari RM2100', 'Campylobacter rectus RM3267', 'Campylobacter showae CSUNSWCD', 'Campylobacter sputorum biovar sputorum', 'Helicobacter pylori 26695', 'Helicobacter acinonychis str. Sheeba', 'Helicobacter cinaedi CCUG 18818 = ATCC BAA-847', 'Helicobacter felis ATCC 49179', 'Helicobacter fennelliae MRY12-0050', 'Helicobacter mustelae 12198', 'Pseudoalteromonas haloplanktis ATCC 14393', 'Brucella abortus 2308', 'Brucella ovis ATCC 25840', 'Elizabethkingia meningoseptica ATCC 13253 = NBRC 12535', 'Flavobacterium aquatile LMG 4008 = ATCC 11947', 'Empedobacter brevis NBRC 14943 = ATCC 43319', 'Chryseobacterium gleum ATCC 35910', 'Psychroflexus gondwanensis ACAM 44', 'Chryseobacterium indologenes NBRC 14944', 'Myroides odoratus DSM 2801', 'Sphingobacterium spiritivorum ATCC 33861', 'Francisella cf. tularensis subsp. novicida 3523', 'Paracoccus denitrificans PD1222', 'Thermus aquaticus Y51MC23', 'Thermus thermophilus HB8', 'Meiothermus ruber DSM 1279', 'Xanthobacter autotrophicus Py2', 'Comamonas testosteroni KF-1', 'Pseudomonas aeruginosa PAO1', 'Pseudoalteromonas atlantica T6c', 'Burkholderia cepacia', 'Brevundimonas diminuta 470-4', 'Pseudomonas fluorescens NCIMB 11764', 'Pseudomonas fragi B25', 'Pseudomonas mendocina NK-01', 'Pseudomonas pseudoalcaligenes AD6', 'Pseudomonas putida KT2440', 'Ralstonia solanacearum GMI1000', 'Pseudomonas stutzeri MF28', 'Pseudomonas syringae pv. syringae B728a', 'Ralstonia pickettii DTP0602', 'Burkholderia glumae BGR1', 'Xanthomonas campestris pv. campestris', 'Xanthomonas translucens DAR61454', 'Xanthomonas citri pv. citri str. 306', 'Xanthomonas oryzae pv. oryzae PXO99A', 'Azotobacter chroococcum NCIMB 8003', 'Azotobacter vinelandii DJ', 'Agrobacterium radiobacter K84', 'Agrobacterium rhizogenes', 'Agrobacterium vitis S4', 'Bradyrhizobium japonicum', 'Sinorhizobium fredii USDA 257', 'Mesorhizobium loti CJ3sym', 'Sinorhizobium meliloti 1021', 'Rhizobium leguminosarum bv. viciae GB30', 'Rhizobium tropici CIAT 899', 'Neorhizobium galegae bv. orientalis str. HAMBI 540', 'Methylobacillus flagellatus KT', 'Methylobacillus glycogenes JCM 2850', 'Methylorubrum extorquens AM1', 'Methylococcus capsulatus str. Bath', 'Methylomonas methanica MC09', 'Methylosinus trichosporium OB3b', 'Acetobacter aceti ATCC 23746', 'Komagataeibacter hansenii ATCC 23769', 'Acetobacter pasteurianus 3P3', 'Gluconobacter oxydans H24', 'Legionella pneumophila str. Paris', 'Legionella hackeliae', 'Legionella longbeachae NSW150', 'Tatlockia micdadei', 'Fluoribacter dumoffii NY 23', 'Acinetobacter baumannii', 'Acinetobacter calcoaceticus ANC 3680', 'Moraxella catarrhalis O35E', 'Neisseria cinerea ATCC 14685', 'Neisseria flavescens NRL30031/H210', 'Neisseria gonorrhoeae NCCP11945', 'Neisseria lactamica 020-06', 'Neisseria meningitidis MC58', 'Neisseria mucosa ATCC 25996', 'Neisseria polysaccharea ATCC 43768', 'Neisseria sicca ATCC 29256', 'Neisseria elongata subsp. glycolytica ATCC 29315', 'Neisseria macacae ATCC 33926', 'Thermomicrobium roseum DSM 5159', 'Kingella denitrificans ATCC 33394', 'Kingella kingae ATCC 23330', 'Kingella oralis ATCC 51147', 'Alcaligenes faecalis', 'Bordetella bronchiseptica RB50', 'Bordetella parapertussis Bpp5', 'Bordetella pertussis Tohama I', 'Bordetella avium 197N', 'Acidiphilium angustum ATCC 35903', 'Acidiphilium cryptum JF-5', 'Acidocella facilis ATCC 35904', 'Ochrobactrum anthropi ATCC 49188', 'Polaribacter irgensii 23-P', 'Beijerinckia indica subsp. indica ATCC 9039', 'Chromobacterium violaceum ATCC 12472', 'Eikenella corrodens ATCC 23834', 'Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821', 'Citrobacter koseri ATCC BAA-895', 'Citrobacter freundii MGH 56', 'Klebsiella aerogenes KCTC 2190', 'Pantoea agglomerans', 'Enterobacter cloacae subsp. cloacae ATCC 13047', 'Erwinia amylovora CFBP1430', 'Pantoea ananatis LMG 20103', 'Pectobacterium carotovorum subsp. carotovorum PC1', 'Dickeya chrysanthemi Ech1591', 'Escherichia coli K-12', 'Shimwellia blattae DSM 4481 = NBRC 105725', 'Escherichia fergusonii B253', 'Atlantibacter hermannii NBRC 105704', 'Pseudescherichia vulneris NBRC 102420', 'Hafnia alvei FB1', 'Klebsiella oxytoca', 'Klebsiella pneumoniae', 'Morganella morganii subsp. morganii KT', 'Proteus mirabilis HI4320', 'Proteus vulgaris', 'Providencia rettgeri DSM 1131', 'Providencia stuartii ATCC 25827', 'Serratia liquefaciens ATCC 27592', 'Serratia marcescens subsp. marcescens Db11', 'Serratia odorifera DSM 4582', 'Shigella boydii CDC 3083-94', 'Shigella dysenteriae 1617', 'Shigella flexneri 2a str. 301', 'Shigella sonnei Ss046', 'Xenorhabdus nematophila ATCC 19061', 'Yersinia enterocolitica LC20', 'Yersinia intermedia ATCC 29909', 'Yersinia pestis CO92', 'Yersinia pseudotuberculosis', 'Edwardsiella tarda ATCC 15947 = NBRC 105688', 'Aeromonas hydrophila subsp. hydrophila ATCC 7966', 'Aeromonas salmonicida subsp. salmonicida A449', 'Aeromonas media WS', 'Aeromonas veronii B565', 'Photobacterium phosphoreum ANT-2200', 'Photobacterium angustum S14', 'Vibrio alginolyticus NBRC 15630 = ATCC 17749', 'Vibrio cholerae O395', 'Aliivibrio fischeri ES114', 'Vibrio parahaemolyticus RIMD 2210633', 'Vibrio proteolyticus NBRC 13287', 'Vibrio vulnificus', 'Grimontia hollisae CIP 101886', 'Vibrio mimicus MB451', 'Vibrio campbellii ATCC BAA-1116', 'Vibrio diazotrophicus NBRC 103148', 'Plesiomonas shigelloides 302-73', 'Aggregatibacter actinomycetemcomitans HK1651', 'Actinobacillus pleuropneumoniae serovar 1 str. 4074', 'Actinobacillus suis H91-0380', 'Actinobacillus capsulatus DSM 19761', 'Actinobacillus equuli subsp. equuli', 'Actinobacillus ureae ATCC 25976', 'Haemophilus haemolyticus M21639', 'Haemophilus influenzae Rd KW20', 'Avibacterium paragallinarum 221', 'Haemophilus parainfluenzae T3T1', 'Histophilus somni 129PT', 'Aggregatibacter aphrophilus NJ8700', 'Haemophilus paraphrohaemolyticus HK411', 'Glaesserella parasuis ZJ0906', 'Aggregatibacter segnis ATCC 33393', 'Pasteurella multocida', 'Gallibacterium anatis UMN179', 'Pasteurella bettyae CCUG 2042', 'Pasteurella dagmatis ATCC 43325', 'Rodentibacter pneumotropicus', 'Anaplasma centrale str. Israel', 'Anaplasma marginale str. St. Maries', 'Bartonella bacilliformis KC583', 'Coxiella burnetii RSA 493', 'Ehrlichia ruminantium str. Welgevonden', 'Rickettsia conorii str. Malish 7', 'Rickettsia prowazekii str. Madrid E', 'Rickettsia rickettsii str. Iowa', 'Orientia tsutsugamushi str. Boryong', 'Rickettsia typhi str. Wilmington', 'Rickettsia akari str. Hartford', 'Rickettsia australis str. Cutlack', 'Rickettsia canadensis str. McKiel', 'Bartonella quintana str. Toulouse', 'Bartonella elizabethae F9251 = ATCC 49927', 'Chlamydia trachomatis D/UW-3/CX', 'Bacteroides fragilis 3_1_12', 'Bacteroides thetaiotaomicron VPI-5482', 'Bacteroides uniformis ATCC 8492', 'Bacteroides vulgatus ATCC 8482', 'Parabacteroides distasonis ATCC 8503', 'Campylobacter gracilis RM3268', 'Sebaldella termitidis ATCC 33386', 'Campylobacter ureolyticus', 'Butyrivibrio fibrisolvens ND3005', 'Fibrobacter succinogenes subsp. succinogenes S85', 'Porphyromonas gingivalis ATCC 33277', 'Prevotella ruminicola 23', 'Prevotella loescheii DSM 19665 = JCM 12249 = ATCC 15930', 'Wolinella succinogenes DSM 1740', 'Oxalobacter formigenes HOxBLS', 'Fusobacterium gonidiaformans ATCC 25563', 'Fusobacterium mortiferum ATCC 9817', 'Fusobacterium nucleatum subsp. nucleatum ATCC 25586', 'Fusobacterium perfoetens ATCC 29250', 'Faecalibacterium prausnitzii A2-165', 'Fusobacterium russii ATCC 25533', 'Fusobacterium varium ATCC 27725', 'Fusobacterium necrophorum subsp. funduliforme ATCC 51357', 'Fusobacterium periodonticum ATCC 33693', 'Fusobacterium ulcerans ATCC 49185', 'Syntrophomonas wolfei subsp. wolfei str. Goettingen G311', 'Dichelobacter nodosus VCS1703A', 'Desulfocurvibacter africanus subsp. africanus str. Walvis Bay', 'Desulfovibrio desulfuricans ND132', 'Desulfovibrio fructosivorans JJ', 'Desulfovibrio gigas DSM 1382 = ATCC 19364', 'Desulfovibrio salexigens DSM 2638', 'Desulfovibrio vulgaris str. Hildenborough', 'Thermodesulfobacterium thermophilum DSM 1276', 'Desulfovibrio longus DSM 6739', 'Desulfobulbus propionicus DSM 2032', 'Desulfococcus multivorans DSM 2059', 'Desulfomicrobium baculatum DSM 4028', 'Desulfovibrio piger ATCC 29098', 'Acidaminococcus fermentans DSM 20731', 'Megasphaera elsdenii DSM 20460', 'Nitrobacter hamburgensis X14', 'Nitrobacter winogradskyi Nb-255', 'Nitrosomonas europaea ATCC 19718', 'Nitrosomonas eutropha C91', 'Acidithiobacillus ferrooxidans ATCC 23270', 'Starkeya novella DSM 506', 'Thiomonas intermedia K12', 'Halothiobacillus neapolitanus c2', 'Thermithiobacillus tepidarius DSM 3134', 'Acidithiobacillus thiooxidans ATCC 19377', 'Thiobacillus thioparus DSM 505', 'Thiomicrospira pelophila DSM 1534', 'Hydrogenobacter thermophilus TK-6', 'Ehrlichia canis str. Jake', 'Ehrlichia chaffeensis str. Arkansas', 'Anaplasma phagocytophilum str. HZ', 'Neorickettsia risticii str. Illinois', 'Neorickettsia sennetsu str. Miyayama', 'Bdellovibrio bacteriovorus HD100', 'Herbaspirillum seropedicae SmR1', 'Selenomonas ruminantium AB3002', 'Cellulophaga lytica DSM 7489', 'Saccharicrinis fermentans DSM 9555 = JCM 21142', 'Pedobacter heparinus DSM 2366', 'Cytophaga hutchinsonii ATCC 33406', 'Flavobacterium johnsoniae UW101', 'Marinilabilia salmonicolor JCM 21150', 'Flavobacterium hydatis', 'Solitalea canadensis DSM 3403', 'Flavobacterium columnare ATCC 49512', 'Bernardetia litoralis DSM 6794', 'Marivirga tractuosa DSM 4126', 'Saprospira grandis str. Lewin', 'Weeksella virosa DSM 16922', 'Bergeyella zoohelcum ATCC 43767', 'Capnocytophaga gingivalis ATCC 33624', 'Capnocytophaga ochracea F0287', 'Capnocytophaga sputigena ATCC 33612', 'Beggiatoa alba B18LD', 'Microscilla marina ATCC 23134', 'Thiothrix nivea DSM 5205', 'Afipia clevelandensis ATCC 49720', 'Afipia felis ATCC 53690', 'Erythrobacter longus', 'Allochromatium vinosum DSM 180', 'Halorhodospira halochloris str. A', 'Halorhodospira halophila SL1', 'Rhodobacter capsulatus SB 1003', 'Rhodobacter sphaeroides 2.4.1', 'Rhodomicrobium vannielii ATCC 17100', 'Rhodopseudomonas palustris CGA009', 'Phaeospirillum fulvum MGU-K5', 'Phaeospirillum molischianum DSM 120', 'Pararhodospirillum photometricum DSM 122', 'Rhodospirillum rubrum ATCC 11170', 'Rhodovibrio salinarum DSM 9154', 'Chlorobium limicola DSM 245', 'Chlorobium phaeovibrioides DSM 265', 'Chlorobium phaeobacteroides DSM 266', 'Chlorobaculum tepidum TLS', 'Pelodictyon luteolum DSM 273', 'Prosthecochloris aestuarii DSM 271', 'Chloroflexus aurantiacus J-10-fl', 'Chlorogloeopsis fritschii PCC 6912', 'Microcystis aeruginosa NIES-843', 'Synechocystis sp. PCC 6714', 'Synechocystis sp. PCC 6803 substr. Kazusa', 'Planktothrix agardhii NIVA-CYA 126/8', 'Anabaena cylindrica PCC 7122', 'Leptolyngbya boryana PCC 6306', 'Tolypothrix sp. PCC 7601', 'Trichodesmium erythraeum IMS101', 'Prochlorococcus marinus str. AS9601', 'Prochlorothrix hollandica PCC 9006 = CALU 1027', 'Nitrosococcus oceani ATCC 19707', 'Nitrosospira multiformis ATCC 25196', 'Leuconostoc gelidum subsp. gasicomitatum LMG 18811', 'Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293', 'Leuconostoc lactis', 'Oenococcus oeni PSU-1', 'Weissella paramesenteroides ATCC 33313', 'Leuconostoc fallax KCTC 3537', 'Leuconostoc carnosum JB16', 'Pediococcus acidilactici DSM 20284', 'Pediococcus pentosaceus ATCC 25745', 'Finegoldia magna ATCC 53516', 'Peptostreptococcus anaerobius VPI 4330 = DSM 2949', 'Ruminococcus albus 8', 'Ruminococcus flavefaciens FD-1', 'Micrococcus luteus NCTC 2665', 'Dermacoccus nishinomiyaensis', 'Kytococcus sedentarius DSM 20547', 'Staphylococcus aureus subsp. aureus Mu50', 'Staphylococcus carnosus subsp. carnosus TM300', 'Staphylococcus epidermidis RP62A', 'Staphylococcus haemolyticus JCSC1435', 'Staphylococcus hyicus', 'Staphylococcus intermedius NCTC 11048', 'Staphylococcus simulans UMC-CNS-990', 'Staphylococcus xylosus', 'Staphylococcus hominis SK119', 'Staphylococcus warneri L37603', 'Staphylococcus sciuri subsp. sciuri Z8', 'Deinococcus radiodurans R1', 'Streptococcus gordonii str. Challis substr. CH1', 'Streptococcus oralis subsp. tigurinus AZ_3a', 'Streptococcus salivarius 57.I', 'Streptococcus sanguinis SK1057', 'Streptococcus suis R61', 'Streptococcus thermophilus LMG 18311', 'Streptococcus mutans UA159', 'Streptococcus sobrinus W1703', 'Streptococcus agalactiae LMG 14747', 'Streptococcus pneumoniae R6', 'Streptococcus pyogenes', 'Streptococcus downei F0415', 'Streptococcus parasanguinis ATCC 903', 'Blautia hansenii DSM 20583', 'Faecalicoccus pleomorphus DSM 20574', 'Streptococcus anginosus DORA_7', 'Streptococcus canis FSL Z3-227', 'Streptococcus criceti HS-6', 'Streptococcus dysgalactiae subsp. equisimilis AC-2713', 'Streptococcus equinus ATCC 9812', 'Streptococcus equi subsp. zooepidemicus', 'Streptococcus intermedius B196', 'Streptococcus macacae NCTC 11558', 'Streptococcus porcinus str. Jelinkova 176', 'Streptococcus ratti FA-1 = DSM 20564', 'Streptococcus vestibularis F0396', 'Streptococcus ferus DSM 20646', 'Streptococcus iniae', 'Streptococcus parauberis NCFD 2020', 'Streptococcus uberis 0140J', 'Enterococcus faecalis V583', 'Enterococcus faecium C68', 'Enterococcus gallinarum EG2', 'Enterococcus hirae ATCC 9790', 'Enterococcus columbae DSM 7374 = ATCC 51263', 'Enterococcus sulfureus ATCC 49903', 'Lactococcus lactis subsp. cremoris SK11', 'Lactococcus garvieae DCC43', 'Lactococcus piscium MKFS47', 'Lactococcus raffinolactis 4877', 'Aerococcus urinae ACS-120-V-Col10a', 'Aerococcus viridans ATCC 11563 = CCUG 4311', 'Gemella haemolysans M341', 'Atopobium minutum 10063974', 'Atopobium parvulum DSM 20469', 'Atopobium rimae ATCC 49626', 'Bacillus amyloliquefaciens Y2', 'Aneurinibacillus aneurinilyticus ATCC 12856', 'Bacillus anthracis str. Ames', 'Brevibacillus brevis X23', 'Bacillus cereus', 'Bacillus coagulans 36D1', 'Bacillus firmus DS1', 'Bacillus licheniformis DSM 13 = ATCC 14580', 'Bacillus megaterium QM B1551', 'Bacillus mycoides KBAB4', 'Paenibacillus polymyxa SC2', 'Bacillus psychrosaccharolyticus ATCC 23296', 'Bacillus pumilus SAFR-032', 'Bacillus sp. (in: Bacteria)', 'Bacillus akibai JCM 9157', 'Bacillus cellulosilyticus DSM 2522', 'Lysinibacillus sphaericus OT4b.31', 'Bacillus subtilis subsp. subtilis str. 168', 'Parageobacillus thermoglucosidasius C56-YS93', 'Bacillus thuringiensis serovar kurstaki', 'Bacillus alcalophilus ATCC 27647 = CGMCC 1.3604', 'Amphibacillus xylanus NBRC 15112', 'Alicyclobacillus acidoterrestris ATCC 49025', 'Bacillus atrophaeus 1942', 'Geobacillus kaustophilus HTA426', 'Paenibacillus larvae subsp. larvae DSM 25430', 'Brevibacillus laterosporus DSM 25', 'Bacillus methanolicus PB1', 'Peribacillus simplex BA2H3', 'Bacillus smithii 7_3_47FAA', 'Virgibacillus halodenitrificans 1806', 'Clostridium acetobutylicum ATCC 824', 'Paraclostridium bifermentans WYM', 'Clostridium botulinum A2 str. Kyoto', 'Clostridium butyricum E4 str. BoNT E BL5262', 'Clostridium cellulovorans 743B', 'Clostridioides difficile', 'Ruminiclostridium josui JCM 17888', 'Clostridium pasteurianum BC1', 'Clostridium perfringens ATCC 13124', 'Paeniclostridium sordellii VPI 9048', 'Clostridium sp. ATCC 29733', 'Clostridium sporogenes PA 3679', 'Thermoclostridium stercorarium subsp. stercorarium DSM 8532', 'Acetoanaerobium sticklandii', 'Clostridium tetani 12124569', 'Hungateiclostridium thermocellum ATCC 27405', 'Thermoanaerobacter thermohydrosulfuricus WC1', 'Thermoanaerobacterium thermosaccharolyticum DSM 571', 'Clostridium tyrobutyricum DSM 2637 = ATCC 25755 = JCM 11008', 'Clostridium beijerinckii NCIMB 8052', 'Ruminiclostridium cellulolyticum H10', 'Moorella thermoacetica ATCC 39073', 'Clostridium cadaveris AGR2141', 'Clostridium kluyveri DSM 555', 'Clostridium ljungdahlii DSM 13528', 'Clostridioides mangenotii TR', 'Clostridium novyi B str. NCTC 9691', 'Erysipelatoclostridium ramosum DSM 1402', 'Clostridium scatologenes', 'Clostridium tetanomorphum DSM 665', 'Gottschalkia acidurici 9a', 'Peptoclostridium litorale DSM 5388', 'Clostridium baratii str. Sullivan', 'Desulfosporosinus orientis DSM 765', 'Desulfotomaculum ruminis DSM 2154', 'Desulfotomaculum nigrificans DSM 574', 'Halobacillus halophilus DSM 2266', 'Sporosarcina ureae DSM 2281', 'Leifsonia xyli subsp. cynodontis DSM 46306', 'Lactobacillus acidophilus 30SC', 'Lactobacillus brevis ATCC 367', 'Lactobacillus buchneri ATCC 11577', 'Lactobacillus casei BL23', 'Weissella confusa LBAE C39-2', 'Lactobacillus delbrueckii subsp. bulgaricus 2038', 'Lactobacillus helveticus CNRZ32', 'Lactobacillus hilgardii DSM 20176 = ATCC 8290', 'Lactobacillus pentosus KCA1', 'Lactobacillus plantarum WCFS1', 'Lactobacillus gasseri ATCC 33323 = JCM 1131', 'Lactobacillus paracasei subsp. paracasei ATCC 25302', 'Lactobacillus reuteri 100-23', 'Lactobacillus sakei subsp. sakei 23K', 'Lactobacillus amylovorus GRL 1112', 'Lactobacillus animalis', 'Lactobacillus coryniformis subsp. coryniformis KCTC 3167 = DSM 20001', 'Lactobacillus farciminis KCTC 3681 = DSM 20184', 'Lactobacillus fermentum IFO 3956', 'Lactobacillus fructivorans KCTC 3543 = DSM 20203', 'Weissella halotolerans DSM 20190', 'Lactobacillus murinus ASF361', 'Lactobacillus ruminis ATCC 27782', 'Lactobacillus salivarius UCC118', 'Lactobacillus sanfranciscensis TMW 1.1304', 'Kandleria vitulina MC3001', 'Fructobacillus fructosus KCTC 3544', 'Lactobacillus oris F0423', 'Lactobacillus vaginalis DSM 5837 = ATCC 49540', 'Listeria ivanovii subsp. londoniensis', 'Listeria monocytogenes EGD-e', 'Listeria seeligeri serovar 1/2b str. SLCC3954', 'Listeria grayi DSM 20601', 'Listeria innocua Clip11262', 'Listeria welshimeri serovar 6b str. SLCC5334', 'Renibacterium salmoninarum ATCC 33209', 'Erysipelothrix rhusiopathiae str. Fujisawa', 'Alloiococcus otitis ATCC 51267', 'Actinomyces naeslundii str. Howell 279', 'Actinomyces viscosus C505', 'Actinomyces israelii DSM 43320', 'Schaalia odontolytica ATCC 17982', 'Trueperella pyogenes TP8', 'Arthrobacter globiformis NBRC 12137', 'Bifidobacterium adolescentis', 'Bifidobacterium bifidum NCIMB 41171', 'Bifidobacterium angulatum DSM 20098 = JCM 7096', 'Bifidobacterium asteroides PRL2011', 'Bifidobacterium breve UCC2003', 'Bifidobacterium catenulatum DSM 16992 = JCM 1194 = LMG 11043', 'Bifidobacterium coryneforme', 'Bifidobacterium cuniculi', 'Bifidobacterium dentium Bd1', 'Bifidobacterium indicum LMG 11587 = DSM 20214', 'Bifidobacterium magnum', 'Bifidobacterium minimum', 'Bifidobacterium pseudolongum subsp. globosum', 'Corynebacterium ammoniagenes DSM 20306', 'Brevibacterium linens BL2', 'Cellulomonas fimi ATCC 484', 'Cellulosimicrobium cellulans J36', 'Cellulomonas flavigena DSM 20109', 'Oerskovia turbata', 'Corynebacterium diphtheriae PW8', 'Corynebacterium glutamicum', 'Corynebacterium pseudotuberculosis', 'Corynebacterium callunae DSM 20147', 'Corynebacterium variabile DSM 44702', 'Peptoclostridium acidaminophilum DSM 3953', 'Holdemanella biformis DSM 3989', 'Eubacterium limosum KIST612', 'Thermodesulfobacterium commune DSM 2178', 'Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1', 'Cutibacterium acnes KPA171202', 'Acidipropionibacterium acidipropionici ATCC 4875', 'Acidipropionibacterium jensenii DSM 20535', 'Pseudopropionibacterium propionicum F0230a', 'Acidipropionibacterium thoenii DSM 20276', 'Mycobacterium avium subsp. avium', 'Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841', 'Mycobacterium intracellulare ATCC 13950', 'Mycobacterium kansasii 732', 'Mycobacterium leprae TN', 'Mycolicibacterium phlei RIVM601174', 'Mycolicibacterium smegmatis MC2 155', 'Mycobacterium tuberculosis H37Rv', 'Mycobacteroides chelonae', 'Mycobacterium marinum M', 'Mycobacterium asiaticum DSM 44297', 'Mycolicibacterium neoaurum VKM Ac-1815D', 'Mycolicibacterium thermoresistibile ATCC 19527', 'Mycolicibacterium chubuense NBB4', 'Mycolicibacterium farcinogenes', 'Mycolicibacterium gilvum PYR-GCK', 'Mycobacterium ulcerans Agy99', 'Mycolicibacterium vaccae ATCC 25954', 'Amycolatopsis methanolica 239', 'Nocardia otitidiscaviarum NBRC 14405', 'Nocardia asteroides NBRC 15531', 'Rhodococcus fascians', 'Rhodococcus rhodochrous ATCC 21198', 'Rhodococcus ruber Chol-4', 'Rhodococcus erythropolis PR4', 'Saccharopolyspora erythraea NRRL 2338', 'Actinopolyspora halophila DSM 43834', 'Saccharomonospora viridis DSM 43017', 'Frankia alni ACN14a', 'Geodermatophilus obscurus DSM 43160', 'Actinoplanes missouriensis 431', 'Actinoplanes utahensis', 'Streptomyces albus subsp. albus', 'Kitasatospora aureofaciens', 'Streptomyces bikiniensis', 'Streptomyces coelicolor A3(2)', 'Streptomyces fradiae', 'Streptomyces glaucescens', 'Streptomyces griseus subsp. griseus NBRC 13350', 'Streptomyces hygroscopicus subsp. jinggangensis 5008', 'Streptomyces lividans 1326', 'Streptomyces scabiei 87.22', 'Streptomyces viridochromogenes DSM 40736', 'Streptomyces halstedii', 'Streptomyces purpureus KA281', 'Streptomyces sclerotialus', 'Streptomyces virginiae', 'Streptomyces cellulosae', 'Streptomyces chartreusis NRRL 12338', 'Actinomadura atramentaria DSM 43919', 'Actinomadura madurae LIID-AJ290', 'Microtetraspora glauca', 'Streptosporangium roseum DSM 43021', 'Streptosporangium amethystogenes', 'Thermobispora bispora DSM 43833', 'Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111', 'Nocardiopsis prasina DSM 43845', 'Thermomonospora curvata DSM 43183', 'Thermobifida fusca YX', 'Microbacterium testaceum StLB037', 'Curtobacterium flaccumfaciens UCD-AKU', 'Tropheryma whipplei str. Twist', 'Pimelobacter simplex', 'Rothia dentocariosa ATCC 17931', 'Mobiluncus curtisii ATCC 43063', 'Mobiluncus mulieris 28-1', 'Gordonia bronchialis DSM 43247', 'Gordonia terrae', 'Sphaerobacter thermophilus DSM 20745', 'Tsukamurella paurometabola DSM 20162', 'Kitasatospora setae KM-6054', 'Pseudonocardia autotrophica', 'Mycoplasma arginini 7264', 'Mycoplasma capricolum subsp. capricolum ATCC 27343', 'Mycoplasma gallisepticum', 'Mycoplasma genitalium G37', 'Mycoplasma hominis', 'Mycoplasma hyopneumoniae J', 'Mycoplasma hyorhinis SK76', 'Mycoplasma mycoides subsp. mycoides SC str. PG1', 'Mycoplasma pneumoniae', 'Mycoplasma leachii PG50', 'Mycoplasma pulmonis', 'Mycoplasma synoviae 53', 'Mycoplasma agalactiae PG2', 'Mycoplasma arthritidis 158L3-1', 'Mycoplasma bovigenitalium 51080', 'Mycoplasmopsis californica', 'Mycoplasma fermentans PG18', 'Mycoplasma iowae 695', 'Mycoplasma mobile', 'Mycoplasma putrefaciens Mput9231', 'Mycoplasma flocculare ATCC 27399', 'Ureaplasma urealyticum serovar 7 str. ATCC 27819', 'Spiroplasma melliferum IPMB4A', 'Spiroplasma apis B31', 'Spiroplasma mirum ATCC 29335', 'Spiroplasma taiwanense CT-1', 'Acholeplasma laidlawii PG-8A', 'Acholeplasma modicum ATCC 29102', 'Mesoplasma florum L1', 'Methanobrevibacter smithii ATCC 35061', 'Methanohalophilus mahii DSM 5219', 'Methanothermus fervidus DSM 2088', 'Methanothermococcus thermolithotrophicus DSM 2095', 'Methanococcus vannielii SB', 'Methanococcus voltae A3', 'Methanotorris igneus Kol 5', 'Methanocaldococcus jannaschii DSM 2661', 'Methanoculleus marisnigri JR1', 'Methanofollis liminatans DSM 4140', 'Methanospirillum hungatei JF-1', 'Methanomicrobium mobile BP', 'Methanosarcina barkeri str. Fusaro', 'Methanosarcina mazei Go1', 'Methanosarcina thermophila TM-1', 'Methanosarcina acetivorans C2A', 'Methanosarcina vacuolata Z-761', 'Methanothrix soehngenii GP6', 'Methanothrix thermoacetophila PT', 'Methanococcoides methylutens MM1', 'Archaeoglobus fulgidus DSM 4304', 'Haloarcula marismortui ATCC 43049', 'Halobacterium salinarum NRC-1', 'Haloferax volcanii DS2', 'Halorubrum lacusprofundi ATCC 49239', 'Halorubrum saccharovorum DSM 1137', 'Halococcus morrhuae DSM 1307', 'Haloferax mediterranei ATCC 33500', 'Natronomonas pharaonis DSM 2160', 'Pyrococcus furiosus DSM 3638', 'Thermococcus litoralis DSM 5473', 'Thermofilum pendens Hrk 5', 'Thermoproteus tenax Kra 1', 'Desulfurococcus mucosus DSM 2162', 'Pyrobaculum islandicum DSM 4184', 'Staphylothermus marinus F1', 'Sulfolobus acidocaldarius DSM 639', 'Saccharolobus solfataricus P2', 'Desulfobacter curvatus DSM 3379', 'Desulfobacter postgatei 2ac9', 'Desulfobacterium autotrophicum HRM2', 'Thermoplasma acidophilum DSM 1728', 'Methanoplanus limicola DSM 2279', 'Methanosphaera stadtmanae DSM 3091', 'Methanopyrus kandleri AV19', 'Methanohalobium evestigatum Z-7303', 'Thermoanaerobacter kivui', 'Halanaerobium praevalens DSM 2228', 'Thermotoga maritima MSB8', 'Thermotoga neapolitana DSM 4359', 'Solemya velum gill symbiont', 'Haliscomenobacter hydrossis DSM 1100', 'Flexistipes sinusarabici DSM 4947', 'Desulfomonile tiedjei DSM 6799', 'Xylella fastidiosa 9a5c', 'Acetonema longum DSM 6540', 'Sporomusa ovata DSM 2662', 'Thermosipho africanus TCF52B', 'Fervidobacterium islandicum', 'Fervidobacterium nodosum Rt17-B1', 'Teredinibacter turnerae T7901', 'Roseobacter denitrificans OCh 114', 'Gardnerella vaginalis 6119V5', 'Citrus sinensis', 'Cardiobacterium hominis ATCC 15826', 'Hirschia baltica ATCC 49814', 'Symbiobacterium thermophilum IAM 14863', 'Verrucomicrobium spinosum DSM 4136 = JCM 18804', 'Marinobacter hydrocarbonoclasticus VT8', 'Halomonas elongata DSM 2581', 'Carnobacterium divergens DSM 20623', 'Carnobacterium gallinarum DSM 4847', 'Carnobacterium mobile DSM 4848', 'Carnobacterium maltaromaticum LMA28', 'Carnobacterium funditum DSM 5970', 'Synergistes jonesii', 'Chondrus crispus', 'Phaeodactylum tricornutum', 'Ectocarpus siliculosus', 'Cryptomonas paramecium', 'Emiliania huxleyi', 'Symbiodinium microadriaticum', 'Chlamydomonas reinhardtii', 'Volvox carteri', 'Auxenochlorella protothecoides', 'Marchantia polymorpha', 'Physcomitrium patens', 'Cannabis sativa', 'Actinidia chinensis var. chinensis', 'Theobroma cacao', 'Carica papaya', 'Citrullus lanatus', 'Cucumis melo', 'Cucumis sativus', 'Populus trichocarpa', 'Arabidopsis thaliana', 'Brassica napus', 'Brassica rapa', 'Brassica oleracea', 'Malus domestica', 'Prunus dulcis', 'Prunus persica', 'Cajanus cajan', 'Cicer arietinum', 'Glycine max', 'Glycine soja', 'Lupinus angustifolius', 'Medicago truncatula', 'Phaseolus vulgaris', 'Vigna angularis', 'Manihot esculenta', 'Ricinus communis', 'Linum usitatissimum', 'Daucus carota subsp. sativus', 'Capsicum annuum', 'Solanum lycopersicum', 'Nicotiana sylvestris', 'Nicotiana tabacum', 'Nicotiana tomentosiformis', 'Nicotiana benthamiana', 'Solanum commersonii', 'Solanum tuberosum', 'Olea europaea', 'Erythranthe guttata', 'Sesamum indicum', 'Helianthus annuus', 'Cynara cardunculus var. scolymus', 'Nelumbo nucifera', 'Hordeum vulgare', 'Oryza longistaminata', 'Oryza rufipogon', 'Oryza sativa Japonica Group', 'Oryza brachyantha', 'Oryza nivara', 'Oryza punctata', 'Oryza glaberrima', 'Setaria italica', 'Setaria viridis', 'Sorghum bicolor', 'Triticum aestivum', 'Triticum turgidum subsp. durum', 'Triticum urartu', 'Zea mays', 'Ananas comosus', 'Musa acuminata', 'Pneumocystis carinii', 'Plasmopara halstedii', 'Phytophthora infestans', 'Phytophthora nicotianae', 'Phytophthora parasitica', 'Phytophthora megakarya', 'Phytophthora palmivora var. palmivora', 'Phycomyces blakesleeanus', 'Schizosaccharomyces pombe 972h-', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces octosporus', 'Cyberlindnera jadinii', 'Pichia kudriavzevii', 'Kluyveromyces marxianus DMKU3-1042', 'Lachancea waltii', 'Pachysolen tannophilus NRRL Y-2460', 'Millerozyma farinosa', 'Komagataella pastoris', 'Scheffersomyces stipitis', 'Pichia membranifaciens NRRL Y-2026', 'Wickerhamomyces anomalus', 'Meyerozyma guilliermondii', 'Saccharomyces bayanus', 'Saccharomyces cerevisiae S288C', 'Lachancea kluyveri', 'Torulaspora delbrueckii CBS 1146', 'Yarrowia lipolytica CLIB122', 'Zygosaccharomyces bailii CLIB 213', 'Lachancea fermentati', 'Zygosaccharomyces rouxii', 'Debaryomyces hansenii', 'Kockovaella imperatae', 'Brettanomyces bruxellensis', 'Taphrina deformans PYCC 5710', 'Bipolaris maydis', 'Bipolaris zeicola', 'Leptosphaeria maculans', 'Histoplasma capsulatum', 'Blastomyces dermatitidis', 'Acremonium chrysogenum ATCC 11550', 'Aspergillus aculeatus', 'Aspergillus clavatus', 'Aspergillus flavus', 'Aspergillus niger', 'Aspergillus oryzae', 'Penicillium camemberti', 'Penicillium chrysogenum', 'Penicillium roqueforti', 'Amorphotheca resinae ATCC 22711', 'Ascosphaera apis ARSEF 7405', 'Claviceps purpurea 20.1', 'Epichloe typhina E8', 'Cryphonectria parasitica', 'Fusarium fujikuroi', 'Neurospora crassa OR74A', 'Sordaria macrospora k-hell', 'Ophiostoma ulmi', 'Sclerotinia sclerotiorum 1980 UF-70', 'Cryptococcus neoformans var. neoformans JEC21', 'Cryptococcus depauperatus CBS 7841', 'Tremella mesenterica', 'Exidia glandulosa HHB12029', 'Ustilago maydis 521', 'Microbotryum violaceum', 'Tilletiaria anomala UBC 951', 'Rhodotorula toruloides', 'Puccinia graminis f. sp. tritici CRL 75-36-700-3', 'Phanerochaete chrysosporium', 'Pleurotus ostreatus var. ostreatus', 'Trametes versicolor FP-101664 SS1', 'Schizophyllum commune', 'Agaricus bisporus', 'Coprinopsis cinerea', 'Lentinula edodes', 'Suillus luteus UH-Slu-Lm8-n1', 'Ascochyta rabiei', 'Colletotrichum orbiculare', 'Candida albicans SC5314', 'Candida maltosa', 'Candida parapsilosis', 'Diutina rugosa', 'Candida tropicalis', 'Coccidioides immitis', 'Fusarium oxysporum', 'Fusarium culmorum CS7071', 'Fusarium graminearum', 'Metarhizium anisopliae ARSEF 549', 'Rhodotorula glutinis', 'Trichoderma harzianum', 'Trichoderma longibrachiatum ATCC 18648', 'Trichophyton rubrum', 'Aureobasidium pullulans EXF-150', 'Alternaria alternata', 'Phialophora americana', 'Saitoella complicata NRRL Y-17804', 'Cryptococcus wingfieldii CBS 7118', 'Grifola frondosa', 'Laetiporus sulphureus 93-53', 'Trametes cinnabarina', 'Leishmania braziliensis MHOM/BR/75/M2904', 'Leishmania donovani BPK282A1', 'Leishmania major', 'Leishmania mexicana MHOM/GT/2001/U1103', 'Leishmania infantum JPCM5', 'Leishmania panamensis', 'Leptomonas seymouri', 'Leishmania tarentolae', 'Trypanosoma brucei brucei', 'Trypanosoma cruzi', 'Trypanosoma equiperdum', 'Trypanosoma rangeli SC58', 'Trichomonas vaginalis', 'Giardia lamblia ATCC 50803', 'Acanthamoeba castellanii str. Neff', 'Entamoeba histolytica', 'Naegleria gruberi', 'Dictyostelium purpureum', 'Eimeria acervulina', 'Eimeria tenella', 'Eimeria maxima', 'Cryptosporidium parvum Iowa II', 'Cryptosporidium muris', 'Toxoplasma gondii ME49', 'Plasmodium berghei', 'Plasmodium chabaudi', 'Plasmodium cynomolgi strain B', 'Plasmodium falciparum 3D7', 'Plasmodium gallinaceum', 'Plasmodium knowlesi strain H', 'Plasmodium reichenowi', 'Plasmodium vivax Sal-1', 'Plasmodium fragile', 'Plasmodium malariae', 'Plasmodium vinckei', 'Plasmodium yoelii yoelii', 'Babesia bovis T2Bo', 'Babesia bigemina', 'Theileria equi', 'Theileria annulata', 'Theileria parva', 'Paramecium tetraurelia', 'Tetrahymena thermophila', 'Ichthyophthirius multifiliis', 'Stylonychia lemnae', 'Stentor coeruleus', 'Exophiala dermatitidis', 'Encephalitozoon cuniculi', 'Hydra vulgaris', 'Schistosoma japonicum', 'Schistosoma mansoni', 'Schistosoma haematobium', 'Echinococcus multilocularis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Ascaris suum', 'Brugia malayi', 'Onchocerca volvulus', 'Meloidogyne hapla', 'Bursaphelenchus xylophilus', 'Trichinella spiralis', 'Helobdella robusta', 'Aplysia californica', 'Biomphalaria glabrata', 'Crassostrea virginica', 'Mizuhopecten yessoensis', 'Daphnia pulex', 'Tigriopus californicus', 'Ixodes scapularis', 'Blattella germanica', 'Acyrthosiphon pisum', 'Bemisia tabaci', 'Tribolium castaneum', 'Bombyx mori', 'Aedes aegypti', 'Aedes albopictus', 'Anopheles gambiae', 'Anopheles albimanus', 'Anopheles dirus', 'Anopheles arabiensis', 'Culex pipiens', 'Culex quinquefasciatus', 'Lutzomyia longipalpis', 'Loa loa', 'Ceratitis capitata', 'Drosophila ananassae', 'Drosophila erecta', 'Drosophila grimshawi', 'Drosophila melanogaster', 'Drosophila mojavensis', 'Drosophila persimilis', 'Drosophila pseudoobscura pseudoobscura', 'Drosophila sechellia', 'Drosophila simulans', 'Drosophila virilis', 'Drosophila yakuba', 'Drosophila willistoni', 'Drosophila saltans', 'Musca domestica', 'Lucilia cuprina', 'Glossina morsitans morsitans', 'Glossina austeni', 'Glossina fuscipes fuscipes', 'Glossina palpalis gambiensis', 'Glossina pallidipes', 'Nasonia vitripennis', 'Apis mellifera', 'Lingula anatina', 'Strongylocentrotus purpuratus', 'Ciona intestinalis', 'Branchiostoma floridae', 'Branchiostoma lanceolatum', 'Petromyzon marinus', 'Eptatretus burgeri', 'Callorhinchus milii', 'Latimeria chalumnae', 'Lepisosteus oculatus', 'Clupea harengus', 'Danio rerio', 'Carassius auratus', 'Cyprinus carpio', 'Astyanax mexicanus', 'Ictalurus punctatus', 'Electrophorus electricus', 'Esox lucius', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Salmo salar', 'Salmo trutta', 'Gadus morhua', 'Fundulus heteroclitus', 'Poecilia reticulata', 'Xiphophorus maculatus', 'Oryzias latipes', 'Cyclopterus lumpus', 'Oreochromis niloticus', 'Haplochromis burtoni', 'Astatotilapia calliptera', 'Sparus aurata', 'Lates calcarifer', 'Xenopus tropicalis', 'Chelonia mydas', 'Chelydra serpentina', 'Chrysemys picta', 'Alligator mississippiensis', 'Crocodylus porosus', 'Sphenodon punctatus', 'Laticauda laticaudata', 'Notechis scutatus', 'Pseudonaja textilis', 'Dromaius novaehollandiae', 'Struthio camelus', 'Apteryx haastii', 'Apteryx owenii', 'Anas platyrhynchos', 'Anser cygnoides', 'Cairina moschata domestica', 'Chaetura pelagica', 'Columba livia', 'Falco peregrinus', 'Aquila chrysaetos chrysaetos', 'Haliaeetus albicilla', 'Numida meleagris', 'Gallus gallus', 'Pavo cristatus', 'Phasianus colchicus', 'Chrysolophus pictus', 'Meleagris gallopavo', 'Serinus canaria', 'Parus major', 'Phalacrocorax carbo', 'Phoenicopterus ruber ruber', 'Aptenodytes forsteri', 'Pygoscelis adeliae', 'Calypte anna', 'Ornithorhynchus anatinus', 'Sarcophilus harrisii', 'Notamacropus eugenii', 'Choloepus hoffmanni', 'Dasypus novemcinctus', 'Erinaceus europaeus', 'Echinops telfairi', 'Pteropus alecto', 'Callithrix jacchus', 'Cercocebus atys', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Papio anubis', 'Theropithecus gelada', 'Mandrillus leucophaeus', 'Gorilla gorilla gorilla', 'Pan paniscus', 'Pan troglodytes', 'Pongo abelii', 'Homo sapiens', 'Canis lupus familiaris', 'Vulpes vulpes', 'Ursus thibetanus thibetanus', 'Ursus americanus', 'Ailuropoda melanoleuca', 'Mustela putorius', 'Felis catus', 'Panthera leo', 'Panthera onca', 'Panthera pardus', 'Panthera tigris', 'Zalophus californianus', 'Odobenus rosmarus', 'Leptonychotes weddellii', 'Orcinus orca', 'Tursiops truncatus', 'Delphinapterus leucas', 'Physeter catodon', 'Balaenoptera acutorostrata', 'Balaenoptera musculus', 'Trichechus manatus', 'Loxodonta africana', 'Equus asinus asinus', 'Equus caballus', 'Procavia capensis', 'Orycteropus afer', 'Sus scrofa', 'Camelus dromedarius', 'Bison bison bison', 'Bos taurus', 'Capra hircus', 'Ovis aries', 'Ochotona princeps', 'Oryctolagus cuniculus', 'Marmota marmota marmota', 'Urocitellus parryii', 'Dipodomys ordii', 'Cricetulus griseus', 'Mesocricetus auratus', 'Peromyscus maniculatus', 'Meriones unguiculatus', 'Mus caroli', 'Mus musculus', 'Mus pahari', 'Mus spretus', 'Mus spicilegus', 'Rattus norvegicus', 'Cavia porcellus', 'Octodon degus', 'Heterocephalus glaber', 'Saccoglossus kowalevskii', 'Trichoplax adhaerens', 'Sagitta elegans', 'Atta cephalotes', 'Blastocystis hominis', 'Danaus plexippus', 'Lynx lynx', 'Melopsittacus undulatus', 'Myzus persicae', 'Rhodnius prolixus', 'Tilletia caries', 'Tilletia controversa', 'Amborella trichopoda', 'Anaerobiospirillum succiniciproducens DSM 6400', 'Arthrobotrys oligospora ATCC 24927', 'Burkholderia mallei ATCC 23344', 'Dicentrarchus labrax', 'Monodelphis domestica', 'Parastagonospora nodorum SN15', 'Solenopsis invicta', 'Sphingomonas paucimobilis', 'Sphingobium yanoikuyae', 'Syncephalastrum racemosum', 'Pelodiscus sinensis', 'Utricularia gibba', 'Natrialba magadii ATCC 43099', 'Pyrobaculum aerophilum str. IM2', 'Brachypodium distachyon', 'Naumovozyma castellii', 'Naumovozyma dairenensis CBS 421', 'Saccharomyces paradoxus', 'Saccharomyces pastorianus Weihenstephan 34/70', 'Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993', 'Penicillium expansum', 'Verticillium dahliae VdLs.17', 'Schizopora paradoxa', 'Puccinia coronata var. avenae f. sp. avenae', 'Puccinia sorghi', 'Puccinia striiformis', 'Saimiri boliviensis', 'Erpetoichthys calabaricus', 'Mnemiopsis leidyi', 'Encephalitozoon hellem ATCC 50504', 'Nosema bombycis CQ1', 'Strigomonas culicis', 'Bifidobacterium animalis subsp. lactis BB-12', 'Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505', 'Lysinibacillus fusiformis ZC1', 'Staphylococcus lugdunensis HKU09-01', 'Streptococcus mitis B6', 'Lactobacillus curvatus CRL 705', 'Saccharopolyspora rectivirgula', 'Acidothermus cellulolyticus 11B', 'Lachnospira multipara ATCC 19207', 'Rubrivivax gelatinosus IL144', 'Nostoc sp. PCC 7524', 'Campylobacter upsaliensis RM3195', 'Legionella anisa str. Linanisette', 'Legionella sainthelensi ATCC 35248 = DSM 19231', 'Acinetobacter lwoffii SH145', 'Neisseria weaveri LMG 5135', 'Burkholderia gladioli BSR3', 'Mesorhizobium huakuii 7653R', "Alteromonas macleodii str. 'Black Sea 11'", 'Francisella philomiragia subsp. philomiragia ATCC 25017', 'Bacteroides eggerthii DSM 20697', 'Tannerella forsythia 92A2', 'Porphyromonas levii DSM 23370', 'Porphyromonas macacae', 'Bacteroides ovatus ATCC 8483', 'Alistipes putredinis DSM 17216', 'Odoribacter splanchnicus DSM 20712', 'Porphyromonas asaccharolytica DSM 20707', 'Porphyromonas endodontalis ATCC 35406', 'Prevotella bivia DNF00188', 'Prevotella buccae ATCC 33574', 'Prevotella buccalis ATCC 35310', 'Prevotella corporis DSM 18810 = JCM 8529', 'Prevotella denticola F0289', 'Prevotella disiens JCM 6334 = ATCC 29426', 'Prevotella intermedia 17', 'Prevotella melaninogenica ATCC 25845', 'Prevotella nigrescens ATCC 33563', 'Prevotella oralis ATCC 33269', 'Prevotella oris C735', 'Prevotella oulorum JCM 14966', 'Prevotella veroralis F0319', 'Rikenella microfusus DSM 15922', 'Cronobacter sakazakii ATCC BAA-894', 'Serratia proteamaculans 568', 'Yersinia kristensenii', 'Vibrio metschnikovii CIP 69.14', 'Vibrio nigripulchritudo SOn1', 'Vibrio orientalis CIP 102891 = ATCC 33934', 'Candidatus Photodesmus katoptron', 'Acetohalobium arabaticum DSM 5501', 'Capnocytophaga canimorsus Cc5', 'Capnocytophaga cynodegmi DSM 19736', 'Arcobacter butzleri RM4018', 'Arcobacter nitrofigilis DSM 7299', 'Sphingomonas parapaucimobilis NBRC 15100', 'Desulfobacula toluolica Tol2', 'Mycoplasma penetrans', 'Colwellia psychrerythraea', 'Carnobacterium alterfunditum DSM 5972', 'Geobacter metallireducens GS-15', 'Ornithobacterium rhinotracheale DSM 15997', 'Cobetia marina', 'Thermodesulfovibrio yellowstonii DSM 11347', 'Arcanobacterium haemolyticum DSM 20595', 'Anolis carolinensis', 'Herbidospora cretacea', 'Clavibacter michiganensis subsp. sepedonicus', 'Komagataeibacter xylinus E25', 'Neisseria subflava NJ9703', 'Burkholderia pseudomallei K96243', 'Tarenaya hassleriana', 'Talaromyces stipitatus ATCC 10500', 'Talaromyces islandicus', 'Allomyces macrogynus', 'Elephantulus edwardii', 'Cyprinodon variegatus', 'Thermoanaerobacterium saccharolyticum JW/SL-YS485', 'Salmonella enterica subsp. enterica serovar Typhimurium str. LT2', 'Mycoplasma bovis PG45', 'Kluyveromyces lactis', 'Alternaria brassicicola', 'Drosophila eugracilis', 'Drosophila takahashii', 'Phlebotomus papatasi', 'Panthera uncia', 'Ursus maritimus', 'Eptesicus fuscus', 'Vombatus ursinus', 'Mytilus galloprovincialis', 'Crassostrea gigas', 'Neospora caninum', 'Haloarcula japonica DSM 6131', 'Natronococcus occultus SP4', 'Methanococcoides burtonii DSM 6242', 'Pyrococcus abyssi GE5', 'Streptomyces cattleya NRRL 8057 = DSM 46488', 'Streptomyces griseoluteus', 'Paenarthrobacter nicotinovorans 231Sha2.1M6', 'Corynebacterium otitidis ATCC 51513', 'Thermoanaerobacter brockii subsp. finnii Ako-1', 'Thermoanaerobacterium xylanolyticum LX-11', 'Ruminiclostridium cellobioparum subsp. termitidis CT1112', 'Cellulosilyticum lentocellum DSM 5427', 'Tyzzerella nexilis DSM 1787', 'Ruminiclostridium papyrosolvens DSM 2782', 'Clostridium paraputrificum AGR2156', 'Staphylococcus caprae M23864:W1', 'Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292', 'Staphylococcus capitis C87', 'Gemella morbillorum M424', 'Dolosigranulum pigrum ATCC 51524', 'Microlunatus phosphovorus NM-1', 'Helicobacter canis NCTC 12740', 'Legionella oakridgensis ATCC 33761 = DSM 21215', 'Acinetobacter haemolyticus MTCC 9819', 'Psychrobacter phenylpyruvicus DSM 7000 = NBRC 102152', 'Pseudomonas savastanoi pv. phaseolicola 1448A', 'Xanthomonas albilineans GPE PC73', 'Bradyrhizobium elkanii WSM2783', 'Rhizobium etli CIAT 652', 'Rhizobium leucaenae USDA 9039', 'Brucella melitensis bv. 1 str. 16M', 'Brucella neotomae 5K33', 'Brucella suis 1330', 'Veillonella parvula DSM 2008', 'Pectobacterium atrosepticum SCRI1043', 'Yersinia aldovae ATCC 35236', 'Yersinia frederiksenii ATCC 33641', 'Yersinia rohdei', 'Yersinia ruckeri', 'Vibrio furnissii NCTC 11218', 'Vibrio navarrensis', 'Vibrio splendidus ZS-139', 'Vibrio tubiashii ATCC 19109', 'Mycoplasma haemofelis Ohio2', 'Turneriella parva DSM 21527', 'Borreliella afzelii PKo', 'Borreliella garinii BgVir', 'Borrelia crocidurae DOU', 'Cytophaga aurantiaca DSM 3654', 'Flavobacterium succinicans LMG 10402', 'Pelobacter propionicus DSM 2379', 'Lawsonia intracellularis PHE/MN1-00', 'Rhodothermus marinus DSM 4252', 'Acholeplasma axanthum ATCC 25176', 'Mycoplasma canadense', 'Mycoplasma canis PG 14', 'Mycoplasma meleagridis', 'Mycoplasma ovipneumoniae 14811', 'Taylorella equigenitalis MCE9', 'Janthinobacterium lividum', 'Dioscorea cayenensis subsp. rotundata', 'Gossypium raimondii', 'Vitis vinifera', 'Lipomyces starkeyi NRRL Y-11557', 'Lachancea cidri', 'Hanseniaspora uvarum DSM 2768', 'Penicillium vulpinum', 'Gaeumannomyces graminis', 'Trichoderma virens', 'Neurospora discreta FGSC 8579', 'Laccaria bicolor', 'Calocera cornea HHB12733', 'Rhodotorula graminis WP1', 'Sporothrix schenckii', 'Tolypocladium inflatum', 'Phytophthora cactorum', 'Drosophila elegans', 'Drosophila emarginata', 'Drosophila ficusphila', 'Drosophila kikkawai', 'Drosophila neocordata', 'Drosophila prosaltans', 'Drosophila sturtevanti', 'Anopheles merus', 'Anopheles stephensi', 'Bombus terrestris', 'Opisthocomus hoazin', 'Fulmarus glacialis', 'Bubo bubo', 'Nothoprocta perdicaria', 'Tinamus major', 'Bos grunniens', 'Bos indicus x Bos taurus', 'Vicugna pacos', 'Microcebus murinus', 'Otolemur garnettii', 'Oryzias melastigma', 'Takifugu rubripes', 'Caenorhabditis remanei', 'Perkinsus marinus ATCC 50983', 'Enterocytozoon bieneusi H348', 'Colletotrichum graminicola M1.001', 'Caldicellulosiruptor bescii DSM 6725', 'Halothermothrix orenii H 168', 'Amycolatopsis orientalis DSM 40040 = KCTC 9412', 'Amycolatopsis lurida NRRL 2430', 'Absiella dolichum DSM 3991', 'Eggerthia catenaformis OT 569 = DSM 20559', 'Methylobacterium radiotolerans JCM 2831', 'Helicobacter hepaticus ATCC 51449', 'Synechococcus elongatus', 'Synechococcus sp. PCC 7002', 'Synechococcus sp. WH 7803', 'Calothrix sp. PCC 6303', 'Calothrix sp. PCC 7103', 'Tetranychus urticae', 'Xiphophorus couchianus', 'Neolamprologus brichardi', 'Desulfurella acetivorans A63', 'Winkia neuii subsp. neuii DSM 8576', 'Cutibacterium avidum 44067', 'Cutibacterium granulosum TM11', 'Propionimicrobium lymphophilum ACS-093-V-SCH5', 'Sporolactobacillus laevolacticus DSM 442', 'Anaerococcus hydrogenalis DSM 7454', 'Peptoniphilus indolicus ATCC 29427', 'Peptoniphilus lacrimalis 315-B', 'Anaerococcus lactolyticus ATCC 51172', 'Parvimonas micra ATCC 33270', 'Anaerococcus prevotii DSM 20548', 'Blautia producta', 'Anaerococcus tetradius ATCC 35098', 'Anaerococcus vaginalis ATCC 51170', 'Coprococcus eutactus ATCC 27759', 'Bartonella doshiae NCTC 12862 = ATCC 700133', 'Bartonella grahamii as4aup', 'Bartonella taylorii 8TBB', 'Bartonella vinsonii subsp. arupensis Pm136co', 'Candidatus Kinetoplastibacterium crithidii TCC036E', 'Acidithiobacillus caldus ATCC 51756', 'Gloeobacter violaceus PCC 7421', 'Acidobacterium capsulatum ATCC 51196', 'Entamoeba invadens IP1', 'Eremothecium gossypii ATCC 10895', 'Aspergillus terreus', 'Uncinocarpus reesii 1704', 'Purpureocillium lilacinum', 'Gambusia affinis', 'Coriobacterium glomerans PW2', 'Catenuloplanes japonicus', 'Brevibacterium casei S18', 'Streptomyces galbus', 'Streptomyces avermitilis MA-4680 = NBRC 14893', 'Bifidobacterium thermophilum', 'Actinopolyspora mortivallis DSM 44261', 'Amycolatopsis mediterranei U32', 'Anoxybacillus flavithermus subsp. yunnanensis str. E13', 'Geobacillus thermodenitrificans NG80-2', 'Geobacillus thermoleovorans CCB_US3_UF5', 'Kyrpidia tusciae DSM 2912', 'Enterococcus avium ATCC 14025', 'Acetobacterium woodii DSM 1030', 'Lactobacillus johnsonii NCC 533', 'Leuconostoc citreum KM20', 'Leuconostoc pseudomesenteroides 4882', 'Melissococcus plutonius ATCC 35311', 'Rickettsia amblyommatis str. GAT-30V', 'Rickettsia bellii OSU 85-389', 'Rickettsia montanensis str. OSU 85-930', 'Rickettsia rhipicephali str. 3-7-female6-CWPP', 'Neorickettsia helminthoeca str. Oregon', 'Gluconacetobacter diazotrophicus PA1 5', 'Paracoccus aminophilus JCM 7686', 'Paracoccus versutus', 'Azospirillum halopraeferens DSM 3675', 'Rhodospirillum centenum SW', 'Candidatus Liberibacter asiaticus str. gxpsy', 'Leptothrix cholodnii SP-6', 'Rahnella aquatilis CIP 78.65 = ATCC 33071', 'Variovorax paradoxus 110B', 'Riemerella anatipestifer RA-GD', 'Pedobacter antarcticus 4BY', 'Pelodictyon phaeoclathratiforme BU-1', 'Sphaerotilus natans subsp. natans DSM 6575', 'Streptobacillus moniliformis DSM 12112', 'Lotus japonicus', 'Mixia osmundae', 'Blumeria graminis', 'Trichophyton tonsurans', 'Trichophyton violaceum', 'Conidiobolus coronatus NRRL 28638', 'Strongyloides ratti', 'Anopheles melas', 'Anopheles quadriannulatus', 'Heliconius melpomene plesseni', 'Chinchilla lanigera', 'Thalassiosira pseudonana', 'Nosema apis BRL 01', 'Eubacterium brachy ATCC 33089', 'Eubacterium nodatum ATCC 33099', 'Daphnia magna', 'Geobacter sulfurreducens PCA', 'Stomoxys calcitrans', 'Streptomyces griseoflavus Tu4000', 'Streptomyces mobaraensis NBRC 13819 = DSM 40847', 'Acholeplasma oculi', 'Naja naja', 'Heliobacterium modesticaldum Ice1', 'Citrobacter amalonaticus', 'Epichloe festucae', 'Macrophomina phaseolina MS6', 'Sporichthya polymorpha DSM 43042', 'Dactylosporangium aurantiacum', 'Corynebacterium kutscheri', 'Corynebacterium pilosum DSM 20521', 'Bifidobacterium choerinum', "Peanut witches'-broom phytoplasma NTU2011", 'Coprothermobacter proteolyticus DSM 5265', 'Rickettsia africae ESF-5', 'Rickettsia helvetica C9P9', 'Rickettsia japonica YH', 'Rickettsia massiliae str. AZT80', 'Rickettsia parkeri str. Portsmouth', 'Rickettsia sibirica 246', 'Rickettsia slovaca str. D-CWPP', 'Ehrlichia muris AS145', 'Nitrococcus mobilis Nb-231', 'Nitrosospira briensis C-128', 'Nitrospina gracilis 3/211', 'Rhodovulum sulfidophilum DSM 1374', 'Bordetella holmesii ATCC 51541', 'Helicobacter heilmannii ASB1.4', 'Helicobacter pullorum MIT 98-5489', 'Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933', 'Hungateiclostridium cellulolyticum CD2', 'Bilophila wadsworthia ATCC 49260', 'Holophaga foetida DSM 6591', 'Bacillus thermoamylovorans', 'Ipomoea triloba', 'Cyberlindnera fabianii', 'Vanderwaltozyma polyspora DSM 70294', 'Fusarium poae', 'Cantharellus cibarius var. cibarius', 'Ganoderma sinense ZZ0214-1', 'Mucor circinelloides', 'Megaselia scalaris', 'Pelecanus crispus', 'Plasmodium ovale curtisi', 'Globisporangium irregulare', 'Aspergillus fischeri NRRL 181', 'Penicillium coprophilum', 'Penicillium digitatum', 'Dermabacter hominis 1368', 'Clostridium saccharoperbutylacetonicum N1-4(HMT)', 'Pseudomonas cichorii JBC1', 'Gaeumannomyces tritici', 'Mycobacteroides abscessus', 'Mycobacterium genavense ATCC 51234', 'Mycolicibacterium rhodesiae JS60', 'Gordonia aichiensis NBRC 108223', 'Gordonia amarae NBRC 15530', 'Gordonia sputi NBRC 100414', 'Clostridium celatum DSM 1785', 'Clostridium intestinale URNW', 'Desulfitobacterium dehalogenans ATCC 51507', 'Brucella canis ATCC 23365', 'Thiobacillus denitrificans DSM 12475', 'Paraburkholderia xenovorans LB400', 'Porphyromonas cangingivalis', 'Porphyromonas canoris', 'Clavispora lusitaniae', 'Lodderomyces elongisporus', 'Glossina brevipalpis', 'Kryptolebias marmoratus', 'Suricata suricatta', 'Gavia stellata', 'Aotus nancymaae', 'Nocardia brasiliensis ATCC 700358', 'Nocardia brevicatena NBRC 12119', 'Nocardia carnea NBRC 14403', 'Nocardia farcinica IFM 10152', 'Nocardia nova SH22a', 'Nocardia transvalensis NBRC 15921', 'Tupaia belangeri', 'Plasmodiophora brassicae', 'Helicobacter bilis ATCC 43879', 'Pisolithus tinctorius Marx 270', 'Laceyella sacchari 1-1', 'Marichromatium purpuratum 984', 'Cavia aperea', 'Thermus scotoductus SA-01', 'Octopus bimaculoides', 'Clostridium algidicarnis', 'Aegilops tauschii', 'Candidatus Phytoplasma mali AT', 'Talaromyces marneffei ATCC 18224', 'Enterococcus casseliflavus EC20', 'Cryptococcus gattii EJB2', 'Heterorhabditis bacteriophora', 'Rhytidhysteron rufulum', 'Rhodococcus opacus', 'Methanosarcina siciliae C2J', 'Chaetomium globosum', 'Rhynchosporium secalis', 'Corynebacterium accolens ATCC 49725', 'Corynebacterium genitalium ATCC 33030', 'Corynebacterium jeikeium K411', 'Photobacterium damselae subsp. damselae CIP 102761', 'Streptomyces pristinaespiralis ATCC 25486', 'Corynebacterium pseudogenitalium ATCC 33035', 'Corynebacterium vitaeruminis DSM 20294', 'Gluconobacter frateurii NBRC 103465', 'Rhodococcus rhodnii LMG 5362', 'Shewanella algae JCM 14758', 'Bartonella henselae str. Houston-1', 'Erysipelothrix tonsillarum DSM 14972', 'Eragrostis curvula', 'Phascolarctos cinereus', 'Alligator sinensis', 'Panicum virgatum', 'Gopherus agassizii', 'Neolentinus lepideus HHB14362 ss-1', 'Micromonas pusilla', 'Fraxinus excelsior', 'Acholeplasma palmae J233', 'Methanococcus maripaludis C6', 'Tuber melanosporum Mel28', 'Faecalitalea cylindroides ATCC 27803', 'Agathobaculum desmolans ATCC 43058', 'Dorea formicigenerans 4_6_53AFAA', 'Anaerobutyricum hallii DSM 3353', 'Eubacterium ramulus ATCC 29099', 'Eubacterium ventriosum ATCC 27560', 'Eubacterium xylanophilum ATCC 35991', 'Mesorhizobium ciceri biovar biserrulae WSM1271', 'Cellvibrio mixtus subsp. mixtus J3-8', 'Methanosalsum zhilinae DSM 4017', 'Mayetiola destructor', 'Hydrogenovibrio crunogenus XCL-2', 'Sulfurimonas denitrificans DSM 1251', 'Blattabacterium sp. (Mastotermes darwiniensis) str. MADAR', 'Methylomicrobium album BG8', 'Veillonella atypica KON', 'Veillonella dispar ATCC 17748', 'Corynebacterium glucuronolyticum ATCC 51867', 'Erythrobacter litoralis HTCC2594', 'Legionella moravica DSM 19234', 'Hypsizygus marmoreus', 'Helcococcus kunzii ATCC 51366', 'Bipolaris victoriae FI3', 'Neurospora tetrasperma', 'Oligotropha carboxidovorans OM5', 'Oryza glumipatula', 'Oryza meridionalis', 'Monodon monoceros', 'Lonchura striata domestica', 'Fusarium avenaceum', 'Acinetobacter johnsonii SH046', 'Acinetobacter junii', 'Acinetobacter radioresistens SH164', 'Junco hyemalis', 'Aliivibrio salmonicida LFI1238', 'Penicillium italicum', 'Nosema ceranae BRL01', 'Streptomyces nodosus', 'Stenotrophomonas maltophilia K279a', 'Fonsecaea pedrosoi CBS 271.37', 'Acinetobacter sp. CIP-A165', 'Daedalea quercina L-15889', 'Fistulina hepatica ATCC 64428', 'Fomitopsis pinicola', 'Stereum hirsutum', 'Ruminococcus bromii L2-63', 'Ruminococcus callidus ATCC 27760', 'Blautia obeum ATCC 29174', 'Leptotrichia buccalis C-1013-b', 'Sutterella wadsworthensis HGA0223', 'Botrytis cinerea', 'Sporobolomyces roseus IAM 13481', 'Actinosynnema mirum DSM 43827', 'Lentzea albidocapillata', 'Xenorhabdus bovienii SS-2004', 'Xenorhabdus poinarii G6', 'Claviceps paspali', 'Claviceps fusiformis', 'Balansia obtecta', 'Thioploca ingrica', 'Borrelia duttonii Ly', 'Rhopalosiphum padi', 'Saccharomonospora azurea SZMC 14600', 'Saccharomonospora cyanea NA-134', 'Saccharomonospora glauca K62', 'Aspergillus carbonarius ITEM 5010', 'Elsinoe australis', 'Penicilliopsis zonata CBS 506.65', 'Ewingella americana ATCC 33852', 'Anopheles atroparvus', 'Seriola dumerili', 'Lomentospora prolificans', 'Bathycoccus prasinos', 'Candidatus Microthrix parvicella RN1', 'Amanita muscaria Koide BX008', 'Porphyromonas catoniae F0037', 'Enterococcus saccharolyticus subsp. saccharolyticus ATCC 43076', 'Drosophila bipectinata', 'Pneumocystis jirovecii SE8', 'Ureaplasma diversum NCTC 246', 'Phocoena sinus', 'Prunus avium', 'Streptomyces acidiscabies 84-104', 'Tuber magnatum', 'Tuber borchii', 'Desulfovibrio termitidis HI1', 'Sorex araneus', 'Rubrobacter radiotolerans', 'Phoenix dactylifera', 'Aciculosporium take MAFF-241224', 'Candida dubliniensis', 'Vittaforma corneae ATCC 50505', 'Halobacteroides halobius DSM 5150', 'Roseobacter litoralis Och 149', 'Lichtheimia corymbifera', 'Desulfofundulus thermocisternus DSM 10259', 'Pygocentrus nattereri', 'Halomonas salina', 'Streptomyces collinus Tu 365', 'Gelatoporia subvermispora B', 'Epichloe amarillans E57', 'Corynebacterium argentoratense DSM 44202', 'Ammonifex degensii KC4', 'Staphylococcus lentus F1142', 'Rickettsia felis URRWXCal2', 'Methanococcus aeolicus Nankai-3', 'Anopheles christyi', 'Tilletia indica', 'Sulfolobus islandicus REY15A', 'Rhopalosiphum maidis', 'Anopheles darlingi', 'Ictidomys tridecemlineatus', 'Capronia epimyces', 'Capronia coronata', 'Pseudomonas alcaligenes NBRC 14159', 'Butyrivibrio proteoclasticus P6B7', 'Prauserella rugosa', 'Kutzneria albida DSM 43870', 'Cathartes aura', 'Zosterops lateralis melanops', 'Halanaerobium saccharolyticum subsp. saccharolyticum DSM 6643', 'Pseudoalteromonas citrea DSM 8771', 'Pseudoalteromonas luteoviolacea B = ATCC 29581', 'Pseudoalteromonas rubra DSM 6842', 'Paenarthrobacter aurescens TC1', 'Brachybacterium faecium DSM 4810', 'Jonesia denitrificans DSM 20603', 'Rothia mucilaginosa DY-18', 'Metallosphaera sedula DSM 5348', 'Monopterus albus', 'Streptomyces wedmorensis', 'Corynebacterium amycolatum SK46', 'Rhodococcus hoagii 103S', 'Corynebacterium matruchotii ATCC 14266', 'Corynebacterium propinquum DSM 44285', 'Corynebacterium striatum ATCC 6940', 'Corynebacterium urealyticum DSM 7109', 'Tolumonas auensis DSM 9187', 'Johnsonella ignava ATCC 51276', 'Catonella morbi ATCC 51271', 'Caldicellulosiruptor saccharolyticus DSM 8903', 'Enterococcus cecorum DSM 20682 = ATCC 43198', 'Enterococcus dispar ATCC 51266', 'Ferrimonas balearica DSM 9799', 'Aureococcus anophagefferens', 'Streptomyces megasporus', 'Trichomonascus ciferrii', 'Paenibacillus alvei TS-15', 'Paenibacillus durus', 'Paenibacillus macerans', 'Bradyrhizobium oligotrophicum S58', 'Caldanaerobius polysaccharolyticus DSM 13641', 'Erythrura gouldiae', 'Zonotrichia albicollis', 'Eimeria mitis', 'Borrelia persica No12', 'Borrelia recurrentis A1', 'Natronococcus amylolyticus DSM 10524', 'Nitrosomonas cryotolerans ATCC 49181', 'Sulfurospirillum barnesii SES-3', 'Geothrix fermentans DSM 14018', 'Dictyostelium discoideum', 'Natronobacterium gregoryi SP2', 'Legionella fairfieldensis ATCC 49588', 'Legionella lansingensis DSM 19556 = ATCC 49751', 'Legionella shakespearei DSM 23087', 'Bipolaris sorokiniana', 'Pyrenophora tritici-repentis Pt-1C-BFP', 'Cyanidioschyzon merolae', 'Tolypocladium capitatum', 'Capnocytophaga granulosa ATCC 51502', 'Leucothrix mucor DSM 2157', 'Eremothecium cymbalariae', 'Eremothecium sinecaudum', 'Nematostella vectensis', 'Mycoplasma conjunctivae HRC/581', 'Mycoplasma bovoculi M165/69', 'Mycoplasma alkalescens 14918', 'Brevibacillus borstelensis 3096-7', 'Wickerhamiella sorbophila', 'Babjeviella inositovora NRRL Y-12698', 'Streptococcus cristatus AS 1.3089', 'Vibrio scophthalmi LMG 19158', 'Desulfohalobium retbaense DSM 5692', 'Nadsonia fulvescens', 'Butyrivibrio crossotus DSM 2876', 'Staphylococcus pasteuri SP1', 'Granulicatella adiacens ATCC 49175', 'Abiotrophia defectiva ATCC 49176', 'Staphylococcus chromogenes MU 970', 'Pseudobutyrivibrio ruminis CF1b', 'Anabaena sp. 90', 'Weissella hellenica', 'Pseudomonas avellanae BPIC 631', 'Mycolicibacterium hassiacum DSM 44199', 'Thermoanaerobacter wiegelii Rt8.B1', 'Spirochaeta africana DSM 8902', 'Sphingobium chlorophenolicum', 'Reticulomyxa filosa', 'Orenia marismortui DSM 5156', 'Parabacteroides merdae ATCC 43184', 'Bacteroides stercoris ATCC 43183', 'Thermosipho melanesiensis BI429', 'Suhomyces tanzawaensis', 'Aureobasidium melanogenum', 'Pseudomonas nitroreducens HBP1', 'Entamoeba dispar', 'Cenarchaeum symbiosum A', 'Dethiosulfovibrio peptidovorans DSM 11002', 'Desulfovibrio bastinii DSM 16055', 'Massilia timonae CCUG 45783', 'Neogobius melanostomus', 'Armillaria gallica', 'Armillaria ostoyae', 'Borrelia miyamotoi LB-2001', 'Rickettsia peacockii str. Rustic', 'Lautropia mirabilis ATCC 51599', 'Bacteroides caccae ATCC 43185', 'Mycoplasma alligatoris A21JP2', 'Lactobacillus rhamnosus GG', 'Streptomyces olivaceus', 'Bibersteinia trehalosi USDA-ARS-USMARC-189', 'Atkinsonella hypoxylon', 'Streptomyces sulphureus DSM 40104', 'Streptomyces lydicus', 'Lactobacillus crispatus ST1', 'Epichloe baconii ATCC 200745', 'Mycobacterium triplex', 'Micromonospora aurantiaca ATCC 27029', 'Pseudomonas amygdali pv. mori str. 301020', 'Pseudomonas corrugata CFBP 5454', 'Pseudomonas fulva 12-X', 'Pseudomonas synxantha BG33R', 'Pseudomonas luteola XLDN4-9', 'Serratia fonticola AU-AP2C', 'Vibrio cyclitrophicus FF75', 'Oreochromis aureus', 'Hyphomicrobium zavarzinii ATCC 27496', 'Acinetobacter pittii PHEA-2', 'Xanthomonas fragariae LMG 25863', 'Neolecta irregularis DAH-3', 'Penicillium freii', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Orchesella cincta', 'Geospiza fortis', 'Novosphingobium aromaticivorans DSM 12444', 'Sporisorium scitamineum', 'Candidatus Arthromitus sp. SFB-mouse-Japan', 'Kineosporia aurantiaca JCM 3230', 'Marinobacterium stanieri S30', 'Psychroserpens burtonensis DSM 12212', 'Rubrobacter xylanophilus DSM 9941', 'Desulfitobacterium hafniense Y51', 'Coffea canephora', 'Nicotiana attenuata', 'Holospora obtusa F1', 'Mycoplasma crocodyli MP145', 'Rhizobium sullae WSM1592', 'Thermoplasma volcanium GSS1', 'Charadrius vociferus', 'Pinctada fucata', 'Arabis alpina', 'Helicobacter trogontum', 'Actinobacillus minor NM305', 'Eubacterium saphenum ATCC 49989', 'Catagonus wagneri', 'Treponema maltophilum ATCC 51939', 'Ureibacillus thermosphaericus str. Thermo-BF', 'Syntrophobotulus glycolicus DSM 8271', 'Wigglesworthia glossinidia endosymbiont of Glossina morsitans morsitans (Yale colony)', 'Kluyvera ascorbata ATCC 33433', 'Eimeria brunetti', 'Eimeria praecox', 'Jaculus jaculus', 'Castor canadensis', 'Mycoplasma auris 15026', 'Mycoplasma yeatsii 13926', 'Trichoderma reesei', 'Ciona savignyi', 'Spraguea lophii 42_110', 'Haloarcula hispanica ATCC 33960', 'Kluyveromyces dobzhanskii CBS 2104', 'Nakaseomyces delphensis', 'Nakaseomyces bacillisporus', 'Tetragenococcus halophilus NBRC 12172', 'Tortispora caseinolytica', 'Meiothermus silvanus DSM 9946', 'Calidithermus chliarophilus DSM 9957', 'Acinetobacter venetianus RAG-1 = CIP 110063', 'Mitsuokella multacida DSM 20544', 'Prevotella dentalis DSM 3688', 'Lactobacillus gallinarum DSM 10532 = JCM 2011', 'Sarcoptes scabiei', 'Plasmodium inui San Antonio 1', 'Brachyspira pilosicoli 95/1000', 'Erysiphe necator', 'Sulfitobacter sp. EE-36', 'Sagittula stellata E-37', 'Haliaeetus leucocephalus', 'Bartonella alsatica IBS 382', 'Caldicellulosiruptor kristjanssonii I77R1B', 'Caldicellulosiruptor lactoaceticus 6A', 'Schaalia georgiae DSM 6843', 'Scophthalmus maximus', 'Desulfonatronovibrio hydrogenovorans DSM 9292', 'Desulfospira joergensenii DSM 10085', 'Enterococcus durans ATCC 6056', 'Enterococcus mundtii QU 25', 'Intrasporangium calvum DSM 43043', 'Brevibacterium mcbrellneri ATCC 49030', 'Hamadaea tsunoensis DSM 44101', 'Hyphomicrobium denitrificans 1NES1', 'Pseudomonas coronafaciens pv. oryzae str. 1_6', 'Pseudomonas resinovorans NBRC 106553', 'Xanthomonas axonopodis pv. vasculorum', 'Treponema lecithinolyticum ATCC 700332', 'Treponema socranskii subsp. socranskii VPI DR56BR1116 = ATCC 35536', 'Thermobrachium celere DSM 8682', 'Thermodesulfobacterium hveragerdense DSM 12571', 'Gordonia hirsuta DSM 44140 = NBRC 16056', 'Treponema paraluiscuniculi Cuniculi A', 'Nocardiopsis alba ATCC BAA-2165', 'Blautia hydrogenotrophica DSM 10507', 'Nakamurella multipartita DSM 44233', 'Mycolicibacterium mageritense DSM 44476 = CIP 104973', 'Pyrenophora teres', 'Sulfobacillus acidophilus TPY', 'Acidimicrobium ferrooxidans DSM 10331', 'Hanseniaspora valbyensis NRRL Y-1626', 'Octadecabacter arcticus 238', 'Pyrococcus horikoshii OT3', 'Peptoniphilus harei ACS-146-V-Sch2b', 'Pseudonocardia asaccharolytica DSM 44247 = NBRC 16224', 'Thermococcus zilligii AN1', 'Methanolacinia petrolearia DSM 11571', 'Pristionchus pacificus', 'Colobus angolensis palliatus', 'Ascoidea rubescens DSM 1968', 'Hyperthermus butylicus DSM 5456', 'Pyrolobus fumarii 1A', 'Thermosphaera aggregans DSM 11486', 'Ferroglobus placidus DSM 10642', 'Raoultella ornithinolytica B6', 'Chroococcidiopsis thermalis PCC 7203', 'Pleurocapsa sp. PCC 7327', 'Spirulina subsalsa PCC 9445', 'Mesitornis unicolor', 'Cariama cristata', 'Eurypyga helias', 'Streptomyces venezuelae ATCC 10712', 'Salmonella bongori N268-08', 'Streptococcus thoraltensis DSM 12221', 'Deinococcus proteolyticus MRP', 'Sciurus vulgaris', 'Flavobacterium branchiophilum FL-15', 'Epichloe elymi E56', 'Caldicellulosiruptor owensensis OL', 'Sediminispirochaeta smaragdinae DSM 11293', 'Pectobacterium betavasculorum', 'Ruegeria lacuscaerulensis ITI-1157', 'Thermonema rossianum DSM 10300', 'Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628', 'Pistacia vera', 'Magnetospirillum gryphiswaldense MSR-1 v2', 'Guillardia theta', 'Actinomyces graevenitzii C83', 'Dehalobacter restrictus DSM 9455', 'Vibrio anguillarum', 'Cuculus canorus', 'Thermococcus barophilus MP', 'Malurus cyaneus samueli', 'Streptomyces toyocaensis', 'Tyto alba', 'Hanseniaspora guilliermondii', 'Hanseniaspora osmophila', 'Bartonella clarridgeiae 73', 'Xanthomonas arboricola pv. celebensis', 'Xanthomonas cassavae CFBP 4642', 'Xanthomonas hortorum pv. carotae str. M081', 'Xanthomonas sacchari', 'Xanthomonas campestris pv. musacearum NCPPB 4379', 'Xanthomonas vesicatoria ATCC 35937', 'Protomyces lactucaedebilis', 'Aeropyrum pernix K1', 'Cottoperca gobio', 'Labrus bergylta', 'Rhizobium gallicum bv. gallicum R602sp', 'Rhizobium giardinii bv. giardinii H152', 'Eubacterium infirmum F0142', 'Glaciecola punicea ACAM 611', 'Shewanella frigidimarina NCIMB 400', 'Helicobacter bizzozeronii CIII-1', 'Afipia broomeae ATCC 49717', 'Thermus oshimai JL-2', 'Psychroflexus torquis ATCC 700755', 'Lactobacillus zeae DSM 20178 = KCTC 3804', 'Acanthisitta chloris', 'Mycoplasma suis str. Illinois', 'Apaloderma vittatum', 'Colius striatus', 'Merops nubicus', 'Trifolium pratense', 'Sulfurospirillum arcachonense DSM 9755', 'Rhizobium mongolense USDA 1844', 'Halomicrobium mukohataei DSM 12286', 'Enterococcus asini ATCC 700915', 'Fragaria vesca subsp. vesca', 'Burkholderia thailandensis MSMB43', 'Daktulosphaira vitifoliae', 'Spirillospora albida', 'Desulfofundulus kuznetsovii DSM 6115', 'Desulfofarcimen acetoxidans DSM 771', 'Desulfovibrio alaskensis G20', 'Treponema medium ATCC 700293', 'Archaeoglobus veneficus SNP6', 'Rhizopus microsporus', 'Streptomyces celluloflavus', 'Kitasatospora azatica KCTC 9699', 'Kitasatospora mediocidica KCTC 9733', 'Debaryomyces fabryi', 'Encephalitozoon intestinalis ATCC 50506', 'Trichoderma citrinoviride', 'Tilletiopsis washingtonensis', 'Rickettsiella grylli', 'Streptococcus macedonicus ACA-DC 198', 'Myotis lucifugus', 'Rhinolophus ferrumequinum', 'Actinotignum schaalii FB123-CNA-2', 'Pantholops hodgsonii', 'Corynespora cassiicola Philippines', 'Cellulophaga algicola DSM 14237', 'Desulfotomaculum reducens MI-1', 'Helicobacter rodentium ATCC 700285', 'Arabidopsis lyrata', 'Taeniopygia guttata', 'Candidatus Phytoplasma australiense', 'Alcanivorax borkumensis SK2', 'Angomonas deanei', 'Sphingomonas echinoides ATCC 14820', 'Paenibacillus alginolyticus DSM 5050 = NBRC 15375', 'Paenibacillus curdlanolyticus YK9', 'Paenibacillus peoriae KCTC 3763', 'Ficedula albicollis', 'Cyanobium gracile PCC 6307', 'Synechococcus sp. WH 7805', 'Prevotella pallens ATCC 700821', 'Penicillium polonicum', 'Penicillium solitum', 'Penicillium nalgiovense', 'Shewanella violacea DSS12', 'Shewanella amazonensis SB2B', 'Shewanella sp. MR-4', 'Shewanella sp. MR-7', 'Lactobacillus paraplantarum', 'Burkholderia vietnamiensis G4', 'Chlorocebus sabaeus', 'Halogeometricum borinquense DSM 11551', 'Phaeobacter gallaeciensis DSM 26640', 'Desulfobacca acetoxidans DSM 11109', 'Saccharopolyspora spinosa NRRL 18395', 'Sanguibacter keddieii DSM 10542', 'Shewanella woodyi ATCC 51908', 'Holdemania filiformis DSM 12042', 'Monilinia laxa', 'Varanus komodoensis', 'Ophiostoma piceae', 'Lynx canadensis', 'Dehalococcoides mccartyi 195', 'Coniosporium apollinis', 'Corynebacterium durum F0235', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Paenibacillus mucilaginosus KNP414', 'Acholeplasma brassicae', 'Enterobacter asburiae LF7a', 'Lelliottia amnigena CHS 78', 'Pluralibacter gergoviae', 'Amphilophus citrinellus', 'Nomascus leucogenys', 'Natronorubrum bangense JCM 10635', 'Hucho hucho', 'Borreliella valaisiana Tom4006', 'Acidiphilium multivorum AIU301', 'Haloterrigena turkmenica DSM 5511', 'Shewanella baltica OS117', 'Anopheles funestus', 'Saccharum spontaneum', 'Natronorubrum tibetense GA33', 'Calocera viscosa TUFC12733', 'Zobellia galactanivorans', 'Aquifex aeolicus VF5', 'Melanopsichium pennsylvanicum 4', 'Trichophyton benhamiae', 'Nannizzia gypsea CBS 118893', 'Microsporum canis CBS 113480', 'Trichophyton verrucosum', 'Trichophyton equinum', 'Desulfovibrio oxyclinae DSM 11498', 'Trichoderma atroviride', "Sodalis glossinidius str. 'morsitans'", 'Hydrogenovibrio kuenenii DSM 12350', 'Sideroxydans lithotrophicus ES-1', 'Demetria terragena DSM 11295', 'Nevskia ramosa DSM 11499', 'Bacillus pseudomycoides DSM 12442', 'Anabas testudineus', 'Desulfurobacterium thermolithotrophum DSM 11699', 'Podarcis muralis', 'Coleofasciculus chthonoplastes PCC 7420', 'Carnimonas nigrificans ATCC BAA-78', 'Dothistroma septosporum', 'Synechococcus sp. CC9311', 'Rhizopus oryzae', 'Mortierella alpina ATCC 32222', 'Lobosporangium transversale', 'Natrialba asiatica DSM 12278', 'Tetragenococcus muriaticus DSM 15685', 'Borreliella bissettii DN127', 'Terasakiella pusilla DSM 6293', 'Marinospirillum minutulum DSM 6287', 'Alcanivorax jadensis T9', 'Corynebacterium ulcerans BR-AD22', 'Pythium aphanidermatum DAOM BR444', 'Halothece sp. PCC 7418', 'Mycoplasma wenyonii str. Massachusetts', 'Oryza barthii', 'Actinoalloteichus cyanogriseus', 'Meiothermus cerbereus DSM 11376', 'Sulfurospirillum deleyianum DSM 6946', 'Desulfocapsa sulfexigens DSM 10523', 'Serendipita indica', 'Erwinia tracheiphila PSU-1', 'Pseudomonas knackmussii B13', 'Wolbachia sp. wRi', 'Lachnoclostridium phytofermentans ISDg', 'Gleimia europaea ACS-120-V-Col10b', 'Komagataeibacter intermedius AF2', 'Pantoea stewartii', 'Streptomyces niger', 'Streptomyces violens', 'Papilio xuthus', 'Streptomyces roseoverticillatus', 'Sulfurospirillum multivorans DSM 12446', 'Streptomyces afghaniensis 772', 'Streptomyces atroolivaceus', 'Streptomyces bicolor', 'Streptomyces catenulae', 'Streptomyces griseorubens', 'Trypanosoma theileri', 'Streptomyces alboflavus', 'Streptomyces aureocirculatus', 'Streptomyces filamentosus NRRL 15998', 'Streptomyces flavidovirens DSM 40150', 'Streptomyces lavenduligriseus', 'Streptomyces mutabilis', 'Kitasatospora purpeofusca', 'Streptomyces resistomycificus', 'Streptomyces varsoviensis', 'Rheinheimera baltica DSM 14885', 'Streptomyces viridosporus ATCC 14672', 'Phytophthora sojae', 'Methanocaldococcus infernus ME', 'Edwardsiella ictaluri 93-146', 'Citrobacter farmeri GTC 1319', 'Citrobacter rodentium ICC168', 'Citrobacter sedlakii NBRC 105722', 'Actinobacillus succinogenes 130Z', 'Lentzea aerocolonigenes', 'Streptomyces cyaneogriseus subsp. noncyanogenus', 'Streptomyces durhamensis', 'Streptomyces flavochromogenes', 'Streptomyces fulvissimus DSM 40593', 'Streptomyces griseoaurantiacus M045', 'Streptomyces iakyrus', 'Streptomyces katrae', 'Streptomyces pyridomyceticus', 'Streptomyces violaceusniger Tu 4113', 'Moschus moschiferus', 'Streptomyces albulus', 'Sphaerobolus stellatus SS14', 'Scleroderma citrinum Foug A', 'Rasamsonia emersonii CBS 393.64', 'Theileria orientalis', 'Streptococcus peroris ATCC 700780', 'Streptococcus infantis SK970', 'Deinococcus geothermalis DSM 11300', 'Anopheles farauti', 'Synechococcus sp. WH 5701', 'Enterobacter cancerogenus ATCC 35316', 'Dickeya paradisiaca Ech703', 'Aquamicrobium defluvii', 'Gasterosteus aculeatus', 'Microplitis demolitor', 'Pseudomonas sp. VLB120', 'Chara braunii', 'Caulobacter henricii', 'Petrotoga mobilis SJ95', 'Natrinema pellirubrum DSM 15624', 'Natrinema pallidum DSM 3751', 'Treponema vincentii ATCC 35580', 'Penicillium oxalicum 114-2', 'Selenomonas sputigena ATCC 35185', 'Trichophyton soudanense CBS 452.61', 'Macrococcus caseolyticus JCSC5402', 'Ostreococcus tauri', 'Edhazardia aedis USNM 41457', 'Pyrobaculum neutrophilum V24Sta', 'Pseudomonas plecoglossicida NB2011', 'Nodularia spumigena CCY9414', 'Shewanella oneidensis MR-1', 'Shewanella pealeana ATCC 700345', 'Flexithrix dorotheae DSM 6795', 'Lewinella cohaerens DSM 23179', 'Lewinella persica DSM 23188', 'Eucalyptus grandis', 'Paxillus involutus ATCC 200175', 'Staphylococcus vitulinus F1028', 'Vibrio halioticoli NBRC 102217', 'Mesorhizobium amorphae CCNWGS0123', 'Enterococcus malodoratus ATCC 43197', 'Enterococcus raffinosus ATCC 49464', 'Tolypocladium ophioglossoides CBS 100239', 'Lonsdalea quercina subsp. quercina', 'Waddlia chondrophila WSU 86-1044', 'Naematelia encephala', 'Hypholoma sublateritium FD-334 SS-4', 'Kocuria rhizophila P7-4', 'Bos mutus', 'Sphaeroforma arctica JP610', 'Thielaviopsis punctulata', 'Lepeophtheirus salmonis', 'Citromicrobium bathyomarinum JL354', 'Ophiocordyceps sinensis', 'Trachipleistophora hominis', 'Bacillus mojavensis RO-H-1 = KCTC 3706', 'Drosophila austrosaltans', 'Drosophila lusaltans', 'Drosophila milleri', 'Nannochloropsis gaditana CCMP526', 'Achromobacter piechaudii HLE', 'Sporisorium reilianum', 'Boechera stricta', 'Eutrema salsugineum', 'Dechloromonas agitata is5', 'Streptomyces seoulensis', 'Thiocystis violascens DSM 198', 'Emmonsia crescens UAMH 3008', 'Cordyceps militaris', 'Piromyces sp. E2', 'Methanocaldococcus vulcanius M7', 'Thermaerobacter marianensis DSM 12885', 'Photobacterium profundum SS9', 'Brevundimonas bacteroides DSM 4726', 'Brevundimonas subvibrioides ATCC 15264', 'Maricaulis maris MCS10', 'Hyphomonas polymorpha PS728', 'Sulfitobacter guttiformis KCTC 32187', 'Thraustotheca clavata', 'Rosa chinensis', 'Stachybotrys chartarum IBT 7711', 'Pseudomonas balearica DSM 6083', 'Anopheles maculatus', 'Anopheles sinensis', 'Oncorhynchus tshawytscha', 'Paraburkholderia caribensis MBA4', 'Saccharomonospora xinjiangensis XJ-54', 'Sinocyclocheilus grahami', 'Pseudomonas mandelii PD30', 'Castellaniella defragrans 65Phen', 'Anas zonorhyncha', 'Thermocrinis ruber DSM 12173', 'Mycolicibacterium tusciae JS617', 'Mannheimia haemolytica M42548', 'Thauera linaloolentis 47Lol = DSM 12138', 'Thauera terpenica 58Eu', 'Alloprevotella tannerae ATCC 51259', 'Prevotella enoeca JCM 12259', 'Vibrio rumoiensis 1S-45', 'Campylobacter hominis ATCC BAA-381', 'Cellulophaga baltica 13', 'Mycetocola saprophilus', 'Streptomyces vitaminophilus DSM 41686', 'Sinorhizobium arboris LMG 14919', 'Pseudomonas monteilii SB3078', 'Malassezia globosa CBS 7966', 'Malassezia sympodialis ATCC 42132', 'Myroides odoratimimus H1bi', 'Solibacillus silvestris StLB046', 'Streptococcus constellatus subsp. pharyngis SK1060 = CCUG 46377', 'Hebeloma cylindrosporum h7', 'Caldivirga maquilingensis IC-167', 'Asticcacaulis biprosthecum C19', 'Sphingobium herbicidovorans NBRC 16415', 'Malassezia pachydermatis', 'Cylindrospermopsis raciborskii CS-505', 'Wolbachia endosymbiont of Drosophila simulans wNo', 'Rosellinia necatrix', 'Sclerotinia borealis F-4128', 'Dendroctonus ponderosae', 'Plasmodium gonderi', 'Leersia perrieri', 'Bifidobacterium subtile', 'Prevotella albensis DSM 11370 = JCM 12258', 'Succinispira mobilis DSM 6222', 'Oidiodendron maius', 'Parascardovia denticolens DSM 10105 = JCM 12538', 'Scardovia inopinata F0304', 'Pseudomonas mosselii SJ10', 'Mycobacterium canettii CIPT 140070017', 'Bifidobacterium gallicum DSM 20093 = LMG 11596', 'Bifidobacterium gallinarum', 'Bifidobacterium merycicum', 'Bifidobacterium ruminantium', 'Streptomyces somaliensis DSM 40738', 'Pectobacterium odoriferum', 'Neonectria ditissima', 'Bifidobacterium pullorum DSM 20433', 'Rhizobium undicola ORS 992 = ATCC 700741', 'Thermothelomyces thermophilus', 'Asticcacaulis excentricus CB 48', 'Podila verticillata', 'Desulfosporosinus meridiei DSM 13257', 'Chitinophaga pinensis DSM 2588', 'Epichloe brachyelytri', 'Microtus ochrogaster', 'Cimex lectularius', 'Bacillus clausii KSM-K16', 'Bacillus pseudofirmus OF4', 'Erwinia pyrifoliae Ep1/96', 'Coniophora puteana', 'Piloderma croceum F 1598', 'Thioflavicoccus mobilis 8321', 'Aphis gossypii', 'Haliangium ochraceum DSM 14365', 'Wolbachia endosymbiont strain TRS of Brugia malayi', 'Aliivibrio wodanis', 'Moritella viscosa', 'Delftia acidovorans SPH-1', 'Acidovorax avenae subsp. avenae ATCC 19860', 'Acidovorax citrulli AAC00-1', 'Cryptosporangium arvum DSM 44712', 'Hylemonella gracilis str. Niagara R', 'Simplicispira psychrophila DSM 11588', 'Colletotrichum higginsianum', 'Acanthochromis polyacanthus', 'Amphiprion ocellaris', 'Treponema brennaborense DSM 12168', 'Hyphomonas adhaerens MHS-3', 'Hyphomonas johnsonii MHS-2', 'Hyphomonas neptunium ATCC 15444', 'Hyphomonas oceanitis SCH89', 'Wolfiporia cocos MD-104 SS10', 'Desulfovibrio alcoholivorans DSM 5433', 'Parageobacillus caldoxylosilyticus CIC9', 'Aminomonas paucivorans DSM 12260', 'Desulfovibrio aminophilus DSM 12254', 'Thermanaerovibrio acidaminovorans DSM 6589', 'Aminobacterium mobile DSM 12262', 'Aminobacterium colombiense DSM 12261', 'Frateuria aurantia DSM 6220', 'Monosiga brevicollis', 'Kitasatospora cheerisanensis KCTC 2395', 'Vagococcus lutrae LBD1', 'Arabidopsis halleri subsp. gemmifera', 'Capsella rubella', 'Picrophilus torridus DSM 9790', 'Atopobium vaginae DSM 15829', 'Centipeda periodontii DSM 2778', 'Phlebiopsis gigantea 11061_1 CR5-6', 'Facklamia languida CCUG 37842', 'Paracoccus pantotrophus J46', 'Anaerovibrio lipolyticus LB2005', 'Anaeroarcus burkinensis DSM 6283', 'Trichosporon asahii', 'Pseudanabaena sp. PCC 7367', 'Streptococcus ovis DSM 16829', 'Pythium arrhenomanes ATCC 12531', 'Buttiauxella agrestis ATCC 33320', 'Budvicia aquatica DSM 5075 = ATCC 35567', 'Leminorella grimontii ATCC 33999 = DSM 5078', 'Tatumella ptyseos ATCC 33301', 'Serratia grimesii', 'Serratia plymuthica', 'Methanocaldococcus fervens AG86', 'Sulfitobacter mediterraneus', 'Prevotella brevis P6B11', 'Gordonia rhizosphera NBRC 16068', 'Myxococcus stipitatus DSM 14675', 'Linepithema humile', 'Parachlamydia acanthamoebae UV-7', 'Chlamydia psittaci 10_1398_11', 'Chlamydia abortus S26/3', 'Chlamydia felis Fe/C-56', 'Chlamydia caviae GPIC', 'Chlamydia pneumoniae TW-183', 'Chlamydia suis MD56', 'Chlamydia muridarum str. Nigg', 'Simkania negevensis Z', 'Leclercia adecarboxylata ATCC 23216 = NBRC 102595', 'Lactobacillus amylolyticus DSM 11664', 'Succinimonas amylolytica DSM 2873', 'Succinivibrio dextrinosolvens H5', 'Methanobrevibacter ruminantium M1', 'Trypanosoma conorhini', 'Methanocorpusculum labreanum Z', 'Methanoculleus bourgensis MS2', 'Clostridium autoethanogenum DSM 10061', 'Clostridium haemolyticum NCTC 9693', 'Gordonia alkanivorans NBRC 16433', 'Slackia exigua ATCC 700122', 'Slackia heliotrinireducens DSM 20476', 'Eggerthella lenta DSM 2243', 'Gemella sanguinis M325', 'Gemella bergeri ATCC 700627', 'Archaeoglobus profundus DSM 5631', 'Magnetospirillum magneticum AMB-1', 'Cryptobacterium curtum DSM 15641', 'Brachyspira intermedia PWS/A', 'Brachyspira murdochii DSM 12563', 'Hippea maritima DSM 10411', 'Lysobacter antibioticus', 'Synechococcus sp. WH 8102', 'Taylorella asinigenitalis MCE3', 'Gordonia polyisoprenivorans VH2', 'Staphylothermus hellenicus DSM 12710', 'Candidatus Odyssella thessalonicensis L13', 'Anthracocystis flocculosa', 'Moesziomyces antarcticus', 'Moesziomyces aphidis DSM 70725', 'Beutenbergia cavernae DSM 12333', 'Desulfotalea psychrophila LSv54', 'Corvus brachyrhynchos', 'Pseudarthrobacter chlorophenolicus A6', 'Clogmia albipunctata', 'Mannheimia varigena USDA-ARS-USMARC-1296', 'Plasmodium relictum', 'Thauera sp. MZ1T', 'Citrus clementina', 'Triticum dicoccoides', 'Achromobacter xylosoxidans A8', 'Bartonella tribocorum CIP 105476', 'Thermacetogenium phaeum DSM 12270', 'Sphaerulina musiva', 'Serpula lacrymans', 'Chlamydia pecorum E58', 'Cladophialophora carrionii', 'Rhinocladiella mackenziei CBS 650.93', 'Arenibacter latericius DSM 15913', 'Syntrophothermus lipocalidus DSM 12680', 'Phaseolibacter flectens ATCC 12775', 'Saccharophagus degradans 2-40', 'Mycoplasma dispar', 'Bacillus flexus T6186-2', 'Bacillus halodurans C-125', 'Propionispira raffinosivorans DSM 20765', 'Camarhynchus parvulus', 'Facklamia sourekii ATCC 700629', 'Burkholderia multivorans ATCC 17616', 'Selaginella moellendorffii', 'Treponema primitia ZAS-2', 'Eremococcus coleocola DSM 15696', 'Thermus igniterrae ATCC 700962', 'Thermus antranikianii DSM 12462', 'Dorea longicatena AGR2136', 'Cyclospora cayetanensis', 'Megaselia abdita', 'Caulobacter segnis ATCC 21756', 'Ceratocystis platani', 'Borreliella spielmanii A14S', 'Streptomyces yeochonensis CN732', 'Gordonia amicalis CCMA-559', 'Corynebacterium terpenotabidum Y-11', 'Ruegeria pomeroyi DSS-3', 'Laccaria amethystina LaAM-08-1', 'Bubalus bubalis', 'Cladophialophora bantiana CBS 173.52', 'Moraxella caprae DSM 19149', 'Oligella ureolytica DSM 18253', 'Oligella urethralis DNF00040', 'Absidia repens', 'Camelina sativa', 'Moritella marina ATCC 15381', 'Hydrogenovibrio sp. Milos-T1', 'Thiomicrorhabdus sp. Milos-T2', 'Enterovibrio calviensis 1F-211', 'Polistes canadensis', 'Synechococcus sp. PCC 7335', 'Aspergillus udagawae', 'Candidatus Paracaedibacter acanthamoebae', 'Mucor ambiguus', 'Candidatus Portiera aleyrodidarum BT-QVLC', 'Exophiala spinifera', 'Hortaea werneckii', 'Catharus ustulatus', 'Bartonella koehlerae C-29', 'Thiomicrospira aerophila AL3', 'Metarhizium album ARSEF 1941', 'Metarhizium acridum CQMa 102', 'Herbaspirillum frisingense GSF30', 'Fischerella muscicola PCC 7414', 'Ketogulonicigenium vulgare WSH-001', 'Pandoraea apista', 'Pandoraea pnomenusa', 'Pandoraea pulmonicola', 'Pandoraea sputorum', 'Pseudaminobacter salicylatoxidans KCT001', 'Edwardsiella hoshinae NBRC 105699 = ATCC 33379', 'Fervidobacterium pennivorans DSM 9078', 'Exserohilum turcicum', 'Roseivivax halodurans JCM 10272', 'Myzus cerasi', 'Thermotoga petrophila RKU-1', 'Thermotoga naphthophila RKU-10', 'Coturnix japonica', 'Cryptosporidium meleagridis', 'Thermicanus aegyptius DSM 12793', 'Shewanella sp. ANA-3', 'Rhizophagus clarus', 'Ramlibacter tataouinensis TTB310', 'Tolypocladium paradoxum', 'Mola mola', 'Dyadobacter fermentans DSM 18053', 'Bordetella petrii', 'Ochrobactrum intermedium LMG 3301', 'Besnoitia besnoiti', 'Desulfurococcus amylolyticus 1221n', 'Gavialis gangeticus', 'Helicobacter pametensis ATCC 51478', 'Burkholderia cenocepacia J2315', 'Pseudomonas sp. M1', 'Legionella fallonii LLAP-10', 'Flavobacterium psychrophilum JIP02/86', 'Salvator merianae', 'Lactobacillus hamsteri DSM 5661 = JCM 6256', 'Halobacteriovorax marinus SJ', 'Eutypa lata', 'Phaethon lepturus', 'Lactobacillus sp. ASF360', 'Clostridium sp. MD294', 'Eubacterium plexicaudatum ASF492', 'Ferroplasma acidarmanus fer1', 'Acetomicrobium mobile DSM 13181', 'Lactobacillus mucosae LM1', 'Periconia macrospinosa', 'Bacillus sp. OxB-1', 'Drechmeria coniospora', 'Mycolicibacterium septicum DSM 44393', 'Phlebia centrifuga', 'Pyrobaculum oguniense TE7', 'Hammondia hammondi', 'Flavobacterium frigidarium DSM 17623', 'Calothrix sp. PCC 7507', 'Spermophilus dauricus', 'Tetraodon nigroviridis', 'Austwickia chelonae NBRC 105200', 'Onion yellows phytoplasma', 'Chloroherpeton thalassium ATCC 35110', 'Verticillium longisporum', 'Madurella mycetomatis', 'Falco tinnunculus', 'Wolbachia endosymbiont of Onchocerca ochengi', 'Fusarium pseudograminearum CS3096', 'Choanephora cucurbitarum', 'Hesseltinella vesiculosa', 'Bipolaris oryzae', 'Methanomethylovorans hollandica DSM 15978', 'Trichoderma asperellum CBS 433.97', 'Saprolegnia parasitica CBS 223.65', 'Aequorivita sublithincola DSM 14238', 'Trichophyton interdigitale H6', 'Candidatus Blochmannia pennsylvanicus str. BPEN', 'Burkholderia ubonensis MSMB22', 'Tetrasphaera elongata Lp2', 'Glarea lozoyensis ATCC 20868', 'Prunus mume', 'Stanieria cyanosphaera PCC 7437', 'Xenococcus sp. PCC 7305', 'Leptolyngbya sp. PCC 7375', 'Desulfallas gibsoniae DSM 7213', 'Solobacterium moorei DSM 22971', 'Gloeocapsa sp. PCC 73106', 'Cyanobacterium stanieri PCC 7202', 'Streptococcus infantarius subsp. infantarius CJ18', 'Proteus penneri ATCC 35198', 'Streptococcus didelphis DSM 15616', 'Acromyrmex echinatior', 'Vavraia culicis subsp. floridensis', 'Gleimia coleocanis DSM 15436', 'Actinomyces urogenitalis DSM 15434', 'Nostoc sp. PCC 7120 = FACHB-418', 'Pogona vitticeps', 'Saccharothrix espanaensis DSM 44229', 'Saccharothrix syringae', 'Riemerella columbina DSM 16469', 'Rhodococcus pyridinivorans SB3094', 'Bordetella hinzii ATCC 51730', 'Oscillochloris trichoides DG-6', 'Penicillium brasilianum', 'Postia placenta Mad-698-R', 'Gloeophyllum trabeum', 'Camponotus floridanus', 'Serratia sp. ATCC 39006', 'Helicobacter suis HS1', 'Cryptococcus amylolentus', 'Adineta vaga', 'Nothobranchius furzeri', 'Ralstonia mannitolilytica', 'Streptacidiphilus neutrinimicus', 'Streptacidiphilus carbonis', 'Streptacidiphilus albus', 'Desulfohalotomaculum alkaliphilum DSM 12257', 'Valsa mali var. pyri', 'Methylibium petroleiphilum PM1', 'Epicoccum nigrum', 'Cryptotermes secundus', 'Anaerostipes caccae DSM 14662', 'Leucosporidium creatinivorum', 'Frankia casuarinae', 'Thermoanaerobacter siderophilus SR4', 'Maylandia zebra', 'Pseudoflavonifractor capillosus ATCC 29799', 'Cupriavidus necator H16', 'Ensifer adhaerens OV14', 'Acinetobacter bereziniae', 'Acinetobacter guillouiae NIPH 991', 'Acinetobacter sp. RUH2624', 'Chelonoidis abingdonii', 'Tenacibaculum maritimum NCIMB 2154', 'Methylosinus sp. LW3', 'Methylosinus sp. PW1', 'Opitutus terrae PB90-1', 'Thermanaerovibrio velox DSM 12556', 'Thermoanaerobacter italicus Ab9', 'Corynebacterium falsenii DSM 44353', 'Coprothermobacter platensis DSM 11748', 'Acinetobacter ursingii DSM 16037 = CIP 107286', 'Acinetobacter schindleri NIPH 900', 'Rickettsia monacensis', 'Hippocampus comes', 'Anaerovorax odorimutans DSM 5092', 'Leptotrichia trevisanii DSM 22070', 'Varroa destructor', 'Myotis brandtii', 'Galerina marginata CBS 339.88', 'Spizellomyces punctatus', 'Lactobacillus jensenii 115-3-CHN', 'Batrachochytrium dendrobatidis JAM81', 'Catenaria anguillulae PL171', 'Serendipita vermifera MAFF 305830', 'Nocardioides sp. CF8', 'Sinorhizobium medicae WSM419', 'Gregarina niphandrodes', 'Pelotomaculum thermopropionicum SI', 'Mycolicibacterium vanbaalenii PYR-1', 'Synechococcus sp. CC9605', 'Synechococcus sp. CC9616', 'Eragrostis tef', 'Porphyromonas gulae', 'Muricauda ruestringensis DSM 13258', 'Bartonella birtlesii E11', 'Kineosphaera limosa NBRC 100340', 'Leptolyngbya sp. PCC 7376', 'Sulfurisphaera tokodaii str. 7', 'Ignatzschineria larvae DSM 13226', 'Aphanomyces astaci', 'Saprolegnia diclina', 'Anopheles minimus', 'Ramularia collo-cygni', 'Enterococcus villorum ATCC 700913', 'Streptococcus australis ATCC 700641', 'Pseudocercospora musae', 'Pseudoramibacter alactolyticus ATCC 23263', 'Melitaea cinxia', 'Bradyrhizobium sp. Tv2a-2', 'Scleropages formosus', 'Actinoplanes globisporus DSM 43857', 'Tetrapisispora phaffii CBS 4417', 'Geoglobus ahangari', 'Dichomitus squalens LYAD-421 SS1', 'Candidatus Carsonella ruddii DC', 'Cordyceps fumosorosea ARSEF 2679', 'Saccharomyces kudriavzevii', 'Saccharomyces mikatae', 'Bradyrhizobium sp. ORS 278', 'Methylobacterium nodulans ORS 2060', 'Alkaliphilus transvaalensis ATCC 700919', 'Streptococcus orisratti DSM 15617', 'Streptomyces auratus AGR0001', 'Mycoplasmopsis columbinum SF7', 'Phoronis australis', 'Globisporangium iwayamae', 'Coprococcus catus GD/7', 'Lactobacillus psittaci DSM 15354', 'Cryptosporidium andersoni', 'Tilletia walkeri', 'Fusarium verticillioides', 'Sphingopyxis alaskensis RB2256', 'Denitrovibrio acetiphilus DSM 12809', 'Pleurocapsa sp. PCC 7319', 'Pseudanabaena sp. PCC 6802', 'Picoides pubescens', 'Beauveria brongniartii RCEF 3172', 'Oscillatoria acuminata PCC 6304', 'Arthrospira platensis NIES-39', 'Nicotiana noctiflora var. noctiflora', 'Bulleidia extructa W1219', 'Lipotes vexillifer', 'Cupriavidus metallidurans CH34', 'Pseudothermotoga thermarum DSM 5069', 'Syntrophobacter fumaroxidans MPOB', 'Microcoleus vaginatus FGP-2', 'Bacillus sonorensis L12', 'Marinomonas mediterranea MMB-1', 'Ustilago hordei Uh4857-4', 'Brucella pinnipedialis B2/94', 'Brucella ceti M644/93/1', 'Roseiflexus castenholzii DSM 13941', 'Ferrimicrobium acidiphilum DSM 19497', 'Helicocarpus griseus UAMH5409', 'Schaalia suimastitidis DSM 15538', 'Pediculus humanus corporis', 'Pyrobaculum arsenaticum DSM 13514', 'Sphingobium xenophagum QYY', 'Tauraco erythrolophus', 'Pannonibacter phragmitetus DSM 14782', 'Photobacterium sp. SKA34', 'Paracoccidioides brasiliensis', 'Diaphorina citri', 'Pseudomonas psychrophila HA-4', 'Cercospora beticola', 'Alicyclobacillus herbarius DSM 13609', 'Oryzias javanicus', 'Helicobacter canadensis MIT 98-5491', 'Bordetella trematum', 'Nocardiopsis xinjiangensis YIM 90004', 'Thiolinea disciformis DSM 14473', 'Thiofilum flexile DSM 14609', 'Drosophila biarmipes', 'Halodesulfovibrio aestuarii DSM 10141', 'Providencia alcalifaciens DSM 30120', 'Thermotoga sp. RQ7', 'Thermotoga sp. RQ2', 'Strigamia maritima', 'Nipponia nippon', 'Catelliglobosispora koreensis DSM 44566', 'Drosophila santomea', 'Phytophthora lateralis MPF4', 'Arthrospira maxima CS-328', 'Carboxydothermus hydrogenoformans Z-2901', 'Halobiforma nitratireducens JCM 10879', 'Galdieria sulphuraria', 'Corynebacterium capitovis DSM 44611', 'Schaalia turicensis ACS-279-V-Col4', 'Thiomicrorhabdus arctica DSM 13458', 'Kineococcus radiotolerans SRS30216 = ATCC BAA-149', 'Bombus impatiens', 'Candidatus Glomeribacter gigasporarum BEG34', 'Nocardia veterana NBRC 100344', 'Anser brachyrhynchus', 'Pteropus vampyrus', 'Rhodococcus jostii RHA1', 'Exiguobacterium antarcticum B7', 'Citrobacter youngae ATCC 29220', 'Caldilinea aerophila DSM 14535 = NBRC 104270', 'Nitrosococcus halophilus Nc 4', 'Methylocapsa acidiphila B2', 'Frankliniella occidentalis', 'Leisingera methylohalidivorans DSM 14336', 'Olsenella uli DSM 7084', 'Phytomonas sp. isolate EM1', 'Phytomonas sp. isolate Hart1', 'Corynebacterium freneyi DNF00450', 'Acinetobacter parvus NIPH 1103', 'Acinetobacter gyllenbergii NIPH 230', 'Paraburkholderia fungorum', 'Ministeria vibrans', 'Actinoplanes sp. SE50/110', 'Ureaplasma parvum serovar 3 str. ATCC 27815', 'Selenomonas flueggei ATCC 43531', 'Selenomonas infelix ATCC 43532', 'Selenomonas noxia ATCC 43541', 'Paenibacillus daejeonensis DSM 15491', 'Nocardia cyriacigeorgica GUH-2', 'Geobacillus vulcani PSS1', 'Idiomarina loihiensis L2TR', 'Caenorhabditis brenneri', 'Bacillus endophyticus 2102', 'Zootermopsis nevadensis', 'Thermocrinis albus DSM 14484', 'Knoellia sinensis KCTC 19936', 'Mycoplasma haemocanis str. Illinois', 'Kocuria polaris', 'Atopobacter phocae ATCC BAA-285', 'Leuconostoc kimchii IMSNU 11154', 'Methylosinus sp. LW4', 'Weissella cibaria KACC 11862', 'Facklamia ignava CCUG 37419', 'Granulicatella elegans ATCC 700633', 'Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)', 'Candidatus Regiella insecticola LSR1', "Serratia symbiotica str. 'Cinara cedri'", 'Blastococcus saxobsidens DD2', 'Helicobacter cetorum MIT 00-7128', 'Olsenella profusa F0195', 'Sistotremastrum niveocremeum HHB9708', 'Isoptericola variabilis 225', 'Plicaturopsis crispa FD-325 SS-3', 'Teleopsis dalmanni', 'Anopheles culicifacies', 'Shimazuella kribbensis DSM 45090', 'Lachnobacterium bovis', 'Nicotiana cordifolia', 'Candidatus Mycoplasma haemolamae str. Purdue', 'Nocardiopsis kunsanensis DSM 44524', 'Cylindrospermum stagnale PCC 7417', 'Desulfitobacterium metallireducens DSM 15288', 'Zobellia uliginosa', 'Filifactor alocis ATCC 35896', 'Eubacterium sulci ATCC 35585', 'Diuraphis noxia', 'Sipha flava', 'Pogonomyrmex barbatus', 'Mobiluncus holmesii ATCC 35242', 'Leifsonia aquatica H1aii', 'Stegastes partitus', 'Methanothermobacter thermautotrophicus str. Delta H', 'Methanothermobacter marburgensis str. Marburg', 'Rathayibacter toxicus DSM 7488', 'Thermosynechococcus elongatus BP-1', 'Halorhabdus utahensis DSM 12940', 'Pseudoloma neurophilia', 'Salinibacter ruber DSM 13855', 'Streptomyces griseofuscus', 'Azovibrio restrictus DSM 23866', 'Azospira oryzae PS', 'Collinsella stercoris DSM 13279', 'Collinsella intestinalis DSM 13280', 'Agrobacterium albertimagni AOL15', 'Thiomicrospira cyclica ALM1', 'Limnospira indica PCC 8005', 'Paracoccus yeei ATCC BAA-599', 'Carnobacterium inhibens subsp. gilichinskyi', 'Lactobacillus iners AB-1', 'Magnaporthiopsis poae', 'Pyricularia grisea', 'Paraburkholderia phymatum STM815', 'Lactobacillus ingluviei str. Autruche 4', 'Sulfuricurvum kujiense DSM 16994', 'Lactobacillus kunkeei', 'Wallemia sebi', 'Streptococcus urinalis 2285-97', 'Phialocephala scopiformis', 'Marinitoga piezophila KA3', 'Streptococcus lutetiensis 033', 'Halonatronum saccharophilum DSM 13868', 'Gemella cuniculi DSM 15828', 'Sporothrix insectorum RCEF 264', 'Escovopsis weberi', 'Pseudomonas sp. MT-1', 'Treponema azotonutricium ZAS-9', 'Pseudoalteromonas ruthenica CP76', 'Bacteroides coprosuis DSM 18011', 'Afipia birgiae 34632', 'Xenophilus azovorans DSM 13620', 'Pseudopedobacter saltans DSM 12145', 'Chloroflexus aggregans DSM 9485', 'Lactobacillus suebicus DSM 5007 = KCTC 3549', 'Thioalkalivibrio thiocyanoxidans ARh 4', 'Burkholderia ambifaria AMMD', 'Burkholderia dolosa PC543', 'Sphingomonas melonis DAPP-PG 224', 'Corynebacterium efficiens YS-314', 'Desulforegula conservatrix Mb1Pa', 'Oceanicaulis alexandrii DSM 11625', 'Alysiella crassa DSM 2578', 'Conchiformibius steedae DSM 2580', 'Kozakia baliensis', 'Moniliophthora perniciosa FA553', 'Sporocytophaga myxococcoides', 'Nitrosomonas sp. AL212', 'Hungatella hathewayi DSM 13479', 'Turicibacter sanguinis PC909', 'Thiorhodospira sibirica ATCC 700588', 'Trametes pubescens', 'Enterococcus phoeniculicola ATCC BAA-412', 'Cellvibrio japonicus Ueda107', 'Bartonella bovis 91-4', 'Bacillus toyonensis BCT-7112', 'Gallibacterium genomosp. 1', 'Enterococcus moraviensis ATCC BAA-383', 'Enterococcus haemoperoxidus ATCC BAA-382', 'Streptococcus entericus DSM 14446', 'Methanothermococcus okinawensis IH1', 'Caulobacter vibrioides NA1000', 'Actinokineospora enzanensis DSM 44649', 'Acaryochloris marina MBIC11017', 'Anaeroglobus geminatus F0357', 'Tulasnella calospora MUT 4182', 'Cyanistes caeruleus', 'Alteromonadales bacterium TW-7', 'Flavobacteria bacterium BBFL7', 'Dysgonomonas gadei ATCC BAA-286', 'Corynebacterium imitans', 'Aphanomyces invadans', 'Jeotgalicoccus psychrophilus DSM 19085', 'Helicobacter winghamensis ATCC BAA-430', 'Leptomonas pyrrhocoris', 'Leptotrichia wadei F0279', 'Leptotrichia hofstadii F0254', 'Leptotrichia shahii DSM 19757', 'Leptotrichia goodfellowii F0264', 'Pseudomonas parafulva NBRC 16636 = DSM 17004', 'Pseudomonas cremoricolorata', 'Vigna radiata var. radiata', 'Phaeomoniella chlamydospora', 'Chromohalobacter salexigens DSM 3043', 'Hahella chejuensis KCTC 2396', 'Folsomia candida', 'Betta splendens', 'Cedecea davisae DSM 4568', 'Novosphingobium resinovorum', 'Trametes coccinea BRFM310', 'Diaporthe helianthi', 'Bifidobacterium scardovii', 'Terrapene carolina triunguis', 'Cedecea neteri', 'Enterobacter sp. MGH 2', 'Megamonas hypermegale DSM 1672', 'Providencia rustigianii DSM 4541', 'Trabulsiella guamensis ATCC 49490', 'Yokenella regensburgei ATCC 43003', 'Collimonas fungivorans Ter331', 'Roseibacterium elongatum DSM 19469', 'Embleya scabrispora DSM 41855', 'Paraburkholderia sacchari', 'Paenibacillus terrae HPL-003', 'Thalassiosira oceanica', 'Microbacterium gubbeenense DSM 15944', 'Nanoarchaeum equitans Kin4-M', 'Ignicoccus hospitalis KIN4/I', 'Corynebacterium casei LMG S-19264', 'Enterococcus gilvus ATCC BAA-350', 'Enterococcus pallens ATCC BAA-351', 'Sphingomonas wittichii RW1', 'Paenibacillus borealis', 'Acidithiobacillus ferrivorans SS3', 'Auricularia delicata', 'Thermodesulfobacterium hydrogeniphilum', 'Planococcus antarcticus DSM 14505', 'Anaeromyxobacter dehalogenans 2CP-C', 'Erythrobacter sp. SD-21', 'Amphiprion percula', 'Corynebacterium kroppenstedtii DSM 44385', 'Corynebacterium lipophiloflavum DSM 44291', 'Corynebacterium mastitidis DSM 44356', 'Corynebacterium camporealensis', 'Corynebacterium singulare', 'Beta vulgaris', 'Aspergillus nidulans FGSC A4', 'Thermococcus cleftensis', 'Wolbachia endosymbiont of Drosophila melanogaster', 'Dysgonomonas mossii DSM 22836', 'Algicola sagamiensis DSM 14643', 'Anabaena sp. PCC 7108', 'Phytophthora ramorum', 'Lactobacillus fuchuensis DSM 14340 = JCM 11249', 'Vulcanisaeta distributa DSM 14429', 'Blattabacterium sp. (Cryptocercus punctulatus) str. Cpu', 'Cupriavidus taiwanensis LMG 19424', 'Mycobacterium sp. MCS', 'Mycobacterium sp. JLS', 'Weissella koreensis KACC 15510', 'Prevotella copri DSM 18205', 'Bartonella schoenbuchensis m07a', 'Synechococcus sp. WH 8109', 'Synechococcus sp. WH 8016', 'Roseburia intestinalis L1-82', 'Thermobaculum terrenum ATCC BAA-798', 'Pseudoalteromonas translucida TAC125', 'Allofustis seminis DSM 15817', 'Ilyobacter polytropus DSM 2926', 'Anaerolinea thermophila UNI-1', 'Candidatus Ishikawaella capsulata Mpkobe', 'Marvinbryantia formatexigens DSM 14469', 'Laribacter hongkongensis HLHK9', 'Salinispora tropica CNB-440', 'Salinispora arenicola CNS-205', 'Legionella drancourtii LLAP12', 'Metarhizium guizhouense ARSEF 977', 'Gelidibacter mesophilus DSM 14095', 'Novosphingobium tardaugens NBRC 16725', 'Exiguobacterium undae DSM 14481', 'Corynebacterium aurimucosum ATCC 700975', 'Anaerotruncus colihominis DSM 17241', 'Saccharospirillum impatiens DSM 12546', 'Clostridium saccharobutylicum DSM 13864', 'Paenibacillus stellifer', 'Epichloe aotearoae', 'Staphylococcus pettenkoferi VCU012', 'Vibrio brasiliensis LMG 20546', 'Vibrio kanaloae 5S-149', 'Methanosarcina lacustris Z-7289', 'Sulfurihydrogenibium subterraneum DSM 15120', 'Halosimplex carlsbadense 2-9-1', 'Mycoplasma anatis 1340', 'Mycoplasma cynos C142', 'Tistrella mobilis KA081020-065', 'Mycoplasma ovis str. Michigan', 'Oceanobacillus picturae', 'Thermodesulfatator indicus DSM 15286', 'Rothia aeria F0184', 'Elizabethkingia miricola', 'Thermococcus sibiricus MM 739', 'Bradyrhizobium sp. th.b2', 'Meiothermus taiwanensis DSM 14542', 'Echeneis naucrates', 'Brachybacterium paraconglomeratum LC44', 'Methylobacter tundripaludum SV96', 'Gemmatimonas aurantiaca T-27', 'Gordonia sihwensis NBRC 108236', 'Ordospora colligata OC4', 'Allobaculum stercoricanis DSM 13633', 'Gordonia paraffinivorans NBRC 108238', 'Thermaerobacter subterraneus DSM 13965', 'Buceros rhinoceros', 'Nestor notabilis', 'Streptococcus sinensis', 'Pseudoalteromonas agarivorans S816', 'Beauveria bassiana', 'Halomonas halocynthiae DSM 14573', 'Lactobacillus malefermentans DSM 5705 = KCTC 3548', 'Python bivittatus', 'Coniochaeta ligniaria NRRL 30616', 'Anaerophaga thermohalophila DSM 12881', 'Pseudothermotoga lettingae TMO', 'Shuttleworthia satelles DSM 14600', 'Facklamia hominis ACS-120-V-Sch10', 'Leptospirillum ferriphilum ML-04', 'Pisolithus microcarpus 441', 'Acetobacter malorum', 'Clostridium colicanis 209318', 'Alicycliphilus denitrificans K601', 'Culicoides sonorensis', 'Sphingomonas elodea ATCC 31461', 'Rhizopogon vesiculosus', 'Cyanobium sp. PCC 7001', 'Robinsoniella peoriensis', 'Salinisphaera shabanensis E1L3A', 'Proteocatella sphenisci DSM 23131', 'Carnobacterium pleistocenium FTR1', 'Pseudopodoces humilis', 'Salarias fasciatus', 'Pyrobaculum calidifontis JCM 11548', 'Schaalia cardiffensis F0333', 'Cyanoderma ruficeps', 'Desulfococcus oleovorans Hxd3', 'Lactobacillus coleohominis 101-4-CHN', 'Pseudodesulfovibrio aespoeensis Aspo-2', 'Erwinia billingiae Eb661', 'Rubritepida flocculans DSM 14296', 'Kribbella flavida DSM 17836', 'Oceanobacillus iheyensis HTE831', 'Oryzias sinensis', 'Stemphylium lycopersici', 'Pseudo-nitzschia multistriata', 'Pseudomonas mediterranea CFBP 5447', 'Schaalia vaccimaxillae DSM 15804', 'Thermodesulfobium narugense DSM 14796', 'Thermoproteus uzoniensis 768-20', 'Crocinitomix catalasitica ATCC 23190', 'Varibaculum cambriense DORA_20', 'Knoellia subterranea KCTC 19937', 'Corallococcus coralloides DSM 2259', 'Desulfovibrio magneticus RS-1', 'Prevotella oryzae DSM 17970', 'Prevotella paludivivens DSM 17968 = JCM 13650', 'Paludibacter propionicigenes WB4', 'Chrysochloris asiatica', 'Fragilariopsis cylindrus CCMP1102', 'Xylanimonas cellulosilytica DSM 15894', 'Marinithermus hydrothermalis DSM 14884', 'Candidatus Baumannia cicadellinicola', 'Bartonella washoeensis Sb944nv', 'Thioalkalivibrio nitratireducens DSM 14787', 'Sneathia amnii', 'Oceanithermus profundus DSM 14977', 'Caldithrix abyssi DSM 13497', 'Methylocystis sp. SC2', 'Labrenzia aggregata IAM 12614', 'Megasphaera micronuciformis F0359', 'Acidaminococcus intestini RyC-MR95', 'Veillonella montpellierensis DNF00314', 'Chlamydotis macqueenii', 'Paracoccus zeaxanthinifaciens ATCC 21588', 'Pediococcus claussenii ATCC BAA-344', 'Thalassolituus oleivorans MIL-1', 'Thermococcus gammatolerans EJ3', 'Mitsuokella jalaludinii DSM 13811', 'Enterovibrio norvegicus FF-33', 'Leptosomus discolor', 'Egretta garzetta', 'Dermacoccus sp. Ellin185', 'Oleispira antarctica RB-8', 'Cetobacterium somerae ATCC BAA-474', 'Candidatus Tremblaya princeps PCIT', 'Paenibacillus graminis', 'Paenibacillus odorifer', 'Babesia ovata', 'Paenibacillus elgii B69', 'Prevotella marshii DSM 16973 = JCM 13450', 'Prevotella micans F0438', 'Bradyrhizobium sp. Ec3.3', 'Mycobacterium sp. KMS', 'Actinotignum urinale DSM 15805', 'Idiomarina baltica OS145', 'Vibrio coralliilyticus ATCC BAA-450', 'Desulfovibrio hydrothermalis AM13 = DSM 14728', 'Rhodococcus aetherivorans', 'Leifsonia rubra CMS 76R', 'Conexibacter woesei DSM 14684', 'Epilithonimonas tenax DSM 16811', 'Fluviicola taffensis DSM 16823', 'Corynebacterium atypicum', 'Plesiocystis pacifica SIR-1', 'Lynx pardinus', 'Chthoniobacter flavus Ellin428', 'Shewanella denitrificans OS217', 'Rhodoferax ferrireducens T118', 'Capsaspora owczarzaki ATCC 30864', 'Streptomyces niveus NCIMB 11891', 'Lactobacillus versmoldensis DSM 14857 = KCTC 3814', 'Athene cunicularia', 'Cardiobacterium valvarum F0432', 'Sphingomonas sp. ATCC 31555', 'Sinorhizobium americanum CCGM7', 'Chroomonas mesostigmatica CCMP1168', 'Haematobacter massiliensis', 'Synechococcus sp. PCC 7336', 'Synechococcus sp. PCC 6312', 'Thermococcus nautili', 'Gillisia limnaea DSM 15749', 'Caldimonas manganoxidans ATCC BAA-369', 'Microdochium bolleyi', 'Nocardioides sp. JS614', 'Caballeronia sordidicola', 'Bradyrhizobium sp. Ai1a-2', 'Porphyrobacter cryptus DSM 12079', 'Actinoplanes friuliensis DSM 7358', 'Deferribacter desulfuricans SSM1', 'Alkanindiges illinoisensis DSM 15370', 'Paraglaciecola mesophila KMM 241', 'Psychroflexus tropicus DSM 15496', 'Haemophilus aegyptius ATCC 11116', 'Streptococcus pasteurianus ATCC 43144', 'Candidatus Pelagibacter ubique HTCC7217', 'Anoxybacillus gonensis', 'Talaromyces verruculosus', 'Calidris pugnax', 'Candidatus Paraburkholderia kirkii UZHbot1', 'Coccidioides posadasii RMSCC 3488', 'Microbacterium paraoxydans 77MFTsu3.2', 'Methylocella silvestris BL2', 'Anopheles epiroticus', 'Nicotiana obtusifolia', 'Caldisphaera lagunensis DSM 15908', 'Pseudomonas poae RE*1-1-14', 'Strix occidentalis caurina', 'Lysinibacillus odysseyi 34hs-1 = NBRC 100172', 'Jaapia argillacea MUCL 33604', 'Punctularia strigosozonata', 'Sulfurimonas autotrophica DSM 16294', 'Actinobaculum massiliense ACS-171-V-Col2', 'Acinetobacter baylyi ADP1', 'Acinetobacter bouvetii DSM 14964 = CIP 107468', 'Acinetobacter gerneri', 'Acinetobacter tandoii', 'Acinetobacter tjernbergiae', 'Acinetobacter towneri', 'Tepidiphilus margaritifer DSM 15129', 'Longispora albida DSM 44784', 'Candidatus Blochmannia floridanus', 'Melampsora larici-populina 98AG31', 'Dickeya dadantii 3937', 'Dickeya zeae Ech586', 'Alicyclobacillus pomorum DSM 14955', 'Bacteroides massiliensis B84634 = Timone 84634 = DSM 17679 = JCM 13223', 'Roseomonas cervicalis ATCC 49957', 'Herminiimonas arsenicoxydans', 'Nitratireductor aquibiodomus NL21 = JCM 21793', 'Mastacembelus armatus', 'Novosphingobium pentaromativorans US6-1', 'Panicum hallii', 'Gymnopus luxurians FD-317 M1', 'Sulfurovum lithotrophicum', 'Bermanella marisrubri', 'Neptuniibacter caesariensis', 'Parvularcula bermudensis HTCC2503', 'Alkaliphilus metalliredigens QYMF', 'Puccinia triticina 1-1 BBBD Race 1', 'Amycolatopsis japonica', 'Amycolatopsis balhimycina FH 1894', 'Amycolatopsis vancoresmycina', 'Plasmodium coatneyi', 'Carnobacterium sp. 17-4', 'Fomitiporia mediterranea', 'Escherichia albertii KF1', 'Nocardia niigatensis NBRC 100131', 'Chaetomium thermophilum', "Candidatus Mycoplasma haemominutum 'Birmingham 1'", 'Marinobacter lipolyticus SM19', 'Afifella pfennigii DSM 17143', 'Corchorus capsularis', 'Nymphaea colorata', 'Thiorhodococcus drewsii AZ1', 'Sandarakinorhabdus limnophila DSM 17366', 'Parambassis ranga', 'Hanseniaspora opuntiae', 'Allokutzneria albata', 'Conchiformibius kuhniae DSM 17694', 'Accipiter nisus', 'Colwellia piezophila ATCC BAA-637', 'Mycobacterium sp. JS623', 'Exophiala mesophila', 'Halomonas campaniensis', 'Shewanella waksmanii ATCC BAA-643', 'Subdoligranulum variabile DSM 15176', 'Anaerofustis stercorihominis DSM 17244', 'Alistipes finegoldii DSM 17242', 'Komagataeibacter rhaeticus AF1', 'Exophiala oligosperma', 'Acaromyces ingoldii', 'Larimichthys crocea', 'Treponema caldarium DSM 7334', 'Erwinia sp. Ejp617', 'Thermomonas fusca DSM 15424', 'Roseovarius mucosus DSM 17069', 'Enhygromyxa salina', 'Dinoroseobacter shibae DFL 12 = DSM 16493', 'Pseudomonas rhizosphaerae', 'Polaromonas naphthalenivorans CJ2', 'Stenotrophomonas rhizophila', 'Bifidobacterium longum NCC2705', 'Spiroplasma chrysopicola DF-1', 'Spiroplasma culicicola AES-1', 'Spiroplasma diminutum CUAS-1', 'Spiroplasma sabaudiense Ar-1343', 'Spiroplasma syrphidicola EA-1', 'Clostridium carboxidivorans P7', 'Microvirga flocculans ATCC BAA-817', 'Marinospirillum insulare DSM 21763', 'Neomegalonema perideroedes DSM 15528', 'Fulvimarina pelagi HTCC2506', 'Anoplophora glabripennis', 'Bifidobacterium psychraerophilum', 'Bacillus vietnamensis', 'Dialister invisus DSM 15470', 'Aquilegia coerulea', 'Brachybacterium muris UCD-AY4', 'Micromonospora sp. ATCC 39149', 'Aeromicrobium marinum DSM 15272', 'Rhodanobacter fulvus Jip2', 'Gemmobacter nectariphilus DSM 15620', 'Bathymodiolus platifrons', 'Bacillus bataviensis LMG 21833', 'Bacillus vireti LMG 21834', 'Thalassospira xiamenensis M-5 = DSM 17429', 'Treponema putidum', 'Kordia algicida OT-1', 'Moniliophthora roreri', 'Mastigocladopsis repens PCC 10914', 'Synechococcus sp. RS9916', 'Synechococcus sp. RS9917', 'Polytolypa hystricis UAMH7299', 'Phaeobacter inhibens DSM 17395', 'Frankia elaeagni', 'Natrinema altunense', 'Kocuria marina', 'Phaeoacremonium minimum', 'Halomonas boliviensis LC1', 'Hymenobacter norwichensis DSM 15439', 'Exiguobacterium oxidotolerans JCM 12280', 'Methylorubrum populi BJ001', 'Buteo japonicus', 'Methanobrevibacter sp. AbM4', 'Pyrus x bretschneideri', 'Lottia gigantea', 'Geobacter bemidjiensis Bem', 'Geopsychrobacter electrodiphilus DSM 16401', 'Enhydrobacter aerosaccus SK60', 'Corynebacterium halotolerans YIM 70093 = DSM 44683', 'Erysiphe pulchra', 'Myotis davidii', 'Sulfitobacter indolifex HEL-45', 'Yaniella halotolerans DSM 15476', 'Paenibacillus sanguinis 2301083 = DSM 16941', 'Paenibacillus massiliensis 2301065 = DSM 16942', 'Fictibacillus gelatini DSM 15865', 'Comamonas aquatica NBRC 14918', 'Aestuariibacter salexigens DSM 15300', 'Salvia miltiorrhiza', 'Algoriphagus mannitolivorans DSM 15301', 'Rickettsia heilongjiangensis 054', 'Grosmannia clavigera kw1407', 'Bigelowiella natans', 'Corynebacterium ciconiae DSM 44920', 'Lactobacillus antri DSM 16041', 'Lactobacillus ultunensis DSM 16047', 'Paenibacillus lactis 154', 'Nocardia higoensis NBRC 100133', 'Nocardia pneumoniae NBRC 100136', 'Prevotella shahii DSM 15611 = JCM 12083', 'Prevotella salivae DSM 15606', 'Thermovibrio ammonificans HB-1', 'Arenibacter certesii DSM 19833', 'Flavobacterium frigoris PS1', 'Arsenicicoccus bolidensis DSM 15745', "Aster yellows witches'-broom phytoplasma AYWB", 'Streptococcus minor DSM 17118', 'Halobiforma lacisalsi AJ5', 'Aeropyrum camini SY1 = JCM 12091', 'Methylophaga aminisulfidivorans MP', 'Scardovia wiggsiae F0424', 'Lactobacillus rossiae DSM 15814', 'Saccharibacter floricola DSM 15669', 'Streptococcus devriesei DSM 19639', 'Beijerinckia mobilis', 'Desulfobulbus japonicus DSM 18378', 'Dyella japonica A8', 'Phanerochaete carnosa HHB-10118-sp', 'Belliella baltica DSM 15883', 'Effusibacillus pohliae DSM 22757', 'Halomonas alkaliantarctica', 'Synechococcus sp. CB0101', 'Acidovorax sp. JS42', 'Desulfitobacterium dichloroeliminans LMG P-21439', 'Candidatus Kinetoplastibacterium blastocrithidii (ex Strigomonas culicis)', 'Candidatus Midichloria mitochondrii IricVA', 'Corynebacterium caspium DSM 44850', 'Pseudoalteromonas sp. SM9913', 'Amanita thiersii Skay4041', 'Streptacidiphilus jiangxiensis', 'Alcanivorax sp. DG881', 'Marinobacter algicola DG893', 'Diplodia corticola', 'Chryseobacterium formosense', 'Candidatus Scalindua brodae', 'Lactobacillus kitasatonis DSM 16761 = JCM 1039', 'Oribacterium sinus F0268', 'Pseudomonas alkylphenolica', 'Pseudomonas psychrotolerans L19', 'Erythrobacter sp. NAP1', 'Lactobacillus vini DSM 20605', 'Akkermansia muciniphila ATCC BAA-835', 'Nocardiopsis valliformis DSM 45023', 'Nocardiopsis ganjiahuensis DSM 45031', 'Mycobacterium parascrofulaceum ATCC BAA-614', 'Pterocles gutturalis', 'Woodsholea maritima DSM 17123', 'Halobacillus dabanensis', 'Pseudonocardia dioxanivorans CB1190', 'Crinalium epipsammum PCC 9333', 'Helcococcus sueciensis DSM 17243', 'Amazona collaria', 'Ostreococcus lucimarinus CCE9901', 'Xenoturbella bocki', 'Acidilobus saccharovorans 345-15', 'Prevotella bergensis DSM 17361', 'Thioalkalivibrio thiocyanodenitrificans ARhD 1', 'Burkholderia sp. Ch1-1', 'Pseudomonas lutea', 'Methylohalobius crimeensis 10Ki', 'Klebsiella variicola UCI 18', 'Cynoglossus semilaevis', 'Thiocapsa marina 5811', 'Candidatus Paracaedimonas acanthamoebae', 'Candidatus Paracaedibacter symbiosus', 'Hoeflea phototrophica DFL-43', 'Nautilia profundicola AmH', 'Fictibacillus macauensis ZFHKF-1', 'Wallemia ichthyophaga', 'Yoonia vestfoldensis SKA53', "Acidomyces sp. 'richmondensis'", 'Enterococcus italicus DSM 15952', 'Bacillus bogoriensis ATCC BAA-922', 'Wolbachia endosymbiont of Cimex lectularius', 'Staphylococcus equorum subsp. equorum Mu2', 'Tupaia chinensis', 'Bacteroides cellulosilyticus WH2', 'Thermococcus sp. AM4', 'Serinicoccus marinus DSM 15273', 'Candidatus Jettenia caeni', 'Cupriavidus pinatubonensis JMP134', 'Mucispirillum schaedleri ASF457', 'Psychrobacter aquaticus CMS 56', 'Nocardia testacea NBRC 100365', 'Coccomyxa subellipsoidea', 'Cardinium endosymbiont cEper1 of Encarsia pergandiella', 'Deinococcus frigens DSM 12807', 'Deinococcus marmoris DSM 12784', 'Candidatus Blochmannia vafer str. BVAF', 'Candidatus Blochmannia chromaiodes str. 640', 'Pseudomonas syringae pv. tomato str. DC3000', 'Oceanicola granulosus HTCC2516', 'Robiginitalea biformata HTCC2501', 'Vibrio ezurae NBRC 102218', 'Saccharomyces boulardii (nom. inval.)', 'Clytia hemisphaerica', 'Mahella australiensis 50-1 BON', 'Paraburkholderia phenoliruptrix BR3459a', 'Natronolimnohabitans innermongolicus JCM 12255', 'Ethanoligenens harbinense YUAN-3', 'Owenweeksia hongkongensis DSM 17368', 'Verruconis gallopava', 'Streptomyces sp. C', 'Fonsecaea monophora', 'Solimonas variicoloris DSM 15731', 'Bacillus fordii DSM 16014 = CIP 108821', 'Streptococcus castoreus DSM 17536', 'Paeniglutamicibacter gangotriensis Lz1y', 'Arcobacter cibarius LMG 21996', 'Glycomyces arizonensis DSM 44726', 'Parvibaculum lavamentivorans DS-1', 'Glutamicibacter arilaitensis Re117', 'Gulosibacter molinativorax DSM 13485', 'Lentisphaera araneosa HTCC2155', 'Sphingomonas phyllosphaerae 5.2', 'Nocardia aobensis NBRC 100429', 'Nocardia concava NBRC 100430', 'Pleomorphomonas koreensis DSM 23070', 'Roseomonas gilardii subsp. rosea ATCC BAA-691', 'Streptococcus pseudopneumoniae IS7493', 'Otus sunia', 'Kitasatospora arboriphila', 'Corynebacterium resistens DSM 45100', 'Mycolicibacterium cosmeticum', 'Halomonas anticariensis FP35 = DSM 16096', 'Desulfatibacillum alkenivorans AK-01', 'Nocardia takedensis NBRC 100417', 'Dechloromonas aromatica RCB', 'Microbulbifer agarilyticus S89', 'Campylobacter insulaenigrae NCTC 12927', 'Nitrosomonas sp. Is79A3', 'Intestinibacter bartlettii DSM 16795', 'Paraburkholderia phytofirmans PsJN', 'Mycobacterium liflandii 128FXT', 'Cavenderia fasciculata', 'Thermosinus carboxydivorans Nor1', 'Pleomorphomonas oryzae DSM 16300', 'Kangiella koreensis DSM 16069', 'Kangiella aquimarina DSM 16071', 'Marinobacter daepoensis DSM 16072', 'Lysobacter concretionis Ko07 = DSM 16239', 'Acinetobacter beijerinckii CIP 110307', 'Jonesia quinghaiensis DSM 15701', 'Salipiger mucosus DSM 16094', 'Wolbachia endosymbiont of Culex quinquefasciatus Pel', 'Viridibacillus arenosi FSL R5-213', 'Crocosphaera watsonii WH 8501', 'Pneumocystis murina', 'Marinomonas ushuaiensis DSM 15871', 'Gordonia effusa NBRC 100432', 'Algoriphagus marincola DSM 16067', 'Botryobasidium botryosum', 'Capsella grandiflora', 'Oceanimonas smirnovii ATCC BAA-899', 'Acholeplasma equifetale ATCC 29724', 'Acholeplasma granularum ATCC 19168', 'Acholeplasma hippikon ATCC 29725', 'Trichormus variabilis ATCC 29413', 'Byssochlamys spectabilis No. 5', 'Salinimonas chungwhensis DSM 16280', 'Pontibacillus chungwhensis BH030062', 'Silanimonas lenta DSM 16282', 'Desulfurispora thermophila DSM 16022', 'Desulfallas alcoholivorax DSM 16058', 'Rhodopirellula baltica SH 1', 'Anoxybacillus tepidamans PS2', 'Methylovorus glucosetrophus SIP3-4', 'Pseudocohnilembus persalinus', 'Chryseobacterium antarcticum', 'Porphyromonas gingivicanis', 'Chelativorans sp. BNC1', 'Microbulbifer variabilis ATCC 700307', 'Thalassobacter stenotrophicus', 'Granulicoccus phenolivorans DSM 17626 = NBRC 107789 = JCM 15570', 'Neisseria bacilliformis ATCC BAA-1200', 'Lactobacillus kefiranofaciens ZW3', 'Paenibacillus wynnii', 'Nitratifractor salsuginis DSM 16511', 'Microbotryum intermedium', 'Streptococcus marimammalium DSM 18627', 'Sporolactobacillus terrae DSM 11697', 'Atopococcus tabaci DSM 17538', 'Bartonella rattimassiliensis 15908', 'Marinobacter sp. ELB17', 'Fangia hongkongensis FSC776 = DSM 21703', 'Methylomicrobium alcaliphilum 20Z', 'Shewanella sediminis HAW-EB3', 'Shewanella halifaxensis HAW-EB4', 'Flavobacterium antarcticum DSM 19726', 'Arthrobacter castelli DSM 16402', 'Nostoc punctiforme PCC 73102', 'Olleya marilimosa CAM030', 'Actinomyces dentalis DSM 19115', 'Hyaloperonospora arabidopsidis', 'Pontibacillus marinus BH030004 = DSM 16465', 'Candida orthopsilosis Co 90-125', 'Candida metapsilosis', 'Sphaerochaeta coccoides DSM 17374', 'Exiguobacterium marinum DSM 16307', 'Microbacterium oleivorans', 'Chlorobaculum parvum NCIB 8327', 'Limimaricola hongkongensis DSM 17492', 'Opitutaceae bacterium TAV1', 'Acidobacteriaceae bacterium TAA 166', 'Collimonas arenae', 'Aquimarina muelleri DSM 19832', 'Gramella echinicola DSM 19838', 'Novosphingopyxis baekryungensis DSM 16222', 'Agromyces italicus DSM 16388', 'Antrostomus carolinensis', 'Nocardiopsis baichengensis YIM 90130', 'Pochonia chlamydosporia 170', 'Azorhizobium doebereinerae UFLA1-100', 'Candidatus Amoebophilus asiaticus 5a2', 'Caenorhabditis japonica', 'Rozella allomycis CSF55', 'Porphyromonas uenonis 60-3', 'Prevotella multiformis DSM 16608', 'Nocardia jiangxiensis NBRC 101359', 'Sander lucioperca', 'Kosakonia radicincitans DSM 16656', 'Pseudoalteromonas sp. Bsw20308', 'Staphylococcus pseudintermedius ED99', 'Stackebrandtia nassauensis DSM 44728', 'Capitella teleta', 'Phenylobacterium zucineum HLK1', 'Streptomyces flavovariabilis', 'Alcanivorax dieselolei B5', 'Thioclava pacifica DSM 10166', 'Acetobacter nitrogenifigens DSM 23921 = LMG 23498', 'Streptomyces roseochromogenus subsp. oscitans DS 12.976', 'Streptomyces xylophagus', 'Streptomyces sviceus ATCC 29083', 'Streptomyces fulvoviolaceus', 'Streptomyces thermolilacinus SPC6', 'Micromonospora lupini str. Lupac 08', 'Hahella ganghwensis DSM 17046', 'Episyrphus balteatus', 'Alkaliflexus imshenetskii DSM 15055', 'Segniliparus rotundus DSM 44985', 'Segniliparus rugosus ATCC BAA-974', 'Hellea balneolensis DSM 19091', 'Haliea salexigens DSM 19537', 'Balneola vulgaris DSM 17893', 'Amycolatopsis rifamycinica', 'Bradyrhizobium sp. BTAi1', 'Kordiimonas gwangyangensis DSM 19435 = JCM 12864', 'Microbotryum lychnidis-dioicae p1A1 Lamole', 'Hungateiclostridium clariflavum DSM 19732', 'Microbotryum aff. violaceum TUB 011817', 'Bacteroides helcogenes P 36-108', 'Nocardia exalbida NBRC 100660', "Penicillium sp. 'occitanis'", 'Comamonas granuli NBRC 101663', 'Arthrobacter sp. FB24', 'Jannaschia sp. CCS1', 'Aminiphilus circumscriptus DSM 16581', 'Photorhabdus asymbiotica', 'Bartonella melophagi K-2C', 'Bacteroides salyersiae WAL 10018 = DSM 18765 = JCM 12988', 'Bacteroides nordii CL02T12C05', 'Acaricomes phytoseiuli DSM 14247', 'Erythrobacter vulgaris', 'Thermosediminibacter oceani DSM 16646', 'Ruegeria sp. TM1040', 'Dactylococcopsis salina PCC 8305', 'Flavonifractor plautii 1_3_50AFAA', 'Lysinibacillus massiliensis 4400831 = CIP 108448 = CCUG 49529', 'Martelella mediterranea DSM 17316', 'Haloquadratum walsbyi J07HQW2', 'Cyphellophora europaea', 'Desulfovibrio alkalitolerans DSM 16529', 'Agromyces subbeticus DSM 16689', 'Proteiniphilum acetatigenes DSM 18083', 'Rubellimicrobium thermophilum DSM 16684', 'Candidatus Hepatoplasma crinochetorum Av', 'Micromonas commoda', 'Polaromonas sp. JS666', 'Caldalkalibacillus thermarum TA2.A1', 'Patulibacter minatonensis DSM 18081', 'Frankia sp. EAN1pec', 'Frankia inefficax', 'Frankia saprophytica', 'Pseudoalteromonas spongiae UST010723-006', 'Denticeps clupeoides', 'Leptotrombidium deliense', 'Adhaeribacter aquaticus DSM 16391', 'Francisella orientalis str. Toba 04', 'Rhodococcus triatomae BKS 15-14', 'Glaciecola nitratireducens FR1064', 'Lachancea meyersii CBS 8951', 'Catellicoccus marimammalium M35/04/3', 'Bacillus lehensis G1', 'Roseburia hominis A2-183', 'Methanosaeta harundinacea 6Ac', 'Seriola lalandi dorsalis', 'Advenella mimigardefordensis DPN7', 'Corynebacterium tuscaniense DNF00037', 'Halobacillus kuroshimensis DSM 18393', 'Pundamilia nyererei', 'Lactobacillus apis', 'Lactobacillus harbinensis DSM 16991', 'Catenulispora acidiphila DSM 44928', 'Actinospica robiniae DSM 44927', 'Thauera sp. 27', 'Endozoicomonas elysicola', 'Pusillimonas noertemannii BS8', 'Marinimicrobium agarilyticum DSM 16975', 'Calidithermus timidus DSM 17022', 'Lactobacillus apodemi DSM 16634 = JCM 16172', 'Chryseobacterium vrystaatense', 'Aphis glycines', 'Gracilibacillus boraciitolerans JCM 21714', 'Sinocyclocheilus rhinocerous', 'Apteryx rowi', 'Bacillus boroniphilus JCM 21738', 'Dialister microaerophilus UPII 345-E', 'Chrysiogenes arsenatis DSM 11915', 'Persephonella marina EX-H1', 'Sulfurihydrogenibium azorense Az-Fu1', 'Candidatus Liberibacter americanus str. Sao Paulo', 'Deinococcus apachensis DSM 19763', 'Deinococcus maricopensis DSM 21211', 'Deinococcus pimensis DSM 21231', 'Bacteroides plebeius DSM 17135', 'Bacteroides coprocola DSM 17136', 'Bacteroides pyogenes JCM 10003', 'Neofusicoccum parvum', 'Prevotella multisaccharivorax DSM 17128', 'Advenella kashmirensis W13003', 'Deinococcus deserti VCD115', 'Modiolus philippinarum', 'Linnemannia elongata AG-77', 'Paraburkholderia terrae NBRC 100964', 'Thermococcus kodakarensis KOD1', 'Paraburkholderia mimosarum LMG 23256 = NBRC 106338', 'Flavobacterium indicum GPTSA100-9 = DSM 17447', 'Emticicia oligotrophica DSM 17448', 'Pseudomonas entomophila L48', 'Streptococcus massiliensis DSM 18628', 'Croceibacter atlanticus HTCC2559', 'Janibacter sp. HTCC2649', 'Dokdonia sp. MED134', 'Polaribacter sp. MED152', 'Maribacter sp. HTCC2170', 'Lyngbya sp. PCC 8106', 'Synechococcus sp. BL107', 'Bacillus sp. NRRL B-14911', 'Geobacter lovleyi SZ', 'Drechslerella stenobrocha 248', 'Nitrobacter sp. Nb-311A', 'Oceanicaulis sp. HTCC2633', 'Pseudooceanicola batsensis HTCC2597', 'Roseobacter sp. MED193', 'Roseovarius nubinhibens ISM', 'Roseovarius sp. 217', 'Sphingomonas sp. SKA58', 'Sulfitobacter sp. NAS-14.1', 'Rhodobacteraceae bacterium HTCC2083', 'Alteromonas mediterranea', 'Marinomonas sp. MED121', 'Pseudoalteromonas tunicata D2', 'Psychromonas sp. CNPT3', 'Vibrio sp. MED222', 'Prolixibacter bellariivorans ATCC BAA-1284', 'Mariprofundus ferrooxydans PV-1', 'Pseudoxanthomonas suwonensis 11-1', 'Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069', 'Belgica antarctica', 'Leadbetterella byssophila DSM 17132', 'Syntrophus aciditrophicus SB', 'Synechococcus sp. RCC307', 'Synechococcus sp. CC9902', 'Microbispora sp. ATCC PTA-5024', 'Rubrivivax benzoatilyticus JA2 = ATCC BAA-35', 'Kuraishia capsulata', 'Enterococcus caccae ATCC BAA-1240', 'Nostoc sp. PCC 7107', 'Mycolicibacterium rufum', 'Mycolicibacterium aromaticivorans JS19b1 = JCM 16368', 'Clostridium sulfidigenes', 'Pyricularia oryzae 70-15', 'Bradyrhizobium sp. WSM1743', 'Bradyrhizobium sp. WSM1253', 'Bradyrhizobium sp. WSM471', 'Nonlabens sediminis', 'Clostridium lundense DSM 17049', 'Formosa agariphila KMM 3901', 'Gordonia soli NBRC 108243', 'Pseudocercospora eumusae', 'Synechococcus sp. JA-3-3Ab', "Synechococcus sp. JA-2-3B'a(2-13)", 'Lepidothrix coronata', 'Pseudomonas moraviensis R28-S', 'Pseudomonas simiae', 'Wheat blue dwarf phytoplasma', 'Porphyromonas somerae DSM 23386', 'Sharpea azabuensis DSM 18934', 'Sphingomonas sp. BHC-A', 'Leptolyngbya valderiana BDU 20041', 'Paenibacillus sp. JDR-2', 'Bacillus infantis NRRL B-14911', 'Kwoniella bestiolae CBS 10118', 'Kwoniella dejecticola CBS 10117', 'Moelleriella libera RCEF 2490', 'Phytophthora kernoviae', 'Coxiella endosymbiont of Amblyomma americanum', 'Paraglaciecola psychrophila 170', 'Pseudozyma hubeiensis', 'Candidatus Accumulibacter phosphatis clade IIA str. UW-1', 'Bifidobacterium crudilactis', 'Syntrophorhabdus aromaticivorans UI', 'Nonlabens dokdonensis DSW-6', 'Parabacteroides goldsteinii dnLKV18', 'Alistipes onderdonkii WAL 8169 = DSM 19147', 'Alistipes shahii WAL 8301', 'Manacus vitellinus', 'Rhizoclosmatium globosum', 'Flavobacterium saliperosum S13', 'Bacteroides intestinalis DSM 17393', 'Amycolatopsis jejuensis', 'Nitrospira defluvii', 'Psychrobacter cryohalolentis K5', 'Kamptonema formosum PCC 6407', 'Sphingobium japonicum UT26S', 'Clostridium drakei', 'Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7', 'Candidatus Solibacter usitatus Ellin6076', 'Halococcus hamelinensis 100A6', 'Truepera radiovictrix DSM 17093', 'Exiguobacterium sibiricum 255-15', 'Hirsutella minnesotensis 3608', 'Alkalihalobacillus okhensis', 'Psychrobacter arcticus 273-4', 'Rickettsia tamurae', 'Ignisphaera aggregans DSM 17230', 'Methylobacterium oryzae CBMB20', 'Halococcus thailandensis JCM 13552', 'Thermovirga lienii DSM 17291', 'Candidatus Sulcia muelleri PSPU', 'Rhodonellum psychrophilum GCM71 = DSM 17998', 'Oenococcus kitaharae DSM 17330', 'Pyronema omphalodes', 'Chlorobium chlorochromatii CaD3', 'Gordonia sp. KTR9', 'Halorubrum ezzemoulense DSM 17463', 'Pseudodonghicola xiamenensis DSM 18339', 'Bacteroides finegoldii DSM 17565', 'Nitrosopumilus maritimus SCM1', 'Erwinia tasmaniensis Et1/99', 'Mycobacterium colombiense CECT 3035', 'Desulfosporosinus youngiae DSM 17734', 'Criblamydia sequanensis CRIB-18', 'Thermodesulfovibrio thiophilus DSM 17215', 'Tuberibacillus calidus DSM 17572', 'Spathaspora passalidarum NRRL Y-27907', 'Amorphus coralli DSM 19760', 'Desulfovibrio frigidus DSM 17176', 'Ascodesmis nigricans', 'Peptostreptococcus stomatis DSM 17678', 'Agrococcus lahaulensis DSM 17612', 'Methylophilaceae bacterium B1', 'Burkholderia oklahomensis', 'Thermococcus onnurineus NA1', 'Pyrococcus sp. NA2', 'Paenibacillus barengoltzii G22', 'Salipiger bermudensis HTCC2601', 'Flavobacterium soli DSM 19725', 'Kutzneria sp. 744', 'Podiceps cristatus', 'Geobacter pickeringii', 'Amycolatopsis benzoatilytica AK 16/65', 'Lysobacter daejeonensis GH1-9', 'Echinicola pacifica DSM 19836', 'Moraxella boevrei DSM 14165', 'Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896', 'Rhodanobacter spathiphylli B39', 'Streptomyces davaonensis JCM 4913', 'Exophiala xenobiotica', 'Streptacidiphilus oryzae TH49', 'Rhizobium favelukesii', 'Spironucleus salmonicida', 'Desulfovirgula thermocuniculi DSM 16036', 'Cercospora zeina', 'Psychrobacter sp. PRwf-1', 'Micavibrio aeruginosavorus ARL-13', 'Corynebacterium marinum DSM 44953', 'Flavobacterium daejeonense DSM 17708', 'Flavobacterium suncheonense GH29-5 = DSM 17707', 'Roseobacter sp. AzwK-3b', 'Alkalilimnicola ehrlichii MLHE-1', 'Oscillibacter valericigenes Sjm18-20', 'Salinispora pacifica CNT003', 'Geobacter uraniireducens Rf4', 'Xenorhabdus doucetiae', 'Shewanella sp. W3-18-1', 'Halostagnicola larsenii XH-48', 'Arenimonas malthae CC-JY-1', 'Niastella koreensis GR20-10', 'Streptomyces sp. Tu6071', 'Limnoperna fortunei', 'Alloscardovia criceti DSM 17774', 'Bifidobacterium tsurumiense', 'Micromonospora chokoriensis', 'Phocaeicola dorei', 'Lactobacillus parabrevis ATCC 53295', 'Cercospora berteroae', 'Psychromonas ingrahamii 37', 'Roseiflexus sp. RS-1', 'Microbacterium indicum DSM 19969', 'Acidovorax sp. KKS102', 'Methanoregula boonei 6A8', 'Streptomyces olindensis', 'Pseudomonas extremaustralis 14-3 substr. 14-3b', 'Shewanella loihica PV-4', 'Smaragdicoccus niigatensis DSM 44881 = NBRC 103563', 'Methylotenera mobilis 13', 'Bryobacter aggregatus MPL3', 'Zavarzinella formosa DSM 19928', 'Schlesneria paludicola DSM 18645', 'Leeuwenhoekiella blandensis MED217', 'Roseburia inulinivorans DSM 16841', 'Exiguobacterium sp. AT1b', 'Rubritalea marina DSM 17716', 'Tieghemostelium lacteum', 'Streptococcus pseudoporcinus SPIN 20026', 'Pseudarthrobacter phenanthrenivorans Sphe3', 'Streptomyces vietnamensis', 'Flavobacterium reichenbachii', 'Candidatus Protochlamydia amoebophila UWE25', 'Kaistia granuli DSM 23481', 'Prevotella stercorea DSM 18206', 'Ktedonobacter racemifer DSM 44963', 'Dyella ginsengisoli LA-4', 'Janibacter hoylei PVAS-1', 'Verminephrobacter eiseniae EF01-2', 'Granulibacter bethesdensis CGDNIH1', 'Endocarpon pusillum Z07020', 'Ferrimonas futtsuensis DSM 18154', 'Chryseobacterium caeni DSM 17710', 'Pelosinus fermentans DSM 17108', 'Frankia discariae', 'Belnapia moabensis DSM 16746', 'Paenibacillus sabinae T27', 'Ruania albidiflava DSM 18029', 'Caulobacter sp. K31', 'Haladaptatus paucihalophilus DX253', 'Yersinia similis', 'Phycicoccus jejuensis', 'Rhodobacterales bacterium HTCC2255', 'Pelusios castaneus', 'Blattabacterium sp. (Periplaneta americana) str. BPLAN', 'Blattabacterium sp. (Blatta orientalis) str. Tarazona', 'Rheinheimera perlucida DSM 18276', 'Paenibacillus terrigena DSM 21567', 'Mesonia mobilis DSM 19841', 'Haloterrigena limicola JCM 13563', 'Gallionella capsiferriformans ES-2', 'Arenimonas composti TR7-09 = DSM 18010', 'Flavobacterium filum DSM 17961', 'Brevundimonas aveniformis DSM 17977', 'Erwinia typographi', 'Bacteroides xylanisolvens XB1A', 'Rhodobacter sp. SW2', 'Fischerella thermalis PCC 7521', 'Bartonella tamiae Th239', 'Rivularia sp. PCC 7116', 'Campylobacter cuniculorum DSM 23162 = LMG 24588', 'Reinekea blandensis MED297', 'Janthinobacterium sp. Marseille', 'Pseudooceanicola nanhaiensis DSM 18065', 'Sphaeramia orbicularis', 'Natranaerobius thermophilus JW/NM-WN-LF', 'Haloplanus natans DSM 17983', 'Gordonia shandongensis DSM 45094', 'Olivibacter sitiensis DSM 17696', 'Zhouia amylolytica AD3', 'Paracoccus halophilus', 'Bacteroides barnesiae DSM 18169 = JCM 13652', 'Phocaeicola salanitronis DSM 18170', 'Thermobacillus composti KWC4', 'Methyloversatilis universalis FAM5', 'Novosphingobium nitrogenifigens DSM 19370', 'Cyanobacterium aponinum PCC 10605', 'Streptomyces bingchenggensis BCW-1', 'Vibrio sinaloensis DSM 21326', 'Propithecus coquereli', 'Aciduliprofundum boonei T469', 'Paenibacillus fonticola DSM 21315', 'Niabella aurantiaca DSM 17617', 'Pseudomonas protegens CHA0', 'Cohnella laeviribosi DSM 21336', 'Lactobacillus namurensis str. Chizuka 01', 'Streptococcus ictaluri 707-05', 'Hydrogenobaculum sp. Y04AAS1', 'Lachancea thermotolerans', 'Amycolatopsis nigrescens CSC17Ta-90', 'Algiphilus aromaticivorans DG1253', 'Verrucomicrobiae bacterium DG1235', 'Erythrobacter sp. JL475', 'Ornithinimicrobium pekingense DSM 21552', 'Bacillus aidingensis DSM 18341', 'Cycloclasticus sp. P1', 'Pseudophaeobacter arcticus DSM 23566', 'Thermophagus xiamenensis', 'Paraburkholderia ferrariae NBRC 106233', 'Prevotella timonensis 4401737 = DSM 22865 = JCM 15640', 'Methanobacterium arcticum', 'Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)', 'Moraxella bovoculi 237', 'Bacteroides coprophilus DSM 18228 = JCM 13818', 'Nitratiruptor sp. SB155-2', 'Sulfurovum sp. NBC37-1', 'Halovivax ruber XH-70', 'Halopiger xanaduensis SH-6', 'Parabacteroides johnsonii CL02T12C29', 'Cupriavidus sp. amp6', 'Natronorubrum sulfidifaciens JCM 14089', 'Rhodobacteraceae bacterium HTCC2150', 'Labrenzia alexandrii DFL-11', 'Algoriphagus machipongonensis', 'Bartonella australis Aust/NH1', 'Roseobacter sp. SK209-2-6', 'Hydnomerulius pinastri MD-312', 'Stachybotrys chlorohalonata IBT 40285', 'Wenxinia marina DSM 24838', 'Lactobacillus farraginis DSM 18382 = JCM 14108', 'Lactobacillus parafarraginis F0439', 'Echinicola vietnamensis DSM 17526', 'Actinocatenispora sera', 'Ehrlichia sp. HF', 'Vibrio sp. 16', 'Roseobacter sp. GAI101', 'Roseobacter sp. CCS2', 'Pedobacter sp. BAL39', 'Flavobacteria bacterium BAL38', 'Brevundimonas sp. BAL3', 'Stenotrophomonas sp. SKA14', 'Flavobacteriales bacterium ALC-1', 'Roseovarius sp. TM1035', 'Lysobacter defluvii IMMIB APB-9 = DSM 18482', 'Alicyclobacillus macrosporangiidus CPP55', 'Alicyclobacillus contaminans DSM 17975', 'Paraburkholderia nodosa DSM 21604', 'Sphingomonas jaspsi DSM 18422', 'Deinococcus misasensis DSM 22328', 'Methylophaga thiooxydans DMS010', 'Perlucidibaca piscinae DSM 21586', 'Terriglobus roseus DSM 18391', 'Uliginosibacterium gangwonense DSM 18521', 'Halalkalibacillus halophilus DSM 18494', 'Mesoflavibacter zeaxanthinifaciens S86', 'Gracilibacillus lacisalsi DSM 19029', 'Pestalotiopsis fici', 'Congregibacter litoralis KT71', 'Porphyromonas crevioricanis', 'Bhargavaea cecembensis DSE10', 'Cylindrobasidium torrendii FP15055 ss-10', 'Lactobacillus ceti DSM 22408', 'Coraliomargarita akajimensis DSM 45221', 'Bartonella rochalimae ATCC BAA-1498', 'Cyanothece sp. PCC 7425', 'Gilvimarinus chinensis DSM 19667', 'Brachybacterium phenoliresistens', 'Aspergillus ruber CBS 135680', 'Acinetobacter brisouii ANC 4119', 'Aestuariimicrobium kwangyangense DSM 21549', 'Thioalkalivibrio sp. K90mix', 'Lactobacillus hayakitensis DSM 18933 = JCM 14209', 'Andreprevotia chitinilytica DSM 18519', 'Sphingomonas sanxanigenens DSM 19645 = NX02', 'Marmoricola aequoreus', 'Lachnospiraceae bacterium 28-4', 'Lachnospiraceae bacterium 3-1', 'Lachnospiraceae bacterium A2', 'Lachnospiraceae bacterium A4', 'Barnesiella viscericola DSM 18177', 'Segetibacter koreensis DSM 18137', 'Proteiniclasticum ruminis DSM 24773', 'Agrilactobacillus composti DSM 18527 = JCM 14202', 'Helicobacter macacae MIT 99-5501', 'Trichoderma gamsii', 'Zunongwangia profunda SM-A87', 'Desulfocurvus vexinensis DSM 17965', 'Thermoanaerobacter sp. X514', 'Enterobacter sp. 638', 'Streptococcus merionis DSM 19192', 'Pontibacter korlensis', 'Marinomonas sp. MWYL1', 'Amphimedon queenslandica', 'Wohlfahrtiimonas chitiniclastica DSM 18708', 'Corynebacterium ureicelerivorans', 'Aureimonas ureilytica DSM 18598 = NBRC 106430', 'Candidatus Riesia pediculicola USDA', 'Actinomycetospora chiangmaiensis DSM 45062', 'Haloferax mucosum ATCC BAA-1512', 'Sphingobacterium sp. PM2-P1-29', 'Virgibacillus sp. SK37', 'Shewanella piezotolerans WP3', 'Maritimibacter alkaliphilus HTCC2654', 'Nonomuraea coxensis DSM 45129', 'Anaeromyxobacter sp. Fw109-5', 'Marinobacterium litorale DSM 23545', 'Geminicoccus roseus DSM 18922', 'Alicyclobacillus acidocaldarius subsp. acidocaldarius Tc-4-1', 'Leisingera daeponensis DSM 23529', 'Streptacidiphilus rugosus AM-16', 'Bacillus sp. m3-13', 'Natrinema sp. J7-2', 'Sphingomonas astaxanthinifaciens DSM 22298', 'Stegodyphus mimosarum', 'Prevotella pleuritidis JCM 14110', 'Streptomyces xiamenensis', 'Bacillus coahuilensis m4-4', 'Nocardioidaceae bacterium Broad-1', 'Clostridiisalibacter paucivorans DSM 22131', 'Treponema pedis str. T A4', 'Blastobotrys adeninivorans', 'Periophthalmus magnuspinnatus', 'Coprococcus comes ATCC 27758', 'Gordonia malaquae NBRC 108250', 'Gramella forsetii KT0803', 'Halogeometricum pallidum JCM 14848', 'Clostridium sp. SS2/1', 'Clostridium sp. M62/1', 'Clostridium sp. L2-50', 'Chryseobacterium daeguense DSM 19388', 'Entamoeba nuttalli P19', 'Paracoccus sp. TRP', 'Intrasporangium oryzae NRRL B-24470', 'Desulfotomaculum hydrothermale Lam5 = DSM 18033', 'Mycetohabitans rhizoxinica HKI 454', 'Candidatus Vesicomyosocius okutanii', 'Solimonas soli DSM 21787', 'Cronobacter turicensis z3032', 'Halalkalicoccus jeotgali B3', 'Halorubrum halophilum', 'Caldicellulosiruptor hydrothermalis 108', 'Caldicellulosiruptor kronotskyensis 2002', 'Lysobacter dokdonensis DS-58', 'Planococcus donghaensis MPA1U2', 'Actinopolyspora erythraea', 'Pseudoxanthomonas spadix BD-a59', 'Solimonas flava DSM 18980', 'Nodosilinea nodulosa PCC 7104', 'Rhodanobacter thiooxydans LCS2', 'Natronomonas moolapensis 8.8.11', 'Burkholderia sp. KJ006', 'Penicillium antarcticum', 'Selenomonas bovis DSM 23594', 'Notospermus geniculatus', 'Neptunomonas japonica DSM 18939', 'Methanosarcina horonobensis HB-1 = JCM 15518', 'Blautia wexlerae DSM 19850', 'Salinicoccus albus DSM 19776', 'Nevskia soli DSM 19509', 'Prevotella amnii CRIS 21A-A', 'Alloscardovia omnicolens DSM 21503', 'Yersinia massiliensis CCUG 53443', 'Microvirga lupini', 'Lactobacillus equicursoris DSM 19284 = JCM 14600 = CIP 110162', 'Diplodia seriata', 'Methanolobus psychrophilus R15', 'Paraburkholderia bryophila 376MFSha3.1', 'Sphingobium ummariense RL-3', 'Sulfitobacter donghicola DSW-25 = KCTC 12864 = JCM 14565', 'Chryseobacterium oranimense G311', 'Chryseobacterium halperniae', 'Chryseobacterium luteum', 'Stenoxybacter acetivorans DSM 19021', 'Mucilaginibacter paludis DSM 18603', 'Basidiobolus meristosporus CBS 931.73', 'Elusimicrobium minutum Pei191', 'Rhizobium sp. IRBG74', 'Helicobacter japonicus', 'Calidris pygmaea', 'Thiomonas arsenitoxydans', 'Methylobacterium sp. 4-46', 'Flavobacterium subsaxonicum WB 4.1-42 = DSM 21790', 'Algoriphagus vanfongensis DSM 17529', 'Nocardia rhamnosiphila', 'Bacillus chagannorensis DSM 18086', 'Salsuginibacillus kocurii DSM 18087', 'Humibacter albus DSM 18994', 'Desulfurivibrio alkaliphilus AHT 2', 'Dethiobacter alkaliphilus AHT 1', 'Moritella dasanensis ArB 0140', 'Candidatus Riesia pediculischaeffi PTSU', 'Jonquetella anthropi E3_33 E1', 'Dactylellina haptotyla', 'Halorhabdus tiamatea SARL4B', 'Baudoinia compniacensis', 'Spirosoma luteum DSM 19990', 'Spirosoma spitsbergense DSM 19989', 'Paenibacillus ginsengihumi DSM 21568', 'Kazachstania africana CBS 2517', 'Deinococcus peraridilitoris DSM 19664', 'Nocardioides halotolerans DSM 19273', 'Streptococcus sp. C150', 'Idiomarina salinarum', 'Fibularhizoctonia sp. CBS 109695', 'Sulfurihydrogenibium sp. YO3AOP1', 'Streptacidiphilus jeojiense', 'Robiginitomaculum antarcticum DSM 21748', 'Brucella sp. UK1/97', 'Brucella sp. F23/97', 'Brucella sp. F96/2', 'Brucella sp. UK40/99', 'Brucella sp. F8/99', 'Brucella sp. F5/99', 'Megamonas funiformis YIT 11815', 'Sutterella parvirubra YIT 11816', 'Ruminococcus gauvreauii DSM 19829', 'Streptococcus henryi DSM 19005', 'Streptococcus caballi DSM 19004', 'Candidatus Pelagibacter sp. HTCC7211', 'Pseudovibrio sp. JE062', 'Rhodobacterales bacterium Y4I', 'Ruegeria sp. R11', 'Prevotella maculosa DSM 19339 = JCM 15638', 'Promicromonospora kroppenstedtii DSM 19349', 'Pseudomonas sp. Chol1', 'Gouania willdenowi', 'Corynebacterium timonense 5401744', 'Corynebacterium massiliense DSM 45435', 'Hofstenia miamia', 'Knoellia aerolata DSM 18566', 'Geobacter sp. M18', 'Geobacter sp. M21', 'Bradyrhizobium sp. Cp5.3', 'Brucella microti CCM 4915', 'Sporolactobacillus vineae DSM 21990 = SL153', 'Maribacter forsetii DSM 18668', 'Gryllotalpicola ginsengisoli DSM 22003', 'Rickettsia endosymbiont of Ixodes scapularis', 'Psychromonas ossibalaenae ATCC BAA-1528', 'Reyranella massiliensis 521', 'Leptobrachium leishanense', 'Chryseobacterium soli', 'Adlercreutzia equolifaciens DSM 19450', 'Eudoraea adriatica DSM 19308', 'Niabella soli DSM 19437', 'Anaeromyxobacter sp. K', 'Epichloe gansuensis', 'Simiduia agarivorans SA1 = DSM 21679', 'Rhizobium selenitireducens ATCC BAA-1503', 'Microbacterium profundi', 'Propionibacterium sp. 5_U_42AFAA', 'Veillonella sp. 6_1_27', 'Rudanella lutea DSM 19387', 'Microbacterium luticocti DSM 19459', 'Streptomyces scopuliridis RB72', 'Pseudoclavibacter soli DSM 23366', 'Amphritea japonica ATCC BAA-1530', 'Neovison vison', 'Roseomonas aerilata DSM 19363', 'Desulfarculus baarsii DSM 2075', 'Kwoniella pini CBS 10737', 'Bdellovibrio exovorus JSS', 'Haladaptatus cibarius D43', 'Henriciella marina DSM 19595', 'Joostella marina DSM 19592', 'Halomonas lutea DSM 23508', 'Paraprevotella clara YIT 11840', 'Paraprevotella xylaniphila YIT 11841', 'Kiloniella laminariae DSM 19542', 'Chthonomonas calidirosea T49', 'Gracilimonas tropica DSM 19535', 'Spongiibacter tropicus DSM 19543', 'Glaciecola sp. HTCC2999', 'Chryseobacterium gregarium DSM 19109', 'Xanthomonas campestris pv. vesicatoria str. 85-10', 'Bizionia argentinensis JUB59', 'Saccharibacillus sacchari DSM 19268', 'Candidatus Cloacimonas acidaminovorans str. Evry', 'Streptococcus plurextorum DSM 22810', 'Rhizoctonia solani AG-8 WAC10335', 'Bacteroides sp. 1_1_30', 'Bacteroides sp. 3_1_23', 'Bacteroides sp. 3_1_33FAA', 'Bacteroides sp. 3_2_5', 'Bacteroides sp. 4_1_36', 'Bacteroides sp. 4_3_47FAA', 'Bacteroides sp. 9_1_42FAA', 'Clostridium sp. 7_2_43FAA', 'Desulfovibrio sp. 3_1_syn3', 'Escherichia sp. 1_1_43', 'Escherichia sp. 4_1_40B', 'Eubacterium sp. 3_1_31', 'Micromonospora sp. M42', 'Ruminococcus sp. 5_1_39BFAA', 'Synergistes sp. 3_1_syn1', 'Veillonella sp. 3_1_44', 'Clostridiales bacterium 1_7_47FAA', 'Erysipelotrichaceae bacterium 2_2_44A', 'Elioraea tepidiphila DSM 17972', 'Chloracidobacterium thermophilum B', 'Planomicrobium glaciei CHR43', 'Saccharibacillus kuerlensis DSM 22868', 'Kribbella catacumbae DSM 19601', 'Komagataella phaffii GS115', 'Ogataea polymorpha NCYC 495 leu1.1', 'Lactobacillus nodensis DSM 19682 = JCM 14932 = NBRC 107160', 'Actinomyces massiliensis F0489', 'Alkaliphilus oremlandii OhILAs', 'Babesia sp. Xinjiang', 'Pontibacillus yanchengensis Y32', 'Paxillus rubicundulus Ve08.2h10', 'Veillonella magna DSM 19857', 'Hemiselmis andersenii', 'Streptomyces sp. Mg1', 'Streptomyces sp. SPB074', 'Acinetobacter sp. Ver3', 'Singulisphaera acidiphila DSM 18658', 'Ilumatobacter coccineus YM16-304', 'Lachnoanaerobaculum saburreum F0468', 'Rhodobacteraceae bacterium KLH11', 'Sistotremastrum suecicum HHB10207 ss-3', 'Bacteroides sp. 1_1_14', 'Bacteroides sp. 2_1_22', 'Bacteroides sp. 2_1_33B', 'Bacteroides sp. 2_2_4', 'Parabacteroides sp. 20_3', 'Bacteroides sp. 3_1_19', 'Bacteroides sp. 3_1_40A', 'Coprobacillus sp. 8_2_54BFAA', 'Streptococcus sp. 2_1_36FAA', 'Burkholderiales bacterium 1_1_47', 'Erysipelotrichaceae bacterium 6_1_45', 'Prevotella histicola JCM 15637 = DNF00424', 'Cladophialophora yegresii', 'Gracilibacillus halophilus YIM-C55.5', 'Salinimicrobium terrae DSM 17865', 'Pantoea vagans C9-1', 'Gordonibacter pamelaeae 7-10-1-b', 'Geobacillus sp. WCH70', 'Dasania marina DSM 21967', 'Bifidobacterium bombi DSM 19703', 'Haloplasma contractile SSD-17B', 'Candidatus Desulforudis audaxviator MP104C', 'Nitratireductor basaltis', 'Nitrosococcus watsonii C-113', 'Colletotrichum gloeosporioides', 'Methanosphaerula palustris E1-9c', 'Pedobacter borealis DSM 19626', 'Pseudohaliea rubra DSM 19751', 'Leisingera aquimarina DSM 24565', 'Modestobacter marinus', 'Bacteroides graminisolvens DSM 19988 = JCM 15093', 'Aliiglaciecola lipolytica E3', 'Calditerrivibrio nitroreducens DSM 19672', 'Verrucomicrobia bacterium LP2A', 'Haematomicrobium sanguinis DSM 21259', 'Brevibacterium ravenspurgense 5401308 = CCUG 53855', 'Gluconobacter morbifer G707', 'Commensalibacter intestini A911', 'Myroides profundi', 'Bartonella rattaustraliani AUST/NH4', 'Lactobacillus otakiensis DSM 19908 = JCM 15040', 'Lactobacillus kisonensis F0435', 'Paenibacillus sp. Y412MC10', 'Galeopterus variegatus', 'Oscillatoria nigro-viridis PCC 7112', 'Burkholderia lata', 'Lactobacillus fabifermentans T30PCM01', 'Cystoisospora suis', 'Geoalkalibacter subterraneus', 'Paenibacillus riograndensis SBR5', 'Sphingobium sp. YBL2', 'Pelosinus sp. UFO1', 'Dialister succinatiphilus YIT 11850', 'Barnesiella intestinihominis YIT 11860', 'Parasutterella excrementihominis YIT 11859', 'Acinetobacter soli', 'Aequorivita capsosiphonis DSM 23843', 'Shewanella marina JCM 15074', 'Corynebacterium ulceribovis DSM 45146', 'Flavobacteria bacterium MS024-2A', 'Serratia sp. SCBI', 'Campylobacter peloridis LMG 23910', 'Desulfonatronospira thiodismutans ASO3-1', 'Halarchaeum acidiphilum MH1-52-1', 'Mesorhizobium metallidurans STM 2683', 'Corynebacterium sputi DSM 45148', 'Marinobacter sp. BSs20148', 'Litoreibacter arenae DSM 19593', 'Leucobacter chironomi DSM 19883', 'Brachymonas chironomi DSM 19884', 'Megamonas rupellensis DSM 19944', 'Bacillus velezensis FZB42', 'Dyadobacter alkalitolerans DSM 23607', 'Rhizobium alamii', 'Chryseobacterium palustre DSM 21579', 'Psychrobacter sp. TB15', 'Arthrobacter sp. TB 23', 'Spirosoma panaciterrae DSM 21099', 'Thermoanaerobacter pseudethanolicus ATCC 33223', 'Thauera sp. 63', 'Campylobacter subantarcticus LMG 24377', 'Candidatus Nitrososphaera gargensis Ga9.2', 'Brevibacillus panacihumi W25', 'Arenimonas oryziterrae DSM 21050 = YC6267', 'Flavobacterium rivuli WB 3.3-2 = DSM 21788', 'Borreliella finlandensis', 'Candidatus Korarchaeum cryptofilum OPF8', 'Tepidanaerobacter acetatoxydans Re1', 'Metarhizium brunneum ARSEF 3297', 'Streptomyces avicenniae', 'Glaciibacter superstes DSM 21135', 'Citreicella sp. SE45', 'Porphyromonas bennonis DSM 23058 = JCM 16335', 'Thermodesulfatator atlanticus DSM 21156', 'Butyricicoccus pullicaecorum 1.2', 'Thalassospira profundimaris WP0211', 'Deinococcus gobiensis I-0', 'Eggerthella sp. YY7918', 'Streptococcus porci DSM 23759', 'Aeromonas diversa CDC 2478-85', 'Salisaeta longa DSM 21114', 'Flavobacterium sasangense DSM 21067', 'Kushneria aurantia DSM 21353', 'Jejuia pallidilutea', 'Haloterrigena salina JCM 13891', 'Novosphingobium acidiphilum DSM 19966', 'Chromera velia CCMP2878', 'Rheinheimera sp. A13L', 'Leisingera caerulea DSM 24564', 'Cinara cedri', 'Peptoniphilus duerdenii ATCC BAA-1640', 'Cloacibacillus evryensis DSM 19522', 'Bradyrhizobium genosp. SA-4 str. CB756', 'Pedobacter sp. V48', 'Oceanimonas sp. GK1', 'Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2', 'Methylacidiphilum infernorum V4', 'Vibrio azureus NBRC 104587', 'Dictyoglomus turgidum DSM 6724', 'Caloramator australicus RC3', 'Lacticigenium naphtae DSM 19658', 'Prevotella falsenii DSM 22864 = JCM 15124', 'Nesterenkonia alba DSM 19423', 'Muricauda lutaonensis', 'Providencia burhodogranariea DSM 19968', 'Providencia sneebia DSM 19967', 'Jeotgalicoccus marinus DSM 19772', 'Pontibacillus litoralis JSM 072002', 'Pontibacillus halophilus JSM 076056 = DSM 19796', 'Pantoea sp. aB', 'Citromicrobium sp. JLT1363', 'Bifidobacterium mongoliense DSM 21395', 'Lactobacillus sucicola DSM 21376 = JCM 15457', 'Alcanivorax hongdengensis A-11-3', 'Deinococcus aquatilis DSM 23025', 'Elaphomyces granulatus', 'Ectothiorhodospira sp. PHS-1', 'Brucella sp. NVSL 07-0026', 'Brucella sp. 83/13', 'Acinetobacter sp. NIPH 817', 'Pseudomonas caeni DSM 24390', 'Sphingobium lactosutens DS20', 'Trichophyton mentagrophytes', 'Marinobacter santoriniensis NKSG1', 'Acinetobacter sp. ATCC 27244', 'Thiothrix lacustris DSM 21227', 'Haloglycomyces albus DSM 45210', 'Oceanibaculum indicum P24', 'Listeria marthii FSL S4-120', 'Thecamonas trahens', 'Rhodoluna lacicola', 'Pelagibacterium halotolerans B2', 'Flavobacteriaceae bacterium 3519-10', 'Actinopolymorpha alba DSM 45243', 'Mesorhizobium australicum WSM2073', 'Psychrobacter lutiphocae DSM 21542', 'Rudaea cellulosilytica DSM 22992', 'Thermus islandicus DSM 21543', 'Corynebacterium lubricantis DSM 45231', 'Peronospora effusa', 'Actinoplanes subtropicus', 'Geobacillus sp. Y412MC61', 'Actinomyces johnsonii F0510', 'Butyricimonas synergistica DSM 23225', 'Thioalkalivibrio sp. AKL11', 'Thioalkalivibrio sp. ALJ24', 'Alishewanella jeotgali KCTC 22429', 'Paraoerskovia marina DSM 21750', 'Sporothrix brasiliensis 5110', 'Hydrogenobaculum sp. 3684', 'Hydrogenobaculum sp. HO', 'Hydrogenobaculum sp. SN', 'Mycobacterium vulneris', 'Phycisphaera mikurensis NBRC 102666', 'Pseudogulbenkiania ferrooxidans 2002', 'Geobacillus sp. Y412MC52', 'Pseudonocardia acaciae DSM 45401', 'Aromatoleum aromaticum EbN1', 'Caldicoprobacter oshimai DSM 21659', 'Sediminimonas qiaohouensis DSM 21189', 'Salinarimonas rosea DSM 21201', 'Erysipelotrichaceae bacterium 5_2_54FAA', 'Ruminococcaceae bacterium D16', 'Cryptococcus gattii VGIII', 'Dehalogenimonas lykanthroporepellens BL-DC-9', 'Pseudomonas pelagia CL-AP6', 'Vibrio breoganii 1C10', 'Alishewanella agri BL06', 'Cobetia crustatorum', 'Halomonas jeotgali Hwa', 'Photobacterium leiognathi lrivu.4.1', 'Chlorella variabilis', 'Thiomonas sp. CB2', 'Flavobacterium chungangense LMG 26729', 'Galbibacter marinus', 'Staphylococcus massiliensis S46', 'Novosphingobium sp. Rr 2-17', 'Bacteroides sp. D1', 'Bacteroides sp. D2', 'Clostridium sp. D5', 'Coprobacillus sp. D7', 'Candidatus Liberibacter solanacearum CLso-ZC1', 'Propionibacterium acidifaciens DSM 21887', 'Corynebacterium freiburgense DSM 45254', 'Chryseobacterium piperi', 'Lentibacillus jeotgali', 'Salinicoccus carnicancri Crm', 'Aeromonas lacus', 'Aureobasidium namibiae CBS 147.97', 'Lysinibacillus sinduriensis BLB-1 = JCM 15800', 'Aliagarivorans taiwanensis DSM 22990', 'Prevotella sp. C561', 'Streptococcus sp. C300', 'Streptococcus sp. M143', 'Streptococcus sp. M334', 'Acidianus hospitalis W1', 'Salinisphaera hydrothermalis C41B8', 'Parabacteroides sp. D13', 'Scedosporium apiospermum', 'Geoglobus acetivorans', "Saccharomycetaceae sp. 'Ashbya aceri'", 'Metarhizium robertsii ARSEF 23', 'Dickeya poaceiphila', 'Cladophialophora immunda', 'Pseudoalteromonas lipolytica SCSIO 04301', 'Methanocella paludicola SANAE', 'Ochrobactrum rhizosphaerae SJY1', 'Psychrobacter sp. G', 'Encephalitozoon romaleae SJ-2008', 'Absidia idahoensis var. thermophila', 'Thermoanaerobacter sp. X513', 'Francisella salina', 'Candidatus Hodgkinia cicadicola Dsem', 'Pandoraea oxalativorans', 'Bacillus gaemokensis', 'Bacillus manliponensis', 'Parabacteroides gordonii MS-1 = DSM 23371', 'Pseudomonas taeanensis MS-3', 'Corynebacterium maris DSM 45190', 'Phialocephala subalpina', 'Polynucleobacter necessarius STIR1', 'Polynucleobacter asymbioticus QLW-P1DMWA-1', 'Streptomyces iranensis', 'Indibacter alkaliphilus LW1', 'Enterorhabdus mucosicola DSM 19490', 'Bacillus cytotoxicus NVH 391-98', 'Geobacillus sp. Y4.1MC1', 'Thermococcus paralvinellae', 'Rubidibacter lacunae KORDI 51-2', 'Thermoanaerobacter mathranii subsp. mathranii str. A3', 'Synechococcus sp. KORDI-49', 'Synechococcus sp. KORDI-52', 'Bacteroides sp. D20', 'Bacteroides sp. D22', 'Nematocida parisii', 'Oceanobacillus manasiensis', 'Terribacillus aidingensis', 'Myripristis murdjan', 'Pseudomonas chlororaphis', 'Rhizophagus irregularis', 'Patulibacter americanus DSM 16676', 'Kazachstania naganishii', 'Brevundimonas naejangsanensis', 'Prevotella fusca JCM 17724', 'Prevotella scopos JCM 17725', 'Alteromonas australica', 'Methylacidiphilum fumariolicum SolV', 'Streptomyces sp. SPB78', 'Streptomyces sp. AA4', 'Ignavibacterium album JCM 16511', 'Roseivivax isoporae LMG 25204', 'Piliocolobus tephrosceles', 'Pantoea sp. At-9b', 'Pantoea sp. Sc1', 'Mesorhizobium opportunistum WSM2075', 'Allofrancisella guangzhouensis', 'Rhodopirellula sp. SWK7', 'Prevotella aurantiaca JCM 15754', 'Desulfovibrio sp. U5L', 'Brenneria sp. EniD312', 'Corynebacterium pyruviciproducens ATCC BAA-1742', 'Fibroporia radiculosa', 'Meiothermus rufus DSM 22234', 'Neisseria wadsworthii 9715', 'Neisseria shayeganii 871', 'Dinoponera quadriceps', 'Asaia platycodi SF2.1', 'Harpegnathos saltator', 'Arenibacter algicola', 'Polycyclovorans algicola TG408', 'Methylocystis sp. ATCC 49242', 'Blattabacterium sp. (Blattella germanica) str. Bge', 'Bacteroides clarus YIT 12056', 'Bacteroides fluxus YIT 12057', 'Bacteroides oleiciplenus YIT 12058', 'Alistipes indistinctus YIT 12060', 'Odoribacter laneus YIT 12061', 'Slackia piriformis YIT 12062', 'Collinsella tanakaei YIT 12063', 'Succinatimonas hippei YIT 12066', 'Phascolarctobacterium succinatutens YIT 12067', 'Sphingobium sp. SYK-6', 'Sphingomonas sp. Mn802worker', 'Tomitella biformata AHU 1821', 'Thiorhodovibrio sp. 970', 'Saccharomonospora marina XMU15', 'Acinetobacter rudis CIP 110305', 'Thalassobium sp. R2A62', 'Prevotella saccharolytica F0055', 'Bifidobacterium bohemicum DSM 22767', 'Bifidobacterium actinocoloniiforme DSM 22766', 'Pyramidobacter piscolens W5455', 'Acidobacteriaceae bacterium KBS 146', 'Hoyosella subflava DQS3-9A1', 'Lactobacillus florum 2F', 'Burkholderia sp. CCGE1001', 'Burkholderia sp. CCGE1003', 'Clostridium sp. DL-VIII', 'Neisseria sp. oral taxon 014 str. F0314', 'Tatumella morbirosei', 'Silicibacter sp. TrichCH4B', 'Methanocaldococcus sp. FS406-22', 'Streptomyces sp. e14', 'Enterocytozoon hepatopenaei', 'Plasmodium gaboni', 'Methylobacterium sp. MB200', 'Micromonospora sp. L5', 'Cesiribacter andamanensis AMV16', 'Clostridium sp. ATCC BAA-442', 'Actinomyces sp. oral taxon 848 str. F0332', 'Acetomicrobium hydrogeniformans ATCC BAA-1850', 'Anaerostipes hadrus DSM 3319', 'Actinoplanes sp. N902-109', 'Sulfuricella denitrificans skB26', 'Fibrella aestuarina BUZ 2', 'Aurantimonas manganoxydans SI85-9A1', 'Kosmotoga olearia TBF 19.5.1', 'Actinomyces sp. oral taxon 180 str. F0310', 'Fretibacterium fastidiosum', 'Oribacterium sp. oral taxon 078 str. F0262', 'Bacteroidetes oral taxon 274 str. F0058', 'Peptoniphilus sp. oral taxon 386 str. F0131', 'Paenibacillus sp. oral taxon 786 str. D14', 'Prevotella sp. oral taxon 299 str. F0039', 'Prevotella sp. oral taxon 317 str. F0108', 'Actinomyces sp. oral taxon 849 str. F0330', 'Albugo laibachii', 'Prevotella sp. oral taxon 472 str. F0295', 'Pseudogymnoascus destructans 20631-21', 'Pandoraea vervacti', 'Halanaerobium hydrogeniformans', 'Ruminococcus sp. SR1/5', 'Flavobacterium beibuense F44-8', 'Candidatus Koribacter versatilis Ellin345', 'Ralstonia sp. 5_2_56FAA', 'Lachnospiraceae bacterium 1_1_57FAA', 'Lachnospiraceae bacterium 2_1_58FAA', 'Lachnospiraceae bacterium 6_1_63FAA', 'Lachnospiraceae bacterium 5_1_57FAA', 'Lachnospiraceae bacterium 3_1_57FAA_CT1', 'Lachnospiraceae bacterium 7_1_58FAA', 'Lachnospiraceae bacterium 9_1_43BFAA', 'Lachnospiraceae bacterium 5_1_63FAA', 'Pseudomonas sp. H2', 'Lachnospiraceae bacterium 1_4_56FAA', 'Lachnospiraceae bacterium 6_1_37FAA', 'Erysipelotrichaceae bacterium 21_3', 'Erysipelotrichaceae bacterium 3_1_53', 'Parabacteroides sp. D25', 'Porphyromonas sp. 31_2', 'Paraburkholderia acidipaludis NBRC 101816', 'Olsenella sp. oral taxon 809 str. F0356', 'Brachybacterium squillarum M-6-3', "Candidatus Parvarchaeum acidiphilum ARMAN-4_'5-way FS'", "Candidatus Parvarchaeum acidophilus ARMAN-5_'5-way FS'", 'Fibrisoma limi BUZ 3', 'Methylocapsa aurea', 'Leucobacter salsicius M1-8', 'Borreliella bavariensis PBi', 'Bacillus oceanisediminis 2691', 'Dietzia alimentaria 72', 'Campylobacter sp. 10_1_50', 'Clostridium sp. 7_3_54FAA', 'Coprobacillus sp. 3_3_56FAA', 'Desulfovibrio sp. 6_1_46AFAA', 'Eggerthella sp. 1_3_56FAA', 'Klebsiella sp. 4_1_44FAA', 'Neisseria sp. GT4A_CT1', 'Tannerella sp. 6_1_58FAA_CT1', 'Lachnospiraceae bacterium 3_1_46FAA', 'Lachnospiraceae bacterium 8_1_57FAA', 'Subdoligranulum sp. 4_3_54A2FAA', 'Bacillus sp. 7_6_55CFAA_CT2', 'Bacillus sp. BT1B_CT2', 'Bacillus sp. 2_A_57_CT2', 'Aquimarina macrocephali JAMB N27', 'Afipia sp. 1NLS2', 'Rhodanobacter denitrificans', 'Bacillus sp. 1NLA3E', 'Raphidiopsis brookii D9', 'Thelohanellus kitauei', 'Geminocystis herdmanii PCC 6308', 'Paenibacillus pini JCM 16418', 'Candidatus Profftella armatura', 'Microvirga aerilata', 'Candidatus Uzinura diaspidicola str. ASNER', 'Candidatus Methylomirabilis oxyfera', 'Leptotrichia sp. oral taxon 225 str. F0581', 'Alloprevotella rava F0323', 'Propionibacterium sp. oral taxon 192 str. F0372', 'Selenomonas artemidis F0399', 'Veillonella sp. oral taxon 158 str. F0412', 'Veillonella sp. oral taxon 780 str. F0422', 'Enterorhabdus caecimuris B7', 'Bacteroides sartorii dnLKV3', 'Microbacterium yannicii PS01', 'Cardinium endosymbiont cBtQ1 of Bemisia tabaci', 'Aciduliprofundum sp. MAR08-339', 'Candidatus Babela massiliensis', 'Bacteroides faecis MAJ27', 'Vibrio sp. RC586', 'Lachancea nothofagi', 'Fervidicoccus fontis Kam940', 'Sphingomonas sp. PR090111-T3T-6A', 'Pseudomonas sp. S9', 'Lichtheimia ramosa', 'Oribacterium sp. NK2B42', 'Colletotrichum fructicola Nara gc5', 'Rhizobium vignae', 'Geobacillus sp. C56-T3', 'Fonticula alba', 'Caldisericum exile AZM16c01', 'Vibrio atlanticus LGP32', 'Enterobacteriaceae bacterium strain FGI 57', 'Halogranum salarium B-1', 'Bilophila sp. 4_1_30', "Marssonina brunnea f. sp. 'multigermtubi' MB_m1", 'Virgibacillus alimentarius', 'Megasphaera genomosp. type_1 str. 28L', 'Vibrio caribbeanicus ATCC BAA-2122', 'Vibrio sp. N418', 'Novosphingobium sp. PP1Y', 'Saccharomyces arboricola H-6', 'Capnocytophaga sp. oral taxon 329 str. F0087', 'Actinomyces sp. oral taxon 171 str. F0337', 'Colletotrichum chlorophyti', 'Colletotrichum tofieldiae', 'Bradyrhizobiaceae bacterium SG-6C', 'Frankia sp. QA3', 'Actinomyces sp. oral taxon 178 str. F0338', 'Capnocytophaga sp. oral taxon 338 str. F0234', 'Colletotrichum fioriniae', 'Streptomyces sp. GXT6', 'Actinomyces sp. oral taxon 170 str. F0386', 'Actinomyces sp. oral taxon 172 str. F0311', 'Actinomyces sp. oral taxon 175 str. F0384', 'Actinomyces sp. oral taxon 181 str. F0379', 'Actinomyces sp. oral taxon 448 str. F0400', 'Aggregatibacter sp. oral taxon 458 str. W10330', 'Atopobium sp. oral taxon 199 str. F0494', 'Atopobium sp. oral taxon 810 str. F0209', 'Capnocytophaga sp. oral taxon 324 str. F0483', 'Capnocytophaga sp. oral taxon 326 str. F0382', 'Capnocytophaga sp. oral taxon 332 str. F0381', 'Capnocytophaga sp. oral taxon 336 str. F0502', 'Capnocytophaga sp. oral taxon 380 str. F0488', 'Fusobacterium sp. oral taxon 370 str. F0437', 'Leptotrichia sp. oral taxon 215 str. W9775', 'Microbacterium sp. oral taxon 186 str. F0373', 'Neisseria sp. oral taxon 020 str. F0370', 'Oribacterium sp. oral taxon 108 str. F0425', 'Peptoniphilus sp. oral taxon 375 str. F0436', 'Porphyromonas sp. oral taxon 278 str. W7784', 'Prevotella sp. oral taxon 306 str. F0472', 'Prevotella sp. oral taxon 473 str. F0040', 'Selenomonas sp. oral taxon 137 str. F0430', 'Selenomonas sp. oral taxon 138 str. F0429', 'Selenomonas sp. oral taxon 149 str. 67H29BP', 'Streptococcus sp. oral taxon 056 str. F0418', 'Streptococcus sp. oral taxon 058 str. F0407', 'Streptococcus sp. oral taxon 071 str. 73H25AP', 'Actinobaculum sp. oral taxon 183 str. F0552', 'Lachnospiraceae bacterium oral taxon 082 str. F0431', 'Lachnospiraceae oral taxon 107 str. F0167', 'Parvimonas sp. oral taxon 393 str. F0440', 'Candidatus Atelocyanobacterium thalassa isolate SIO64986', 'Alteromonas naphthalenivorans', 'Ensifer sojae CCBAU 05684', 'Caldicellulosiruptor obsidiansis OB47', 'Hyphopichia burtonii NRRL Y-1933', 'Hyphomicrobium sp. MC1', 'Plasmodium sp. DRC-Itaito', 'Nitratireductor indicus C115', 'Acidovorax ebreus TPSY', 'Vibrio genomosp. F10 str. ZF-129', 'Anncaliia algerae PRA109', 'Leptothrix ochracea L12', 'Rahnella sp. Y9602', 'Delftia sp. Cs1-4', 'Melanaphis sacchari', 'Collinsella sp. 4_8_47FAA', 'Lachnospiraceae bacterium 2_1_46FAA', 'Sphingobacterium sp. 21', 'Methylocystis sp. SB2', 'Ahrensia sp. R2A130', 'Roseibium sp. TrichSKD4', 'Sphingomonas sp. MM-1', 'Olleya sp. VCSM12', 'Mobilicoccus pelagius NBRC 104925', 'Aspergillus fumigatus Af293', 'Oceanobacillus kimchii X50', 'Azoarcus sp. KH32C', 'Pseudogulbenkiania sp. NH8B', 'Thioalkalivibrio sp. ALSr1', 'Sulfuritalea hydrogenivorans sk43H', 'Klebsiella sp. MS 92-3', 'Coprococcus sp. ART55/1', 'Halobacterium sp. DL1', 'Escherichia sp. TW09308', 'Winogradskyella sp. PG-2', 'Photobacterium aphoticum', 'Methylophaga nitratireducenticrescens', 'Methylophaga frappieri', 'Clostridium sp. BNL1100', 'Bacillus sp. WP8', 'Acinetobacter indicus CIP 110367', 'Burkholderia insecticola', 'Burkholderia sp. RPE67', 'Sporosarcina newyorkensis 2681', 'Massilia consociata', 'Bifidobacterium callitrichos DSM 23973', 'Bifidobacterium stellenboschense', 'Bifidobacterium biavatii DSM 23969', 'Siansivirga zeaxanthinifaciens CC-SAMT-1', 'Haemophilus sp. oral taxon 851 str. F0397', 'Paraburkholderia bannensis NBRC 103871', 'Moraxella macacae 0408225', 'Pyrenochaeta sp. DS3sAY3a', 'Stagonospora sp. SRC1lsM3a', 'Vibrio jasicida MWB 21', 'Citreicella sp. 357', 'Candidatus Puniceispirillum marinum IMCC1322', 'Serratia sp. AS12', 'Serratia sp. AS13', 'Sinorhizobium sp. CCBAU 05631', 'Opitutaceae bacterium TAV5', 'Burkholderiaceae bacterium PBA', 'Nesterenkonia sp. F', 'Sugiyamaella lignohabitans', 'Peptoanaerobacter stomatis', 'Stomatobaculum longum', 'Kipferlia bialata', 'Fonsecaea nubica', 'Cryptosporidium ubiquitum', 'Trichoderma parareesei', 'Caenispirillum salinarum AK4', 'Agrobacterium sp. H13-3', 'Gemmatirosa kalamazoonesis', 'Streptomyces sp. SirexAA-E', 'Thermincola potens JR', 'Burkholderiales bacterium JOSHI_001', 'Microvirga lotononidis', 'Oscillatoriales cyanobacterium C42_A2020_001', 'Schizosaccharomyces cryophilus', 'Methanothermobacter sp. CaT2', 'Chloroflexus sp. Y-396-1', 'Methanobacterium paludis', 'Ogataea angusta', 'Terriglobus saanensis SP1PR4', 'Bacteroides stercorirosoris JCM 17103', 'Lactobacillus pasteurii DSM 23907 = CRBIP 24.76', 'Celeribacter baekdonensis B30', 'Mycolicibacter sinensis', 'Peptoniphilus sp. 1-1', 'Methyloferula stellata AR4', 'Ruminococcus sp. NK3A76', 'Clostridiales bacterium NK3B98', 'Erysipelotrichaceae bacterium NK3D112', 'Lachnospiraceae bacterium NK4A136', 'Lachnospiraceae bacterium NK4A144', 'Lachnospiraceae bacterium NK4A179', 'Methanobacterium lacus', 'Chryseobacterium sp. StRB126', 'Pseudodesulfovibrio piezophilus C1TLV30', 'Cutaneotrichosporon oleaginosum', 'Plasmodium sp. gorilla clade G2', 'Fulvivirga imtechensis AK7', 'Methanoregula formicica SMSP', 'Schleiferia thermophila str. Yellowstone', 'Candidatus Zinderia insecticola CARI', 'Mageeibacillus indolicus UPII9-5', 'Fukomys damarensis', 'Desulfosporosinus acidiphilus SJ4', 'Methylovorus sp. MP688', 'Candidatus Nanosalina sp. J07AB43', 'Candidatus Nanosalinarum sp. J07AB56', 'Plautia stali symbiont', 'Nonlabens ulvanivorans', 'Phytopythium vexans DAOM BR484', 'Clostridium sp. HGF2', 'Alistipes sp. HGB5', 'Fusarium sp. FOSC 3-a', 'Actinokineospora spheciospongiae', 'SAR116 cluster alpha proteobacterium HIMB100', 'Pseudovibrio sp. FO-BEG1', 'Caldanaerobacter subterraneus subsp. tengcongensis MB4', 'Mycolicibacterium iranicum UM_TJL', 'Desulfosporosinus sp. OT', 'Knoellia flava TL1', 'Kangiella geojedonensis', 'Rhynchosporium commune', 'Rhynchosporium agropyri', 'Asinibacterium sp. OR53', 'Balearica regulorum', 'Synechocystis sp. PCC 7509', 'Bartonella florencae', 'Pseudomonas brassicacearum', 'Nonlabens marinus S1-08', 'Serratia sp. M24T3', 'Desulfosarcina sp. BuS5', 'Aminobacter sp. J41', 'Bacillus sp. J33', 'Bacillus sp. J37', 'Chelativorans sp. J32', 'Paenibacillus sp. J14', 'Paracoccus sp. J39', 'Luteimonas sp. J29', 'Nocardioides sp. J54', 'Rhizopus delemar', 'Mogibacterium sp. CM50', 'Desulfurispirillum indicum S5', 'Marinomonas posidonica IVIA-Po-181', 'Actinomyces sp. ICM47', 'Atopobium sp. BS2', 'Selenomonas sp. FOBRC6', 'Selenomonas sp. FOBRC9', 'Shuttleworthia sp. MSX8B', 'Streptococcus sp. CM6', 'Veillonella sp. AS16', 'Lachnoanaerobaculum sp. OBRC5-5', 'Lachnoanaerobaculum sp. MSX33', 'Casaltella massiliensis', 'Fenollaria massiliensis', 'Levyella massiliensis', 'Anaerococcus provencensis', 'Bacteroidetes bacterium SCGC AAA027-N21', 'Granulicella mallensis MP5ACTX8', 'Granulicella tundricola MP5ACTX9', 'Desulfovibrio sp. X2', 'Burkholderia sp. WSM2230', 'Hippea jasoniae', 'Hippea sp. KM1', 'Arcobacter sp. L', 'Gordonia neofelifaecis NRRL B-59395', 'Diplocarpon rosae', 'Salpingoeca rosetta', 'Arenimonas metalli CF5-1', 'Paraburkholderia dilworthii', 'Fusarium proliferatum', 'Palaeococcus pacificus DY20341', 'Bacillus sp. 17376', 'Fonsecaea multimorphosa CBS 102226', 'Leuconostoc sp. C2', 'Deinococcus wulumuqiensis R12', 'Aquimarina agarivorans', 'Morus notabilis', 'Ruegeria conchae', 'Lacinutrix sp. 5H-3-7-4', 'Glaciecola sp. 4H-3-7+YE-5', 'Dokdonia sp. 4H-3-7-5', 'Bifidobacterium reuteri DSM 23975', 'Heterobasidion irregulare', 'Mycoplasma parvum str. Indiana', 'Staphylococcus argenteus M21126', 'Vulcanisaeta moutnovskia 768-28', 'Ruegeria halocynthiae', 'Gillisia sp. CAL575', 'Staphylococcus agnetis', 'Lebetimonas sp. JS170', 'Polymorphum gilvum SL003B-26A1', 'Vibrio sp. HENC-03', 'Erosia sp. biolep03', 'Candidatus Kinetoplastibacterium desouzaii TCC079E', 'Candidatus Kinetoplastibacterium galatii TCC219', 'Candidatus Kinetoplastibacterium oncopeltii TCC290E', 'Desmospora sp. 8437', 'Porphyromonas sp. KLE 1280', 'Streptomyces himastatinicus ATCC 53653', 'Halomonas sp. TD01', 'Methylophaga lonarensis MPL', 'Selenomonas sp. F0473', 'Streptococcus sp. F0441', 'Streptococcus sp. F0442', 'Sedimentitalea nanhaiensis DSM 24252', 'Megasphaera sp. UPII 135-E', 'Cryobacterium roopkundense', 'Daldinia sp. EC12', 'Hypoxylon sp. CI-4A', 'Psychrobacter sp. 1501(2011)', 'Leisingera sp. ANG1', 'Candidatus Pelagibacter sp. IMCC9063', 'Verrucosispora maris AB-18-032', 'Fimbriimonas ginsengisoli Gsoil 348', 'Ogataea parapolymorpha DL-1', 'Metallosphaera cuprina Ar-4', 'Listeria weihenstephanensis FSL R9-0317', 'Defluviitoga tunisiensis', 'Candidatus Nitrosarchaeum limnium SFB1', 'Sphingomonas sp. S17', 'Pusillimonas sp. T7-7', 'Pyrococcus yayanosii CH1', 'Candidatus Tremblaya phenacola PAVE', 'Exophiala sideris', 'Nannospalax galili', 'Endozoicomonas montiporae', 'Pseudomonas sp. StFLB209', 'Acinetobacter sp. P8-3-8', 'Sphingomonas sp. KC8', 'Caloramator sp. ALD01', 'Campylobacter volucris LMG 24379', 'Corynebacterium nuruki S6-4', 'Bacillus timonensis', 'Brevibacterium senegalense', 'Kurthia sp. Dielmo', 'Kurthia massiliensis', 'Kurthia senegalensis', 'Exophiala aquamarina CBS 119918', 'Marinobacter adhaerens HP15', 'Thioalkalivibrio sulfidiphilus HL-EbGr7', 'Nitrososphaera viennensis EN76', 'Paenibacillus sp. HW567', 'Legionella massiliensis', 'Deferrisoma camini S3R1', 'Dehalobacter sp. FTH1', 'Idiomarina sp. A28L', 'Bradyrhizobium sp. WSM2793', 'Bradyrhizobium sp. WSM3983', 'Mesorhizobium sp. WSM3224', 'Mesorhizobium sp. WSM3626', 'Bradyrhizobium sp. ARR65', 'Drosophila rhopaloa', 'Ensifer sp. WSM1721', 'Candidatus Arthromitus sp. SFB-rat-Yit', 'Wickerhamomyces ciferrii', 'Aureobasidium subglaciale EXF-2481', 'Clostridium sp. SY8519', 'Rhizobium sp. IBUN', 'Ochrovirga pacifica', 'Thermococcus sp. 4557', 'Acidiphilium sp. PM', 'Demequina mangrovi', 'Citricoccus sp. CH26A', 'Oceaniovalibus guishaninsula JLT2003', 'Aminicenantes bacterium SCGC AAA252-A02', 'Zymoseptoria brevis', 'Zymoseptoria tritici', 'Candidatus Moranella endobia PCIT', 'Paracoccidioides lutzii', 'Anditalea andensis', 'Paenibacillus sp. Aloe-11', 'Verticillium alfalfae VaMs.102', 'Acetobacteraceae bacterium AT-5844', 'Thermoplasmatales archaeon BRNA1', 'Methylotenera versatilis 301', 'Psychrobacter sp. TB67', 'Grimontia indica', 'Nocardia sp. BMG51109', 'Ensifer sp. BR816', 'Azospirillum baldaniorum', 'Amycolatopsis halophila YIM 93223', 'Aspergillus luchuensis IFO 4308', 'Halonotius sp. J07HN4', 'Bacillus sp. NSP22.2', 'Tetrapisispora blattae', 'Caballeronia grimmiae', 'Lachancea dasiensis CBS 10888', 'Porticoccus hydrocarbonoclasticus MCTG13d', 'Armillaria solidipes', 'Pantoea rwandensis', 'Thiolapillus brandeum', 'Acetobacter okinawensis JCM 25146', 'Staphylococcus sp. HGB0015', 'Paenisporosarcina sp. HGH0030', 'Streptomyces sp. HGB0020', 'Parabacteroides sp. HGS0025', 'Bacteroides sp. HPS0048', 'Coprococcus sp. HPP0074', 'Coprococcus sp. HPP0048', 'Serinicoccus profundi MCCC 1A05965', 'Haemophilus sputorum CCUG 13788', 'Paenibacillus sp. HGH0039', 'Corynebacterium sp. HFH0082', 'Rhizobium mesoamericanum STM3625', 'Leucobacter chromiiresistens JG 31', 'Citrobacter sp. S-77', 'Saccharomyces eubayanus', 'Candidatus Aquiluna sp. IMCC13023', 'Hepatospora eriocheir', 'Enterospora canceri', 'Aquimarina agarilytica ZC1', 'Bartonella sp. DB5-6', 'Streptococcus sp. SK140', 'Streptococcus sp. SK643', 'Methylobacterium sp. GXF4', 'Arthrobacter sp. PAO19', 'Burkholderia sp. YI23', 'Coprobacter fastidiosus NSB1', 'Limnohabitans sp. Rim28', 'Limnohabitans sp. Rim47', 'Arthrobacter sp. MA-N2', 'Paracoccus sp. N5', 'Methylopila sp. M107', 'Methylobacterium sp. 10', 'Methylobacterium sp. 77', 'Methylophilaceae bacterium 11', 'Pyrobaculum ferrireducens', 'Actinomyces sp. ICM39', 'Clostridium sp. MSTE9', 'Rickettsia philipii str. 364D', 'Paenirhodobacter enshiensis', 'Penicillium rubens', 'Thermus sp. CCB_US3_UF1', 'Metallosphaera yellowstonensis MK1', 'Atopobium sp. BV3Ac4', 'Propionimicrobium sp. BV2F7', 'Peptoniphilus sp. BV3C26', 'Coriobacteriaceae bacterium BV3Ac1', 'Megasphaera sp. BV3C16-1', 'Psychrobacter sp. PAMC 21119', 'Sphingomonas sp. PAMC 26605', 'Sphingomonas sp. PAMC 26617', 'Methylophilus sp. 5', 'Arthrobacter sp. 31Y', 'Hoeflea sp. 108', 'Vibrio sp. EJY3', 'Elizabethkingia anophelis NUHP1', 'Brevibacillus massiliensis', 'Actinomyces sp. ph3', 'Halomonas sp. GFAJ-1', 'Arthrobacter sp. Rue61a', 'Rhizobium grahamii CCGE 502', 'Sphingopyxis sp. LC363', 'Methylopila sp. 73B', 'Mycobacterium sp. 141', 'Actinomadura flavalba DSM 45200', 'Corynebacterium doosanense CAU 212 = DSM 45436', 'Gordonia kroppenstedtii DSM 45133', 'Fodinicurvata fenggangensis DSM 21160', 'Fodinicurvata sediminis DSM 21159', 'Halomonas zhanjiangensis DSM 21076', 'Hirschia maritima DSM 19733', 'Pedobacter oryzae DSM 19973', 'Ponticaulis koreensis DSM 19734', 'Rubellimicrobium mesophilum DSM 19309', 'Thiomicrorhabdus sp. Kp2', 'Gonapodya prolifera JEL478', 'SAR86 cluster bacterium SAR86A', 'SAR86 cluster bacterium SAR86B', 'Magnetococcus marinus MC-1', 'Treponema sp. JC4', 'Pseudomonas sp. P179', 'Limimaricola cinnabarinus LL-001', 'Bosea sp. 117', 'Bradyrhizobium sp. DOA9', 'Paenibacillus beijingensis', 'Bacillus sp. JS', 'Paraglaciecola arctica BSs20135', 'Weissella oryzae SG25', 'Marine Group I thaumarchaeote SCGC AB-629-I23', 'Nitrospina sp. AB-629-B18', 'Dehalobacter sp. CF', 'Sphaerochaeta globosa str. Buddy', 'Sphaerochaeta pleomorpha str. Grapes', 'Flavobacterium sp. 83', 'Methylobacterium sp. 88A', 'Xanthobacter sp. 126', 'Arthrobacter sp. 35W', 'Bacillus sp. 37MA', 'Rhizobium sp. CCGE 510', 'Melioribacter roseus P3M-2', 'Alkalihalobacillus ligniniphilus', 'Cellvibrio sp. BR', 'Klebsiella michiganensis E718', 'Nocardiopsis sp. CNT312', 'Streptomyces sp. CNH099', 'Saccharomonospora sp. CNQ490', 'Xanthomarina gelatinilytica', 'Endozoicomonas numazuensis', 'Clostridium arbusti SL206', 'Mycobacterium paraintracellulare', 'Lactobacillus curieae', 'Pseudomassariella vexata', 'Homolaphlyctis polyrhiza', 'Novosphingobium sp. AP12', 'Sphingobium sp. AP49', 'Rhizobium sp. CF080', 'Rhizobium sp. CF122', 'Flavobacterium sp. CF136', 'Herbaspirillum sp. CF444', 'Pseudomonas sp. GM21', 'Herbaspirillum sp. YR522', 'Phyllobacterium sp. YR531', 'Tritrichomonas foetus', 'Acinetobacter sp. CIP 101934', 'Acinetobacter sp. CIP 101966', 'Acinetobacter sp. CIP 102082', 'Acinetobacter sp. CIP 102129', 'Acinetobacter sp. CIP 102136', 'Acinetobacter sp. CIP 102143', 'Acinetobacter sp. CIP 102159', 'Acinetobacter sp. CIP 102529', 'Acinetobacter sp. CIP 102637', 'Acinetobacter sp. CIP 51.11', 'Acinetobacter sp. CIP 53.82', 'Acinetobacter sp. CIP 56.2', 'Acinetobacter sp. CIP 64.7', 'Acinetobacter sp. CIP A162', 'Lysinibacillus varians', 'Dehalobacter sp. DCA', 'Ornithinibacillus scapharcae TW25', 'Achromobacter arsenitoxydans SY8', 'Acinetobacter oleivorans DR1', 'Geminisphaera colitermitum TAV2', 'Pseudomonas furukawaii', 'Arthrobacter sp. 9MFCol3.1', 'Leifsonia sp. 109', 'Tsukamurella sp. 1534', 'Arthrobacter sp. 161MFSha2.1', 'Arthrobacter sp. 162MFSha1.1', 'Microbacterium sp. 292MF', 'Nematocida sp. 1 ERTm2', 'Streptomyces sp. LaPpAH-108', 'Streptomyces sp. MspMP-M5', 'Moorea producens 3L', 'Streptococcus sp. I-G2', 'Streptococcus sp. I-P16', 'Streptomyces sp. HmicA12', 'Tumebacillus flagellatus', 'Streptomyces sp. LaPpAH-95', 'Streptomyces sp. Amel2xE9', 'Streptomyces sp. ATexAB-D23', 'Streptomyces sp. BoleA5', 'Streptomyces sp. PsTaAH-124', 'Streptomyces sp. FxanaC1', 'Mycobacterium sp. 155', 'Thermotoga sp. Cell2', 'Thermotoga sp. 2812B', 'Arthrobacter sp. 135MFCol5.1', 'Thioalkalivibrio sp. ALJT', 'Thioalkalivibrio sp. ALD1', 'Thioalkalivibrio sp. ALMg11', 'Thioalkalivibrio sp. ALE31', 'Thiomonas sp. FB-Cd', 'Prevotella sp. 10(H)', 'Desulfurobacterium sp. TC5-1', 'Persephonella sp. IF05-L8', 'Persephonella sp. KM09-Lau-8', 'Kosakonia sacchari SP1', 'Thioalkalivibrio sp. ALJ7', 'Thioalkalivibrio sp. ALJ11', 'Thioalkalivibrio sp. ALJ16', "Leptospirillum sp. Group II 'C75'", 'Ustilaginoidea virens', 'Bordetella sp. FB-8', 'Nocardia sp. BMG111209', 'Brucella sp. 63/311', 'Ruminococcus bicirculans', 'Candidatus Nasuia deltocephalinicola str. NAS-ALF', 'Euryhalocaulis caribicus', 'Streptococcus sp. ACC21', 'Ruminococcus champanellensis 18P13 = JCM 17042', 'Pseudomonas donghuensis', 'Clostridium sp. 12(A)', 'Cronobacter condimenti 1330', 'Richelia intracellularis HH01', 'Imtechella halotolerans K1', 'Methylotenera sp. 73s', 'Sulfurovum sp. AR', 'Enterobacter sp. R4-368', 'Halomonas xinjiangensis', 'Draconibacterium orientale', 'Xanthobacteraceae bacterium 501b', 'Mycobacterium sp. MOTT36Y', 'Mycobacterium sp. H4Y', 'Streptomyces pratensis ATCC 33331', 'Bacillus sp. 123MFChir2', 'Nocardia sp. CNY236', 'Streptomyces sp. CNT372', 'Streptomyces sp. CNY243', 'Brucella sp. F5/06', 'Brucella sp. 56/94', 'Citrobacter sp. KTE30', 'Escherichia sp. KTE114', 'Citrobacter sp. KTE151', 'Escherichia sp. KTE11', 'Escherichia sp. KTE31', 'Citrobacter sp. KTE32', 'Vitrella brassicaformis CCMP3155', 'Rhodobacteraceae bacterium PD-2', 'Streptomyces sp. 142MFCol3.1', 'Streptomyces sp. 351MFTsu5.1', 'Streptomyces sp. 303MFCol5.2', 'Nocardia sp. 348MFTsu5.1', 'Mycobacterium sp. 360MFTsu5.1', 'Terracoccus sp. 273MFTsu3.1', 'Oxytricha trifallax', 'Sulfurimonas hongkongensis', 'Catenovulum agarivorans DS-2', 'Fischerella sp. PCC 9431', 'Fischerella sp. PCC 9605', 'Geitlerinema sp. PCC 7407', 'Gloeocapsa sp. PCC 7428', 'Microcoleus sp. PCC 7113', 'Oscillatoria sp. PCC 10802', 'Chamaesiphon minutus PCC 6605', 'Synechococcus sp. PCC 7502', 'Leptolyngbya sp. PCC 6406', 'Colletotrichum sublineola', 'Fischerella sp. PCC 9339', 'Sphingopyxis sp. MC1', 'Herbaspirillum sp. GW103', 'Methanocella conradii HZ254', 'Methanocella arvoryzae MRE50', 'Peptoniphilus rhinitidis 1-13', 'Sulfurimonas gotlandica GD1', 'Agrobacterium fabrum str. C58', 'Alcanivorax nanhaiticus', 'Microbacterium sp. C448', 'Komagataeibacter medellinensis NBRC 3288', 'Halomonas huangheensis', 'Bacillus xiamenensis', 'Bacillus zhangzhouensis', 'Arenitalea lutea', 'Candidatus Photodesmus blepharus', 'Mycoplasma feriruminatoris', 'Pseudomonas sp. M47T1', 'Cladophialophora psammophila', 'Deinococcus swuensis', 'Escherichia sp. KTE52', 'Klebsiella sp. KTE92', 'Escherichia sp. KTE96', 'Escherichia sp. KTE159', 'Myroides injenensis M09-0166', 'Pyrococcus sp. ST04', 'Mesotoga prima MesG1.Ag.4.2', 'Thioclava dalianensis', 'Blattabacterium sp. (Blaberus giganteus)', 'Rhodovulum sp. PH10', 'Flavobacterium sp. ACAM 123', 'Burkholderia sp. lig30', 'Lactobacillus hokkaidonensis JCM 18461', 'Snodgrassella alvi', 'Gilliamella apicola', 'Corvus moneduloides', 'Clostridium sp. Maddingley MBC34-26', 'Paenibacillus sp. OSY-SE', 'Mangrovimonas yunxiaonensis', 'Arthrobacter sp. M2012083', 'Janthinobacterium sp. HH01', 'Thermogladius calderae 1633', 'Anaerovibrio sp. RM50', 'Ruminobacter sp. RM87', 'Bacteriovorax sp. Seq25_V', 'Bacteriovorax sp. BAL6_X', 'Flavobacterium sp. F52', 'Lactobacillus oryzae JCM 18671', 'Halopiger salifodinae', 'Achlya hypogyna', 'Lactobacillus hominis DSM 23910 = CRBIP 24.179', 'Geobacter daltonii FRC-32', 'Acidaminococcus sp. HPA0509', 'Actinomyces sp. HPA0247', 'Corynebacterium sp. KPL1814', 'Corynebacterium sp. KPL1817', 'Corynebacterium sp. KPL1818', 'Corynebacterium sp. KPL1821', 'Corynebacterium sp. KPL1824', 'Corynebacterium sp. KPL1855', 'Corynebacterium sp. KPL1856', 'Corynebacterium sp. KPL1857', 'Corynebacterium sp. KPL1859', 'Corynebacterium sp. KPL1860', 'Dermabacter sp. HFH0086', 'Propionibacterium sp. HGH0353', 'Propionibacterium sp. KPL1838', 'Propionibacterium sp. KPL1844', 'Propionibacterium sp. KPL1852', 'Pseudomonas sp. HPB0071', 'Streptococcus sp. HPH0090', 'Streptomyces sp. HPH0547', 'Veillonella sp. HPA0037', 'Corynebacterium sp. KPL1986', 'Corynebacterium sp. KPL1989', 'Corynebacterium sp. KPL1995', 'Corynebacterium sp. KPL1996', 'Corynebacterium sp. KPL1998', 'Corynebacterium sp. KPL2004', 'Propionibacterium sp. KPL2005', 'Propionibacterium sp. KPL2009', 'Streptomyces sp. CNR698', 'Novosphingobium sp. MBES04', 'Pseudomonas sp. Lz4W', 'Gallaecimonas xiamenensis 3-C-1', 'Idiomarina xiamenensis 10-D-4', 'Sphingobium sp. C100', 'Hyphomonas sp. L-53-1-40', 'Pseudomonas sp. UW4', 'Marinomonas profundimaris', 'Celeribacter indicus', 'Commensalibacter sp. MX01', 'Colletotrichum orchidophilum', 'Streptomyces sp. AA0539', 'Gemmata massiliana', 'Pseudoxanthomonas sp. GW2', 'Chelatococcus sp. GW1', 'Dyadobacter tibetensis Y620-1', 'Enterobacteriaceae bacterium B14', 'Acidocella sp. MX-AZ02', 'Diaporthe ampelina', 'Thermus tengchongensis YIM 77401', 'Amphibacillus jilinensis Y1', 'Clostridium bornimense', 'Acinetobacter sp. NIPH 542', 'Acinetobacter sp. NIPH 298', 'Acinetobacter sp. CIP 64.2', 'Acinetobacter sp. NIPH 1847', 'Acinetobacter sp. NIPH 3623', 'Acinetobacter sp. CIP 110321', 'Acinetobacter sp. CIP 70.18', 'Acinetobacter sp. ANC 3880', 'Acinetobacter sp. NIPH 1867', 'Acinetobacter sp. ANC 4105', 'Acinetobacter sp. NIPH 284', 'Acinetobacter sp. ANC 3862', 'Acinetobacter sp. NIPH 2168', 'Acinetobacter sp. ANC 3929', 'Acinetobacter sp. NIPH 2100', 'Acinetobacter sp. NIPH 713', 'Acinetobacter sp. NIPH 899', 'Acinetobacter sp. NIPH 236', 'Acinetobacter sp. NIPH 758', 'Acinetobacter sp. ANC 3789', 'Cupriavidus sp. BIS7', 'Roseomonas sp. B5', 'Xylona heveae TC161', 'Octadecabacter antarcticus 307', 'Streptomyces sp. GBA 94-10', 'Brucella inopinata BO1', 'Lactobacillus mellifer', 'Lactobacillus kullabergensis', 'Lactobacillus helsingborgensis', 'Lactobacillus kimbladii', 'Lactobacillus melliventris', 'Lactobacillus mellis', 'Acinetobacter nectaris CIP 110549', 'Actinomyces sp. S4-C9', 'Arcanobacterium sp. S3PF19', 'Peptostreptococcus sp. MV1', 'Methanobacterium sp. Maddingley MBC34', 'Altibacter lentus', 'Corynebacterium humireducens NBRC 106098 = DSM 45392', 'Enterobacteriaceae bacterium LSJC7', 'Mangrovibacter sp. MFB070', 'Pantoea sp. A4', 'Dickeya sp. DW 0440', 'Oscillibacter sp. KLE 1728', 'Oscillibacter sp. KLE 1745', 'Blautia sp. KLE 1732', 'Clostridium sp. KLE 1755', 'Streptomyces rapamycinicus NRRL 5491', 'Actinomyces sp. oral taxon 877 str. F0543', 'Capnocytophaga sp. oral taxon 863 str. F0517', 'Leptotrichia sp. oral taxon 879 str. F0557', 'Prevotella sp. F0091', 'Paenibacillus sp. FSL H7-689', 'Paenibacillus sp. FSL R7-277', 'Leptolyngbya sp. KIOST-1', 'Sphingobacterium deserti', 'Flavobacterium sp. WG21', 'Cupriavidus sp. GA3-3', 'Alkalibacterium sp. AK22', 'Candidatus Nitrosopumilus sediminis', 'Salimicrobium jeotgali', 'Bradyrhizobium sp. DFCI-1', 'Flaviramulus ichthyoenteri Th78', 'Lachancea sp. CBS 6924', 'Lachancea mirantina', 'Paenisporosarcina sp. TG-14', 'Nitratireductor pacificus pht-3B', 'Thermotoga sp. Mc24', 'Lactobacillus shenzhenensis LY-73', 'Clohesyomyces aquaticus', 'Desulfuromonas sp. TF', 'Corynebacterium ihumii', 'Megasphaera massiliensis', 'Nesterenkonia massiliensis', 'Nosocomiicoccus massiliensis', 'Enorma timonensis', 'Desulfobacula sp. TS', 'Clostridiales bacterium VE202-13', 'Clostridiales bacterium VE202-18', 'Clostridiales bacterium VE202-09', 'Clostridiales bacterium VE202-08', 'Clostridiales bacterium VE202-14', 'Clostridiales bacterium VE202-21', 'Marinobacterium sp. AK27', 'Geobacillus sp. GHH01', 'Chryseobacterium sp. JM1', 'Chryseobacterium sp. FH1', 'Staphylococcus sp. E463', 'Pacificimonas flava', 'Gayadomonas joobiniege G7', 'Ralstonia sp. AU12-08', 'Eubacterium sp. 14-2', 'Lachnospiraceae bacterium M18-1', 'Lachnospiraceae bacterium MD335', 'Firmicutes bacterium M10-2', 'Oscillibacter sp. 1-3', 'Dorea sp. 5-2', 'Lachnospiraceae bacterium MD308', 'Lachnospiraceae bacterium 10-1', 'Parabacteroides sp. ASF519', 'Anaerotruncus sp. G3(2012)', 'Candidatus Pantoea carbekii', 'Haloquadratum sp. J07HQX50', 'Halonotius sp. J07HN6', 'Halorubrum sp. J07HR59', 'Sodalis praecaptivus', 'Dokdonia sp. PRO95', 'Bacillus massiliogorillae', 'Luteimonas huabeiensis HB2', 'Campylobacter iguaniorum', 'Magnetospirillum caucaseum', 'Mariniradius saccharolyticus AK6', 'Lachancea lanzarotensis', 'Borreliella chilensis', 'Nocardiopsis potens DSM 45234', 'Rhizobium sp. 2MFCol3.1', 'Halobacillus sp. BAB-2008', 'Paramicrosporidium saccamoebae', 'Arsenophonus endosymbiont str. Hangzhou of Nilaparvata lugens', 'Microbacterium sp. UCD-TDU', 'Parvularcula oceani', 'Blastomonas sp. AAP53', 'Sandarakinorhabdus sp. AAP62', 'Porphyrobacter sp. AAP82', 'Candidatus Sulfuricurvum sp. RIFRC-1', 'Imhoffiella purpurea', 'Gillisia sp. Hel_I_29', 'Maribacter sp. Hel_I_7', 'Polaribacter sp. Hel1_85', 'Polaribacter sp. Hel_I_88', 'Muricauda sp. MAR_2010_75', 'Salegentibacter sp. Hel_I_6', 'Pseudomonas sp. FGI182', "Leptospirillum sp. Group IV 'UBA BS'", 'Streptomyces sp. 769', 'Phascolarctobacterium sp. CAG:207', 'Phascolarctobacterium sp. CAG:266', 'Oscillibacter ruminantium GH1', 'Edwardsiella piscicida C07-087', 'Candidatus Endolissoclinum faulkneri L2', 'Pseudomonas sp. URMO17WK12:I8', 'Streptomyces sp. PAMC 26508', 'Nafulsella turpanensis ZLM-10', 'Lysinibacillus manganicus DSM 26584', 'Thioalkalivibrio sp. ALE6', 'Thioalkalivibrio sp. ALE19', 'Thioalkalivibrio sp. AKL19', 'Frischella perrara', 'Sediminibacterium sp. C3', 'Acidobacteriaceae bacterium KBS 83', 'Acidobacteriaceae bacterium KBS 89', 'Pantoea sp. IMH', 'Pseudomonas sp. G5(2012)', 'Peptoniphilus timonensis JC401', 'Rhodococcus sp. AW25M09', 'Acidovorax sp. MR-S7', 'Thioalkalivibrio sp. ALR17-21', 'Flavobacterium sp. KJJ', 'Pedobacter sp. R20-19', 'Megasphaera sp. NM10', 'Liberibacter crescens BT-1', 'Mycobacterium sp. VKM Ac-1817D', 'Paenibacillus antibioticophila', 'Candidatus Hepatobacter penaei', 'Acidovorax sp. JHL-9', 'Escherichia sp. KTE172', 'Hippea alviniae EP5-r', 'Synechococcus sp. KORDI-100', 'Gorillibacterium massiliense', 'Butyrivibrio sp. AE2015', 'Butyrivibrio sp. VCD2006', 'Butyrivibrio sp. AE3009', 'Butyrivibrio sp. XPD2006', 'Butyrivibrio sp. FC2001', 'Butyrivibrio sp. AE3006', 'Prevotella sp. AGR2160', 'Butyrivibrio sp. WCD3002', 'Butyrivibrio sp. VCB2006', 'Butyrivibrio sp. LC3010', 'Butyrivibrio sp. WCD2001', 'Butyrivibrio sp. XBB1001', 'Butyrivibrio sp. NC3005', 'Butyrivibrio sp. MC2013', 'Meira miltonrushii', 'Hyphomonas pacifica', 'Hyphomonas sp. CY54-11-8', 'Hyphomonas beringensis', 'Hyphomonas chukchiensis', 'Hyphomonas atlantica', 'Asticcacaulis sp. AC460', 'Asticcacaulis sp. AC402', 'Asticcacaulis sp. AC466', 'Frankia sp. Iso899', 'Tolumonas lignilytica', 'Nocardioides sp. Iso805N', 'Paenibacillus sp. A9', 'Planktomarina temperata RCA23', 'Actinomyces sp. S6-Spd3', 'Tissierellia bacterium S7-1-4', 'Prevotella sp. S7-1-8', 'Pandoraea sp. SD6-2', 'Brachyspira hampsonii 30446', 'Mesorhizobium sp. L2C084A000', 'Mesorhizobium sp. LNJC398B00', 'Prevotella sp. S7 MS 2', 'Bacillus massiliosenegalensis JC6', 'Achromobacter insuavis AXX-A', 'Arcticibacter svalbardensis MN12-7', 'Streptomyces sp. CNT318', 'Streptomyces sp. TAA040', 'Anaerococcus senegalensis JC48', 'Alistipes senegalensis JC50', 'Actinomyces timonensis DSM 23838', 'Nitrosospira lacus', 'Magnetospira sp. QH-2', 'Streptomyces sp. TAA204', 'Candidatus Methanomethylophilus alvus Mx1201', 'Dietzia sp. UCD-THP', 'Kocuria sp. UCD-OTCP', 'Leucobacter sp. UCD-THU', 'Halopiger djelfimassiliensis', 'Halopiger goleimassiliensis', 'Pseudomonas sp. ATCC 13867', 'Photobacterium gaetbulicola Gung47', 'Thermodesulfobacterium geofontis OPF15', 'Parageobacillus genomosp. 1', 'Aquimarina pacifica', 'Mesorhizobium sp. STM 4661', 'Intestinimonas butyriciproducens', 'Myxococcus hansupus', 'Afipia sp. OHSU_I-C4', 'Bradyrhizobium sp. OHSU_III', 'Psychrobacter sp. JCM 18900', 'Mesorhizobium sp. URHA0056', 'Microbacterium sp. URHA0036', 'Marmoricola sp. URHB0036', 'Mycobacterium sp. URHD0025', 'Alteromonas sp. ALT199', 'Bradyrhizobium sp. URHA0002', 'Streptomyces sp. TAA486', 'Methanocaldococcus bathoardescens', 'Caldisalinibacter kiritimatiensis', 'Cellulomonas sp. KRMCY2', 'Clostridium sp. ASBs410', 'Geovibrio sp. L21-Ace-BES', 'Microbacterium sp. KROCY2', 'Oceanicola sp. HL-35', 'Marinobacter nanhaiticus D15-8W', 'Sporosarcina sp. EUR3 2.2.2', 'Alcanivorax pacificus W11-5', 'Termitomyces sp. J132', 'Streptomyces hokutonensis', 'Desulfohalovibrio reitneri', 'Salinispira pacifica', 'Arthrobacter sp. Br18', 'Arthrobacter sp. H14', 'Thermocrinis sp. GBS', 'Aureispira sp. CCB-QB1', 'Peniophora sp. CONT', 'Perkinsela sp. CCAP 1560/4', 'Streptococcus sp. HSISM1', 'Streptococcus sp. HSISB1', 'Streptococcus sp. HSISS1', 'Streptococcus sp. HSISS2', 'Streptococcus sp. HSISS3', 'Enterococcus sp. HSIEG1', 'Blattabacterium sp. (Nauphoeta cinerea)', 'Archaeoglobus sulfaticallidus PM70-1', 'Aquimarina atlantica', 'Thioclava atlantica', 'Candidatus Mycoplasma girerdii', 'Mesorhizobium sp. NBIMC_P2-C3', 'Clostridiales bacterium oral taxon 876 str. F0540', 'Mitsuokella sp. oral taxon 131 str. W9106', 'Peptostreptococcaceae bacterium oral taxon 113 str. W5053', 'Selenomonas sp. oral taxon 892 str. F0426', 'Rhodococcus defluvii', 'Mycobacterium sp. TKK-01-0059', 'Serratia sp. FS14', 'Prolemur simus', 'Thermoactinomyces daqus', 'Enterobacter sp. MGH 1', 'Enterobacter sp. MGH 3', 'Enterobacter sp. MGH 6', 'Enterobacter sp. MGH 7', 'Enterobacter sp. MGH 10', 'Enterobacter sp. MGH 15', 'Enterobacter sp. MGH 22', 'Enterobacter sp. MGH 23', 'Enterobacter sp. MGH 24', 'Enterobacter sp. MGH 25', 'Enterobacter sp. MGH 33', 'Enterobacter sp. MGH 37', 'Enterobacter sp. MGH 38', 'Enterobacter sp. BWH 37', 'Enterobacter sp. BIDMC 26', 'Enterobacter sp. BIDMC 27', 'Enterobacter sp. BIDMC 28', 'Enterobacter sp. BIDMC 29', 'Enterobacter sp. BIDMC 30', 'Novosphingobium lindaniclasticum LE124', 'Cycloclasticus zancles 78-ME', 'Thermus caliditerrae', 'Auricularia subglabra TFB-10046 SS5', 'Sphingobium baderi LL03', 'Candidatus Saccharimonas aalborgensis', 'Salinarchaeum sp. Harcht-Bsk1', 'Bifidobacterium moukalabense DSM 27321', 'Tepidicaulis marinus', 'Spiribacter salinus M19-40', 'Spiribacter curvatus', 'Sphingobium bisphenolivorans', 'Polaribacter sp. Hel1_33_49', 'Calothrix sp. 336/3', 'Bacillus sp. UNC438CL73TsuS30', 'Luminiphilus syltensis NOR5-1B', 'Flavobacterium enshiense DK69', 'Brucella sp. 04-5288', 'Sulfitobacter geojensis', 'Sulfitobacter noctilucicola', 'Sulfitobacter noctilucae', 'Saccharibacter sp. AM169', 'Epichloe mollis', 'Winogradskyella psychrotolerans RS-3', 'Halomonas sp. A3H3', 'Bacillus sp. EB01', 'Paucisalibacillus sp. EB02', 'Bacillus ndiopicus', 'Bacillus dielmoensis', 'Anaerosalibacter massiliensis', 'Bacteroides neonati', 'Pseudoalteromonas piratica', 'Arthrobacter sp. AK-YN10', 'Cyclobacterium qasimii M12-11B', 'Synechococcus sp. UTEX 2973', 'Thioclava indica', 'Bacteriovorax sp. BSW11_IV', 'Peptoniphilus mikwangii', 'Roseovarius sp. MCTG156(2b)', 'Arcobacter sp. AF1028', 'Arcobacter lanthieri', 'Bradyrhizobium diazoefficiens USDA 110', 'Rhodococcus sp. PML026', 'Hymenobacter sp. APR13', 'Batrachochytrium salamandrivorans', 'Lutibaculum baratangense AMV1', 'Thermofilum adornatum', 'Zygosaccharomyces parabailii', 'Rhodobacteraceae bacterium HIMB11', 'Fonsecaea erecta', 'Mycobacterium sp. UM_WGJ', 'Mycobacterium sp. UM_WWY', 'Firmicutes bacterium ASF500', 'Dyella jiangningensis', 'Gemmatimonas phototrophica', 'Desulfonauticus sp. A7A', 'Sphingomonas sp. FUKUSWIS1', 'Methanobacterium sp. MB1', 'Spirosoma radiotolerans', 'Streptomyces sp. URHA0041', 'Geodermatophilaceae bacterium URHB0048', 'Mesorhizobium sp. URHC0008', 'Cellulomonas sp. URHE0023', 'Bradyrhizobium sp. URHD0069', 'Blastococcus sp. URHD0036', 'Halomonas sp. 23_GOM-1509m', 'Sulfitobacter sp. 20_GPM-1509m', 'Intrasporangiaceae bacterium URHB0013', 'Ahrensia sp. 13_GOM-1096m', 'Tenacibaculum sp. 47A_GOM-205m', 'Mycobacterium sp. URHB0044', 'Alcanivorax sp. 43B_GOM-46m', 'Solirubrobacterales bacterium URHD0059', 'Dongia sp. URHE0060', 'Geodermatophilaceae bacterium URHA0031', 'Rhodospirillales bacterium URHD0088', 'Paenibacillus darwinianus', 'Streptomycetaceae bacterium MP113-05', 'Aliihoeflea sp. 2WW', 'Brevibacterium sp. VCM10', 'Caulobacteraceae bacterium PMMR1', 'Sporosarcina sp. D27', 'Thermogemmatispora carboxidivorans', 'Thermorudis peleae', 'Acidobacterium ailaaui', 'Methyloceanibacter caenitepidi', 'Francisella sp. W12-1067', 'Lysobacter arseniciresistens ZS79', 'Hymenobacter sp. DG25B', 'Leptolyngbya sp. Heron Island J', 'Exiguobacterium chiriqhucha RW-2', 'Sphingobacterium paucimobilis HER1398', 'Methylophilus sp. OH31', 'Staphylococcus sp. M0480', 'Clostridium sp. Ade.TY', 'Pseudogymnoascus sp. VKM F-3808', 'Kalmanozyma brasiliensis', 'Prevotella sp. HUN102', 'Eubacterium sp. AB3007', 'Flavimarina sp. Hel_I_48', 'Leeuwenhoekiella sp. MAR_2009_132', 'Sediminibacter sp. Hel_I_10', 'Ruminococcaceae bacterium AE2021', 'Lachnospiraceae bacterium AC2031', 'Bifidobacterium sp. 7101', 'Bifidobacterium sp. A11', 'Candidatus Saccharibacteria bacterium RAAC3_TM7_1', 'Thermosynechococcus sp. NK55a', 'Paenibacillus sp. MAEPY2', 'Haloferula sp. BvORR071', 'Verrucomicrobium sp. BvORR034', 'Marinobacter sp. ES-1', 'Leucobacter sp. PH1c', 'Serratia sp. H1n', 'Alcanivorax sp. P2S70', 'Halomonas sp. PBN3', 'Candidatus Micropelagos thuwalensis', 'Exiguobacterium sp. MH3', 'Ophiocordyceps australis', 'Bacteroidales bacterium CF', 'Flavobacterium limnosediminis JC2902', 'Sulfitobacter pseudonitzschiae', 'Streptomyces sp. A02', 'Verrucomicrobium sp. BvORR106', 'Corynebacterium glyciniphilum AJ 3170', 'Candidatus Methanomassiliicoccus intestinalis Issoire-Mx1', 'Synechococcus sp. NKBG15041c', 'Betaproteobacteria bacterium MOLA814', 'Bacillus sp. MB2021', 'Butyrivibrio sp. FCS014', 'Butyrivibrio sp. MC2021', 'Prevotella sp. MA2016', 'Oribacterium sp. FC2011', 'Pseudobutyrivibrio sp. LB2011', 'Lachnospiraceae bacterium AC2028', 'Lachnospiraceae bacterium AC3007', 'Lachnospiraceae bacterium MA2020', 'Lachnospiraceae bacterium MC2017', 'Youngiibacter fragilis 232.1', 'Candidatus Tachikawaea gelatinosa', 'Candidatus Nitrosopelagicus brevis', 'Bacteroides sp. Ga6A2', 'Treponema sp. C6A8', 'Oribacterium sp. P6A1', 'Prevotella sp. P6B1', 'Pseudobutyrivibrio sp. MD2005', 'Ruminococcus sp. FC2018', 'Selenomonas sp. ND2010', 'Serratia sp. DD3', 'Shinella sp. DD12', 'Lachnospiraceae bacterium C6A11', 'Lachnospiraceae bacterium FE2018', 'Lachnospiraceae bacterium MD2004', 'Lachnospiraceae bacterium NC2004', 'Lachnospiraceae bacterium ND2006', 'Lachnospiraceae bacterium P6A3', 'Lachnospiraceae bacterium P6B14', 'Lachnospiraceae bacterium V9D3004', 'Lachnospiraceae bacterium YSB2008', 'Propionibacteriaceae bacterium P6A17', 'Ruminococcaceae bacterium AB4001', 'Methyloglobulus morosus KoM1', 'Rhizobiales bacterium YIM 77505', 'Gammaproteobacteria bacterium MOLA455', 'Corynebacterium jeddahense', 'Clostridium saudiense', 'Pseudomonas sp. TKP', 'Candidatus Walczuchella monophlebidarum', 'Marinobacter sp. MCTG268', 'Halomonas sp. TG39a', 'Oceanicola sp. MCTG156(1a)', 'Gloeobacter kilaueensis JS1', 'Defluviimonas sp. 20V17', 'Streptococcus sp. VT 162', 'Pseudogymnoascus sp. VKM F-3775', 'Pseudogymnoascus sp. VKM F-4246', 'Pseudogymnoascus sp. VKM F-4281 (FW-2241)', 'Pseudogymnoascus sp. VKM F-4513 (FW-928)', 'Pseudogymnoascus sp. VKM F-4514 (FW-929)', 'Pseudogymnoascus sp. VKM F-4515 (FW-2607)', 'Pseudogymnoascus sp. VKM F-4516 (FW-969)', 'Pseudogymnoascus sp. VKM F-4517 (FW-2822)', 'Pseudogymnoascus sp. VKM F-103', 'Pseudogymnoascus sp. VKM F-4518 (FW-2643)', 'Pseudogymnoascus sp. VKM F-4519 (FW-2642)', 'Pseudogymnoascus sp. VKM F-4520 (FW-2644)', 'Marinobacter similis', 'Marinobacter salarius', 'Kurthia huakuii LAM0618', 'Bacillus sp. SJS', 'Hyphomicrobium nitrativorans NL23', 'Candidatus Entotheonella factor', 'Candidatus Entotheonella gemina', 'Afipia sp. P52-10', 'Geobacillus icigianus', 'Candidatus Halobonum tyrrellensis G22', 'Mannheimia sp. USDA-ARS-USMARC-1261', 'Mucinivorans hirudinis', 'Methanosarcina sp. Kolksee', 'Methanosarcina sp. MTP4', 'Methanosarcina sp. WH1', 'Methanosarcina sp. WWM596', 'Acinetobacter bohemicus ANC 3994', 'Alcanivorax sp. 97CO-5', 'Candidatus Symbiobacter mobilis CR', 'Pseudogymnoascus sp. VKM F-3557', 'Citrobacter sp. MGH 55', 'Pseudomonas sp. BAY1663', 'Talaromyces atroroseus', 'Clostridium sp. K25', 'Aquimarina megaterium XH134', 'Candidatus Protochlamydia massiliensis', 'Candidatus Rubidus massiliensis', 'Xylella taiwanensis', 'Gynuella sunshinyii YC6258', 'Sciscionella sp. SE31', 'Hymenobacter swuensis DY53', 'Bacillus sp. Pc3', 'Campylobacter corcagiensis', 'Halobellus rufus', 'Arthrobacter sp. UNC362MFTsu5.1', 'Mycobacterium sp. UNC280MFTsu5.1', 'Caulobacter sp. UNC358MFTsu5.1', 'Clostridium sp. KNHs205', 'Microbacterium sp. UNCCL10', 'Paenibacillus sp. UNC451MF', 'Phyllobacterium sp. UNC302MFCol5.2', 'Rhodococcus sp. UNC23MFCrub1.1', 'Rhodococcus sp. UNC363MFTsu5.1', 'Sphingomonas sp. UNC305MFCol5.2', 'Thermus amyloliquefaciens', 'Bacillus sp. TS-2', 'Microbacterium sp. MRS-1', 'Microbacterium sp. Cr-K32', 'Microbacterium sp. Cr-K20', 'Pseudomonas sp. RL', 'Chryseobacterium hispalense DSM 25574', 'Microbulbifer sp. HZ11', 'Candidatus Accumulibacter sp. BA-93', 'Cellulomonas sp. HZM', 'Chlamydia avium 10DC88', 'Chlamydia gallinacea 08-1274/3', 'Halapricum salinum', 'Caballeronia jiangsuensis', 'Serpentinomonas raichei', 'Serpentinomonas mccroryi', 'Candidatus Phaeomarinobacter ectocarpi', 'Lachnospiraceae bacterium AC2029', 'Candidatus Nitrososphaera evergladensis SR1', 'Geomicrobium sp. JCM 19037', 'Geomicrobium sp. JCM 19038', 'Bacillus sp. JCM 19046', 'Paraphaeosphaeria sporulosa', 'Weeksella massiliensis', 'Haemophilus massiliensis', 'Neobacillus jeddahensis', 'Jeotgalicoccus saudimassiliensis', 'Metalysinibacillus saudimassiliensis', 'Actibacterium atlanticum', 'Pseudooceanicola atlanticus', 'Pseudoalteromonas sp. SCSIO_11900', 'Virgibacillus massiliensis', 'Oceanobacillus jeddahense', 'Brucella papionis', 'Klebsiella quasipneumoniae subsp. quasipneumoniae UCICRE 14', 'Actinosporangium sp. NRRL B-3428', 'Glycomyces sp. NRRL B-16210', 'Saccharothrix sp. NRRL B-16314', 'Streptomyces sp. NRRL F-2580', 'Streptomyces sp. NRRL F-2890', 'Streptomyces sp. NRRL F-5008', 'Streptomyces sp. NRRL F-5053', 'Streptomyces sp. NRRL F-5065', 'Streptomyces sp. NRRL F-5123', 'Streptomyces sp. NRRL F-5126', 'Streptomyces sp. NRRL F-5135', 'Streptomyces sp. NRRL F-525', 'Streptomyces sp. NRRL F-5630', 'Streptomyces sp. NRRL F-6677', 'Streptomyces sp. NRRL S-118', 'Streptomyces sp. NRRL S-149', 'Streptomyces sp. NRRL S-1777', 'Streptomyces sp. NRRL S-237', 'Streptomyces sp. NRRL S-337', 'Streptomyces sp. NRRL S-340', 'Streptomyces sp. NRRL S-37', 'Streptomyces sp. NRRL S-474', 'Streptomyces sp. NRRL S-646', 'Streptomyces sp. NRRL S-87', 'Streptomyces sp. NRRL S-920', 'Streptomyces sp. NRRL WC-3626', 'Streptomyces sp. NRRL WC-3742', 'Streptomyces sp. NRRL WC-3773', 'Micromonospora parva', 'Aeromicrobium massiliense JC14', 'Peptoniphilus grossensis ph5', 'Peptoniphilus senegalensis JC140', "Oceanobacillus massiliensis str. N'diop", 'Paenibacillus senegalensis JC66', 'Clostridium senegalense JC122', 'Cellulomonas massiliensis JC225', 'Noviherbaspirillum massiliense JC206', 'Timonella senegalensis JC301', 'Burkholderia sp. 2002721687', 'Bacillus massilioanorexius AP8', 'Bartonella senegalensis OS02', 'Holdemania massiliensis AP2', 'Thioalkalivibrio sp. HK1', 'Burkholderiales bacterium GJ-E10', 'Lacinutrix jangbogonensis', 'Rhodovulum sp. NI22', 'Kineothrix alysoides', 'Alistipes ihumii AP11', 'Candidatus Stoquefichus massiliensis AP9', 'Clostridium ihumii AP5', 'Candidatus Blastococcus massiliensis AP3', 'Streptomyces sp. Tu 6176', 'Sphingomonas sp. RIT328', 'Pseudomonas sp. RIT357', 'Prochlorococcus sp. scB241_528O2', 'Prochlorococcus sp. scB245a_520K10', 'Talaromyces cellulolyticus', 'Basilea psittacipulmonis DSM 24701', 'Falsirhodobacter sp. alg1', 'Burkholderia sp. K24', 'Enorma massiliensis phI', 'Kallipyga massiliensis ph2', 'Senegalimassilia anaerobia JC110', 'Lysinibacillus sp. BF-4', 'Mizugakiibacter sediminis', 'Deinococcus phoenicis', 'Streptomyces sp. NRRL B-24720', 'Peptostreptococcaceae bacterium VA2', 'Halomonas sp. HL-48', 'Marinobacter sp. HL-58', 'Oceanicaulis sp. HL-87', 'Porphyrobacter sp. HL-46', 'Curtobacterium sp. S6', 'Spirochaeta lutea', 'Pantoea sp. PSNIH2', 'Pantoea sp. PSNIH1', 'Psychroserpens jangbogonensis', 'Exiguobacterium sp. AB2', 'Rhodoferax saidenbachensis ED16', 'Cadophora sp. DSE1049', 'Selenomonas sp. AE3005', 'Ferriphaselus sp. R-1', 'Ghiorsea bivora', 'Mitosporidium daphniae', 'Martelella endophytica', 'Candidatus Sodalis pierantonius str. SOPE', 'Clostridium sp. HMP27', 'Desulfosporosinus sp. HMP52', 'Corynebacterium sp. ATCC 6931', 'Pseudomonas sp. Ant30-3', 'Deinococcus sp. RL', 'Trichoderma guizhouense', 'Flavobacterium gilvum', 'Flavobacterium seoulense', 'Gammaproteobacteria bacterium MFB021', 'Arthrobacter sp. PAMC 25486', 'Mesoaciditoga lauensis cd-1655R = DSM 25116', 'Pseudomonas sp. WCS374', 'Penicillium cf. griseofulvum UFMGCB 6741', 'Candidatus Evansia muelleri', 'Cyanobium sp. CACIAM 14', 'Listeriaceae bacterium FSL A5-0209', 'Prochlorococcus sp. MIT 0601', 'Prochlorococcus sp. MIT 0602', 'Prochlorococcus sp. MIT 0701', 'Bacillus rubiinfantis', 'Clostridium sp. CL-6', 'Clostridium sp. CL-2', 'Bacillus andreraoultii', 'Pseudomonas saudiphocaensis', 'Clostridium amazonitimonense', 'Candidatus Moduliflexus flocculans', 'Candidatus Vecturithrix granuli', 'Paenibacillus sp. TCA20', 'Rhizobium sp. YR295', 'Rhizobium sp. YR519', 'Chryseobacterium sp. CF284', 'Rhizobium sp. CF097', 'Rhizobium sp. CF394', 'Rhizobium sp. OK494', 'Luteibacter sp. 9143', 'Luteibacter sp. 9135', 'Massilia sp. 9096', 'Burkholderia sp. 9120', 'Campylobacter sp. RM16704', 'Paenibacillus tyrfis', 'Prochlorococcus sp. MIT 0604', 'Prochlorococcus sp. MIT 0801', 'Oribacterium parvum ACB8', 'Oribacterium asaccharolyticum ACB7', 'Alistipes inops', 'Devosia sp. LC5', 'Methylotenera sp. L2L1', 'Pseudomonas sp. AAC', 'Sphingopyxis sp. LC81', 'Bosea sp. LC85', 'Massilia sp. LC238', 'Veillonella seminalis ACS-216-V-Col6b', 'Polaromonas sp. CG9_12', 'Halomonas sp. KO116', 'Chitinivibrio alkaliphilus ACht1', 'Blochmannia endosymbiont of Polyrhachis (Hedomyrma) turneri', 'Blochmannia endosymbiont of Camponotus (Colobopsis) obliquus', 'Candidatus Schmidhempelia bombi str. Bimp', 'Thermococcus eurythermalis', 'Flavobacterium sp. Fl', 'Butyrivibrio sp. AE3004', 'Rachicladosporium antarcticum', 'Jeotgalibacillus malaysiensis', 'Candidatus Arthromitus sp. SFB-mouse-NL', 'Acinetobacter sp. HR7', 'Pseudorhizobium pelagicum', 'Candidatus Nitrosopumilus koreensis AR1', 'Bosea sp. UNC402CLCol', 'Ruminococcus sp. HUN007', 'Sphingopyxis fribergensis', 'Porphyromonas sp. COT-239 OH1446', 'Porphyromonas sp. COT-290 OH860', 'Shewanella mangrovi', 'Idiomarina atlantica', 'Vibrio sp. ER1A', 'Porphyromonadaceae bacterium COT-184 OH4590', 'Anopheles coluzzii', 'Oscillibacter sp. ER4', 'Candidatus Thermochlorobacteriaceae bacterium GBChlB', 'Chloroflexus sp. MS-G', 'Sphingobium sp. ba1', 'Ceraceosorus guamensis', 'Pseudomonas sp. ML96', 'Serratia sp. Ag1', 'Planococcus sp. PAMC 21323', 'Rickettsiales bacterium Ac37b', 'Thalassospira australica', 'Acinetobacter seifertii', 'Palleronia rufa', 'Coriobacteriaceae bacterium 68-1-3', 'Torrubiella hemipterigena', 'Achromobacter sp. RTa', 'Rhizobium sp. YS-1r', 'Devosia sp. 17-2-E-8', 'Thalassotalea sp. ND16A', 'Paenibacillus sp. FSL P4-0081', 'Paenibacillus sp. FSL R5-0345', 'Paenibacillus sp. FSL R5-0912', 'Paenibacillus sp. FSL R7-0273', 'Paenibacillus sp. FSL R7-0331', 'Paenibacillus sp. FSL H7-0357', 'Paenibacillus sp. FSL H7-0737', 'Sphingopyxis sp. MWB1', 'Sulfurospirillum sp. SCADC', 'Sulfuricurvum sp. MLSB', 'Alteromonas sp. LOR', 'Micromonospora sp. HK10', 'Aquabacterium sp. NJ1', 'Sphingobacterium sp. ML3W', 'Treponema sp. OMZ 838', 'Deinococcus sp. YIM 77859', 'Clostridium sp. KNHs214', 'Myxosarcina sp. GI1', 'Candidatus Izimaplasma sp. HR1', 'Candidatus Izimaplasma sp. HR2', 'Oleiagrimonas soli', 'Lactobacillus sp. wkB10', 'Lactobacillus sp. wkB8', 'Sphingomonas sp. 35-24ZXX', 'Hoeflea sp. BAL378', 'Francisella sp. FSC1006', 'Helicobacter sp. MIT 11-5569', 'Campylobacter sp. MIT 97-5078', 'Sphingomonas taxi', 'Sphingomonas sp. 37zxx', 'Sphingobacteriaceae bacterium DW12', 'Thermofilum uzonense', 'Listeria booriae', 'Caenorhabditis tropicalis', 'Fermentimonas caenicola', 'Rhodococcus sp. B7740', 'Shewanella sp. ECSMB14101', 'Sulfurospirillum sp. MES', 'Rugosibacter aromaticivorans', 'Bacillus sp. X1(2014)', 'Paenibacillus sp. IHBB 10380', 'Paracoccus sp. PAMC 22219', 'Phaeobacter sp. S60', 'Jaminaea rosea', 'Bacillus sp. BH072', 'Bacillus sp. YP1', 'Candidatus Methanoplasma termitum', 'Dickeya undicola', 'Nitrosopumilus adriaticus', 'Pseudomonas sp. HMSC05H02', 'Neisseria sp. HMSC06F02', 'Candidatus Methylopumilus planktonicus', 'Nitrosopumilus piranensis', 'Fusobacterium hwasookii ChDC F128', 'Myroides sp. A21', 'Agrobacterium arsenijevicii', 'Pseudomonas sp. 10B238', 'Haloarcula sp. CBA1115', 'Enterobacteriaceae bacterium ATCC 29904', 'Candidatus Nitrosotenuis cloacae', 'Halanaeroarchaeum sulfurireducens', 'Sinocyclocheilus anshuiensis', 'Candidatus Filomicrobium marinum', 'Sphingomonas hengshuiensis', 'Pseudomonas sp. MRSN12121', 'Vibrio sp. S234-5', 'Psychromicrobium lacuslunae', 'Bacillus sp. LM 4-2', 'Sulfuricella sp. T08', 'Verrucomicrobia bacterium IMCC26134', 'Chania multitudinisentens RB-25', 'Bacillus paralicheniformis ATCC 9945a', 'Metarhizium rileyi RCEF 4871', 'Metarhizium majus ARSEF 297', 'Blattabacterium cuenoti BPAA', 'Lachancea quebecensis', 'Emmonsia sp. CAC-2015a', 'Blastomyces percursus', 'Phialophora attinorum', 'Violaceomyces palustris', 'Paramormyrops kingsleyae', 'Blastomyces gilchristii SLH14081', 'Pseudomicrostroma glucosiphilum', 'Wallemia mellicola CBS 633.66', 'Baudoinia panamericana UAMH 10762', 'Leucoagaricus sp. SymC.cos', 'Pezoloma ericae', 'Neocallimastix californiae', 'Piromyces finnis', 'Anaeromyces robustus', 'Mesorhizobium erdmanii USDA 3471', 'Nematocida displodere', 'Enterobacter roggenkampii EC_38VIM1', 'Edwardsiella anguillarum ET080813', 'Gopherus evgoodei', 'Dacryopinax primogenitus', 'Cryptococcus gattii VGII LA55', 'Cryptococcus gattii VGIV IND107', 'Amphiamblys sp. WSBS2006', 'Carlito syrichta', 'Pseudocercospora fijiensis CIRAD86', 'Testicularia cyperi', 'Xanthomonas cannabis pv. phaseoli', 'Planoprotostelium fungivorum', 'Fortiea contorta PCC 7126', 'Pectobacterium parmentieri WPP163', 'Geobacillus genomosp. 3', 'Bifiguratus adelaidae', 'Emergomyces pasteurianus Ep9510', 'Dinothrombium tinctorium', 'Rachicladosporium sp. CCFEE 5018', 'Xanthomonas phaseoli pv. phaseoli', 'Cordyceps sp. RAO-2017', 'Ophiocordyceps camponoti-rufipedis', 'Ooceraea biroi', 'Malassezia vespertilionis', 'Coniella lustricola', 'Globisporangium ultimum DAOM BR144', 'Blastomyces silverae', 'Mesorhizobium japonicum MAFF 303099', 'Rutstroemia sp. NJR-2017a WRK4', 'Rutstroemia sp. NJR-2017a BVV2', 'Rutstroemia sp. NJR-2017a BBW', 'Cervus hanglu yarkandensis', 'Lactobacillus paragasseri JV-V03', 'Photorhabdus laumondii subsp. laumondii TTO1', 'Pyrrhoderma noxium', 'Hondaea fermentalgiana', 'Yamadazyma tenuis ATCC 10573', 'Hyaloscypha bicolor E', 'Hyaloscypha variabilis F', 'Nothophytophthora sp. Chile5', 'Strigops habroptila', 'Fusarium odoratissimum NRRL 54006', 'Gloeothece citriformis PCC 7424', 'Gloeothece verrucosa PCC 7822', 'Crocosphaera subtropica ATCC 51142', 'Crocosphaera chwakensis CCY0110', 'Rippkaea orientalis PCC 8802', 'Thermothielavioides terrestris NRRL 8126', 'Podospora anserina S mat+', 'Dacryopinax sp. DJM 731 SSP-1', 'Akanthomyces lecanii RCEF 1005', 'Fusarium vanettenii 77-13-4']], map_from_organism: Union[Literal['auto'], str, int, Literal['Azorhizobium caulinodans ORS 571', 'Buchnera aphidicola str. G002 (Myzus persicae)', 'Cellulomonas gilvus ATCC 13127', 'Dictyoglomus thermophilum H-6-12', 'Methylophilus methylotrophus DSM 46235 = ATCC 53528', 'Pelobacter carbinolicus DSM 2380', 'Shewanella putrefaciens CN-32', 'Myxococcus fulvus HW-1', 'Myxococcus xanthus DK 1622', 'Stigmatella aurantiaca DW4/3-1', 'Cystobacter fuscus DSM 2262', 'Chondromyces apiculatus DSM 436', 'Sorangium cellulosum So0157-2', 'Vitreoscilla stercoraria DSM 513', 'Herpetosiphon aurantiacus DSM 785', 'Simonsiella muelleri ATCC 29453', 'Hyphomonas jannaschiana VP2', 'Flectobacillus major DSM 103', 'Cyclobacterium marinum DSM 745', 'Runella slithyformis DSM 19594', 'Spirosoma linguale DSM 74', 'Rubinisphaera brasiliensis DSM 5305', 'Planctopirus limnophila DSM 3776', 'Gimesia maris DSM 8797', 'Blastopirellula marina DSM 3645', 'Pirellula staleyi DSM 6068', 'Isosphaera pallida ATCC 43644', 'Methylocystis parvus OBBP', 'Borreliella burgdorferi B31', 'Borrelia hermsii DAH', 'Borrelia parkeri SLO', 'Borrelia turicatae 91E135', 'Borrelia anserina BA2', 'Sediminispirochaeta bajacaliforniensis DSM 16054', 'Spirochaeta thermophila DSM 6192', 'Treponema denticola ATCC 35405', 'Brachyspira hyodysenteriae WA1', 'Treponema pallidum subsp. pallidum str. Nichols', 'Treponema phagedenis F0421', 'Treponema bryantii NK4A124', 'Treponema saccharophilum DSM 2985', 'Treponema succinifaciens DSM 2489', "Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'", 'Leptospira interrogans serovar Lai str. 56601', 'Leptospira borgpetersenii serovar Hardjo-bovis str. L550', 'Leptospirillum ferrooxidans C2-3', 'Leptonema illini DSM 21528', 'Novispirillum itersonii subsp. itersonii ATCC 12639', 'Aquaspirillum serpens DSM 68', 'Azospirillum sp. B510', 'Campylobacter coli 76339', 'Campylobacter fetus subsp. venerealis NCTC 10354', 'Campylobacter jejuni subsp. jejuni 414', 'Campylobacter concisus 13826', 'Campylobacter curvus 525.92', 'Campylobacter lari RM2100', 'Campylobacter rectus RM3267', 'Campylobacter showae CSUNSWCD', 'Campylobacter sputorum biovar sputorum', 'Helicobacter pylori 26695', 'Helicobacter acinonychis str. Sheeba', 'Helicobacter cinaedi CCUG 18818 = ATCC BAA-847', 'Helicobacter felis ATCC 49179', 'Helicobacter fennelliae MRY12-0050', 'Helicobacter mustelae 12198', 'Pseudoalteromonas haloplanktis ATCC 14393', 'Brucella abortus 2308', 'Brucella ovis ATCC 25840', 'Elizabethkingia meningoseptica ATCC 13253 = NBRC 12535', 'Flavobacterium aquatile LMG 4008 = ATCC 11947', 'Empedobacter brevis NBRC 14943 = ATCC 43319', 'Chryseobacterium gleum ATCC 35910', 'Psychroflexus gondwanensis ACAM 44', 'Chryseobacterium indologenes NBRC 14944', 'Myroides odoratus DSM 2801', 'Sphingobacterium spiritivorum ATCC 33861', 'Francisella cf. tularensis subsp. novicida 3523', 'Paracoccus denitrificans PD1222', 'Thermus aquaticus Y51MC23', 'Thermus thermophilus HB8', 'Meiothermus ruber DSM 1279', 'Xanthobacter autotrophicus Py2', 'Comamonas testosteroni KF-1', 'Pseudomonas aeruginosa PAO1', 'Pseudoalteromonas atlantica T6c', 'Burkholderia cepacia', 'Brevundimonas diminuta 470-4', 'Pseudomonas fluorescens NCIMB 11764', 'Pseudomonas fragi B25', 'Pseudomonas mendocina NK-01', 'Pseudomonas pseudoalcaligenes AD6', 'Pseudomonas putida KT2440', 'Ralstonia solanacearum GMI1000', 'Pseudomonas stutzeri MF28', 'Pseudomonas syringae pv. syringae B728a', 'Ralstonia pickettii DTP0602', 'Burkholderia glumae BGR1', 'Xanthomonas campestris pv. campestris', 'Xanthomonas translucens DAR61454', 'Xanthomonas citri pv. citri str. 306', 'Xanthomonas oryzae pv. oryzae PXO99A', 'Azotobacter chroococcum NCIMB 8003', 'Azotobacter vinelandii DJ', 'Agrobacterium radiobacter K84', 'Agrobacterium rhizogenes', 'Agrobacterium vitis S4', 'Bradyrhizobium japonicum', 'Sinorhizobium fredii USDA 257', 'Mesorhizobium loti CJ3sym', 'Sinorhizobium meliloti 1021', 'Rhizobium leguminosarum bv. viciae GB30', 'Rhizobium tropici CIAT 899', 'Neorhizobium galegae bv. orientalis str. HAMBI 540', 'Methylobacillus flagellatus KT', 'Methylobacillus glycogenes JCM 2850', 'Methylorubrum extorquens AM1', 'Methylococcus capsulatus str. Bath', 'Methylomonas methanica MC09', 'Methylosinus trichosporium OB3b', 'Acetobacter aceti ATCC 23746', 'Komagataeibacter hansenii ATCC 23769', 'Acetobacter pasteurianus 3P3', 'Gluconobacter oxydans H24', 'Legionella pneumophila str. Paris', 'Legionella hackeliae', 'Legionella longbeachae NSW150', 'Tatlockia micdadei', 'Fluoribacter dumoffii NY 23', 'Acinetobacter baumannii', 'Acinetobacter calcoaceticus ANC 3680', 'Moraxella catarrhalis O35E', 'Neisseria cinerea ATCC 14685', 'Neisseria flavescens NRL30031/H210', 'Neisseria gonorrhoeae NCCP11945', 'Neisseria lactamica 020-06', 'Neisseria meningitidis MC58', 'Neisseria mucosa ATCC 25996', 'Neisseria polysaccharea ATCC 43768', 'Neisseria sicca ATCC 29256', 'Neisseria elongata subsp. glycolytica ATCC 29315', 'Neisseria macacae ATCC 33926', 'Thermomicrobium roseum DSM 5159', 'Kingella denitrificans ATCC 33394', 'Kingella kingae ATCC 23330', 'Kingella oralis ATCC 51147', 'Alcaligenes faecalis', 'Bordetella bronchiseptica RB50', 'Bordetella parapertussis Bpp5', 'Bordetella pertussis Tohama I', 'Bordetella avium 197N', 'Acidiphilium angustum ATCC 35903', 'Acidiphilium cryptum JF-5', 'Acidocella facilis ATCC 35904', 'Ochrobactrum anthropi ATCC 49188', 'Polaribacter irgensii 23-P', 'Beijerinckia indica subsp. indica ATCC 9039', 'Chromobacterium violaceum ATCC 12472', 'Eikenella corrodens ATCC 23834', 'Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821', 'Citrobacter koseri ATCC BAA-895', 'Citrobacter freundii MGH 56', 'Klebsiella aerogenes KCTC 2190', 'Pantoea agglomerans', 'Enterobacter cloacae subsp. cloacae ATCC 13047', 'Erwinia amylovora CFBP1430', 'Pantoea ananatis LMG 20103', 'Pectobacterium carotovorum subsp. carotovorum PC1', 'Dickeya chrysanthemi Ech1591', 'Escherichia coli K-12', 'Shimwellia blattae DSM 4481 = NBRC 105725', 'Escherichia fergusonii B253', 'Atlantibacter hermannii NBRC 105704', 'Pseudescherichia vulneris NBRC 102420', 'Hafnia alvei FB1', 'Klebsiella oxytoca', 'Klebsiella pneumoniae', 'Morganella morganii subsp. morganii KT', 'Proteus mirabilis HI4320', 'Proteus vulgaris', 'Providencia rettgeri DSM 1131', 'Providencia stuartii ATCC 25827', 'Serratia liquefaciens ATCC 27592', 'Serratia marcescens subsp. marcescens Db11', 'Serratia odorifera DSM 4582', 'Shigella boydii CDC 3083-94', 'Shigella dysenteriae 1617', 'Shigella flexneri 2a str. 301', 'Shigella sonnei Ss046', 'Xenorhabdus nematophila ATCC 19061', 'Yersinia enterocolitica LC20', 'Yersinia intermedia ATCC 29909', 'Yersinia pestis CO92', 'Yersinia pseudotuberculosis', 'Edwardsiella tarda ATCC 15947 = NBRC 105688', 'Aeromonas hydrophila subsp. hydrophila ATCC 7966', 'Aeromonas salmonicida subsp. salmonicida A449', 'Aeromonas media WS', 'Aeromonas veronii B565', 'Photobacterium phosphoreum ANT-2200', 'Photobacterium angustum S14', 'Vibrio alginolyticus NBRC 15630 = ATCC 17749', 'Vibrio cholerae O395', 'Aliivibrio fischeri ES114', 'Vibrio parahaemolyticus RIMD 2210633', 'Vibrio proteolyticus NBRC 13287', 'Vibrio vulnificus', 'Grimontia hollisae CIP 101886', 'Vibrio mimicus MB451', 'Vibrio campbellii ATCC BAA-1116', 'Vibrio diazotrophicus NBRC 103148', 'Plesiomonas shigelloides 302-73', 'Aggregatibacter actinomycetemcomitans HK1651', 'Actinobacillus pleuropneumoniae serovar 1 str. 4074', 'Actinobacillus suis H91-0380', 'Actinobacillus capsulatus DSM 19761', 'Actinobacillus equuli subsp. equuli', 'Actinobacillus ureae ATCC 25976', 'Haemophilus haemolyticus M21639', 'Haemophilus influenzae Rd KW20', 'Avibacterium paragallinarum 221', 'Haemophilus parainfluenzae T3T1', 'Histophilus somni 129PT', 'Aggregatibacter aphrophilus NJ8700', 'Haemophilus paraphrohaemolyticus HK411', 'Glaesserella parasuis ZJ0906', 'Aggregatibacter segnis ATCC 33393', 'Pasteurella multocida', 'Gallibacterium anatis UMN179', 'Pasteurella bettyae CCUG 2042', 'Pasteurella dagmatis ATCC 43325', 'Rodentibacter pneumotropicus', 'Anaplasma centrale str. Israel', 'Anaplasma marginale str. St. Maries', 'Bartonella bacilliformis KC583', 'Coxiella burnetii RSA 493', 'Ehrlichia ruminantium str. Welgevonden', 'Rickettsia conorii str. Malish 7', 'Rickettsia prowazekii str. Madrid E', 'Rickettsia rickettsii str. Iowa', 'Orientia tsutsugamushi str. Boryong', 'Rickettsia typhi str. Wilmington', 'Rickettsia akari str. Hartford', 'Rickettsia australis str. Cutlack', 'Rickettsia canadensis str. McKiel', 'Bartonella quintana str. Toulouse', 'Bartonella elizabethae F9251 = ATCC 49927', 'Chlamydia trachomatis D/UW-3/CX', 'Bacteroides fragilis 3_1_12', 'Bacteroides thetaiotaomicron VPI-5482', 'Bacteroides uniformis ATCC 8492', 'Bacteroides vulgatus ATCC 8482', 'Parabacteroides distasonis ATCC 8503', 'Campylobacter gracilis RM3268', 'Sebaldella termitidis ATCC 33386', 'Campylobacter ureolyticus', 'Butyrivibrio fibrisolvens ND3005', 'Fibrobacter succinogenes subsp. succinogenes S85', 'Porphyromonas gingivalis ATCC 33277', 'Prevotella ruminicola 23', 'Prevotella loescheii DSM 19665 = JCM 12249 = ATCC 15930', 'Wolinella succinogenes DSM 1740', 'Oxalobacter formigenes HOxBLS', 'Fusobacterium gonidiaformans ATCC 25563', 'Fusobacterium mortiferum ATCC 9817', 'Fusobacterium nucleatum subsp. nucleatum ATCC 25586', 'Fusobacterium perfoetens ATCC 29250', 'Faecalibacterium prausnitzii A2-165', 'Fusobacterium russii ATCC 25533', 'Fusobacterium varium ATCC 27725', 'Fusobacterium necrophorum subsp. funduliforme ATCC 51357', 'Fusobacterium periodonticum ATCC 33693', 'Fusobacterium ulcerans ATCC 49185', 'Syntrophomonas wolfei subsp. wolfei str. Goettingen G311', 'Dichelobacter nodosus VCS1703A', 'Desulfocurvibacter africanus subsp. africanus str. Walvis Bay', 'Desulfovibrio desulfuricans ND132', 'Desulfovibrio fructosivorans JJ', 'Desulfovibrio gigas DSM 1382 = ATCC 19364', 'Desulfovibrio salexigens DSM 2638', 'Desulfovibrio vulgaris str. Hildenborough', 'Thermodesulfobacterium thermophilum DSM 1276', 'Desulfovibrio longus DSM 6739', 'Desulfobulbus propionicus DSM 2032', 'Desulfococcus multivorans DSM 2059', 'Desulfomicrobium baculatum DSM 4028', 'Desulfovibrio piger ATCC 29098', 'Acidaminococcus fermentans DSM 20731', 'Megasphaera elsdenii DSM 20460', 'Nitrobacter hamburgensis X14', 'Nitrobacter winogradskyi Nb-255', 'Nitrosomonas europaea ATCC 19718', 'Nitrosomonas eutropha C91', 'Acidithiobacillus ferrooxidans ATCC 23270', 'Starkeya novella DSM 506', 'Thiomonas intermedia K12', 'Halothiobacillus neapolitanus c2', 'Thermithiobacillus tepidarius DSM 3134', 'Acidithiobacillus thiooxidans ATCC 19377', 'Thiobacillus thioparus DSM 505', 'Thiomicrospira pelophila DSM 1534', 'Hydrogenobacter thermophilus TK-6', 'Ehrlichia canis str. Jake', 'Ehrlichia chaffeensis str. Arkansas', 'Anaplasma phagocytophilum str. HZ', 'Neorickettsia risticii str. Illinois', 'Neorickettsia sennetsu str. Miyayama', 'Bdellovibrio bacteriovorus HD100', 'Herbaspirillum seropedicae SmR1', 'Selenomonas ruminantium AB3002', 'Cellulophaga lytica DSM 7489', 'Saccharicrinis fermentans DSM 9555 = JCM 21142', 'Pedobacter heparinus DSM 2366', 'Cytophaga hutchinsonii ATCC 33406', 'Flavobacterium johnsoniae UW101', 'Marinilabilia salmonicolor JCM 21150', 'Flavobacterium hydatis', 'Solitalea canadensis DSM 3403', 'Flavobacterium columnare ATCC 49512', 'Bernardetia litoralis DSM 6794', 'Marivirga tractuosa DSM 4126', 'Saprospira grandis str. Lewin', 'Weeksella virosa DSM 16922', 'Bergeyella zoohelcum ATCC 43767', 'Capnocytophaga gingivalis ATCC 33624', 'Capnocytophaga ochracea F0287', 'Capnocytophaga sputigena ATCC 33612', 'Beggiatoa alba B18LD', 'Microscilla marina ATCC 23134', 'Thiothrix nivea DSM 5205', 'Afipia clevelandensis ATCC 49720', 'Afipia felis ATCC 53690', 'Erythrobacter longus', 'Allochromatium vinosum DSM 180', 'Halorhodospira halochloris str. A', 'Halorhodospira halophila SL1', 'Rhodobacter capsulatus SB 1003', 'Rhodobacter sphaeroides 2.4.1', 'Rhodomicrobium vannielii ATCC 17100', 'Rhodopseudomonas palustris CGA009', 'Phaeospirillum fulvum MGU-K5', 'Phaeospirillum molischianum DSM 120', 'Pararhodospirillum photometricum DSM 122', 'Rhodospirillum rubrum ATCC 11170', 'Rhodovibrio salinarum DSM 9154', 'Chlorobium limicola DSM 245', 'Chlorobium phaeovibrioides DSM 265', 'Chlorobium phaeobacteroides DSM 266', 'Chlorobaculum tepidum TLS', 'Pelodictyon luteolum DSM 273', 'Prosthecochloris aestuarii DSM 271', 'Chloroflexus aurantiacus J-10-fl', 'Chlorogloeopsis fritschii PCC 6912', 'Microcystis aeruginosa NIES-843', 'Synechocystis sp. PCC 6714', 'Synechocystis sp. PCC 6803 substr. Kazusa', 'Planktothrix agardhii NIVA-CYA 126/8', 'Anabaena cylindrica PCC 7122', 'Leptolyngbya boryana PCC 6306', 'Tolypothrix sp. PCC 7601', 'Trichodesmium erythraeum IMS101', 'Prochlorococcus marinus str. AS9601', 'Prochlorothrix hollandica PCC 9006 = CALU 1027', 'Nitrosococcus oceani ATCC 19707', 'Nitrosospira multiformis ATCC 25196', 'Leuconostoc gelidum subsp. gasicomitatum LMG 18811', 'Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293', 'Leuconostoc lactis', 'Oenococcus oeni PSU-1', 'Weissella paramesenteroides ATCC 33313', 'Leuconostoc fallax KCTC 3537', 'Leuconostoc carnosum JB16', 'Pediococcus acidilactici DSM 20284', 'Pediococcus pentosaceus ATCC 25745', 'Finegoldia magna ATCC 53516', 'Peptostreptococcus anaerobius VPI 4330 = DSM 2949', 'Ruminococcus albus 8', 'Ruminococcus flavefaciens FD-1', 'Micrococcus luteus NCTC 2665', 'Dermacoccus nishinomiyaensis', 'Kytococcus sedentarius DSM 20547', 'Staphylococcus aureus subsp. aureus Mu50', 'Staphylococcus carnosus subsp. carnosus TM300', 'Staphylococcus epidermidis RP62A', 'Staphylococcus haemolyticus JCSC1435', 'Staphylococcus hyicus', 'Staphylococcus intermedius NCTC 11048', 'Staphylococcus simulans UMC-CNS-990', 'Staphylococcus xylosus', 'Staphylococcus hominis SK119', 'Staphylococcus warneri L37603', 'Staphylococcus sciuri subsp. sciuri Z8', 'Deinococcus radiodurans R1', 'Streptococcus gordonii str. Challis substr. CH1', 'Streptococcus oralis subsp. tigurinus AZ_3a', 'Streptococcus salivarius 57.I', 'Streptococcus sanguinis SK1057', 'Streptococcus suis R61', 'Streptococcus thermophilus LMG 18311', 'Streptococcus mutans UA159', 'Streptococcus sobrinus W1703', 'Streptococcus agalactiae LMG 14747', 'Streptococcus pneumoniae R6', 'Streptococcus pyogenes', 'Streptococcus downei F0415', 'Streptococcus parasanguinis ATCC 903', 'Blautia hansenii DSM 20583', 'Faecalicoccus pleomorphus DSM 20574', 'Streptococcus anginosus DORA_7', 'Streptococcus canis FSL Z3-227', 'Streptococcus criceti HS-6', 'Streptococcus dysgalactiae subsp. equisimilis AC-2713', 'Streptococcus equinus ATCC 9812', 'Streptococcus equi subsp. zooepidemicus', 'Streptococcus intermedius B196', 'Streptococcus macacae NCTC 11558', 'Streptococcus porcinus str. Jelinkova 176', 'Streptococcus ratti FA-1 = DSM 20564', 'Streptococcus vestibularis F0396', 'Streptococcus ferus DSM 20646', 'Streptococcus iniae', 'Streptococcus parauberis NCFD 2020', 'Streptococcus uberis 0140J', 'Enterococcus faecalis V583', 'Enterococcus faecium C68', 'Enterococcus gallinarum EG2', 'Enterococcus hirae ATCC 9790', 'Enterococcus columbae DSM 7374 = ATCC 51263', 'Enterococcus sulfureus ATCC 49903', 'Lactococcus lactis subsp. cremoris SK11', 'Lactococcus garvieae DCC43', 'Lactococcus piscium MKFS47', 'Lactococcus raffinolactis 4877', 'Aerococcus urinae ACS-120-V-Col10a', 'Aerococcus viridans ATCC 11563 = CCUG 4311', 'Gemella haemolysans M341', 'Atopobium minutum 10063974', 'Atopobium parvulum DSM 20469', 'Atopobium rimae ATCC 49626', 'Bacillus amyloliquefaciens Y2', 'Aneurinibacillus aneurinilyticus ATCC 12856', 'Bacillus anthracis str. Ames', 'Brevibacillus brevis X23', 'Bacillus cereus', 'Bacillus coagulans 36D1', 'Bacillus firmus DS1', 'Bacillus licheniformis DSM 13 = ATCC 14580', 'Bacillus megaterium QM B1551', 'Bacillus mycoides KBAB4', 'Paenibacillus polymyxa SC2', 'Bacillus psychrosaccharolyticus ATCC 23296', 'Bacillus pumilus SAFR-032', 'Bacillus sp. (in: Bacteria)', 'Bacillus akibai JCM 9157', 'Bacillus cellulosilyticus DSM 2522', 'Lysinibacillus sphaericus OT4b.31', 'Bacillus subtilis subsp. subtilis str. 168', 'Parageobacillus thermoglucosidasius C56-YS93', 'Bacillus thuringiensis serovar kurstaki', 'Bacillus alcalophilus ATCC 27647 = CGMCC 1.3604', 'Amphibacillus xylanus NBRC 15112', 'Alicyclobacillus acidoterrestris ATCC 49025', 'Bacillus atrophaeus 1942', 'Geobacillus kaustophilus HTA426', 'Paenibacillus larvae subsp. larvae DSM 25430', 'Brevibacillus laterosporus DSM 25', 'Bacillus methanolicus PB1', 'Peribacillus simplex BA2H3', 'Bacillus smithii 7_3_47FAA', 'Virgibacillus halodenitrificans 1806', 'Clostridium acetobutylicum ATCC 824', 'Paraclostridium bifermentans WYM', 'Clostridium botulinum A2 str. Kyoto', 'Clostridium butyricum E4 str. BoNT E BL5262', 'Clostridium cellulovorans 743B', 'Clostridioides difficile', 'Ruminiclostridium josui JCM 17888', 'Clostridium pasteurianum BC1', 'Clostridium perfringens ATCC 13124', 'Paeniclostridium sordellii VPI 9048', 'Clostridium sp. ATCC 29733', 'Clostridium sporogenes PA 3679', 'Thermoclostridium stercorarium subsp. stercorarium DSM 8532', 'Acetoanaerobium sticklandii', 'Clostridium tetani 12124569', 'Hungateiclostridium thermocellum ATCC 27405', 'Thermoanaerobacter thermohydrosulfuricus WC1', 'Thermoanaerobacterium thermosaccharolyticum DSM 571', 'Clostridium tyrobutyricum DSM 2637 = ATCC 25755 = JCM 11008', 'Clostridium beijerinckii NCIMB 8052', 'Ruminiclostridium cellulolyticum H10', 'Moorella thermoacetica ATCC 39073', 'Clostridium cadaveris AGR2141', 'Clostridium kluyveri DSM 555', 'Clostridium ljungdahlii DSM 13528', 'Clostridioides mangenotii TR', 'Clostridium novyi B str. NCTC 9691', 'Erysipelatoclostridium ramosum DSM 1402', 'Clostridium scatologenes', 'Clostridium tetanomorphum DSM 665', 'Gottschalkia acidurici 9a', 'Peptoclostridium litorale DSM 5388', 'Clostridium baratii str. Sullivan', 'Desulfosporosinus orientis DSM 765', 'Desulfotomaculum ruminis DSM 2154', 'Desulfotomaculum nigrificans DSM 574', 'Halobacillus halophilus DSM 2266', 'Sporosarcina ureae DSM 2281', 'Leifsonia xyli subsp. cynodontis DSM 46306', 'Lactobacillus acidophilus 30SC', 'Lactobacillus brevis ATCC 367', 'Lactobacillus buchneri ATCC 11577', 'Lactobacillus casei BL23', 'Weissella confusa LBAE C39-2', 'Lactobacillus delbrueckii subsp. bulgaricus 2038', 'Lactobacillus helveticus CNRZ32', 'Lactobacillus hilgardii DSM 20176 = ATCC 8290', 'Lactobacillus pentosus KCA1', 'Lactobacillus plantarum WCFS1', 'Lactobacillus gasseri ATCC 33323 = JCM 1131', 'Lactobacillus paracasei subsp. paracasei ATCC 25302', 'Lactobacillus reuteri 100-23', 'Lactobacillus sakei subsp. sakei 23K', 'Lactobacillus amylovorus GRL 1112', 'Lactobacillus animalis', 'Lactobacillus coryniformis subsp. coryniformis KCTC 3167 = DSM 20001', 'Lactobacillus farciminis KCTC 3681 = DSM 20184', 'Lactobacillus fermentum IFO 3956', 'Lactobacillus fructivorans KCTC 3543 = DSM 20203', 'Weissella halotolerans DSM 20190', 'Lactobacillus murinus ASF361', 'Lactobacillus ruminis ATCC 27782', 'Lactobacillus salivarius UCC118', 'Lactobacillus sanfranciscensis TMW 1.1304', 'Kandleria vitulina MC3001', 'Fructobacillus fructosus KCTC 3544', 'Lactobacillus oris F0423', 'Lactobacillus vaginalis DSM 5837 = ATCC 49540', 'Listeria ivanovii subsp. londoniensis', 'Listeria monocytogenes EGD-e', 'Listeria seeligeri serovar 1/2b str. SLCC3954', 'Listeria grayi DSM 20601', 'Listeria innocua Clip11262', 'Listeria welshimeri serovar 6b str. SLCC5334', 'Renibacterium salmoninarum ATCC 33209', 'Erysipelothrix rhusiopathiae str. Fujisawa', 'Alloiococcus otitis ATCC 51267', 'Actinomyces naeslundii str. Howell 279', 'Actinomyces viscosus C505', 'Actinomyces israelii DSM 43320', 'Schaalia odontolytica ATCC 17982', 'Trueperella pyogenes TP8', 'Arthrobacter globiformis NBRC 12137', 'Bifidobacterium adolescentis', 'Bifidobacterium bifidum NCIMB 41171', 'Bifidobacterium angulatum DSM 20098 = JCM 7096', 'Bifidobacterium asteroides PRL2011', 'Bifidobacterium breve UCC2003', 'Bifidobacterium catenulatum DSM 16992 = JCM 1194 = LMG 11043', 'Bifidobacterium coryneforme', 'Bifidobacterium cuniculi', 'Bifidobacterium dentium Bd1', 'Bifidobacterium indicum LMG 11587 = DSM 20214', 'Bifidobacterium magnum', 'Bifidobacterium minimum', 'Bifidobacterium pseudolongum subsp. globosum', 'Corynebacterium ammoniagenes DSM 20306', 'Brevibacterium linens BL2', 'Cellulomonas fimi ATCC 484', 'Cellulosimicrobium cellulans J36', 'Cellulomonas flavigena DSM 20109', 'Oerskovia turbata', 'Corynebacterium diphtheriae PW8', 'Corynebacterium glutamicum', 'Corynebacterium pseudotuberculosis', 'Corynebacterium callunae DSM 20147', 'Corynebacterium variabile DSM 44702', 'Peptoclostridium acidaminophilum DSM 3953', 'Holdemanella biformis DSM 3989', 'Eubacterium limosum KIST612', 'Thermodesulfobacterium commune DSM 2178', 'Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1', 'Cutibacterium acnes KPA171202', 'Acidipropionibacterium acidipropionici ATCC 4875', 'Acidipropionibacterium jensenii DSM 20535', 'Pseudopropionibacterium propionicum F0230a', 'Acidipropionibacterium thoenii DSM 20276', 'Mycobacterium avium subsp. avium', 'Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841', 'Mycobacterium intracellulare ATCC 13950', 'Mycobacterium kansasii 732', 'Mycobacterium leprae TN', 'Mycolicibacterium phlei RIVM601174', 'Mycolicibacterium smegmatis MC2 155', 'Mycobacterium tuberculosis H37Rv', 'Mycobacteroides chelonae', 'Mycobacterium marinum M', 'Mycobacterium asiaticum DSM 44297', 'Mycolicibacterium neoaurum VKM Ac-1815D', 'Mycolicibacterium thermoresistibile ATCC 19527', 'Mycolicibacterium chubuense NBB4', 'Mycolicibacterium farcinogenes', 'Mycolicibacterium gilvum PYR-GCK', 'Mycobacterium ulcerans Agy99', 'Mycolicibacterium vaccae ATCC 25954', 'Amycolatopsis methanolica 239', 'Nocardia otitidiscaviarum NBRC 14405', 'Nocardia asteroides NBRC 15531', 'Rhodococcus fascians', 'Rhodococcus rhodochrous ATCC 21198', 'Rhodococcus ruber Chol-4', 'Rhodococcus erythropolis PR4', 'Saccharopolyspora erythraea NRRL 2338', 'Actinopolyspora halophila DSM 43834', 'Saccharomonospora viridis DSM 43017', 'Frankia alni ACN14a', 'Geodermatophilus obscurus DSM 43160', 'Actinoplanes missouriensis 431', 'Actinoplanes utahensis', 'Streptomyces albus subsp. albus', 'Kitasatospora aureofaciens', 'Streptomyces bikiniensis', 'Streptomyces coelicolor A3(2)', 'Streptomyces fradiae', 'Streptomyces glaucescens', 'Streptomyces griseus subsp. griseus NBRC 13350', 'Streptomyces hygroscopicus subsp. jinggangensis 5008', 'Streptomyces lividans 1326', 'Streptomyces scabiei 87.22', 'Streptomyces viridochromogenes DSM 40736', 'Streptomyces halstedii', 'Streptomyces purpureus KA281', 'Streptomyces sclerotialus', 'Streptomyces virginiae', 'Streptomyces cellulosae', 'Streptomyces chartreusis NRRL 12338', 'Actinomadura atramentaria DSM 43919', 'Actinomadura madurae LIID-AJ290', 'Microtetraspora glauca', 'Streptosporangium roseum DSM 43021', 'Streptosporangium amethystogenes', 'Thermobispora bispora DSM 43833', 'Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111', 'Nocardiopsis prasina DSM 43845', 'Thermomonospora curvata DSM 43183', 'Thermobifida fusca YX', 'Microbacterium testaceum StLB037', 'Curtobacterium flaccumfaciens UCD-AKU', 'Tropheryma whipplei str. Twist', 'Pimelobacter simplex', 'Rothia dentocariosa ATCC 17931', 'Mobiluncus curtisii ATCC 43063', 'Mobiluncus mulieris 28-1', 'Gordonia bronchialis DSM 43247', 'Gordonia terrae', 'Sphaerobacter thermophilus DSM 20745', 'Tsukamurella paurometabola DSM 20162', 'Kitasatospora setae KM-6054', 'Pseudonocardia autotrophica', 'Mycoplasma arginini 7264', 'Mycoplasma capricolum subsp. capricolum ATCC 27343', 'Mycoplasma gallisepticum', 'Mycoplasma genitalium G37', 'Mycoplasma hominis', 'Mycoplasma hyopneumoniae J', 'Mycoplasma hyorhinis SK76', 'Mycoplasma mycoides subsp. mycoides SC str. PG1', 'Mycoplasma pneumoniae', 'Mycoplasma leachii PG50', 'Mycoplasma pulmonis', 'Mycoplasma synoviae 53', 'Mycoplasma agalactiae PG2', 'Mycoplasma arthritidis 158L3-1', 'Mycoplasma bovigenitalium 51080', 'Mycoplasmopsis californica', 'Mycoplasma fermentans PG18', 'Mycoplasma iowae 695', 'Mycoplasma mobile', 'Mycoplasma putrefaciens Mput9231', 'Mycoplasma flocculare ATCC 27399', 'Ureaplasma urealyticum serovar 7 str. ATCC 27819', 'Spiroplasma melliferum IPMB4A', 'Spiroplasma apis B31', 'Spiroplasma mirum ATCC 29335', 'Spiroplasma taiwanense CT-1', 'Acholeplasma laidlawii PG-8A', 'Acholeplasma modicum ATCC 29102', 'Mesoplasma florum L1', 'Methanobrevibacter smithii ATCC 35061', 'Methanohalophilus mahii DSM 5219', 'Methanothermus fervidus DSM 2088', 'Methanothermococcus thermolithotrophicus DSM 2095', 'Methanococcus vannielii SB', 'Methanococcus voltae A3', 'Methanotorris igneus Kol 5', 'Methanocaldococcus jannaschii DSM 2661', 'Methanoculleus marisnigri JR1', 'Methanofollis liminatans DSM 4140', 'Methanospirillum hungatei JF-1', 'Methanomicrobium mobile BP', 'Methanosarcina barkeri str. Fusaro', 'Methanosarcina mazei Go1', 'Methanosarcina thermophila TM-1', 'Methanosarcina acetivorans C2A', 'Methanosarcina vacuolata Z-761', 'Methanothrix soehngenii GP6', 'Methanothrix thermoacetophila PT', 'Methanococcoides methylutens MM1', 'Archaeoglobus fulgidus DSM 4304', 'Haloarcula marismortui ATCC 43049', 'Halobacterium salinarum NRC-1', 'Haloferax volcanii DS2', 'Halorubrum lacusprofundi ATCC 49239', 'Halorubrum saccharovorum DSM 1137', 'Halococcus morrhuae DSM 1307', 'Haloferax mediterranei ATCC 33500', 'Natronomonas pharaonis DSM 2160', 'Pyrococcus furiosus DSM 3638', 'Thermococcus litoralis DSM 5473', 'Thermofilum pendens Hrk 5', 'Thermoproteus tenax Kra 1', 'Desulfurococcus mucosus DSM 2162', 'Pyrobaculum islandicum DSM 4184', 'Staphylothermus marinus F1', 'Sulfolobus acidocaldarius DSM 639', 'Saccharolobus solfataricus P2', 'Desulfobacter curvatus DSM 3379', 'Desulfobacter postgatei 2ac9', 'Desulfobacterium autotrophicum HRM2', 'Thermoplasma acidophilum DSM 1728', 'Methanoplanus limicola DSM 2279', 'Methanosphaera stadtmanae DSM 3091', 'Methanopyrus kandleri AV19', 'Methanohalobium evestigatum Z-7303', 'Thermoanaerobacter kivui', 'Halanaerobium praevalens DSM 2228', 'Thermotoga maritima MSB8', 'Thermotoga neapolitana DSM 4359', 'Solemya velum gill symbiont', 'Haliscomenobacter hydrossis DSM 1100', 'Flexistipes sinusarabici DSM 4947', 'Desulfomonile tiedjei DSM 6799', 'Xylella fastidiosa 9a5c', 'Acetonema longum DSM 6540', 'Sporomusa ovata DSM 2662', 'Thermosipho africanus TCF52B', 'Fervidobacterium islandicum', 'Fervidobacterium nodosum Rt17-B1', 'Teredinibacter turnerae T7901', 'Roseobacter denitrificans OCh 114', 'Gardnerella vaginalis 6119V5', 'Citrus sinensis', 'Cardiobacterium hominis ATCC 15826', 'Hirschia baltica ATCC 49814', 'Symbiobacterium thermophilum IAM 14863', 'Verrucomicrobium spinosum DSM 4136 = JCM 18804', 'Marinobacter hydrocarbonoclasticus VT8', 'Halomonas elongata DSM 2581', 'Carnobacterium divergens DSM 20623', 'Carnobacterium gallinarum DSM 4847', 'Carnobacterium mobile DSM 4848', 'Carnobacterium maltaromaticum LMA28', 'Carnobacterium funditum DSM 5970', 'Synergistes jonesii', 'Chondrus crispus', 'Phaeodactylum tricornutum', 'Ectocarpus siliculosus', 'Cryptomonas paramecium', 'Emiliania huxleyi', 'Symbiodinium microadriaticum', 'Chlamydomonas reinhardtii', 'Volvox carteri', 'Auxenochlorella protothecoides', 'Marchantia polymorpha', 'Physcomitrium patens', 'Cannabis sativa', 'Actinidia chinensis var. chinensis', 'Theobroma cacao', 'Carica papaya', 'Citrullus lanatus', 'Cucumis melo', 'Cucumis sativus', 'Populus trichocarpa', 'Arabidopsis thaliana', 'Brassica napus', 'Brassica rapa', 'Brassica oleracea', 'Malus domestica', 'Prunus dulcis', 'Prunus persica', 'Cajanus cajan', 'Cicer arietinum', 'Glycine max', 'Glycine soja', 'Lupinus angustifolius', 'Medicago truncatula', 'Phaseolus vulgaris', 'Vigna angularis', 'Manihot esculenta', 'Ricinus communis', 'Linum usitatissimum', 'Daucus carota subsp. sativus', 'Capsicum annuum', 'Solanum lycopersicum', 'Nicotiana sylvestris', 'Nicotiana tabacum', 'Nicotiana tomentosiformis', 'Nicotiana benthamiana', 'Solanum commersonii', 'Solanum tuberosum', 'Olea europaea', 'Erythranthe guttata', 'Sesamum indicum', 'Helianthus annuus', 'Cynara cardunculus var. scolymus', 'Nelumbo nucifera', 'Hordeum vulgare', 'Oryza longistaminata', 'Oryza rufipogon', 'Oryza sativa Japonica Group', 'Oryza brachyantha', 'Oryza nivara', 'Oryza punctata', 'Oryza glaberrima', 'Setaria italica', 'Setaria viridis', 'Sorghum bicolor', 'Triticum aestivum', 'Triticum turgidum subsp. durum', 'Triticum urartu', 'Zea mays', 'Ananas comosus', 'Musa acuminata', 'Pneumocystis carinii', 'Plasmopara halstedii', 'Phytophthora infestans', 'Phytophthora nicotianae', 'Phytophthora parasitica', 'Phytophthora megakarya', 'Phytophthora palmivora var. palmivora', 'Phycomyces blakesleeanus', 'Schizosaccharomyces pombe 972h-', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces octosporus', 'Cyberlindnera jadinii', 'Pichia kudriavzevii', 'Kluyveromyces marxianus DMKU3-1042', 'Lachancea waltii', 'Pachysolen tannophilus NRRL Y-2460', 'Millerozyma farinosa', 'Komagataella pastoris', 'Scheffersomyces stipitis', 'Pichia membranifaciens NRRL Y-2026', 'Wickerhamomyces anomalus', 'Meyerozyma guilliermondii', 'Saccharomyces bayanus', 'Saccharomyces cerevisiae S288C', 'Lachancea kluyveri', 'Torulaspora delbrueckii CBS 1146', 'Yarrowia lipolytica CLIB122', 'Zygosaccharomyces bailii CLIB 213', 'Lachancea fermentati', 'Zygosaccharomyces rouxii', 'Debaryomyces hansenii', 'Kockovaella imperatae', 'Brettanomyces bruxellensis', 'Taphrina deformans PYCC 5710', 'Bipolaris maydis', 'Bipolaris zeicola', 'Leptosphaeria maculans', 'Histoplasma capsulatum', 'Blastomyces dermatitidis', 'Acremonium chrysogenum ATCC 11550', 'Aspergillus aculeatus', 'Aspergillus clavatus', 'Aspergillus flavus', 'Aspergillus niger', 'Aspergillus oryzae', 'Penicillium camemberti', 'Penicillium chrysogenum', 'Penicillium roqueforti', 'Amorphotheca resinae ATCC 22711', 'Ascosphaera apis ARSEF 7405', 'Claviceps purpurea 20.1', 'Epichloe typhina E8', 'Cryphonectria parasitica', 'Fusarium fujikuroi', 'Neurospora crassa OR74A', 'Sordaria macrospora k-hell', 'Ophiostoma ulmi', 'Sclerotinia sclerotiorum 1980 UF-70', 'Cryptococcus neoformans var. neoformans JEC21', 'Cryptococcus depauperatus CBS 7841', 'Tremella mesenterica', 'Exidia glandulosa HHB12029', 'Ustilago maydis 521', 'Microbotryum violaceum', 'Tilletiaria anomala UBC 951', 'Rhodotorula toruloides', 'Puccinia graminis f. sp. tritici CRL 75-36-700-3', 'Phanerochaete chrysosporium', 'Pleurotus ostreatus var. ostreatus', 'Trametes versicolor FP-101664 SS1', 'Schizophyllum commune', 'Agaricus bisporus', 'Coprinopsis cinerea', 'Lentinula edodes', 'Suillus luteus UH-Slu-Lm8-n1', 'Ascochyta rabiei', 'Colletotrichum orbiculare', 'Candida albicans SC5314', 'Candida maltosa', 'Candida parapsilosis', 'Diutina rugosa', 'Candida tropicalis', 'Coccidioides immitis', 'Fusarium oxysporum', 'Fusarium culmorum CS7071', 'Fusarium graminearum', 'Metarhizium anisopliae ARSEF 549', 'Rhodotorula glutinis', 'Trichoderma harzianum', 'Trichoderma longibrachiatum ATCC 18648', 'Trichophyton rubrum', 'Aureobasidium pullulans EXF-150', 'Alternaria alternata', 'Phialophora americana', 'Saitoella complicata NRRL Y-17804', 'Cryptococcus wingfieldii CBS 7118', 'Grifola frondosa', 'Laetiporus sulphureus 93-53', 'Trametes cinnabarina', 'Leishmania braziliensis MHOM/BR/75/M2904', 'Leishmania donovani BPK282A1', 'Leishmania major', 'Leishmania mexicana MHOM/GT/2001/U1103', 'Leishmania infantum JPCM5', 'Leishmania panamensis', 'Leptomonas seymouri', 'Leishmania tarentolae', 'Trypanosoma brucei brucei', 'Trypanosoma cruzi', 'Trypanosoma equiperdum', 'Trypanosoma rangeli SC58', 'Trichomonas vaginalis', 'Giardia lamblia ATCC 50803', 'Acanthamoeba castellanii str. Neff', 'Entamoeba histolytica', 'Naegleria gruberi', 'Dictyostelium purpureum', 'Eimeria acervulina', 'Eimeria tenella', 'Eimeria maxima', 'Cryptosporidium parvum Iowa II', 'Cryptosporidium muris', 'Toxoplasma gondii ME49', 'Plasmodium berghei', 'Plasmodium chabaudi', 'Plasmodium cynomolgi strain B', 'Plasmodium falciparum 3D7', 'Plasmodium gallinaceum', 'Plasmodium knowlesi strain H', 'Plasmodium reichenowi', 'Plasmodium vivax Sal-1', 'Plasmodium fragile', 'Plasmodium malariae', 'Plasmodium vinckei', 'Plasmodium yoelii yoelii', 'Babesia bovis T2Bo', 'Babesia bigemina', 'Theileria equi', 'Theileria annulata', 'Theileria parva', 'Paramecium tetraurelia', 'Tetrahymena thermophila', 'Ichthyophthirius multifiliis', 'Stylonychia lemnae', 'Stentor coeruleus', 'Exophiala dermatitidis', 'Encephalitozoon cuniculi', 'Hydra vulgaris', 'Schistosoma japonicum', 'Schistosoma mansoni', 'Schistosoma haematobium', 'Echinococcus multilocularis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Ascaris suum', 'Brugia malayi', 'Onchocerca volvulus', 'Meloidogyne hapla', 'Bursaphelenchus xylophilus', 'Trichinella spiralis', 'Helobdella robusta', 'Aplysia californica', 'Biomphalaria glabrata', 'Crassostrea virginica', 'Mizuhopecten yessoensis', 'Daphnia pulex', 'Tigriopus californicus', 'Ixodes scapularis', 'Blattella germanica', 'Acyrthosiphon pisum', 'Bemisia tabaci', 'Tribolium castaneum', 'Bombyx mori', 'Aedes aegypti', 'Aedes albopictus', 'Anopheles gambiae', 'Anopheles albimanus', 'Anopheles dirus', 'Anopheles arabiensis', 'Culex pipiens', 'Culex quinquefasciatus', 'Lutzomyia longipalpis', 'Loa loa', 'Ceratitis capitata', 'Drosophila ananassae', 'Drosophila erecta', 'Drosophila grimshawi', 'Drosophila melanogaster', 'Drosophila mojavensis', 'Drosophila persimilis', 'Drosophila pseudoobscura pseudoobscura', 'Drosophila sechellia', 'Drosophila simulans', 'Drosophila virilis', 'Drosophila yakuba', 'Drosophila willistoni', 'Drosophila saltans', 'Musca domestica', 'Lucilia cuprina', 'Glossina morsitans morsitans', 'Glossina austeni', 'Glossina fuscipes fuscipes', 'Glossina palpalis gambiensis', 'Glossina pallidipes', 'Nasonia vitripennis', 'Apis mellifera', 'Lingula anatina', 'Strongylocentrotus purpuratus', 'Ciona intestinalis', 'Branchiostoma floridae', 'Branchiostoma lanceolatum', 'Petromyzon marinus', 'Eptatretus burgeri', 'Callorhinchus milii', 'Latimeria chalumnae', 'Lepisosteus oculatus', 'Clupea harengus', 'Danio rerio', 'Carassius auratus', 'Cyprinus carpio', 'Astyanax mexicanus', 'Ictalurus punctatus', 'Electrophorus electricus', 'Esox lucius', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Salmo salar', 'Salmo trutta', 'Gadus morhua', 'Fundulus heteroclitus', 'Poecilia reticulata', 'Xiphophorus maculatus', 'Oryzias latipes', 'Cyclopterus lumpus', 'Oreochromis niloticus', 'Haplochromis burtoni', 'Astatotilapia calliptera', 'Sparus aurata', 'Lates calcarifer', 'Xenopus tropicalis', 'Chelonia mydas', 'Chelydra serpentina', 'Chrysemys picta', 'Alligator mississippiensis', 'Crocodylus porosus', 'Sphenodon punctatus', 'Laticauda laticaudata', 'Notechis scutatus', 'Pseudonaja textilis', 'Dromaius novaehollandiae', 'Struthio camelus', 'Apteryx haastii', 'Apteryx owenii', 'Anas platyrhynchos', 'Anser cygnoides', 'Cairina moschata domestica', 'Chaetura pelagica', 'Columba livia', 'Falco peregrinus', 'Aquila chrysaetos chrysaetos', 'Haliaeetus albicilla', 'Numida meleagris', 'Gallus gallus', 'Pavo cristatus', 'Phasianus colchicus', 'Chrysolophus pictus', 'Meleagris gallopavo', 'Serinus canaria', 'Parus major', 'Phalacrocorax carbo', 'Phoenicopterus ruber ruber', 'Aptenodytes forsteri', 'Pygoscelis adeliae', 'Calypte anna', 'Ornithorhynchus anatinus', 'Sarcophilus harrisii', 'Notamacropus eugenii', 'Choloepus hoffmanni', 'Dasypus novemcinctus', 'Erinaceus europaeus', 'Echinops telfairi', 'Pteropus alecto', 'Callithrix jacchus', 'Cercocebus atys', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Papio anubis', 'Theropithecus gelada', 'Mandrillus leucophaeus', 'Gorilla gorilla gorilla', 'Pan paniscus', 'Pan troglodytes', 'Pongo abelii', 'Homo sapiens', 'Canis lupus familiaris', 'Vulpes vulpes', 'Ursus thibetanus thibetanus', 'Ursus americanus', 'Ailuropoda melanoleuca', 'Mustela putorius', 'Felis catus', 'Panthera leo', 'Panthera onca', 'Panthera pardus', 'Panthera tigris', 'Zalophus californianus', 'Odobenus rosmarus', 'Leptonychotes weddellii', 'Orcinus orca', 'Tursiops truncatus', 'Delphinapterus leucas', 'Physeter catodon', 'Balaenoptera acutorostrata', 'Balaenoptera musculus', 'Trichechus manatus', 'Loxodonta africana', 'Equus asinus asinus', 'Equus caballus', 'Procavia capensis', 'Orycteropus afer', 'Sus scrofa', 'Camelus dromedarius', 'Bison bison bison', 'Bos taurus', 'Capra hircus', 'Ovis aries', 'Ochotona princeps', 'Oryctolagus cuniculus', 'Marmota marmota marmota', 'Urocitellus parryii', 'Dipodomys ordii', 'Cricetulus griseus', 'Mesocricetus auratus', 'Peromyscus maniculatus', 'Meriones unguiculatus', 'Mus caroli', 'Mus musculus', 'Mus pahari', 'Mus spretus', 'Mus spicilegus', 'Rattus norvegicus', 'Cavia porcellus', 'Octodon degus', 'Heterocephalus glaber', 'Saccoglossus kowalevskii', 'Trichoplax adhaerens', 'Sagitta elegans', 'Atta cephalotes', 'Blastocystis hominis', 'Danaus plexippus', 'Lynx lynx', 'Melopsittacus undulatus', 'Myzus persicae', 'Rhodnius prolixus', 'Tilletia caries', 'Tilletia controversa', 'Amborella trichopoda', 'Anaerobiospirillum succiniciproducens DSM 6400', 'Arthrobotrys oligospora ATCC 24927', 'Burkholderia mallei ATCC 23344', 'Dicentrarchus labrax', 'Monodelphis domestica', 'Parastagonospora nodorum SN15', 'Solenopsis invicta', 'Sphingomonas paucimobilis', 'Sphingobium yanoikuyae', 'Syncephalastrum racemosum', 'Pelodiscus sinensis', 'Utricularia gibba', 'Natrialba magadii ATCC 43099', 'Pyrobaculum aerophilum str. IM2', 'Brachypodium distachyon', 'Naumovozyma castellii', 'Naumovozyma dairenensis CBS 421', 'Saccharomyces paradoxus', 'Saccharomyces pastorianus Weihenstephan 34/70', 'Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993', 'Penicillium expansum', 'Verticillium dahliae VdLs.17', 'Schizopora paradoxa', 'Puccinia coronata var. avenae f. sp. avenae', 'Puccinia sorghi', 'Puccinia striiformis', 'Saimiri boliviensis', 'Erpetoichthys calabaricus', 'Mnemiopsis leidyi', 'Encephalitozoon hellem ATCC 50504', 'Nosema bombycis CQ1', 'Strigomonas culicis', 'Bifidobacterium animalis subsp. lactis BB-12', 'Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505', 'Lysinibacillus fusiformis ZC1', 'Staphylococcus lugdunensis HKU09-01', 'Streptococcus mitis B6', 'Lactobacillus curvatus CRL 705', 'Saccharopolyspora rectivirgula', 'Acidothermus cellulolyticus 11B', 'Lachnospira multipara ATCC 19207', 'Rubrivivax gelatinosus IL144', 'Nostoc sp. PCC 7524', 'Campylobacter upsaliensis RM3195', 'Legionella anisa str. Linanisette', 'Legionella sainthelensi ATCC 35248 = DSM 19231', 'Acinetobacter lwoffii SH145', 'Neisseria weaveri LMG 5135', 'Burkholderia gladioli BSR3', 'Mesorhizobium huakuii 7653R', "Alteromonas macleodii str. 'Black Sea 11'", 'Francisella philomiragia subsp. philomiragia ATCC 25017', 'Bacteroides eggerthii DSM 20697', 'Tannerella forsythia 92A2', 'Porphyromonas levii DSM 23370', 'Porphyromonas macacae', 'Bacteroides ovatus ATCC 8483', 'Alistipes putredinis DSM 17216', 'Odoribacter splanchnicus DSM 20712', 'Porphyromonas asaccharolytica DSM 20707', 'Porphyromonas endodontalis ATCC 35406', 'Prevotella bivia DNF00188', 'Prevotella buccae ATCC 33574', 'Prevotella buccalis ATCC 35310', 'Prevotella corporis DSM 18810 = JCM 8529', 'Prevotella denticola F0289', 'Prevotella disiens JCM 6334 = ATCC 29426', 'Prevotella intermedia 17', 'Prevotella melaninogenica ATCC 25845', 'Prevotella nigrescens ATCC 33563', 'Prevotella oralis ATCC 33269', 'Prevotella oris C735', 'Prevotella oulorum JCM 14966', 'Prevotella veroralis F0319', 'Rikenella microfusus DSM 15922', 'Cronobacter sakazakii ATCC BAA-894', 'Serratia proteamaculans 568', 'Yersinia kristensenii', 'Vibrio metschnikovii CIP 69.14', 'Vibrio nigripulchritudo SOn1', 'Vibrio orientalis CIP 102891 = ATCC 33934', 'Candidatus Photodesmus katoptron', 'Acetohalobium arabaticum DSM 5501', 'Capnocytophaga canimorsus Cc5', 'Capnocytophaga cynodegmi DSM 19736', 'Arcobacter butzleri RM4018', 'Arcobacter nitrofigilis DSM 7299', 'Sphingomonas parapaucimobilis NBRC 15100', 'Desulfobacula toluolica Tol2', 'Mycoplasma penetrans', 'Colwellia psychrerythraea', 'Carnobacterium alterfunditum DSM 5972', 'Geobacter metallireducens GS-15', 'Ornithobacterium rhinotracheale DSM 15997', 'Cobetia marina', 'Thermodesulfovibrio yellowstonii DSM 11347', 'Arcanobacterium haemolyticum DSM 20595', 'Anolis carolinensis', 'Herbidospora cretacea', 'Clavibacter michiganensis subsp. sepedonicus', 'Komagataeibacter xylinus E25', 'Neisseria subflava NJ9703', 'Burkholderia pseudomallei K96243', 'Tarenaya hassleriana', 'Talaromyces stipitatus ATCC 10500', 'Talaromyces islandicus', 'Allomyces macrogynus', 'Elephantulus edwardii', 'Cyprinodon variegatus', 'Thermoanaerobacterium saccharolyticum JW/SL-YS485', 'Salmonella enterica subsp. enterica serovar Typhimurium str. LT2', 'Mycoplasma bovis PG45', 'Kluyveromyces lactis', 'Alternaria brassicicola', 'Drosophila eugracilis', 'Drosophila takahashii', 'Phlebotomus papatasi', 'Panthera uncia', 'Ursus maritimus', 'Eptesicus fuscus', 'Vombatus ursinus', 'Mytilus galloprovincialis', 'Crassostrea gigas', 'Neospora caninum', 'Haloarcula japonica DSM 6131', 'Natronococcus occultus SP4', 'Methanococcoides burtonii DSM 6242', 'Pyrococcus abyssi GE5', 'Streptomyces cattleya NRRL 8057 = DSM 46488', 'Streptomyces griseoluteus', 'Paenarthrobacter nicotinovorans 231Sha2.1M6', 'Corynebacterium otitidis ATCC 51513', 'Thermoanaerobacter brockii subsp. finnii Ako-1', 'Thermoanaerobacterium xylanolyticum LX-11', 'Ruminiclostridium cellobioparum subsp. termitidis CT1112', 'Cellulosilyticum lentocellum DSM 5427', 'Tyzzerella nexilis DSM 1787', 'Ruminiclostridium papyrosolvens DSM 2782', 'Clostridium paraputrificum AGR2156', 'Staphylococcus caprae M23864:W1', 'Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292', 'Staphylococcus capitis C87', 'Gemella morbillorum M424', 'Dolosigranulum pigrum ATCC 51524', 'Microlunatus phosphovorus NM-1', 'Helicobacter canis NCTC 12740', 'Legionella oakridgensis ATCC 33761 = DSM 21215', 'Acinetobacter haemolyticus MTCC 9819', 'Psychrobacter phenylpyruvicus DSM 7000 = NBRC 102152', 'Pseudomonas savastanoi pv. phaseolicola 1448A', 'Xanthomonas albilineans GPE PC73', 'Bradyrhizobium elkanii WSM2783', 'Rhizobium etli CIAT 652', 'Rhizobium leucaenae USDA 9039', 'Brucella melitensis bv. 1 str. 16M', 'Brucella neotomae 5K33', 'Brucella suis 1330', 'Veillonella parvula DSM 2008', 'Pectobacterium atrosepticum SCRI1043', 'Yersinia aldovae ATCC 35236', 'Yersinia frederiksenii ATCC 33641', 'Yersinia rohdei', 'Yersinia ruckeri', 'Vibrio furnissii NCTC 11218', 'Vibrio navarrensis', 'Vibrio splendidus ZS-139', 'Vibrio tubiashii ATCC 19109', 'Mycoplasma haemofelis Ohio2', 'Turneriella parva DSM 21527', 'Borreliella afzelii PKo', 'Borreliella garinii BgVir', 'Borrelia crocidurae DOU', 'Cytophaga aurantiaca DSM 3654', 'Flavobacterium succinicans LMG 10402', 'Pelobacter propionicus DSM 2379', 'Lawsonia intracellularis PHE/MN1-00', 'Rhodothermus marinus DSM 4252', 'Acholeplasma axanthum ATCC 25176', 'Mycoplasma canadense', 'Mycoplasma canis PG 14', 'Mycoplasma meleagridis', 'Mycoplasma ovipneumoniae 14811', 'Taylorella equigenitalis MCE9', 'Janthinobacterium lividum', 'Dioscorea cayenensis subsp. rotundata', 'Gossypium raimondii', 'Vitis vinifera', 'Lipomyces starkeyi NRRL Y-11557', 'Lachancea cidri', 'Hanseniaspora uvarum DSM 2768', 'Penicillium vulpinum', 'Gaeumannomyces graminis', 'Trichoderma virens', 'Neurospora discreta FGSC 8579', 'Laccaria bicolor', 'Calocera cornea HHB12733', 'Rhodotorula graminis WP1', 'Sporothrix schenckii', 'Tolypocladium inflatum', 'Phytophthora cactorum', 'Drosophila elegans', 'Drosophila emarginata', 'Drosophila ficusphila', 'Drosophila kikkawai', 'Drosophila neocordata', 'Drosophila prosaltans', 'Drosophila sturtevanti', 'Anopheles merus', 'Anopheles stephensi', 'Bombus terrestris', 'Opisthocomus hoazin', 'Fulmarus glacialis', 'Bubo bubo', 'Nothoprocta perdicaria', 'Tinamus major', 'Bos grunniens', 'Bos indicus x Bos taurus', 'Vicugna pacos', 'Microcebus murinus', 'Otolemur garnettii', 'Oryzias melastigma', 'Takifugu rubripes', 'Caenorhabditis remanei', 'Perkinsus marinus ATCC 50983', 'Enterocytozoon bieneusi H348', 'Colletotrichum graminicola M1.001', 'Caldicellulosiruptor bescii DSM 6725', 'Halothermothrix orenii H 168', 'Amycolatopsis orientalis DSM 40040 = KCTC 9412', 'Amycolatopsis lurida NRRL 2430', 'Absiella dolichum DSM 3991', 'Eggerthia catenaformis OT 569 = DSM 20559', 'Methylobacterium radiotolerans JCM 2831', 'Helicobacter hepaticus ATCC 51449', 'Synechococcus elongatus', 'Synechococcus sp. PCC 7002', 'Synechococcus sp. WH 7803', 'Calothrix sp. PCC 6303', 'Calothrix sp. PCC 7103', 'Tetranychus urticae', 'Xiphophorus couchianus', 'Neolamprologus brichardi', 'Desulfurella acetivorans A63', 'Winkia neuii subsp. neuii DSM 8576', 'Cutibacterium avidum 44067', 'Cutibacterium granulosum TM11', 'Propionimicrobium lymphophilum ACS-093-V-SCH5', 'Sporolactobacillus laevolacticus DSM 442', 'Anaerococcus hydrogenalis DSM 7454', 'Peptoniphilus indolicus ATCC 29427', 'Peptoniphilus lacrimalis 315-B', 'Anaerococcus lactolyticus ATCC 51172', 'Parvimonas micra ATCC 33270', 'Anaerococcus prevotii DSM 20548', 'Blautia producta', 'Anaerococcus tetradius ATCC 35098', 'Anaerococcus vaginalis ATCC 51170', 'Coprococcus eutactus ATCC 27759', 'Bartonella doshiae NCTC 12862 = ATCC 700133', 'Bartonella grahamii as4aup', 'Bartonella taylorii 8TBB', 'Bartonella vinsonii subsp. arupensis Pm136co', 'Candidatus Kinetoplastibacterium crithidii TCC036E', 'Acidithiobacillus caldus ATCC 51756', 'Gloeobacter violaceus PCC 7421', 'Acidobacterium capsulatum ATCC 51196', 'Entamoeba invadens IP1', 'Eremothecium gossypii ATCC 10895', 'Aspergillus terreus', 'Uncinocarpus reesii 1704', 'Purpureocillium lilacinum', 'Gambusia affinis', 'Coriobacterium glomerans PW2', 'Catenuloplanes japonicus', 'Brevibacterium casei S18', 'Streptomyces galbus', 'Streptomyces avermitilis MA-4680 = NBRC 14893', 'Bifidobacterium thermophilum', 'Actinopolyspora mortivallis DSM 44261', 'Amycolatopsis mediterranei U32', 'Anoxybacillus flavithermus subsp. yunnanensis str. E13', 'Geobacillus thermodenitrificans NG80-2', 'Geobacillus thermoleovorans CCB_US3_UF5', 'Kyrpidia tusciae DSM 2912', 'Enterococcus avium ATCC 14025', 'Acetobacterium woodii DSM 1030', 'Lactobacillus johnsonii NCC 533', 'Leuconostoc citreum KM20', 'Leuconostoc pseudomesenteroides 4882', 'Melissococcus plutonius ATCC 35311', 'Rickettsia amblyommatis str. GAT-30V', 'Rickettsia bellii OSU 85-389', 'Rickettsia montanensis str. OSU 85-930', 'Rickettsia rhipicephali str. 3-7-female6-CWPP', 'Neorickettsia helminthoeca str. Oregon', 'Gluconacetobacter diazotrophicus PA1 5', 'Paracoccus aminophilus JCM 7686', 'Paracoccus versutus', 'Azospirillum halopraeferens DSM 3675', 'Rhodospirillum centenum SW', 'Candidatus Liberibacter asiaticus str. gxpsy', 'Leptothrix cholodnii SP-6', 'Rahnella aquatilis CIP 78.65 = ATCC 33071', 'Variovorax paradoxus 110B', 'Riemerella anatipestifer RA-GD', 'Pedobacter antarcticus 4BY', 'Pelodictyon phaeoclathratiforme BU-1', 'Sphaerotilus natans subsp. natans DSM 6575', 'Streptobacillus moniliformis DSM 12112', 'Lotus japonicus', 'Mixia osmundae', 'Blumeria graminis', 'Trichophyton tonsurans', 'Trichophyton violaceum', 'Conidiobolus coronatus NRRL 28638', 'Strongyloides ratti', 'Anopheles melas', 'Anopheles quadriannulatus', 'Heliconius melpomene plesseni', 'Chinchilla lanigera', 'Thalassiosira pseudonana', 'Nosema apis BRL 01', 'Eubacterium brachy ATCC 33089', 'Eubacterium nodatum ATCC 33099', 'Daphnia magna', 'Geobacter sulfurreducens PCA', 'Stomoxys calcitrans', 'Streptomyces griseoflavus Tu4000', 'Streptomyces mobaraensis NBRC 13819 = DSM 40847', 'Acholeplasma oculi', 'Naja naja', 'Heliobacterium modesticaldum Ice1', 'Citrobacter amalonaticus', 'Epichloe festucae', 'Macrophomina phaseolina MS6', 'Sporichthya polymorpha DSM 43042', 'Dactylosporangium aurantiacum', 'Corynebacterium kutscheri', 'Corynebacterium pilosum DSM 20521', 'Bifidobacterium choerinum', "Peanut witches'-broom phytoplasma NTU2011", 'Coprothermobacter proteolyticus DSM 5265', 'Rickettsia africae ESF-5', 'Rickettsia helvetica C9P9', 'Rickettsia japonica YH', 'Rickettsia massiliae str. AZT80', 'Rickettsia parkeri str. Portsmouth', 'Rickettsia sibirica 246', 'Rickettsia slovaca str. D-CWPP', 'Ehrlichia muris AS145', 'Nitrococcus mobilis Nb-231', 'Nitrosospira briensis C-128', 'Nitrospina gracilis 3/211', 'Rhodovulum sulfidophilum DSM 1374', 'Bordetella holmesii ATCC 51541', 'Helicobacter heilmannii ASB1.4', 'Helicobacter pullorum MIT 98-5489', 'Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933', 'Hungateiclostridium cellulolyticum CD2', 'Bilophila wadsworthia ATCC 49260', 'Holophaga foetida DSM 6591', 'Bacillus thermoamylovorans', 'Ipomoea triloba', 'Cyberlindnera fabianii', 'Vanderwaltozyma polyspora DSM 70294', 'Fusarium poae', 'Cantharellus cibarius var. cibarius', 'Ganoderma sinense ZZ0214-1', 'Mucor circinelloides', 'Megaselia scalaris', 'Pelecanus crispus', 'Plasmodium ovale curtisi', 'Globisporangium irregulare', 'Aspergillus fischeri NRRL 181', 'Penicillium coprophilum', 'Penicillium digitatum', 'Dermabacter hominis 1368', 'Clostridium saccharoperbutylacetonicum N1-4(HMT)', 'Pseudomonas cichorii JBC1', 'Gaeumannomyces tritici', 'Mycobacteroides abscessus', 'Mycobacterium genavense ATCC 51234', 'Mycolicibacterium rhodesiae JS60', 'Gordonia aichiensis NBRC 108223', 'Gordonia amarae NBRC 15530', 'Gordonia sputi NBRC 100414', 'Clostridium celatum DSM 1785', 'Clostridium intestinale URNW', 'Desulfitobacterium dehalogenans ATCC 51507', 'Brucella canis ATCC 23365', 'Thiobacillus denitrificans DSM 12475', 'Paraburkholderia xenovorans LB400', 'Porphyromonas cangingivalis', 'Porphyromonas canoris', 'Clavispora lusitaniae', 'Lodderomyces elongisporus', 'Glossina brevipalpis', 'Kryptolebias marmoratus', 'Suricata suricatta', 'Gavia stellata', 'Aotus nancymaae', 'Nocardia brasiliensis ATCC 700358', 'Nocardia brevicatena NBRC 12119', 'Nocardia carnea NBRC 14403', 'Nocardia farcinica IFM 10152', 'Nocardia nova SH22a', 'Nocardia transvalensis NBRC 15921', 'Tupaia belangeri', 'Plasmodiophora brassicae', 'Helicobacter bilis ATCC 43879', 'Pisolithus tinctorius Marx 270', 'Laceyella sacchari 1-1', 'Marichromatium purpuratum 984', 'Cavia aperea', 'Thermus scotoductus SA-01', 'Octopus bimaculoides', 'Clostridium algidicarnis', 'Aegilops tauschii', 'Candidatus Phytoplasma mali AT', 'Talaromyces marneffei ATCC 18224', 'Enterococcus casseliflavus EC20', 'Cryptococcus gattii EJB2', 'Heterorhabditis bacteriophora', 'Rhytidhysteron rufulum', 'Rhodococcus opacus', 'Methanosarcina siciliae C2J', 'Chaetomium globosum', 'Rhynchosporium secalis', 'Corynebacterium accolens ATCC 49725', 'Corynebacterium genitalium ATCC 33030', 'Corynebacterium jeikeium K411', 'Photobacterium damselae subsp. damselae CIP 102761', 'Streptomyces pristinaespiralis ATCC 25486', 'Corynebacterium pseudogenitalium ATCC 33035', 'Corynebacterium vitaeruminis DSM 20294', 'Gluconobacter frateurii NBRC 103465', 'Rhodococcus rhodnii LMG 5362', 'Shewanella algae JCM 14758', 'Bartonella henselae str. Houston-1', 'Erysipelothrix tonsillarum DSM 14972', 'Eragrostis curvula', 'Phascolarctos cinereus', 'Alligator sinensis', 'Panicum virgatum', 'Gopherus agassizii', 'Neolentinus lepideus HHB14362 ss-1', 'Micromonas pusilla', 'Fraxinus excelsior', 'Acholeplasma palmae J233', 'Methanococcus maripaludis C6', 'Tuber melanosporum Mel28', 'Faecalitalea cylindroides ATCC 27803', 'Agathobaculum desmolans ATCC 43058', 'Dorea formicigenerans 4_6_53AFAA', 'Anaerobutyricum hallii DSM 3353', 'Eubacterium ramulus ATCC 29099', 'Eubacterium ventriosum ATCC 27560', 'Eubacterium xylanophilum ATCC 35991', 'Mesorhizobium ciceri biovar biserrulae WSM1271', 'Cellvibrio mixtus subsp. mixtus J3-8', 'Methanosalsum zhilinae DSM 4017', 'Mayetiola destructor', 'Hydrogenovibrio crunogenus XCL-2', 'Sulfurimonas denitrificans DSM 1251', 'Blattabacterium sp. (Mastotermes darwiniensis) str. MADAR', 'Methylomicrobium album BG8', 'Veillonella atypica KON', 'Veillonella dispar ATCC 17748', 'Corynebacterium glucuronolyticum ATCC 51867', 'Erythrobacter litoralis HTCC2594', 'Legionella moravica DSM 19234', 'Hypsizygus marmoreus', 'Helcococcus kunzii ATCC 51366', 'Bipolaris victoriae FI3', 'Neurospora tetrasperma', 'Oligotropha carboxidovorans OM5', 'Oryza glumipatula', 'Oryza meridionalis', 'Monodon monoceros', 'Lonchura striata domestica', 'Fusarium avenaceum', 'Acinetobacter johnsonii SH046', 'Acinetobacter junii', 'Acinetobacter radioresistens SH164', 'Junco hyemalis', 'Aliivibrio salmonicida LFI1238', 'Penicillium italicum', 'Nosema ceranae BRL01', 'Streptomyces nodosus', 'Stenotrophomonas maltophilia K279a', 'Fonsecaea pedrosoi CBS 271.37', 'Acinetobacter sp. CIP-A165', 'Daedalea quercina L-15889', 'Fistulina hepatica ATCC 64428', 'Fomitopsis pinicola', 'Stereum hirsutum', 'Ruminococcus bromii L2-63', 'Ruminococcus callidus ATCC 27760', 'Blautia obeum ATCC 29174', 'Leptotrichia buccalis C-1013-b', 'Sutterella wadsworthensis HGA0223', 'Botrytis cinerea', 'Sporobolomyces roseus IAM 13481', 'Actinosynnema mirum DSM 43827', 'Lentzea albidocapillata', 'Xenorhabdus bovienii SS-2004', 'Xenorhabdus poinarii G6', 'Claviceps paspali', 'Claviceps fusiformis', 'Balansia obtecta', 'Thioploca ingrica', 'Borrelia duttonii Ly', 'Rhopalosiphum padi', 'Saccharomonospora azurea SZMC 14600', 'Saccharomonospora cyanea NA-134', 'Saccharomonospora glauca K62', 'Aspergillus carbonarius ITEM 5010', 'Elsinoe australis', 'Penicilliopsis zonata CBS 506.65', 'Ewingella americana ATCC 33852', 'Anopheles atroparvus', 'Seriola dumerili', 'Lomentospora prolificans', 'Bathycoccus prasinos', 'Candidatus Microthrix parvicella RN1', 'Amanita muscaria Koide BX008', 'Porphyromonas catoniae F0037', 'Enterococcus saccharolyticus subsp. saccharolyticus ATCC 43076', 'Drosophila bipectinata', 'Pneumocystis jirovecii SE8', 'Ureaplasma diversum NCTC 246', 'Phocoena sinus', 'Prunus avium', 'Streptomyces acidiscabies 84-104', 'Tuber magnatum', 'Tuber borchii', 'Desulfovibrio termitidis HI1', 'Sorex araneus', 'Rubrobacter radiotolerans', 'Phoenix dactylifera', 'Aciculosporium take MAFF-241224', 'Candida dubliniensis', 'Vittaforma corneae ATCC 50505', 'Halobacteroides halobius DSM 5150', 'Roseobacter litoralis Och 149', 'Lichtheimia corymbifera', 'Desulfofundulus thermocisternus DSM 10259', 'Pygocentrus nattereri', 'Halomonas salina', 'Streptomyces collinus Tu 365', 'Gelatoporia subvermispora B', 'Epichloe amarillans E57', 'Corynebacterium argentoratense DSM 44202', 'Ammonifex degensii KC4', 'Staphylococcus lentus F1142', 'Rickettsia felis URRWXCal2', 'Methanococcus aeolicus Nankai-3', 'Anopheles christyi', 'Tilletia indica', 'Sulfolobus islandicus REY15A', 'Rhopalosiphum maidis', 'Anopheles darlingi', 'Ictidomys tridecemlineatus', 'Capronia epimyces', 'Capronia coronata', 'Pseudomonas alcaligenes NBRC 14159', 'Butyrivibrio proteoclasticus P6B7', 'Prauserella rugosa', 'Kutzneria albida DSM 43870', 'Cathartes aura', 'Zosterops lateralis melanops', 'Halanaerobium saccharolyticum subsp. saccharolyticum DSM 6643', 'Pseudoalteromonas citrea DSM 8771', 'Pseudoalteromonas luteoviolacea B = ATCC 29581', 'Pseudoalteromonas rubra DSM 6842', 'Paenarthrobacter aurescens TC1', 'Brachybacterium faecium DSM 4810', 'Jonesia denitrificans DSM 20603', 'Rothia mucilaginosa DY-18', 'Metallosphaera sedula DSM 5348', 'Monopterus albus', 'Streptomyces wedmorensis', 'Corynebacterium amycolatum SK46', 'Rhodococcus hoagii 103S', 'Corynebacterium matruchotii ATCC 14266', 'Corynebacterium propinquum DSM 44285', 'Corynebacterium striatum ATCC 6940', 'Corynebacterium urealyticum DSM 7109', 'Tolumonas auensis DSM 9187', 'Johnsonella ignava ATCC 51276', 'Catonella morbi ATCC 51271', 'Caldicellulosiruptor saccharolyticus DSM 8903', 'Enterococcus cecorum DSM 20682 = ATCC 43198', 'Enterococcus dispar ATCC 51266', 'Ferrimonas balearica DSM 9799', 'Aureococcus anophagefferens', 'Streptomyces megasporus', 'Trichomonascus ciferrii', 'Paenibacillus alvei TS-15', 'Paenibacillus durus', 'Paenibacillus macerans', 'Bradyrhizobium oligotrophicum S58', 'Caldanaerobius polysaccharolyticus DSM 13641', 'Erythrura gouldiae', 'Zonotrichia albicollis', 'Eimeria mitis', 'Borrelia persica No12', 'Borrelia recurrentis A1', 'Natronococcus amylolyticus DSM 10524', 'Nitrosomonas cryotolerans ATCC 49181', 'Sulfurospirillum barnesii SES-3', 'Geothrix fermentans DSM 14018', 'Dictyostelium discoideum', 'Natronobacterium gregoryi SP2', 'Legionella fairfieldensis ATCC 49588', 'Legionella lansingensis DSM 19556 = ATCC 49751', 'Legionella shakespearei DSM 23087', 'Bipolaris sorokiniana', 'Pyrenophora tritici-repentis Pt-1C-BFP', 'Cyanidioschyzon merolae', 'Tolypocladium capitatum', 'Capnocytophaga granulosa ATCC 51502', 'Leucothrix mucor DSM 2157', 'Eremothecium cymbalariae', 'Eremothecium sinecaudum', 'Nematostella vectensis', 'Mycoplasma conjunctivae HRC/581', 'Mycoplasma bovoculi M165/69', 'Mycoplasma alkalescens 14918', 'Brevibacillus borstelensis 3096-7', 'Wickerhamiella sorbophila', 'Babjeviella inositovora NRRL Y-12698', 'Streptococcus cristatus AS 1.3089', 'Vibrio scophthalmi LMG 19158', 'Desulfohalobium retbaense DSM 5692', 'Nadsonia fulvescens', 'Butyrivibrio crossotus DSM 2876', 'Staphylococcus pasteuri SP1', 'Granulicatella adiacens ATCC 49175', 'Abiotrophia defectiva ATCC 49176', 'Staphylococcus chromogenes MU 970', 'Pseudobutyrivibrio ruminis CF1b', 'Anabaena sp. 90', 'Weissella hellenica', 'Pseudomonas avellanae BPIC 631', 'Mycolicibacterium hassiacum DSM 44199', 'Thermoanaerobacter wiegelii Rt8.B1', 'Spirochaeta africana DSM 8902', 'Sphingobium chlorophenolicum', 'Reticulomyxa filosa', 'Orenia marismortui DSM 5156', 'Parabacteroides merdae ATCC 43184', 'Bacteroides stercoris ATCC 43183', 'Thermosipho melanesiensis BI429', 'Suhomyces tanzawaensis', 'Aureobasidium melanogenum', 'Pseudomonas nitroreducens HBP1', 'Entamoeba dispar', 'Cenarchaeum symbiosum A', 'Dethiosulfovibrio peptidovorans DSM 11002', 'Desulfovibrio bastinii DSM 16055', 'Massilia timonae CCUG 45783', 'Neogobius melanostomus', 'Armillaria gallica', 'Armillaria ostoyae', 'Borrelia miyamotoi LB-2001', 'Rickettsia peacockii str. Rustic', 'Lautropia mirabilis ATCC 51599', 'Bacteroides caccae ATCC 43185', 'Mycoplasma alligatoris A21JP2', 'Lactobacillus rhamnosus GG', 'Streptomyces olivaceus', 'Bibersteinia trehalosi USDA-ARS-USMARC-189', 'Atkinsonella hypoxylon', 'Streptomyces sulphureus DSM 40104', 'Streptomyces lydicus', 'Lactobacillus crispatus ST1', 'Epichloe baconii ATCC 200745', 'Mycobacterium triplex', 'Micromonospora aurantiaca ATCC 27029', 'Pseudomonas amygdali pv. mori str. 301020', 'Pseudomonas corrugata CFBP 5454', 'Pseudomonas fulva 12-X', 'Pseudomonas synxantha BG33R', 'Pseudomonas luteola XLDN4-9', 'Serratia fonticola AU-AP2C', 'Vibrio cyclitrophicus FF75', 'Oreochromis aureus', 'Hyphomicrobium zavarzinii ATCC 27496', 'Acinetobacter pittii PHEA-2', 'Xanthomonas fragariae LMG 25863', 'Neolecta irregularis DAH-3', 'Penicillium freii', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Orchesella cincta', 'Geospiza fortis', 'Novosphingobium aromaticivorans DSM 12444', 'Sporisorium scitamineum', 'Candidatus Arthromitus sp. SFB-mouse-Japan', 'Kineosporia aurantiaca JCM 3230', 'Marinobacterium stanieri S30', 'Psychroserpens burtonensis DSM 12212', 'Rubrobacter xylanophilus DSM 9941', 'Desulfitobacterium hafniense Y51', 'Coffea canephora', 'Nicotiana attenuata', 'Holospora obtusa F1', 'Mycoplasma crocodyli MP145', 'Rhizobium sullae WSM1592', 'Thermoplasma volcanium GSS1', 'Charadrius vociferus', 'Pinctada fucata', 'Arabis alpina', 'Helicobacter trogontum', 'Actinobacillus minor NM305', 'Eubacterium saphenum ATCC 49989', 'Catagonus wagneri', 'Treponema maltophilum ATCC 51939', 'Ureibacillus thermosphaericus str. Thermo-BF', 'Syntrophobotulus glycolicus DSM 8271', 'Wigglesworthia glossinidia endosymbiont of Glossina morsitans morsitans (Yale colony)', 'Kluyvera ascorbata ATCC 33433', 'Eimeria brunetti', 'Eimeria praecox', 'Jaculus jaculus', 'Castor canadensis', 'Mycoplasma auris 15026', 'Mycoplasma yeatsii 13926', 'Trichoderma reesei', 'Ciona savignyi', 'Spraguea lophii 42_110', 'Haloarcula hispanica ATCC 33960', 'Kluyveromyces dobzhanskii CBS 2104', 'Nakaseomyces delphensis', 'Nakaseomyces bacillisporus', 'Tetragenococcus halophilus NBRC 12172', 'Tortispora caseinolytica', 'Meiothermus silvanus DSM 9946', 'Calidithermus chliarophilus DSM 9957', 'Acinetobacter venetianus RAG-1 = CIP 110063', 'Mitsuokella multacida DSM 20544', 'Prevotella dentalis DSM 3688', 'Lactobacillus gallinarum DSM 10532 = JCM 2011', 'Sarcoptes scabiei', 'Plasmodium inui San Antonio 1', 'Brachyspira pilosicoli 95/1000', 'Erysiphe necator', 'Sulfitobacter sp. EE-36', 'Sagittula stellata E-37', 'Haliaeetus leucocephalus', 'Bartonella alsatica IBS 382', 'Caldicellulosiruptor kristjanssonii I77R1B', 'Caldicellulosiruptor lactoaceticus 6A', 'Schaalia georgiae DSM 6843', 'Scophthalmus maximus', 'Desulfonatronovibrio hydrogenovorans DSM 9292', 'Desulfospira joergensenii DSM 10085', 'Enterococcus durans ATCC 6056', 'Enterococcus mundtii QU 25', 'Intrasporangium calvum DSM 43043', 'Brevibacterium mcbrellneri ATCC 49030', 'Hamadaea tsunoensis DSM 44101', 'Hyphomicrobium denitrificans 1NES1', 'Pseudomonas coronafaciens pv. oryzae str. 1_6', 'Pseudomonas resinovorans NBRC 106553', 'Xanthomonas axonopodis pv. vasculorum', 'Treponema lecithinolyticum ATCC 700332', 'Treponema socranskii subsp. socranskii VPI DR56BR1116 = ATCC 35536', 'Thermobrachium celere DSM 8682', 'Thermodesulfobacterium hveragerdense DSM 12571', 'Gordonia hirsuta DSM 44140 = NBRC 16056', 'Treponema paraluiscuniculi Cuniculi A', 'Nocardiopsis alba ATCC BAA-2165', 'Blautia hydrogenotrophica DSM 10507', 'Nakamurella multipartita DSM 44233', 'Mycolicibacterium mageritense DSM 44476 = CIP 104973', 'Pyrenophora teres', 'Sulfobacillus acidophilus TPY', 'Acidimicrobium ferrooxidans DSM 10331', 'Hanseniaspora valbyensis NRRL Y-1626', 'Octadecabacter arcticus 238', 'Pyrococcus horikoshii OT3', 'Peptoniphilus harei ACS-146-V-Sch2b', 'Pseudonocardia asaccharolytica DSM 44247 = NBRC 16224', 'Thermococcus zilligii AN1', 'Methanolacinia petrolearia DSM 11571', 'Pristionchus pacificus', 'Colobus angolensis palliatus', 'Ascoidea rubescens DSM 1968', 'Hyperthermus butylicus DSM 5456', 'Pyrolobus fumarii 1A', 'Thermosphaera aggregans DSM 11486', 'Ferroglobus placidus DSM 10642', 'Raoultella ornithinolytica B6', 'Chroococcidiopsis thermalis PCC 7203', 'Pleurocapsa sp. PCC 7327', 'Spirulina subsalsa PCC 9445', 'Mesitornis unicolor', 'Cariama cristata', 'Eurypyga helias', 'Streptomyces venezuelae ATCC 10712', 'Salmonella bongori N268-08', 'Streptococcus thoraltensis DSM 12221', 'Deinococcus proteolyticus MRP', 'Sciurus vulgaris', 'Flavobacterium branchiophilum FL-15', 'Epichloe elymi E56', 'Caldicellulosiruptor owensensis OL', 'Sediminispirochaeta smaragdinae DSM 11293', 'Pectobacterium betavasculorum', 'Ruegeria lacuscaerulensis ITI-1157', 'Thermonema rossianum DSM 10300', 'Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628', 'Pistacia vera', 'Magnetospirillum gryphiswaldense MSR-1 v2', 'Guillardia theta', 'Actinomyces graevenitzii C83', 'Dehalobacter restrictus DSM 9455', 'Vibrio anguillarum', 'Cuculus canorus', 'Thermococcus barophilus MP', 'Malurus cyaneus samueli', 'Streptomyces toyocaensis', 'Tyto alba', 'Hanseniaspora guilliermondii', 'Hanseniaspora osmophila', 'Bartonella clarridgeiae 73', 'Xanthomonas arboricola pv. celebensis', 'Xanthomonas cassavae CFBP 4642', 'Xanthomonas hortorum pv. carotae str. M081', 'Xanthomonas sacchari', 'Xanthomonas campestris pv. musacearum NCPPB 4379', 'Xanthomonas vesicatoria ATCC 35937', 'Protomyces lactucaedebilis', 'Aeropyrum pernix K1', 'Cottoperca gobio', 'Labrus bergylta', 'Rhizobium gallicum bv. gallicum R602sp', 'Rhizobium giardinii bv. giardinii H152', 'Eubacterium infirmum F0142', 'Glaciecola punicea ACAM 611', 'Shewanella frigidimarina NCIMB 400', 'Helicobacter bizzozeronii CIII-1', 'Afipia broomeae ATCC 49717', 'Thermus oshimai JL-2', 'Psychroflexus torquis ATCC 700755', 'Lactobacillus zeae DSM 20178 = KCTC 3804', 'Acanthisitta chloris', 'Mycoplasma suis str. Illinois', 'Apaloderma vittatum', 'Colius striatus', 'Merops nubicus', 'Trifolium pratense', 'Sulfurospirillum arcachonense DSM 9755', 'Rhizobium mongolense USDA 1844', 'Halomicrobium mukohataei DSM 12286', 'Enterococcus asini ATCC 700915', 'Fragaria vesca subsp. vesca', 'Burkholderia thailandensis MSMB43', 'Daktulosphaira vitifoliae', 'Spirillospora albida', 'Desulfofundulus kuznetsovii DSM 6115', 'Desulfofarcimen acetoxidans DSM 771', 'Desulfovibrio alaskensis G20', 'Treponema medium ATCC 700293', 'Archaeoglobus veneficus SNP6', 'Rhizopus microsporus', 'Streptomyces celluloflavus', 'Kitasatospora azatica KCTC 9699', 'Kitasatospora mediocidica KCTC 9733', 'Debaryomyces fabryi', 'Encephalitozoon intestinalis ATCC 50506', 'Trichoderma citrinoviride', 'Tilletiopsis washingtonensis', 'Rickettsiella grylli', 'Streptococcus macedonicus ACA-DC 198', 'Myotis lucifugus', 'Rhinolophus ferrumequinum', 'Actinotignum schaalii FB123-CNA-2', 'Pantholops hodgsonii', 'Corynespora cassiicola Philippines', 'Cellulophaga algicola DSM 14237', 'Desulfotomaculum reducens MI-1', 'Helicobacter rodentium ATCC 700285', 'Arabidopsis lyrata', 'Taeniopygia guttata', 'Candidatus Phytoplasma australiense', 'Alcanivorax borkumensis SK2', 'Angomonas deanei', 'Sphingomonas echinoides ATCC 14820', 'Paenibacillus alginolyticus DSM 5050 = NBRC 15375', 'Paenibacillus curdlanolyticus YK9', 'Paenibacillus peoriae KCTC 3763', 'Ficedula albicollis', 'Cyanobium gracile PCC 6307', 'Synechococcus sp. WH 7805', 'Prevotella pallens ATCC 700821', 'Penicillium polonicum', 'Penicillium solitum', 'Penicillium nalgiovense', 'Shewanella violacea DSS12', 'Shewanella amazonensis SB2B', 'Shewanella sp. MR-4', 'Shewanella sp. MR-7', 'Lactobacillus paraplantarum', 'Burkholderia vietnamiensis G4', 'Chlorocebus sabaeus', 'Halogeometricum borinquense DSM 11551', 'Phaeobacter gallaeciensis DSM 26640', 'Desulfobacca acetoxidans DSM 11109', 'Saccharopolyspora spinosa NRRL 18395', 'Sanguibacter keddieii DSM 10542', 'Shewanella woodyi ATCC 51908', 'Holdemania filiformis DSM 12042', 'Monilinia laxa', 'Varanus komodoensis', 'Ophiostoma piceae', 'Lynx canadensis', 'Dehalococcoides mccartyi 195', 'Coniosporium apollinis', 'Corynebacterium durum F0235', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Paenibacillus mucilaginosus KNP414', 'Acholeplasma brassicae', 'Enterobacter asburiae LF7a', 'Lelliottia amnigena CHS 78', 'Pluralibacter gergoviae', 'Amphilophus citrinellus', 'Nomascus leucogenys', 'Natronorubrum bangense JCM 10635', 'Hucho hucho', 'Borreliella valaisiana Tom4006', 'Acidiphilium multivorum AIU301', 'Haloterrigena turkmenica DSM 5511', 'Shewanella baltica OS117', 'Anopheles funestus', 'Saccharum spontaneum', 'Natronorubrum tibetense GA33', 'Calocera viscosa TUFC12733', 'Zobellia galactanivorans', 'Aquifex aeolicus VF5', 'Melanopsichium pennsylvanicum 4', 'Trichophyton benhamiae', 'Nannizzia gypsea CBS 118893', 'Microsporum canis CBS 113480', 'Trichophyton verrucosum', 'Trichophyton equinum', 'Desulfovibrio oxyclinae DSM 11498', 'Trichoderma atroviride', "Sodalis glossinidius str. 'morsitans'", 'Hydrogenovibrio kuenenii DSM 12350', 'Sideroxydans lithotrophicus ES-1', 'Demetria terragena DSM 11295', 'Nevskia ramosa DSM 11499', 'Bacillus pseudomycoides DSM 12442', 'Anabas testudineus', 'Desulfurobacterium thermolithotrophum DSM 11699', 'Podarcis muralis', 'Coleofasciculus chthonoplastes PCC 7420', 'Carnimonas nigrificans ATCC BAA-78', 'Dothistroma septosporum', 'Synechococcus sp. CC9311', 'Rhizopus oryzae', 'Mortierella alpina ATCC 32222', 'Lobosporangium transversale', 'Natrialba asiatica DSM 12278', 'Tetragenococcus muriaticus DSM 15685', 'Borreliella bissettii DN127', 'Terasakiella pusilla DSM 6293', 'Marinospirillum minutulum DSM 6287', 'Alcanivorax jadensis T9', 'Corynebacterium ulcerans BR-AD22', 'Pythium aphanidermatum DAOM BR444', 'Halothece sp. PCC 7418', 'Mycoplasma wenyonii str. Massachusetts', 'Oryza barthii', 'Actinoalloteichus cyanogriseus', 'Meiothermus cerbereus DSM 11376', 'Sulfurospirillum deleyianum DSM 6946', 'Desulfocapsa sulfexigens DSM 10523', 'Serendipita indica', 'Erwinia tracheiphila PSU-1', 'Pseudomonas knackmussii B13', 'Wolbachia sp. wRi', 'Lachnoclostridium phytofermentans ISDg', 'Gleimia europaea ACS-120-V-Col10b', 'Komagataeibacter intermedius AF2', 'Pantoea stewartii', 'Streptomyces niger', 'Streptomyces violens', 'Papilio xuthus', 'Streptomyces roseoverticillatus', 'Sulfurospirillum multivorans DSM 12446', 'Streptomyces afghaniensis 772', 'Streptomyces atroolivaceus', 'Streptomyces bicolor', 'Streptomyces catenulae', 'Streptomyces griseorubens', 'Trypanosoma theileri', 'Streptomyces alboflavus', 'Streptomyces aureocirculatus', 'Streptomyces filamentosus NRRL 15998', 'Streptomyces flavidovirens DSM 40150', 'Streptomyces lavenduligriseus', 'Streptomyces mutabilis', 'Kitasatospora purpeofusca', 'Streptomyces resistomycificus', 'Streptomyces varsoviensis', 'Rheinheimera baltica DSM 14885', 'Streptomyces viridosporus ATCC 14672', 'Phytophthora sojae', 'Methanocaldococcus infernus ME', 'Edwardsiella ictaluri 93-146', 'Citrobacter farmeri GTC 1319', 'Citrobacter rodentium ICC168', 'Citrobacter sedlakii NBRC 105722', 'Actinobacillus succinogenes 130Z', 'Lentzea aerocolonigenes', 'Streptomyces cyaneogriseus subsp. noncyanogenus', 'Streptomyces durhamensis', 'Streptomyces flavochromogenes', 'Streptomyces fulvissimus DSM 40593', 'Streptomyces griseoaurantiacus M045', 'Streptomyces iakyrus', 'Streptomyces katrae', 'Streptomyces pyridomyceticus', 'Streptomyces violaceusniger Tu 4113', 'Moschus moschiferus', 'Streptomyces albulus', 'Sphaerobolus stellatus SS14', 'Scleroderma citrinum Foug A', 'Rasamsonia emersonii CBS 393.64', 'Theileria orientalis', 'Streptococcus peroris ATCC 700780', 'Streptococcus infantis SK970', 'Deinococcus geothermalis DSM 11300', 'Anopheles farauti', 'Synechococcus sp. WH 5701', 'Enterobacter cancerogenus ATCC 35316', 'Dickeya paradisiaca Ech703', 'Aquamicrobium defluvii', 'Gasterosteus aculeatus', 'Microplitis demolitor', 'Pseudomonas sp. VLB120', 'Chara braunii', 'Caulobacter henricii', 'Petrotoga mobilis SJ95', 'Natrinema pellirubrum DSM 15624', 'Natrinema pallidum DSM 3751', 'Treponema vincentii ATCC 35580', 'Penicillium oxalicum 114-2', 'Selenomonas sputigena ATCC 35185', 'Trichophyton soudanense CBS 452.61', 'Macrococcus caseolyticus JCSC5402', 'Ostreococcus tauri', 'Edhazardia aedis USNM 41457', 'Pyrobaculum neutrophilum V24Sta', 'Pseudomonas plecoglossicida NB2011', 'Nodularia spumigena CCY9414', 'Shewanella oneidensis MR-1', 'Shewanella pealeana ATCC 700345', 'Flexithrix dorotheae DSM 6795', 'Lewinella cohaerens DSM 23179', 'Lewinella persica DSM 23188', 'Eucalyptus grandis', 'Paxillus involutus ATCC 200175', 'Staphylococcus vitulinus F1028', 'Vibrio halioticoli NBRC 102217', 'Mesorhizobium amorphae CCNWGS0123', 'Enterococcus malodoratus ATCC 43197', 'Enterococcus raffinosus ATCC 49464', 'Tolypocladium ophioglossoides CBS 100239', 'Lonsdalea quercina subsp. quercina', 'Waddlia chondrophila WSU 86-1044', 'Naematelia encephala', 'Hypholoma sublateritium FD-334 SS-4', 'Kocuria rhizophila P7-4', 'Bos mutus', 'Sphaeroforma arctica JP610', 'Thielaviopsis punctulata', 'Lepeophtheirus salmonis', 'Citromicrobium bathyomarinum JL354', 'Ophiocordyceps sinensis', 'Trachipleistophora hominis', 'Bacillus mojavensis RO-H-1 = KCTC 3706', 'Drosophila austrosaltans', 'Drosophila lusaltans', 'Drosophila milleri', 'Nannochloropsis gaditana CCMP526', 'Achromobacter piechaudii HLE', 'Sporisorium reilianum', 'Boechera stricta', 'Eutrema salsugineum', 'Dechloromonas agitata is5', 'Streptomyces seoulensis', 'Thiocystis violascens DSM 198', 'Emmonsia crescens UAMH 3008', 'Cordyceps militaris', 'Piromyces sp. E2', 'Methanocaldococcus vulcanius M7', 'Thermaerobacter marianensis DSM 12885', 'Photobacterium profundum SS9', 'Brevundimonas bacteroides DSM 4726', 'Brevundimonas subvibrioides ATCC 15264', 'Maricaulis maris MCS10', 'Hyphomonas polymorpha PS728', 'Sulfitobacter guttiformis KCTC 32187', 'Thraustotheca clavata', 'Rosa chinensis', 'Stachybotrys chartarum IBT 7711', 'Pseudomonas balearica DSM 6083', 'Anopheles maculatus', 'Anopheles sinensis', 'Oncorhynchus tshawytscha', 'Paraburkholderia caribensis MBA4', 'Saccharomonospora xinjiangensis XJ-54', 'Sinocyclocheilus grahami', 'Pseudomonas mandelii PD30', 'Castellaniella defragrans 65Phen', 'Anas zonorhyncha', 'Thermocrinis ruber DSM 12173', 'Mycolicibacterium tusciae JS617', 'Mannheimia haemolytica M42548', 'Thauera linaloolentis 47Lol = DSM 12138', 'Thauera terpenica 58Eu', 'Alloprevotella tannerae ATCC 51259', 'Prevotella enoeca JCM 12259', 'Vibrio rumoiensis 1S-45', 'Campylobacter hominis ATCC BAA-381', 'Cellulophaga baltica 13', 'Mycetocola saprophilus', 'Streptomyces vitaminophilus DSM 41686', 'Sinorhizobium arboris LMG 14919', 'Pseudomonas monteilii SB3078', 'Malassezia globosa CBS 7966', 'Malassezia sympodialis ATCC 42132', 'Myroides odoratimimus H1bi', 'Solibacillus silvestris StLB046', 'Streptococcus constellatus subsp. pharyngis SK1060 = CCUG 46377', 'Hebeloma cylindrosporum h7', 'Caldivirga maquilingensis IC-167', 'Asticcacaulis biprosthecum C19', 'Sphingobium herbicidovorans NBRC 16415', 'Malassezia pachydermatis', 'Cylindrospermopsis raciborskii CS-505', 'Wolbachia endosymbiont of Drosophila simulans wNo', 'Rosellinia necatrix', 'Sclerotinia borealis F-4128', 'Dendroctonus ponderosae', 'Plasmodium gonderi', 'Leersia perrieri', 'Bifidobacterium subtile', 'Prevotella albensis DSM 11370 = JCM 12258', 'Succinispira mobilis DSM 6222', 'Oidiodendron maius', 'Parascardovia denticolens DSM 10105 = JCM 12538', 'Scardovia inopinata F0304', 'Pseudomonas mosselii SJ10', 'Mycobacterium canettii CIPT 140070017', 'Bifidobacterium gallicum DSM 20093 = LMG 11596', 'Bifidobacterium gallinarum', 'Bifidobacterium merycicum', 'Bifidobacterium ruminantium', 'Streptomyces somaliensis DSM 40738', 'Pectobacterium odoriferum', 'Neonectria ditissima', 'Bifidobacterium pullorum DSM 20433', 'Rhizobium undicola ORS 992 = ATCC 700741', 'Thermothelomyces thermophilus', 'Asticcacaulis excentricus CB 48', 'Podila verticillata', 'Desulfosporosinus meridiei DSM 13257', 'Chitinophaga pinensis DSM 2588', 'Epichloe brachyelytri', 'Microtus ochrogaster', 'Cimex lectularius', 'Bacillus clausii KSM-K16', 'Bacillus pseudofirmus OF4', 'Erwinia pyrifoliae Ep1/96', 'Coniophora puteana', 'Piloderma croceum F 1598', 'Thioflavicoccus mobilis 8321', 'Aphis gossypii', 'Haliangium ochraceum DSM 14365', 'Wolbachia endosymbiont strain TRS of Brugia malayi', 'Aliivibrio wodanis', 'Moritella viscosa', 'Delftia acidovorans SPH-1', 'Acidovorax avenae subsp. avenae ATCC 19860', 'Acidovorax citrulli AAC00-1', 'Cryptosporangium arvum DSM 44712', 'Hylemonella gracilis str. Niagara R', 'Simplicispira psychrophila DSM 11588', 'Colletotrichum higginsianum', 'Acanthochromis polyacanthus', 'Amphiprion ocellaris', 'Treponema brennaborense DSM 12168', 'Hyphomonas adhaerens MHS-3', 'Hyphomonas johnsonii MHS-2', 'Hyphomonas neptunium ATCC 15444', 'Hyphomonas oceanitis SCH89', 'Wolfiporia cocos MD-104 SS10', 'Desulfovibrio alcoholivorans DSM 5433', 'Parageobacillus caldoxylosilyticus CIC9', 'Aminomonas paucivorans DSM 12260', 'Desulfovibrio aminophilus DSM 12254', 'Thermanaerovibrio acidaminovorans DSM 6589', 'Aminobacterium mobile DSM 12262', 'Aminobacterium colombiense DSM 12261', 'Frateuria aurantia DSM 6220', 'Monosiga brevicollis', 'Kitasatospora cheerisanensis KCTC 2395', 'Vagococcus lutrae LBD1', 'Arabidopsis halleri subsp. gemmifera', 'Capsella rubella', 'Picrophilus torridus DSM 9790', 'Atopobium vaginae DSM 15829', 'Centipeda periodontii DSM 2778', 'Phlebiopsis gigantea 11061_1 CR5-6', 'Facklamia languida CCUG 37842', 'Paracoccus pantotrophus J46', 'Anaerovibrio lipolyticus LB2005', 'Anaeroarcus burkinensis DSM 6283', 'Trichosporon asahii', 'Pseudanabaena sp. PCC 7367', 'Streptococcus ovis DSM 16829', 'Pythium arrhenomanes ATCC 12531', 'Buttiauxella agrestis ATCC 33320', 'Budvicia aquatica DSM 5075 = ATCC 35567', 'Leminorella grimontii ATCC 33999 = DSM 5078', 'Tatumella ptyseos ATCC 33301', 'Serratia grimesii', 'Serratia plymuthica', 'Methanocaldococcus fervens AG86', 'Sulfitobacter mediterraneus', 'Prevotella brevis P6B11', 'Gordonia rhizosphera NBRC 16068', 'Myxococcus stipitatus DSM 14675', 'Linepithema humile', 'Parachlamydia acanthamoebae UV-7', 'Chlamydia psittaci 10_1398_11', 'Chlamydia abortus S26/3', 'Chlamydia felis Fe/C-56', 'Chlamydia caviae GPIC', 'Chlamydia pneumoniae TW-183', 'Chlamydia suis MD56', 'Chlamydia muridarum str. Nigg', 'Simkania negevensis Z', 'Leclercia adecarboxylata ATCC 23216 = NBRC 102595', 'Lactobacillus amylolyticus DSM 11664', 'Succinimonas amylolytica DSM 2873', 'Succinivibrio dextrinosolvens H5', 'Methanobrevibacter ruminantium M1', 'Trypanosoma conorhini', 'Methanocorpusculum labreanum Z', 'Methanoculleus bourgensis MS2', 'Clostridium autoethanogenum DSM 10061', 'Clostridium haemolyticum NCTC 9693', 'Gordonia alkanivorans NBRC 16433', 'Slackia exigua ATCC 700122', 'Slackia heliotrinireducens DSM 20476', 'Eggerthella lenta DSM 2243', 'Gemella sanguinis M325', 'Gemella bergeri ATCC 700627', 'Archaeoglobus profundus DSM 5631', 'Magnetospirillum magneticum AMB-1', 'Cryptobacterium curtum DSM 15641', 'Brachyspira intermedia PWS/A', 'Brachyspira murdochii DSM 12563', 'Hippea maritima DSM 10411', 'Lysobacter antibioticus', 'Synechococcus sp. WH 8102', 'Taylorella asinigenitalis MCE3', 'Gordonia polyisoprenivorans VH2', 'Staphylothermus hellenicus DSM 12710', 'Candidatus Odyssella thessalonicensis L13', 'Anthracocystis flocculosa', 'Moesziomyces antarcticus', 'Moesziomyces aphidis DSM 70725', 'Beutenbergia cavernae DSM 12333', 'Desulfotalea psychrophila LSv54', 'Corvus brachyrhynchos', 'Pseudarthrobacter chlorophenolicus A6', 'Clogmia albipunctata', 'Mannheimia varigena USDA-ARS-USMARC-1296', 'Plasmodium relictum', 'Thauera sp. MZ1T', 'Citrus clementina', 'Triticum dicoccoides', 'Achromobacter xylosoxidans A8', 'Bartonella tribocorum CIP 105476', 'Thermacetogenium phaeum DSM 12270', 'Sphaerulina musiva', 'Serpula lacrymans', 'Chlamydia pecorum E58', 'Cladophialophora carrionii', 'Rhinocladiella mackenziei CBS 650.93', 'Arenibacter latericius DSM 15913', 'Syntrophothermus lipocalidus DSM 12680', 'Phaseolibacter flectens ATCC 12775', 'Saccharophagus degradans 2-40', 'Mycoplasma dispar', 'Bacillus flexus T6186-2', 'Bacillus halodurans C-125', 'Propionispira raffinosivorans DSM 20765', 'Camarhynchus parvulus', 'Facklamia sourekii ATCC 700629', 'Burkholderia multivorans ATCC 17616', 'Selaginella moellendorffii', 'Treponema primitia ZAS-2', 'Eremococcus coleocola DSM 15696', 'Thermus igniterrae ATCC 700962', 'Thermus antranikianii DSM 12462', 'Dorea longicatena AGR2136', 'Cyclospora cayetanensis', 'Megaselia abdita', 'Caulobacter segnis ATCC 21756', 'Ceratocystis platani', 'Borreliella spielmanii A14S', 'Streptomyces yeochonensis CN732', 'Gordonia amicalis CCMA-559', 'Corynebacterium terpenotabidum Y-11', 'Ruegeria pomeroyi DSS-3', 'Laccaria amethystina LaAM-08-1', 'Bubalus bubalis', 'Cladophialophora bantiana CBS 173.52', 'Moraxella caprae DSM 19149', 'Oligella ureolytica DSM 18253', 'Oligella urethralis DNF00040', 'Absidia repens', 'Camelina sativa', 'Moritella marina ATCC 15381', 'Hydrogenovibrio sp. Milos-T1', 'Thiomicrorhabdus sp. Milos-T2', 'Enterovibrio calviensis 1F-211', 'Polistes canadensis', 'Synechococcus sp. PCC 7335', 'Aspergillus udagawae', 'Candidatus Paracaedibacter acanthamoebae', 'Mucor ambiguus', 'Candidatus Portiera aleyrodidarum BT-QVLC', 'Exophiala spinifera', 'Hortaea werneckii', 'Catharus ustulatus', 'Bartonella koehlerae C-29', 'Thiomicrospira aerophila AL3', 'Metarhizium album ARSEF 1941', 'Metarhizium acridum CQMa 102', 'Herbaspirillum frisingense GSF30', 'Fischerella muscicola PCC 7414', 'Ketogulonicigenium vulgare WSH-001', 'Pandoraea apista', 'Pandoraea pnomenusa', 'Pandoraea pulmonicola', 'Pandoraea sputorum', 'Pseudaminobacter salicylatoxidans KCT001', 'Edwardsiella hoshinae NBRC 105699 = ATCC 33379', 'Fervidobacterium pennivorans DSM 9078', 'Exserohilum turcicum', 'Roseivivax halodurans JCM 10272', 'Myzus cerasi', 'Thermotoga petrophila RKU-1', 'Thermotoga naphthophila RKU-10', 'Coturnix japonica', 'Cryptosporidium meleagridis', 'Thermicanus aegyptius DSM 12793', 'Shewanella sp. ANA-3', 'Rhizophagus clarus', 'Ramlibacter tataouinensis TTB310', 'Tolypocladium paradoxum', 'Mola mola', 'Dyadobacter fermentans DSM 18053', 'Bordetella petrii', 'Ochrobactrum intermedium LMG 3301', 'Besnoitia besnoiti', 'Desulfurococcus amylolyticus 1221n', 'Gavialis gangeticus', 'Helicobacter pametensis ATCC 51478', 'Burkholderia cenocepacia J2315', 'Pseudomonas sp. M1', 'Legionella fallonii LLAP-10', 'Flavobacterium psychrophilum JIP02/86', 'Salvator merianae', 'Lactobacillus hamsteri DSM 5661 = JCM 6256', 'Halobacteriovorax marinus SJ', 'Eutypa lata', 'Phaethon lepturus', 'Lactobacillus sp. ASF360', 'Clostridium sp. MD294', 'Eubacterium plexicaudatum ASF492', 'Ferroplasma acidarmanus fer1', 'Acetomicrobium mobile DSM 13181', 'Lactobacillus mucosae LM1', 'Periconia macrospinosa', 'Bacillus sp. OxB-1', 'Drechmeria coniospora', 'Mycolicibacterium septicum DSM 44393', 'Phlebia centrifuga', 'Pyrobaculum oguniense TE7', 'Hammondia hammondi', 'Flavobacterium frigidarium DSM 17623', 'Calothrix sp. PCC 7507', 'Spermophilus dauricus', 'Tetraodon nigroviridis', 'Austwickia chelonae NBRC 105200', 'Onion yellows phytoplasma', 'Chloroherpeton thalassium ATCC 35110', 'Verticillium longisporum', 'Madurella mycetomatis', 'Falco tinnunculus', 'Wolbachia endosymbiont of Onchocerca ochengi', 'Fusarium pseudograminearum CS3096', 'Choanephora cucurbitarum', 'Hesseltinella vesiculosa', 'Bipolaris oryzae', 'Methanomethylovorans hollandica DSM 15978', 'Trichoderma asperellum CBS 433.97', 'Saprolegnia parasitica CBS 223.65', 'Aequorivita sublithincola DSM 14238', 'Trichophyton interdigitale H6', 'Candidatus Blochmannia pennsylvanicus str. BPEN', 'Burkholderia ubonensis MSMB22', 'Tetrasphaera elongata Lp2', 'Glarea lozoyensis ATCC 20868', 'Prunus mume', 'Stanieria cyanosphaera PCC 7437', 'Xenococcus sp. PCC 7305', 'Leptolyngbya sp. PCC 7375', 'Desulfallas gibsoniae DSM 7213', 'Solobacterium moorei DSM 22971', 'Gloeocapsa sp. PCC 73106', 'Cyanobacterium stanieri PCC 7202', 'Streptococcus infantarius subsp. infantarius CJ18', 'Proteus penneri ATCC 35198', 'Streptococcus didelphis DSM 15616', 'Acromyrmex echinatior', 'Vavraia culicis subsp. floridensis', 'Gleimia coleocanis DSM 15436', 'Actinomyces urogenitalis DSM 15434', 'Nostoc sp. PCC 7120 = FACHB-418', 'Pogona vitticeps', 'Saccharothrix espanaensis DSM 44229', 'Saccharothrix syringae', 'Riemerella columbina DSM 16469', 'Rhodococcus pyridinivorans SB3094', 'Bordetella hinzii ATCC 51730', 'Oscillochloris trichoides DG-6', 'Penicillium brasilianum', 'Postia placenta Mad-698-R', 'Gloeophyllum trabeum', 'Camponotus floridanus', 'Serratia sp. ATCC 39006', 'Helicobacter suis HS1', 'Cryptococcus amylolentus', 'Adineta vaga', 'Nothobranchius furzeri', 'Ralstonia mannitolilytica', 'Streptacidiphilus neutrinimicus', 'Streptacidiphilus carbonis', 'Streptacidiphilus albus', 'Desulfohalotomaculum alkaliphilum DSM 12257', 'Valsa mali var. pyri', 'Methylibium petroleiphilum PM1', 'Epicoccum nigrum', 'Cryptotermes secundus', 'Anaerostipes caccae DSM 14662', 'Leucosporidium creatinivorum', 'Frankia casuarinae', 'Thermoanaerobacter siderophilus SR4', 'Maylandia zebra', 'Pseudoflavonifractor capillosus ATCC 29799', 'Cupriavidus necator H16', 'Ensifer adhaerens OV14', 'Acinetobacter bereziniae', 'Acinetobacter guillouiae NIPH 991', 'Acinetobacter sp. RUH2624', 'Chelonoidis abingdonii', 'Tenacibaculum maritimum NCIMB 2154', 'Methylosinus sp. LW3', 'Methylosinus sp. PW1', 'Opitutus terrae PB90-1', 'Thermanaerovibrio velox DSM 12556', 'Thermoanaerobacter italicus Ab9', 'Corynebacterium falsenii DSM 44353', 'Coprothermobacter platensis DSM 11748', 'Acinetobacter ursingii DSM 16037 = CIP 107286', 'Acinetobacter schindleri NIPH 900', 'Rickettsia monacensis', 'Hippocampus comes', 'Anaerovorax odorimutans DSM 5092', 'Leptotrichia trevisanii DSM 22070', 'Varroa destructor', 'Myotis brandtii', 'Galerina marginata CBS 339.88', 'Spizellomyces punctatus', 'Lactobacillus jensenii 115-3-CHN', 'Batrachochytrium dendrobatidis JAM81', 'Catenaria anguillulae PL171', 'Serendipita vermifera MAFF 305830', 'Nocardioides sp. CF8', 'Sinorhizobium medicae WSM419', 'Gregarina niphandrodes', 'Pelotomaculum thermopropionicum SI', 'Mycolicibacterium vanbaalenii PYR-1', 'Synechococcus sp. CC9605', 'Synechococcus sp. CC9616', 'Eragrostis tef', 'Porphyromonas gulae', 'Muricauda ruestringensis DSM 13258', 'Bartonella birtlesii E11', 'Kineosphaera limosa NBRC 100340', 'Leptolyngbya sp. PCC 7376', 'Sulfurisphaera tokodaii str. 7', 'Ignatzschineria larvae DSM 13226', 'Aphanomyces astaci', 'Saprolegnia diclina', 'Anopheles minimus', 'Ramularia collo-cygni', 'Enterococcus villorum ATCC 700913', 'Streptococcus australis ATCC 700641', 'Pseudocercospora musae', 'Pseudoramibacter alactolyticus ATCC 23263', 'Melitaea cinxia', 'Bradyrhizobium sp. Tv2a-2', 'Scleropages formosus', 'Actinoplanes globisporus DSM 43857', 'Tetrapisispora phaffii CBS 4417', 'Geoglobus ahangari', 'Dichomitus squalens LYAD-421 SS1', 'Candidatus Carsonella ruddii DC', 'Cordyceps fumosorosea ARSEF 2679', 'Saccharomyces kudriavzevii', 'Saccharomyces mikatae', 'Bradyrhizobium sp. ORS 278', 'Methylobacterium nodulans ORS 2060', 'Alkaliphilus transvaalensis ATCC 700919', 'Streptococcus orisratti DSM 15617', 'Streptomyces auratus AGR0001', 'Mycoplasmopsis columbinum SF7', 'Phoronis australis', 'Globisporangium iwayamae', 'Coprococcus catus GD/7', 'Lactobacillus psittaci DSM 15354', 'Cryptosporidium andersoni', 'Tilletia walkeri', 'Fusarium verticillioides', 'Sphingopyxis alaskensis RB2256', 'Denitrovibrio acetiphilus DSM 12809', 'Pleurocapsa sp. PCC 7319', 'Pseudanabaena sp. PCC 6802', 'Picoides pubescens', 'Beauveria brongniartii RCEF 3172', 'Oscillatoria acuminata PCC 6304', 'Arthrospira platensis NIES-39', 'Nicotiana noctiflora var. noctiflora', 'Bulleidia extructa W1219', 'Lipotes vexillifer', 'Cupriavidus metallidurans CH34', 'Pseudothermotoga thermarum DSM 5069', 'Syntrophobacter fumaroxidans MPOB', 'Microcoleus vaginatus FGP-2', 'Bacillus sonorensis L12', 'Marinomonas mediterranea MMB-1', 'Ustilago hordei Uh4857-4', 'Brucella pinnipedialis B2/94', 'Brucella ceti M644/93/1', 'Roseiflexus castenholzii DSM 13941', 'Ferrimicrobium acidiphilum DSM 19497', 'Helicocarpus griseus UAMH5409', 'Schaalia suimastitidis DSM 15538', 'Pediculus humanus corporis', 'Pyrobaculum arsenaticum DSM 13514', 'Sphingobium xenophagum QYY', 'Tauraco erythrolophus', 'Pannonibacter phragmitetus DSM 14782', 'Photobacterium sp. SKA34', 'Paracoccidioides brasiliensis', 'Diaphorina citri', 'Pseudomonas psychrophila HA-4', 'Cercospora beticola', 'Alicyclobacillus herbarius DSM 13609', 'Oryzias javanicus', 'Helicobacter canadensis MIT 98-5491', 'Bordetella trematum', 'Nocardiopsis xinjiangensis YIM 90004', 'Thiolinea disciformis DSM 14473', 'Thiofilum flexile DSM 14609', 'Drosophila biarmipes', 'Halodesulfovibrio aestuarii DSM 10141', 'Providencia alcalifaciens DSM 30120', 'Thermotoga sp. RQ7', 'Thermotoga sp. RQ2', 'Strigamia maritima', 'Nipponia nippon', 'Catelliglobosispora koreensis DSM 44566', 'Drosophila santomea', 'Phytophthora lateralis MPF4', 'Arthrospira maxima CS-328', 'Carboxydothermus hydrogenoformans Z-2901', 'Halobiforma nitratireducens JCM 10879', 'Galdieria sulphuraria', 'Corynebacterium capitovis DSM 44611', 'Schaalia turicensis ACS-279-V-Col4', 'Thiomicrorhabdus arctica DSM 13458', 'Kineococcus radiotolerans SRS30216 = ATCC BAA-149', 'Bombus impatiens', 'Candidatus Glomeribacter gigasporarum BEG34', 'Nocardia veterana NBRC 100344', 'Anser brachyrhynchus', 'Pteropus vampyrus', 'Rhodococcus jostii RHA1', 'Exiguobacterium antarcticum B7', 'Citrobacter youngae ATCC 29220', 'Caldilinea aerophila DSM 14535 = NBRC 104270', 'Nitrosococcus halophilus Nc 4', 'Methylocapsa acidiphila B2', 'Frankliniella occidentalis', 'Leisingera methylohalidivorans DSM 14336', 'Olsenella uli DSM 7084', 'Phytomonas sp. isolate EM1', 'Phytomonas sp. isolate Hart1', 'Corynebacterium freneyi DNF00450', 'Acinetobacter parvus NIPH 1103', 'Acinetobacter gyllenbergii NIPH 230', 'Paraburkholderia fungorum', 'Ministeria vibrans', 'Actinoplanes sp. SE50/110', 'Ureaplasma parvum serovar 3 str. ATCC 27815', 'Selenomonas flueggei ATCC 43531', 'Selenomonas infelix ATCC 43532', 'Selenomonas noxia ATCC 43541', 'Paenibacillus daejeonensis DSM 15491', 'Nocardia cyriacigeorgica GUH-2', 'Geobacillus vulcani PSS1', 'Idiomarina loihiensis L2TR', 'Caenorhabditis brenneri', 'Bacillus endophyticus 2102', 'Zootermopsis nevadensis', 'Thermocrinis albus DSM 14484', 'Knoellia sinensis KCTC 19936', 'Mycoplasma haemocanis str. Illinois', 'Kocuria polaris', 'Atopobacter phocae ATCC BAA-285', 'Leuconostoc kimchii IMSNU 11154', 'Methylosinus sp. LW4', 'Weissella cibaria KACC 11862', 'Facklamia ignava CCUG 37419', 'Granulicatella elegans ATCC 700633', 'Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)', 'Candidatus Regiella insecticola LSR1', "Serratia symbiotica str. 'Cinara cedri'", 'Blastococcus saxobsidens DD2', 'Helicobacter cetorum MIT 00-7128', 'Olsenella profusa F0195', 'Sistotremastrum niveocremeum HHB9708', 'Isoptericola variabilis 225', 'Plicaturopsis crispa FD-325 SS-3', 'Teleopsis dalmanni', 'Anopheles culicifacies', 'Shimazuella kribbensis DSM 45090', 'Lachnobacterium bovis', 'Nicotiana cordifolia', 'Candidatus Mycoplasma haemolamae str. Purdue', 'Nocardiopsis kunsanensis DSM 44524', 'Cylindrospermum stagnale PCC 7417', 'Desulfitobacterium metallireducens DSM 15288', 'Zobellia uliginosa', 'Filifactor alocis ATCC 35896', 'Eubacterium sulci ATCC 35585', 'Diuraphis noxia', 'Sipha flava', 'Pogonomyrmex barbatus', 'Mobiluncus holmesii ATCC 35242', 'Leifsonia aquatica H1aii', 'Stegastes partitus', 'Methanothermobacter thermautotrophicus str. Delta H', 'Methanothermobacter marburgensis str. Marburg', 'Rathayibacter toxicus DSM 7488', 'Thermosynechococcus elongatus BP-1', 'Halorhabdus utahensis DSM 12940', 'Pseudoloma neurophilia', 'Salinibacter ruber DSM 13855', 'Streptomyces griseofuscus', 'Azovibrio restrictus DSM 23866', 'Azospira oryzae PS', 'Collinsella stercoris DSM 13279', 'Collinsella intestinalis DSM 13280', 'Agrobacterium albertimagni AOL15', 'Thiomicrospira cyclica ALM1', 'Limnospira indica PCC 8005', 'Paracoccus yeei ATCC BAA-599', 'Carnobacterium inhibens subsp. gilichinskyi', 'Lactobacillus iners AB-1', 'Magnaporthiopsis poae', 'Pyricularia grisea', 'Paraburkholderia phymatum STM815', 'Lactobacillus ingluviei str. Autruche 4', 'Sulfuricurvum kujiense DSM 16994', 'Lactobacillus kunkeei', 'Wallemia sebi', 'Streptococcus urinalis 2285-97', 'Phialocephala scopiformis', 'Marinitoga piezophila KA3', 'Streptococcus lutetiensis 033', 'Halonatronum saccharophilum DSM 13868', 'Gemella cuniculi DSM 15828', 'Sporothrix insectorum RCEF 264', 'Escovopsis weberi', 'Pseudomonas sp. MT-1', 'Treponema azotonutricium ZAS-9', 'Pseudoalteromonas ruthenica CP76', 'Bacteroides coprosuis DSM 18011', 'Afipia birgiae 34632', 'Xenophilus azovorans DSM 13620', 'Pseudopedobacter saltans DSM 12145', 'Chloroflexus aggregans DSM 9485', 'Lactobacillus suebicus DSM 5007 = KCTC 3549', 'Thioalkalivibrio thiocyanoxidans ARh 4', 'Burkholderia ambifaria AMMD', 'Burkholderia dolosa PC543', 'Sphingomonas melonis DAPP-PG 224', 'Corynebacterium efficiens YS-314', 'Desulforegula conservatrix Mb1Pa', 'Oceanicaulis alexandrii DSM 11625', 'Alysiella crassa DSM 2578', 'Conchiformibius steedae DSM 2580', 'Kozakia baliensis', 'Moniliophthora perniciosa FA553', 'Sporocytophaga myxococcoides', 'Nitrosomonas sp. AL212', 'Hungatella hathewayi DSM 13479', 'Turicibacter sanguinis PC909', 'Thiorhodospira sibirica ATCC 700588', 'Trametes pubescens', 'Enterococcus phoeniculicola ATCC BAA-412', 'Cellvibrio japonicus Ueda107', 'Bartonella bovis 91-4', 'Bacillus toyonensis BCT-7112', 'Gallibacterium genomosp. 1', 'Enterococcus moraviensis ATCC BAA-383', 'Enterococcus haemoperoxidus ATCC BAA-382', 'Streptococcus entericus DSM 14446', 'Methanothermococcus okinawensis IH1', 'Caulobacter vibrioides NA1000', 'Actinokineospora enzanensis DSM 44649', 'Acaryochloris marina MBIC11017', 'Anaeroglobus geminatus F0357', 'Tulasnella calospora MUT 4182', 'Cyanistes caeruleus', 'Alteromonadales bacterium TW-7', 'Flavobacteria bacterium BBFL7', 'Dysgonomonas gadei ATCC BAA-286', 'Corynebacterium imitans', 'Aphanomyces invadans', 'Jeotgalicoccus psychrophilus DSM 19085', 'Helicobacter winghamensis ATCC BAA-430', 'Leptomonas pyrrhocoris', 'Leptotrichia wadei F0279', 'Leptotrichia hofstadii F0254', 'Leptotrichia shahii DSM 19757', 'Leptotrichia goodfellowii F0264', 'Pseudomonas parafulva NBRC 16636 = DSM 17004', 'Pseudomonas cremoricolorata', 'Vigna radiata var. radiata', 'Phaeomoniella chlamydospora', 'Chromohalobacter salexigens DSM 3043', 'Hahella chejuensis KCTC 2396', 'Folsomia candida', 'Betta splendens', 'Cedecea davisae DSM 4568', 'Novosphingobium resinovorum', 'Trametes coccinea BRFM310', 'Diaporthe helianthi', 'Bifidobacterium scardovii', 'Terrapene carolina triunguis', 'Cedecea neteri', 'Enterobacter sp. MGH 2', 'Megamonas hypermegale DSM 1672', 'Providencia rustigianii DSM 4541', 'Trabulsiella guamensis ATCC 49490', 'Yokenella regensburgei ATCC 43003', 'Collimonas fungivorans Ter331', 'Roseibacterium elongatum DSM 19469', 'Embleya scabrispora DSM 41855', 'Paraburkholderia sacchari', 'Paenibacillus terrae HPL-003', 'Thalassiosira oceanica', 'Microbacterium gubbeenense DSM 15944', 'Nanoarchaeum equitans Kin4-M', 'Ignicoccus hospitalis KIN4/I', 'Corynebacterium casei LMG S-19264', 'Enterococcus gilvus ATCC BAA-350', 'Enterococcus pallens ATCC BAA-351', 'Sphingomonas wittichii RW1', 'Paenibacillus borealis', 'Acidithiobacillus ferrivorans SS3', 'Auricularia delicata', 'Thermodesulfobacterium hydrogeniphilum', 'Planococcus antarcticus DSM 14505', 'Anaeromyxobacter dehalogenans 2CP-C', 'Erythrobacter sp. SD-21', 'Amphiprion percula', 'Corynebacterium kroppenstedtii DSM 44385', 'Corynebacterium lipophiloflavum DSM 44291', 'Corynebacterium mastitidis DSM 44356', 'Corynebacterium camporealensis', 'Corynebacterium singulare', 'Beta vulgaris', 'Aspergillus nidulans FGSC A4', 'Thermococcus cleftensis', 'Wolbachia endosymbiont of Drosophila melanogaster', 'Dysgonomonas mossii DSM 22836', 'Algicola sagamiensis DSM 14643', 'Anabaena sp. PCC 7108', 'Phytophthora ramorum', 'Lactobacillus fuchuensis DSM 14340 = JCM 11249', 'Vulcanisaeta distributa DSM 14429', 'Blattabacterium sp. (Cryptocercus punctulatus) str. Cpu', 'Cupriavidus taiwanensis LMG 19424', 'Mycobacterium sp. MCS', 'Mycobacterium sp. JLS', 'Weissella koreensis KACC 15510', 'Prevotella copri DSM 18205', 'Bartonella schoenbuchensis m07a', 'Synechococcus sp. WH 8109', 'Synechococcus sp. WH 8016', 'Roseburia intestinalis L1-82', 'Thermobaculum terrenum ATCC BAA-798', 'Pseudoalteromonas translucida TAC125', 'Allofustis seminis DSM 15817', 'Ilyobacter polytropus DSM 2926', 'Anaerolinea thermophila UNI-1', 'Candidatus Ishikawaella capsulata Mpkobe', 'Marvinbryantia formatexigens DSM 14469', 'Laribacter hongkongensis HLHK9', 'Salinispora tropica CNB-440', 'Salinispora arenicola CNS-205', 'Legionella drancourtii LLAP12', 'Metarhizium guizhouense ARSEF 977', 'Gelidibacter mesophilus DSM 14095', 'Novosphingobium tardaugens NBRC 16725', 'Exiguobacterium undae DSM 14481', 'Corynebacterium aurimucosum ATCC 700975', 'Anaerotruncus colihominis DSM 17241', 'Saccharospirillum impatiens DSM 12546', 'Clostridium saccharobutylicum DSM 13864', 'Paenibacillus stellifer', 'Epichloe aotearoae', 'Staphylococcus pettenkoferi VCU012', 'Vibrio brasiliensis LMG 20546', 'Vibrio kanaloae 5S-149', 'Methanosarcina lacustris Z-7289', 'Sulfurihydrogenibium subterraneum DSM 15120', 'Halosimplex carlsbadense 2-9-1', 'Mycoplasma anatis 1340', 'Mycoplasma cynos C142', 'Tistrella mobilis KA081020-065', 'Mycoplasma ovis str. Michigan', 'Oceanobacillus picturae', 'Thermodesulfatator indicus DSM 15286', 'Rothia aeria F0184', 'Elizabethkingia miricola', 'Thermococcus sibiricus MM 739', 'Bradyrhizobium sp. th.b2', 'Meiothermus taiwanensis DSM 14542', 'Echeneis naucrates', 'Brachybacterium paraconglomeratum LC44', 'Methylobacter tundripaludum SV96', 'Gemmatimonas aurantiaca T-27', 'Gordonia sihwensis NBRC 108236', 'Ordospora colligata OC4', 'Allobaculum stercoricanis DSM 13633', 'Gordonia paraffinivorans NBRC 108238', 'Thermaerobacter subterraneus DSM 13965', 'Buceros rhinoceros', 'Nestor notabilis', 'Streptococcus sinensis', 'Pseudoalteromonas agarivorans S816', 'Beauveria bassiana', 'Halomonas halocynthiae DSM 14573', 'Lactobacillus malefermentans DSM 5705 = KCTC 3548', 'Python bivittatus', 'Coniochaeta ligniaria NRRL 30616', 'Anaerophaga thermohalophila DSM 12881', 'Pseudothermotoga lettingae TMO', 'Shuttleworthia satelles DSM 14600', 'Facklamia hominis ACS-120-V-Sch10', 'Leptospirillum ferriphilum ML-04', 'Pisolithus microcarpus 441', 'Acetobacter malorum', 'Clostridium colicanis 209318', 'Alicycliphilus denitrificans K601', 'Culicoides sonorensis', 'Sphingomonas elodea ATCC 31461', 'Rhizopogon vesiculosus', 'Cyanobium sp. PCC 7001', 'Robinsoniella peoriensis', 'Salinisphaera shabanensis E1L3A', 'Proteocatella sphenisci DSM 23131', 'Carnobacterium pleistocenium FTR1', 'Pseudopodoces humilis', 'Salarias fasciatus', 'Pyrobaculum calidifontis JCM 11548', 'Schaalia cardiffensis F0333', 'Cyanoderma ruficeps', 'Desulfococcus oleovorans Hxd3', 'Lactobacillus coleohominis 101-4-CHN', 'Pseudodesulfovibrio aespoeensis Aspo-2', 'Erwinia billingiae Eb661', 'Rubritepida flocculans DSM 14296', 'Kribbella flavida DSM 17836', 'Oceanobacillus iheyensis HTE831', 'Oryzias sinensis', 'Stemphylium lycopersici', 'Pseudo-nitzschia multistriata', 'Pseudomonas mediterranea CFBP 5447', 'Schaalia vaccimaxillae DSM 15804', 'Thermodesulfobium narugense DSM 14796', 'Thermoproteus uzoniensis 768-20', 'Crocinitomix catalasitica ATCC 23190', 'Varibaculum cambriense DORA_20', 'Knoellia subterranea KCTC 19937', 'Corallococcus coralloides DSM 2259', 'Desulfovibrio magneticus RS-1', 'Prevotella oryzae DSM 17970', 'Prevotella paludivivens DSM 17968 = JCM 13650', 'Paludibacter propionicigenes WB4', 'Chrysochloris asiatica', 'Fragilariopsis cylindrus CCMP1102', 'Xylanimonas cellulosilytica DSM 15894', 'Marinithermus hydrothermalis DSM 14884', 'Candidatus Baumannia cicadellinicola', 'Bartonella washoeensis Sb944nv', 'Thioalkalivibrio nitratireducens DSM 14787', 'Sneathia amnii', 'Oceanithermus profundus DSM 14977', 'Caldithrix abyssi DSM 13497', 'Methylocystis sp. SC2', 'Labrenzia aggregata IAM 12614', 'Megasphaera micronuciformis F0359', 'Acidaminococcus intestini RyC-MR95', 'Veillonella montpellierensis DNF00314', 'Chlamydotis macqueenii', 'Paracoccus zeaxanthinifaciens ATCC 21588', 'Pediococcus claussenii ATCC BAA-344', 'Thalassolituus oleivorans MIL-1', 'Thermococcus gammatolerans EJ3', 'Mitsuokella jalaludinii DSM 13811', 'Enterovibrio norvegicus FF-33', 'Leptosomus discolor', 'Egretta garzetta', 'Dermacoccus sp. Ellin185', 'Oleispira antarctica RB-8', 'Cetobacterium somerae ATCC BAA-474', 'Candidatus Tremblaya princeps PCIT', 'Paenibacillus graminis', 'Paenibacillus odorifer', 'Babesia ovata', 'Paenibacillus elgii B69', 'Prevotella marshii DSM 16973 = JCM 13450', 'Prevotella micans F0438', 'Bradyrhizobium sp. Ec3.3', 'Mycobacterium sp. KMS', 'Actinotignum urinale DSM 15805', 'Idiomarina baltica OS145', 'Vibrio coralliilyticus ATCC BAA-450', 'Desulfovibrio hydrothermalis AM13 = DSM 14728', 'Rhodococcus aetherivorans', 'Leifsonia rubra CMS 76R', 'Conexibacter woesei DSM 14684', 'Epilithonimonas tenax DSM 16811', 'Fluviicola taffensis DSM 16823', 'Corynebacterium atypicum', 'Plesiocystis pacifica SIR-1', 'Lynx pardinus', 'Chthoniobacter flavus Ellin428', 'Shewanella denitrificans OS217', 'Rhodoferax ferrireducens T118', 'Capsaspora owczarzaki ATCC 30864', 'Streptomyces niveus NCIMB 11891', 'Lactobacillus versmoldensis DSM 14857 = KCTC 3814', 'Athene cunicularia', 'Cardiobacterium valvarum F0432', 'Sphingomonas sp. ATCC 31555', 'Sinorhizobium americanum CCGM7', 'Chroomonas mesostigmatica CCMP1168', 'Haematobacter massiliensis', 'Synechococcus sp. PCC 7336', 'Synechococcus sp. PCC 6312', 'Thermococcus nautili', 'Gillisia limnaea DSM 15749', 'Caldimonas manganoxidans ATCC BAA-369', 'Microdochium bolleyi', 'Nocardioides sp. JS614', 'Caballeronia sordidicola', 'Bradyrhizobium sp. Ai1a-2', 'Porphyrobacter cryptus DSM 12079', 'Actinoplanes friuliensis DSM 7358', 'Deferribacter desulfuricans SSM1', 'Alkanindiges illinoisensis DSM 15370', 'Paraglaciecola mesophila KMM 241', 'Psychroflexus tropicus DSM 15496', 'Haemophilus aegyptius ATCC 11116', 'Streptococcus pasteurianus ATCC 43144', 'Candidatus Pelagibacter ubique HTCC7217', 'Anoxybacillus gonensis', 'Talaromyces verruculosus', 'Calidris pugnax', 'Candidatus Paraburkholderia kirkii UZHbot1', 'Coccidioides posadasii RMSCC 3488', 'Microbacterium paraoxydans 77MFTsu3.2', 'Methylocella silvestris BL2', 'Anopheles epiroticus', 'Nicotiana obtusifolia', 'Caldisphaera lagunensis DSM 15908', 'Pseudomonas poae RE*1-1-14', 'Strix occidentalis caurina', 'Lysinibacillus odysseyi 34hs-1 = NBRC 100172', 'Jaapia argillacea MUCL 33604', 'Punctularia strigosozonata', 'Sulfurimonas autotrophica DSM 16294', 'Actinobaculum massiliense ACS-171-V-Col2', 'Acinetobacter baylyi ADP1', 'Acinetobacter bouvetii DSM 14964 = CIP 107468', 'Acinetobacter gerneri', 'Acinetobacter tandoii', 'Acinetobacter tjernbergiae', 'Acinetobacter towneri', 'Tepidiphilus margaritifer DSM 15129', 'Longispora albida DSM 44784', 'Candidatus Blochmannia floridanus', 'Melampsora larici-populina 98AG31', 'Dickeya dadantii 3937', 'Dickeya zeae Ech586', 'Alicyclobacillus pomorum DSM 14955', 'Bacteroides massiliensis B84634 = Timone 84634 = DSM 17679 = JCM 13223', 'Roseomonas cervicalis ATCC 49957', 'Herminiimonas arsenicoxydans', 'Nitratireductor aquibiodomus NL21 = JCM 21793', 'Mastacembelus armatus', 'Novosphingobium pentaromativorans US6-1', 'Panicum hallii', 'Gymnopus luxurians FD-317 M1', 'Sulfurovum lithotrophicum', 'Bermanella marisrubri', 'Neptuniibacter caesariensis', 'Parvularcula bermudensis HTCC2503', 'Alkaliphilus metalliredigens QYMF', 'Puccinia triticina 1-1 BBBD Race 1', 'Amycolatopsis japonica', 'Amycolatopsis balhimycina FH 1894', 'Amycolatopsis vancoresmycina', 'Plasmodium coatneyi', 'Carnobacterium sp. 17-4', 'Fomitiporia mediterranea', 'Escherichia albertii KF1', 'Nocardia niigatensis NBRC 100131', 'Chaetomium thermophilum', "Candidatus Mycoplasma haemominutum 'Birmingham 1'", 'Marinobacter lipolyticus SM19', 'Afifella pfennigii DSM 17143', 'Corchorus capsularis', 'Nymphaea colorata', 'Thiorhodococcus drewsii AZ1', 'Sandarakinorhabdus limnophila DSM 17366', 'Parambassis ranga', 'Hanseniaspora opuntiae', 'Allokutzneria albata', 'Conchiformibius kuhniae DSM 17694', 'Accipiter nisus', 'Colwellia piezophila ATCC BAA-637', 'Mycobacterium sp. JS623', 'Exophiala mesophila', 'Halomonas campaniensis', 'Shewanella waksmanii ATCC BAA-643', 'Subdoligranulum variabile DSM 15176', 'Anaerofustis stercorihominis DSM 17244', 'Alistipes finegoldii DSM 17242', 'Komagataeibacter rhaeticus AF1', 'Exophiala oligosperma', 'Acaromyces ingoldii', 'Larimichthys crocea', 'Treponema caldarium DSM 7334', 'Erwinia sp. Ejp617', 'Thermomonas fusca DSM 15424', 'Roseovarius mucosus DSM 17069', 'Enhygromyxa salina', 'Dinoroseobacter shibae DFL 12 = DSM 16493', 'Pseudomonas rhizosphaerae', 'Polaromonas naphthalenivorans CJ2', 'Stenotrophomonas rhizophila', 'Bifidobacterium longum NCC2705', 'Spiroplasma chrysopicola DF-1', 'Spiroplasma culicicola AES-1', 'Spiroplasma diminutum CUAS-1', 'Spiroplasma sabaudiense Ar-1343', 'Spiroplasma syrphidicola EA-1', 'Clostridium carboxidivorans P7', 'Microvirga flocculans ATCC BAA-817', 'Marinospirillum insulare DSM 21763', 'Neomegalonema perideroedes DSM 15528', 'Fulvimarina pelagi HTCC2506', 'Anoplophora glabripennis', 'Bifidobacterium psychraerophilum', 'Bacillus vietnamensis', 'Dialister invisus DSM 15470', 'Aquilegia coerulea', 'Brachybacterium muris UCD-AY4', 'Micromonospora sp. ATCC 39149', 'Aeromicrobium marinum DSM 15272', 'Rhodanobacter fulvus Jip2', 'Gemmobacter nectariphilus DSM 15620', 'Bathymodiolus platifrons', 'Bacillus bataviensis LMG 21833', 'Bacillus vireti LMG 21834', 'Thalassospira xiamenensis M-5 = DSM 17429', 'Treponema putidum', 'Kordia algicida OT-1', 'Moniliophthora roreri', 'Mastigocladopsis repens PCC 10914', 'Synechococcus sp. RS9916', 'Synechococcus sp. RS9917', 'Polytolypa hystricis UAMH7299', 'Phaeobacter inhibens DSM 17395', 'Frankia elaeagni', 'Natrinema altunense', 'Kocuria marina', 'Phaeoacremonium minimum', 'Halomonas boliviensis LC1', 'Hymenobacter norwichensis DSM 15439', 'Exiguobacterium oxidotolerans JCM 12280', 'Methylorubrum populi BJ001', 'Buteo japonicus', 'Methanobrevibacter sp. AbM4', 'Pyrus x bretschneideri', 'Lottia gigantea', 'Geobacter bemidjiensis Bem', 'Geopsychrobacter electrodiphilus DSM 16401', 'Enhydrobacter aerosaccus SK60', 'Corynebacterium halotolerans YIM 70093 = DSM 44683', 'Erysiphe pulchra', 'Myotis davidii', 'Sulfitobacter indolifex HEL-45', 'Yaniella halotolerans DSM 15476', 'Paenibacillus sanguinis 2301083 = DSM 16941', 'Paenibacillus massiliensis 2301065 = DSM 16942', 'Fictibacillus gelatini DSM 15865', 'Comamonas aquatica NBRC 14918', 'Aestuariibacter salexigens DSM 15300', 'Salvia miltiorrhiza', 'Algoriphagus mannitolivorans DSM 15301', 'Rickettsia heilongjiangensis 054', 'Grosmannia clavigera kw1407', 'Bigelowiella natans', 'Corynebacterium ciconiae DSM 44920', 'Lactobacillus antri DSM 16041', 'Lactobacillus ultunensis DSM 16047', 'Paenibacillus lactis 154', 'Nocardia higoensis NBRC 100133', 'Nocardia pneumoniae NBRC 100136', 'Prevotella shahii DSM 15611 = JCM 12083', 'Prevotella salivae DSM 15606', 'Thermovibrio ammonificans HB-1', 'Arenibacter certesii DSM 19833', 'Flavobacterium frigoris PS1', 'Arsenicicoccus bolidensis DSM 15745', "Aster yellows witches'-broom phytoplasma AYWB", 'Streptococcus minor DSM 17118', 'Halobiforma lacisalsi AJ5', 'Aeropyrum camini SY1 = JCM 12091', 'Methylophaga aminisulfidivorans MP', 'Scardovia wiggsiae F0424', 'Lactobacillus rossiae DSM 15814', 'Saccharibacter floricola DSM 15669', 'Streptococcus devriesei DSM 19639', 'Beijerinckia mobilis', 'Desulfobulbus japonicus DSM 18378', 'Dyella japonica A8', 'Phanerochaete carnosa HHB-10118-sp', 'Belliella baltica DSM 15883', 'Effusibacillus pohliae DSM 22757', 'Halomonas alkaliantarctica', 'Synechococcus sp. CB0101', 'Acidovorax sp. JS42', 'Desulfitobacterium dichloroeliminans LMG P-21439', 'Candidatus Kinetoplastibacterium blastocrithidii (ex Strigomonas culicis)', 'Candidatus Midichloria mitochondrii IricVA', 'Corynebacterium caspium DSM 44850', 'Pseudoalteromonas sp. SM9913', 'Amanita thiersii Skay4041', 'Streptacidiphilus jiangxiensis', 'Alcanivorax sp. DG881', 'Marinobacter algicola DG893', 'Diplodia corticola', 'Chryseobacterium formosense', 'Candidatus Scalindua brodae', 'Lactobacillus kitasatonis DSM 16761 = JCM 1039', 'Oribacterium sinus F0268', 'Pseudomonas alkylphenolica', 'Pseudomonas psychrotolerans L19', 'Erythrobacter sp. NAP1', 'Lactobacillus vini DSM 20605', 'Akkermansia muciniphila ATCC BAA-835', 'Nocardiopsis valliformis DSM 45023', 'Nocardiopsis ganjiahuensis DSM 45031', 'Mycobacterium parascrofulaceum ATCC BAA-614', 'Pterocles gutturalis', 'Woodsholea maritima DSM 17123', 'Halobacillus dabanensis', 'Pseudonocardia dioxanivorans CB1190', 'Crinalium epipsammum PCC 9333', 'Helcococcus sueciensis DSM 17243', 'Amazona collaria', 'Ostreococcus lucimarinus CCE9901', 'Xenoturbella bocki', 'Acidilobus saccharovorans 345-15', 'Prevotella bergensis DSM 17361', 'Thioalkalivibrio thiocyanodenitrificans ARhD 1', 'Burkholderia sp. Ch1-1', 'Pseudomonas lutea', 'Methylohalobius crimeensis 10Ki', 'Klebsiella variicola UCI 18', 'Cynoglossus semilaevis', 'Thiocapsa marina 5811', 'Candidatus Paracaedimonas acanthamoebae', 'Candidatus Paracaedibacter symbiosus', 'Hoeflea phototrophica DFL-43', 'Nautilia profundicola AmH', 'Fictibacillus macauensis ZFHKF-1', 'Wallemia ichthyophaga', 'Yoonia vestfoldensis SKA53', "Acidomyces sp. 'richmondensis'", 'Enterococcus italicus DSM 15952', 'Bacillus bogoriensis ATCC BAA-922', 'Wolbachia endosymbiont of Cimex lectularius', 'Staphylococcus equorum subsp. equorum Mu2', 'Tupaia chinensis', 'Bacteroides cellulosilyticus WH2', 'Thermococcus sp. AM4', 'Serinicoccus marinus DSM 15273', 'Candidatus Jettenia caeni', 'Cupriavidus pinatubonensis JMP134', 'Mucispirillum schaedleri ASF457', 'Psychrobacter aquaticus CMS 56', 'Nocardia testacea NBRC 100365', 'Coccomyxa subellipsoidea', 'Cardinium endosymbiont cEper1 of Encarsia pergandiella', 'Deinococcus frigens DSM 12807', 'Deinococcus marmoris DSM 12784', 'Candidatus Blochmannia vafer str. BVAF', 'Candidatus Blochmannia chromaiodes str. 640', 'Pseudomonas syringae pv. tomato str. DC3000', 'Oceanicola granulosus HTCC2516', 'Robiginitalea biformata HTCC2501', 'Vibrio ezurae NBRC 102218', 'Saccharomyces boulardii (nom. inval.)', 'Clytia hemisphaerica', 'Mahella australiensis 50-1 BON', 'Paraburkholderia phenoliruptrix BR3459a', 'Natronolimnohabitans innermongolicus JCM 12255', 'Ethanoligenens harbinense YUAN-3', 'Owenweeksia hongkongensis DSM 17368', 'Verruconis gallopava', 'Streptomyces sp. C', 'Fonsecaea monophora', 'Solimonas variicoloris DSM 15731', 'Bacillus fordii DSM 16014 = CIP 108821', 'Streptococcus castoreus DSM 17536', 'Paeniglutamicibacter gangotriensis Lz1y', 'Arcobacter cibarius LMG 21996', 'Glycomyces arizonensis DSM 44726', 'Parvibaculum lavamentivorans DS-1', 'Glutamicibacter arilaitensis Re117', 'Gulosibacter molinativorax DSM 13485', 'Lentisphaera araneosa HTCC2155', 'Sphingomonas phyllosphaerae 5.2', 'Nocardia aobensis NBRC 100429', 'Nocardia concava NBRC 100430', 'Pleomorphomonas koreensis DSM 23070', 'Roseomonas gilardii subsp. rosea ATCC BAA-691', 'Streptococcus pseudopneumoniae IS7493', 'Otus sunia', 'Kitasatospora arboriphila', 'Corynebacterium resistens DSM 45100', 'Mycolicibacterium cosmeticum', 'Halomonas anticariensis FP35 = DSM 16096', 'Desulfatibacillum alkenivorans AK-01', 'Nocardia takedensis NBRC 100417', 'Dechloromonas aromatica RCB', 'Microbulbifer agarilyticus S89', 'Campylobacter insulaenigrae NCTC 12927', 'Nitrosomonas sp. Is79A3', 'Intestinibacter bartlettii DSM 16795', 'Paraburkholderia phytofirmans PsJN', 'Mycobacterium liflandii 128FXT', 'Cavenderia fasciculata', 'Thermosinus carboxydivorans Nor1', 'Pleomorphomonas oryzae DSM 16300', 'Kangiella koreensis DSM 16069', 'Kangiella aquimarina DSM 16071', 'Marinobacter daepoensis DSM 16072', 'Lysobacter concretionis Ko07 = DSM 16239', 'Acinetobacter beijerinckii CIP 110307', 'Jonesia quinghaiensis DSM 15701', 'Salipiger mucosus DSM 16094', 'Wolbachia endosymbiont of Culex quinquefasciatus Pel', 'Viridibacillus arenosi FSL R5-213', 'Crocosphaera watsonii WH 8501', 'Pneumocystis murina', 'Marinomonas ushuaiensis DSM 15871', 'Gordonia effusa NBRC 100432', 'Algoriphagus marincola DSM 16067', 'Botryobasidium botryosum', 'Capsella grandiflora', 'Oceanimonas smirnovii ATCC BAA-899', 'Acholeplasma equifetale ATCC 29724', 'Acholeplasma granularum ATCC 19168', 'Acholeplasma hippikon ATCC 29725', 'Trichormus variabilis ATCC 29413', 'Byssochlamys spectabilis No. 5', 'Salinimonas chungwhensis DSM 16280', 'Pontibacillus chungwhensis BH030062', 'Silanimonas lenta DSM 16282', 'Desulfurispora thermophila DSM 16022', 'Desulfallas alcoholivorax DSM 16058', 'Rhodopirellula baltica SH 1', 'Anoxybacillus tepidamans PS2', 'Methylovorus glucosetrophus SIP3-4', 'Pseudocohnilembus persalinus', 'Chryseobacterium antarcticum', 'Porphyromonas gingivicanis', 'Chelativorans sp. BNC1', 'Microbulbifer variabilis ATCC 700307', 'Thalassobacter stenotrophicus', 'Granulicoccus phenolivorans DSM 17626 = NBRC 107789 = JCM 15570', 'Neisseria bacilliformis ATCC BAA-1200', 'Lactobacillus kefiranofaciens ZW3', 'Paenibacillus wynnii', 'Nitratifractor salsuginis DSM 16511', 'Microbotryum intermedium', 'Streptococcus marimammalium DSM 18627', 'Sporolactobacillus terrae DSM 11697', 'Atopococcus tabaci DSM 17538', 'Bartonella rattimassiliensis 15908', 'Marinobacter sp. ELB17', 'Fangia hongkongensis FSC776 = DSM 21703', 'Methylomicrobium alcaliphilum 20Z', 'Shewanella sediminis HAW-EB3', 'Shewanella halifaxensis HAW-EB4', 'Flavobacterium antarcticum DSM 19726', 'Arthrobacter castelli DSM 16402', 'Nostoc punctiforme PCC 73102', 'Olleya marilimosa CAM030', 'Actinomyces dentalis DSM 19115', 'Hyaloperonospora arabidopsidis', 'Pontibacillus marinus BH030004 = DSM 16465', 'Candida orthopsilosis Co 90-125', 'Candida metapsilosis', 'Sphaerochaeta coccoides DSM 17374', 'Exiguobacterium marinum DSM 16307', 'Microbacterium oleivorans', 'Chlorobaculum parvum NCIB 8327', 'Limimaricola hongkongensis DSM 17492', 'Opitutaceae bacterium TAV1', 'Acidobacteriaceae bacterium TAA 166', 'Collimonas arenae', 'Aquimarina muelleri DSM 19832', 'Gramella echinicola DSM 19838', 'Novosphingopyxis baekryungensis DSM 16222', 'Agromyces italicus DSM 16388', 'Antrostomus carolinensis', 'Nocardiopsis baichengensis YIM 90130', 'Pochonia chlamydosporia 170', 'Azorhizobium doebereinerae UFLA1-100', 'Candidatus Amoebophilus asiaticus 5a2', 'Caenorhabditis japonica', 'Rozella allomycis CSF55', 'Porphyromonas uenonis 60-3', 'Prevotella multiformis DSM 16608', 'Nocardia jiangxiensis NBRC 101359', 'Sander lucioperca', 'Kosakonia radicincitans DSM 16656', 'Pseudoalteromonas sp. Bsw20308', 'Staphylococcus pseudintermedius ED99', 'Stackebrandtia nassauensis DSM 44728', 'Capitella teleta', 'Phenylobacterium zucineum HLK1', 'Streptomyces flavovariabilis', 'Alcanivorax dieselolei B5', 'Thioclava pacifica DSM 10166', 'Acetobacter nitrogenifigens DSM 23921 = LMG 23498', 'Streptomyces roseochromogenus subsp. oscitans DS 12.976', 'Streptomyces xylophagus', 'Streptomyces sviceus ATCC 29083', 'Streptomyces fulvoviolaceus', 'Streptomyces thermolilacinus SPC6', 'Micromonospora lupini str. Lupac 08', 'Hahella ganghwensis DSM 17046', 'Episyrphus balteatus', 'Alkaliflexus imshenetskii DSM 15055', 'Segniliparus rotundus DSM 44985', 'Segniliparus rugosus ATCC BAA-974', 'Hellea balneolensis DSM 19091', 'Haliea salexigens DSM 19537', 'Balneola vulgaris DSM 17893', 'Amycolatopsis rifamycinica', 'Bradyrhizobium sp. BTAi1', 'Kordiimonas gwangyangensis DSM 19435 = JCM 12864', 'Microbotryum lychnidis-dioicae p1A1 Lamole', 'Hungateiclostridium clariflavum DSM 19732', 'Microbotryum aff. violaceum TUB 011817', 'Bacteroides helcogenes P 36-108', 'Nocardia exalbida NBRC 100660', "Penicillium sp. 'occitanis'", 'Comamonas granuli NBRC 101663', 'Arthrobacter sp. FB24', 'Jannaschia sp. CCS1', 'Aminiphilus circumscriptus DSM 16581', 'Photorhabdus asymbiotica', 'Bartonella melophagi K-2C', 'Bacteroides salyersiae WAL 10018 = DSM 18765 = JCM 12988', 'Bacteroides nordii CL02T12C05', 'Acaricomes phytoseiuli DSM 14247', 'Erythrobacter vulgaris', 'Thermosediminibacter oceani DSM 16646', 'Ruegeria sp. TM1040', 'Dactylococcopsis salina PCC 8305', 'Flavonifractor plautii 1_3_50AFAA', 'Lysinibacillus massiliensis 4400831 = CIP 108448 = CCUG 49529', 'Martelella mediterranea DSM 17316', 'Haloquadratum walsbyi J07HQW2', 'Cyphellophora europaea', 'Desulfovibrio alkalitolerans DSM 16529', 'Agromyces subbeticus DSM 16689', 'Proteiniphilum acetatigenes DSM 18083', 'Rubellimicrobium thermophilum DSM 16684', 'Candidatus Hepatoplasma crinochetorum Av', 'Micromonas commoda', 'Polaromonas sp. JS666', 'Caldalkalibacillus thermarum TA2.A1', 'Patulibacter minatonensis DSM 18081', 'Frankia sp. EAN1pec', 'Frankia inefficax', 'Frankia saprophytica', 'Pseudoalteromonas spongiae UST010723-006', 'Denticeps clupeoides', 'Leptotrombidium deliense', 'Adhaeribacter aquaticus DSM 16391', 'Francisella orientalis str. Toba 04', 'Rhodococcus triatomae BKS 15-14', 'Glaciecola nitratireducens FR1064', 'Lachancea meyersii CBS 8951', 'Catellicoccus marimammalium M35/04/3', 'Bacillus lehensis G1', 'Roseburia hominis A2-183', 'Methanosaeta harundinacea 6Ac', 'Seriola lalandi dorsalis', 'Advenella mimigardefordensis DPN7', 'Corynebacterium tuscaniense DNF00037', 'Halobacillus kuroshimensis DSM 18393', 'Pundamilia nyererei', 'Lactobacillus apis', 'Lactobacillus harbinensis DSM 16991', 'Catenulispora acidiphila DSM 44928', 'Actinospica robiniae DSM 44927', 'Thauera sp. 27', 'Endozoicomonas elysicola', 'Pusillimonas noertemannii BS8', 'Marinimicrobium agarilyticum DSM 16975', 'Calidithermus timidus DSM 17022', 'Lactobacillus apodemi DSM 16634 = JCM 16172', 'Chryseobacterium vrystaatense', 'Aphis glycines', 'Gracilibacillus boraciitolerans JCM 21714', 'Sinocyclocheilus rhinocerous', 'Apteryx rowi', 'Bacillus boroniphilus JCM 21738', 'Dialister microaerophilus UPII 345-E', 'Chrysiogenes arsenatis DSM 11915', 'Persephonella marina EX-H1', 'Sulfurihydrogenibium azorense Az-Fu1', 'Candidatus Liberibacter americanus str. Sao Paulo', 'Deinococcus apachensis DSM 19763', 'Deinococcus maricopensis DSM 21211', 'Deinococcus pimensis DSM 21231', 'Bacteroides plebeius DSM 17135', 'Bacteroides coprocola DSM 17136', 'Bacteroides pyogenes JCM 10003', 'Neofusicoccum parvum', 'Prevotella multisaccharivorax DSM 17128', 'Advenella kashmirensis W13003', 'Deinococcus deserti VCD115', 'Modiolus philippinarum', 'Linnemannia elongata AG-77', 'Paraburkholderia terrae NBRC 100964', 'Thermococcus kodakarensis KOD1', 'Paraburkholderia mimosarum LMG 23256 = NBRC 106338', 'Flavobacterium indicum GPTSA100-9 = DSM 17447', 'Emticicia oligotrophica DSM 17448', 'Pseudomonas entomophila L48', 'Streptococcus massiliensis DSM 18628', 'Croceibacter atlanticus HTCC2559', 'Janibacter sp. HTCC2649', 'Dokdonia sp. MED134', 'Polaribacter sp. MED152', 'Maribacter sp. HTCC2170', 'Lyngbya sp. PCC 8106', 'Synechococcus sp. BL107', 'Bacillus sp. NRRL B-14911', 'Geobacter lovleyi SZ', 'Drechslerella stenobrocha 248', 'Nitrobacter sp. Nb-311A', 'Oceanicaulis sp. HTCC2633', 'Pseudooceanicola batsensis HTCC2597', 'Roseobacter sp. MED193', 'Roseovarius nubinhibens ISM', 'Roseovarius sp. 217', 'Sphingomonas sp. SKA58', 'Sulfitobacter sp. NAS-14.1', 'Rhodobacteraceae bacterium HTCC2083', 'Alteromonas mediterranea', 'Marinomonas sp. MED121', 'Pseudoalteromonas tunicata D2', 'Psychromonas sp. CNPT3', 'Vibrio sp. MED222', 'Prolixibacter bellariivorans ATCC BAA-1284', 'Mariprofundus ferrooxydans PV-1', 'Pseudoxanthomonas suwonensis 11-1', 'Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069', 'Belgica antarctica', 'Leadbetterella byssophila DSM 17132', 'Syntrophus aciditrophicus SB', 'Synechococcus sp. RCC307', 'Synechococcus sp. CC9902', 'Microbispora sp. ATCC PTA-5024', 'Rubrivivax benzoatilyticus JA2 = ATCC BAA-35', 'Kuraishia capsulata', 'Enterococcus caccae ATCC BAA-1240', 'Nostoc sp. PCC 7107', 'Mycolicibacterium rufum', 'Mycolicibacterium aromaticivorans JS19b1 = JCM 16368', 'Clostridium sulfidigenes', 'Pyricularia oryzae 70-15', 'Bradyrhizobium sp. WSM1743', 'Bradyrhizobium sp. WSM1253', 'Bradyrhizobium sp. WSM471', 'Nonlabens sediminis', 'Clostridium lundense DSM 17049', 'Formosa agariphila KMM 3901', 'Gordonia soli NBRC 108243', 'Pseudocercospora eumusae', 'Synechococcus sp. JA-3-3Ab', "Synechococcus sp. JA-2-3B'a(2-13)", 'Lepidothrix coronata', 'Pseudomonas moraviensis R28-S', 'Pseudomonas simiae', 'Wheat blue dwarf phytoplasma', 'Porphyromonas somerae DSM 23386', 'Sharpea azabuensis DSM 18934', 'Sphingomonas sp. BHC-A', 'Leptolyngbya valderiana BDU 20041', 'Paenibacillus sp. JDR-2', 'Bacillus infantis NRRL B-14911', 'Kwoniella bestiolae CBS 10118', 'Kwoniella dejecticola CBS 10117', 'Moelleriella libera RCEF 2490', 'Phytophthora kernoviae', 'Coxiella endosymbiont of Amblyomma americanum', 'Paraglaciecola psychrophila 170', 'Pseudozyma hubeiensis', 'Candidatus Accumulibacter phosphatis clade IIA str. UW-1', 'Bifidobacterium crudilactis', 'Syntrophorhabdus aromaticivorans UI', 'Nonlabens dokdonensis DSW-6', 'Parabacteroides goldsteinii dnLKV18', 'Alistipes onderdonkii WAL 8169 = DSM 19147', 'Alistipes shahii WAL 8301', 'Manacus vitellinus', 'Rhizoclosmatium globosum', 'Flavobacterium saliperosum S13', 'Bacteroides intestinalis DSM 17393', 'Amycolatopsis jejuensis', 'Nitrospira defluvii', 'Psychrobacter cryohalolentis K5', 'Kamptonema formosum PCC 6407', 'Sphingobium japonicum UT26S', 'Clostridium drakei', 'Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7', 'Candidatus Solibacter usitatus Ellin6076', 'Halococcus hamelinensis 100A6', 'Truepera radiovictrix DSM 17093', 'Exiguobacterium sibiricum 255-15', 'Hirsutella minnesotensis 3608', 'Alkalihalobacillus okhensis', 'Psychrobacter arcticus 273-4', 'Rickettsia tamurae', 'Ignisphaera aggregans DSM 17230', 'Methylobacterium oryzae CBMB20', 'Halococcus thailandensis JCM 13552', 'Thermovirga lienii DSM 17291', 'Candidatus Sulcia muelleri PSPU', 'Rhodonellum psychrophilum GCM71 = DSM 17998', 'Oenococcus kitaharae DSM 17330', 'Pyronema omphalodes', 'Chlorobium chlorochromatii CaD3', 'Gordonia sp. KTR9', 'Halorubrum ezzemoulense DSM 17463', 'Pseudodonghicola xiamenensis DSM 18339', 'Bacteroides finegoldii DSM 17565', 'Nitrosopumilus maritimus SCM1', 'Erwinia tasmaniensis Et1/99', 'Mycobacterium colombiense CECT 3035', 'Desulfosporosinus youngiae DSM 17734', 'Criblamydia sequanensis CRIB-18', 'Thermodesulfovibrio thiophilus DSM 17215', 'Tuberibacillus calidus DSM 17572', 'Spathaspora passalidarum NRRL Y-27907', 'Amorphus coralli DSM 19760', 'Desulfovibrio frigidus DSM 17176', 'Ascodesmis nigricans', 'Peptostreptococcus stomatis DSM 17678', 'Agrococcus lahaulensis DSM 17612', 'Methylophilaceae bacterium B1', 'Burkholderia oklahomensis', 'Thermococcus onnurineus NA1', 'Pyrococcus sp. NA2', 'Paenibacillus barengoltzii G22', 'Salipiger bermudensis HTCC2601', 'Flavobacterium soli DSM 19725', 'Kutzneria sp. 744', 'Podiceps cristatus', 'Geobacter pickeringii', 'Amycolatopsis benzoatilytica AK 16/65', 'Lysobacter daejeonensis GH1-9', 'Echinicola pacifica DSM 19836', 'Moraxella boevrei DSM 14165', 'Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896', 'Rhodanobacter spathiphylli B39', 'Streptomyces davaonensis JCM 4913', 'Exophiala xenobiotica', 'Streptacidiphilus oryzae TH49', 'Rhizobium favelukesii', 'Spironucleus salmonicida', 'Desulfovirgula thermocuniculi DSM 16036', 'Cercospora zeina', 'Psychrobacter sp. PRwf-1', 'Micavibrio aeruginosavorus ARL-13', 'Corynebacterium marinum DSM 44953', 'Flavobacterium daejeonense DSM 17708', 'Flavobacterium suncheonense GH29-5 = DSM 17707', 'Roseobacter sp. AzwK-3b', 'Alkalilimnicola ehrlichii MLHE-1', 'Oscillibacter valericigenes Sjm18-20', 'Salinispora pacifica CNT003', 'Geobacter uraniireducens Rf4', 'Xenorhabdus doucetiae', 'Shewanella sp. W3-18-1', 'Halostagnicola larsenii XH-48', 'Arenimonas malthae CC-JY-1', 'Niastella koreensis GR20-10', 'Streptomyces sp. Tu6071', 'Limnoperna fortunei', 'Alloscardovia criceti DSM 17774', 'Bifidobacterium tsurumiense', 'Micromonospora chokoriensis', 'Phocaeicola dorei', 'Lactobacillus parabrevis ATCC 53295', 'Cercospora berteroae', 'Psychromonas ingrahamii 37', 'Roseiflexus sp. RS-1', 'Microbacterium indicum DSM 19969', 'Acidovorax sp. KKS102', 'Methanoregula boonei 6A8', 'Streptomyces olindensis', 'Pseudomonas extremaustralis 14-3 substr. 14-3b', 'Shewanella loihica PV-4', 'Smaragdicoccus niigatensis DSM 44881 = NBRC 103563', 'Methylotenera mobilis 13', 'Bryobacter aggregatus MPL3', 'Zavarzinella formosa DSM 19928', 'Schlesneria paludicola DSM 18645', 'Leeuwenhoekiella blandensis MED217', 'Roseburia inulinivorans DSM 16841', 'Exiguobacterium sp. AT1b', 'Rubritalea marina DSM 17716', 'Tieghemostelium lacteum', 'Streptococcus pseudoporcinus SPIN 20026', 'Pseudarthrobacter phenanthrenivorans Sphe3', 'Streptomyces vietnamensis', 'Flavobacterium reichenbachii', 'Candidatus Protochlamydia amoebophila UWE25', 'Kaistia granuli DSM 23481', 'Prevotella stercorea DSM 18206', 'Ktedonobacter racemifer DSM 44963', 'Dyella ginsengisoli LA-4', 'Janibacter hoylei PVAS-1', 'Verminephrobacter eiseniae EF01-2', 'Granulibacter bethesdensis CGDNIH1', 'Endocarpon pusillum Z07020', 'Ferrimonas futtsuensis DSM 18154', 'Chryseobacterium caeni DSM 17710', 'Pelosinus fermentans DSM 17108', 'Frankia discariae', 'Belnapia moabensis DSM 16746', 'Paenibacillus sabinae T27', 'Ruania albidiflava DSM 18029', 'Caulobacter sp. K31', 'Haladaptatus paucihalophilus DX253', 'Yersinia similis', 'Phycicoccus jejuensis', 'Rhodobacterales bacterium HTCC2255', 'Pelusios castaneus', 'Blattabacterium sp. (Periplaneta americana) str. BPLAN', 'Blattabacterium sp. (Blatta orientalis) str. Tarazona', 'Rheinheimera perlucida DSM 18276', 'Paenibacillus terrigena DSM 21567', 'Mesonia mobilis DSM 19841', 'Haloterrigena limicola JCM 13563', 'Gallionella capsiferriformans ES-2', 'Arenimonas composti TR7-09 = DSM 18010', 'Flavobacterium filum DSM 17961', 'Brevundimonas aveniformis DSM 17977', 'Erwinia typographi', 'Bacteroides xylanisolvens XB1A', 'Rhodobacter sp. SW2', 'Fischerella thermalis PCC 7521', 'Bartonella tamiae Th239', 'Rivularia sp. PCC 7116', 'Campylobacter cuniculorum DSM 23162 = LMG 24588', 'Reinekea blandensis MED297', 'Janthinobacterium sp. Marseille', 'Pseudooceanicola nanhaiensis DSM 18065', 'Sphaeramia orbicularis', 'Natranaerobius thermophilus JW/NM-WN-LF', 'Haloplanus natans DSM 17983', 'Gordonia shandongensis DSM 45094', 'Olivibacter sitiensis DSM 17696', 'Zhouia amylolytica AD3', 'Paracoccus halophilus', 'Bacteroides barnesiae DSM 18169 = JCM 13652', 'Phocaeicola salanitronis DSM 18170', 'Thermobacillus composti KWC4', 'Methyloversatilis universalis FAM5', 'Novosphingobium nitrogenifigens DSM 19370', 'Cyanobacterium aponinum PCC 10605', 'Streptomyces bingchenggensis BCW-1', 'Vibrio sinaloensis DSM 21326', 'Propithecus coquereli', 'Aciduliprofundum boonei T469', 'Paenibacillus fonticola DSM 21315', 'Niabella aurantiaca DSM 17617', 'Pseudomonas protegens CHA0', 'Cohnella laeviribosi DSM 21336', 'Lactobacillus namurensis str. Chizuka 01', 'Streptococcus ictaluri 707-05', 'Hydrogenobaculum sp. Y04AAS1', 'Lachancea thermotolerans', 'Amycolatopsis nigrescens CSC17Ta-90', 'Algiphilus aromaticivorans DG1253', 'Verrucomicrobiae bacterium DG1235', 'Erythrobacter sp. JL475', 'Ornithinimicrobium pekingense DSM 21552', 'Bacillus aidingensis DSM 18341', 'Cycloclasticus sp. P1', 'Pseudophaeobacter arcticus DSM 23566', 'Thermophagus xiamenensis', 'Paraburkholderia ferrariae NBRC 106233', 'Prevotella timonensis 4401737 = DSM 22865 = JCM 15640', 'Methanobacterium arcticum', 'Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)', 'Moraxella bovoculi 237', 'Bacteroides coprophilus DSM 18228 = JCM 13818', 'Nitratiruptor sp. SB155-2', 'Sulfurovum sp. NBC37-1', 'Halovivax ruber XH-70', 'Halopiger xanaduensis SH-6', 'Parabacteroides johnsonii CL02T12C29', 'Cupriavidus sp. amp6', 'Natronorubrum sulfidifaciens JCM 14089', 'Rhodobacteraceae bacterium HTCC2150', 'Labrenzia alexandrii DFL-11', 'Algoriphagus machipongonensis', 'Bartonella australis Aust/NH1', 'Roseobacter sp. SK209-2-6', 'Hydnomerulius pinastri MD-312', 'Stachybotrys chlorohalonata IBT 40285', 'Wenxinia marina DSM 24838', 'Lactobacillus farraginis DSM 18382 = JCM 14108', 'Lactobacillus parafarraginis F0439', 'Echinicola vietnamensis DSM 17526', 'Actinocatenispora sera', 'Ehrlichia sp. HF', 'Vibrio sp. 16', 'Roseobacter sp. GAI101', 'Roseobacter sp. CCS2', 'Pedobacter sp. BAL39', 'Flavobacteria bacterium BAL38', 'Brevundimonas sp. BAL3', 'Stenotrophomonas sp. SKA14', 'Flavobacteriales bacterium ALC-1', 'Roseovarius sp. TM1035', 'Lysobacter defluvii IMMIB APB-9 = DSM 18482', 'Alicyclobacillus macrosporangiidus CPP55', 'Alicyclobacillus contaminans DSM 17975', 'Paraburkholderia nodosa DSM 21604', 'Sphingomonas jaspsi DSM 18422', 'Deinococcus misasensis DSM 22328', 'Methylophaga thiooxydans DMS010', 'Perlucidibaca piscinae DSM 21586', 'Terriglobus roseus DSM 18391', 'Uliginosibacterium gangwonense DSM 18521', 'Halalkalibacillus halophilus DSM 18494', 'Mesoflavibacter zeaxanthinifaciens S86', 'Gracilibacillus lacisalsi DSM 19029', 'Pestalotiopsis fici', 'Congregibacter litoralis KT71', 'Porphyromonas crevioricanis', 'Bhargavaea cecembensis DSE10', 'Cylindrobasidium torrendii FP15055 ss-10', 'Lactobacillus ceti DSM 22408', 'Coraliomargarita akajimensis DSM 45221', 'Bartonella rochalimae ATCC BAA-1498', 'Cyanothece sp. PCC 7425', 'Gilvimarinus chinensis DSM 19667', 'Brachybacterium phenoliresistens', 'Aspergillus ruber CBS 135680', 'Acinetobacter brisouii ANC 4119', 'Aestuariimicrobium kwangyangense DSM 21549', 'Thioalkalivibrio sp. K90mix', 'Lactobacillus hayakitensis DSM 18933 = JCM 14209', 'Andreprevotia chitinilytica DSM 18519', 'Sphingomonas sanxanigenens DSM 19645 = NX02', 'Marmoricola aequoreus', 'Lachnospiraceae bacterium 28-4', 'Lachnospiraceae bacterium 3-1', 'Lachnospiraceae bacterium A2', 'Lachnospiraceae bacterium A4', 'Barnesiella viscericola DSM 18177', 'Segetibacter koreensis DSM 18137', 'Proteiniclasticum ruminis DSM 24773', 'Agrilactobacillus composti DSM 18527 = JCM 14202', 'Helicobacter macacae MIT 99-5501', 'Trichoderma gamsii', 'Zunongwangia profunda SM-A87', 'Desulfocurvus vexinensis DSM 17965', 'Thermoanaerobacter sp. X514', 'Enterobacter sp. 638', 'Streptococcus merionis DSM 19192', 'Pontibacter korlensis', 'Marinomonas sp. MWYL1', 'Amphimedon queenslandica', 'Wohlfahrtiimonas chitiniclastica DSM 18708', 'Corynebacterium ureicelerivorans', 'Aureimonas ureilytica DSM 18598 = NBRC 106430', 'Candidatus Riesia pediculicola USDA', 'Actinomycetospora chiangmaiensis DSM 45062', 'Haloferax mucosum ATCC BAA-1512', 'Sphingobacterium sp. PM2-P1-29', 'Virgibacillus sp. SK37', 'Shewanella piezotolerans WP3', 'Maritimibacter alkaliphilus HTCC2654', 'Nonomuraea coxensis DSM 45129', 'Anaeromyxobacter sp. Fw109-5', 'Marinobacterium litorale DSM 23545', 'Geminicoccus roseus DSM 18922', 'Alicyclobacillus acidocaldarius subsp. acidocaldarius Tc-4-1', 'Leisingera daeponensis DSM 23529', 'Streptacidiphilus rugosus AM-16', 'Bacillus sp. m3-13', 'Natrinema sp. J7-2', 'Sphingomonas astaxanthinifaciens DSM 22298', 'Stegodyphus mimosarum', 'Prevotella pleuritidis JCM 14110', 'Streptomyces xiamenensis', 'Bacillus coahuilensis m4-4', 'Nocardioidaceae bacterium Broad-1', 'Clostridiisalibacter paucivorans DSM 22131', 'Treponema pedis str. T A4', 'Blastobotrys adeninivorans', 'Periophthalmus magnuspinnatus', 'Coprococcus comes ATCC 27758', 'Gordonia malaquae NBRC 108250', 'Gramella forsetii KT0803', 'Halogeometricum pallidum JCM 14848', 'Clostridium sp. SS2/1', 'Clostridium sp. M62/1', 'Clostridium sp. L2-50', 'Chryseobacterium daeguense DSM 19388', 'Entamoeba nuttalli P19', 'Paracoccus sp. TRP', 'Intrasporangium oryzae NRRL B-24470', 'Desulfotomaculum hydrothermale Lam5 = DSM 18033', 'Mycetohabitans rhizoxinica HKI 454', 'Candidatus Vesicomyosocius okutanii', 'Solimonas soli DSM 21787', 'Cronobacter turicensis z3032', 'Halalkalicoccus jeotgali B3', 'Halorubrum halophilum', 'Caldicellulosiruptor hydrothermalis 108', 'Caldicellulosiruptor kronotskyensis 2002', 'Lysobacter dokdonensis DS-58', 'Planococcus donghaensis MPA1U2', 'Actinopolyspora erythraea', 'Pseudoxanthomonas spadix BD-a59', 'Solimonas flava DSM 18980', 'Nodosilinea nodulosa PCC 7104', 'Rhodanobacter thiooxydans LCS2', 'Natronomonas moolapensis 8.8.11', 'Burkholderia sp. KJ006', 'Penicillium antarcticum', 'Selenomonas bovis DSM 23594', 'Notospermus geniculatus', 'Neptunomonas japonica DSM 18939', 'Methanosarcina horonobensis HB-1 = JCM 15518', 'Blautia wexlerae DSM 19850', 'Salinicoccus albus DSM 19776', 'Nevskia soli DSM 19509', 'Prevotella amnii CRIS 21A-A', 'Alloscardovia omnicolens DSM 21503', 'Yersinia massiliensis CCUG 53443', 'Microvirga lupini', 'Lactobacillus equicursoris DSM 19284 = JCM 14600 = CIP 110162', 'Diplodia seriata', 'Methanolobus psychrophilus R15', 'Paraburkholderia bryophila 376MFSha3.1', 'Sphingobium ummariense RL-3', 'Sulfitobacter donghicola DSW-25 = KCTC 12864 = JCM 14565', 'Chryseobacterium oranimense G311', 'Chryseobacterium halperniae', 'Chryseobacterium luteum', 'Stenoxybacter acetivorans DSM 19021', 'Mucilaginibacter paludis DSM 18603', 'Basidiobolus meristosporus CBS 931.73', 'Elusimicrobium minutum Pei191', 'Rhizobium sp. IRBG74', 'Helicobacter japonicus', 'Calidris pygmaea', 'Thiomonas arsenitoxydans', 'Methylobacterium sp. 4-46', 'Flavobacterium subsaxonicum WB 4.1-42 = DSM 21790', 'Algoriphagus vanfongensis DSM 17529', 'Nocardia rhamnosiphila', 'Bacillus chagannorensis DSM 18086', 'Salsuginibacillus kocurii DSM 18087', 'Humibacter albus DSM 18994', 'Desulfurivibrio alkaliphilus AHT 2', 'Dethiobacter alkaliphilus AHT 1', 'Moritella dasanensis ArB 0140', 'Candidatus Riesia pediculischaeffi PTSU', 'Jonquetella anthropi E3_33 E1', 'Dactylellina haptotyla', 'Halorhabdus tiamatea SARL4B', 'Baudoinia compniacensis', 'Spirosoma luteum DSM 19990', 'Spirosoma spitsbergense DSM 19989', 'Paenibacillus ginsengihumi DSM 21568', 'Kazachstania africana CBS 2517', 'Deinococcus peraridilitoris DSM 19664', 'Nocardioides halotolerans DSM 19273', 'Streptococcus sp. C150', 'Idiomarina salinarum', 'Fibularhizoctonia sp. CBS 109695', 'Sulfurihydrogenibium sp. YO3AOP1', 'Streptacidiphilus jeojiense', 'Robiginitomaculum antarcticum DSM 21748', 'Brucella sp. UK1/97', 'Brucella sp. F23/97', 'Brucella sp. F96/2', 'Brucella sp. UK40/99', 'Brucella sp. F8/99', 'Brucella sp. F5/99', 'Megamonas funiformis YIT 11815', 'Sutterella parvirubra YIT 11816', 'Ruminococcus gauvreauii DSM 19829', 'Streptococcus henryi DSM 19005', 'Streptococcus caballi DSM 19004', 'Candidatus Pelagibacter sp. HTCC7211', 'Pseudovibrio sp. JE062', 'Rhodobacterales bacterium Y4I', 'Ruegeria sp. R11', 'Prevotella maculosa DSM 19339 = JCM 15638', 'Promicromonospora kroppenstedtii DSM 19349', 'Pseudomonas sp. Chol1', 'Gouania willdenowi', 'Corynebacterium timonense 5401744', 'Corynebacterium massiliense DSM 45435', 'Hofstenia miamia', 'Knoellia aerolata DSM 18566', 'Geobacter sp. M18', 'Geobacter sp. M21', 'Bradyrhizobium sp. Cp5.3', 'Brucella microti CCM 4915', 'Sporolactobacillus vineae DSM 21990 = SL153', 'Maribacter forsetii DSM 18668', 'Gryllotalpicola ginsengisoli DSM 22003', 'Rickettsia endosymbiont of Ixodes scapularis', 'Psychromonas ossibalaenae ATCC BAA-1528', 'Reyranella massiliensis 521', 'Leptobrachium leishanense', 'Chryseobacterium soli', 'Adlercreutzia equolifaciens DSM 19450', 'Eudoraea adriatica DSM 19308', 'Niabella soli DSM 19437', 'Anaeromyxobacter sp. K', 'Epichloe gansuensis', 'Simiduia agarivorans SA1 = DSM 21679', 'Rhizobium selenitireducens ATCC BAA-1503', 'Microbacterium profundi', 'Propionibacterium sp. 5_U_42AFAA', 'Veillonella sp. 6_1_27', 'Rudanella lutea DSM 19387', 'Microbacterium luticocti DSM 19459', 'Streptomyces scopuliridis RB72', 'Pseudoclavibacter soli DSM 23366', 'Amphritea japonica ATCC BAA-1530', 'Neovison vison', 'Roseomonas aerilata DSM 19363', 'Desulfarculus baarsii DSM 2075', 'Kwoniella pini CBS 10737', 'Bdellovibrio exovorus JSS', 'Haladaptatus cibarius D43', 'Henriciella marina DSM 19595', 'Joostella marina DSM 19592', 'Halomonas lutea DSM 23508', 'Paraprevotella clara YIT 11840', 'Paraprevotella xylaniphila YIT 11841', 'Kiloniella laminariae DSM 19542', 'Chthonomonas calidirosea T49', 'Gracilimonas tropica DSM 19535', 'Spongiibacter tropicus DSM 19543', 'Glaciecola sp. HTCC2999', 'Chryseobacterium gregarium DSM 19109', 'Xanthomonas campestris pv. vesicatoria str. 85-10', 'Bizionia argentinensis JUB59', 'Saccharibacillus sacchari DSM 19268', 'Candidatus Cloacimonas acidaminovorans str. Evry', 'Streptococcus plurextorum DSM 22810', 'Rhizoctonia solani AG-8 WAC10335', 'Bacteroides sp. 1_1_30', 'Bacteroides sp. 3_1_23', 'Bacteroides sp. 3_1_33FAA', 'Bacteroides sp. 3_2_5', 'Bacteroides sp. 4_1_36', 'Bacteroides sp. 4_3_47FAA', 'Bacteroides sp. 9_1_42FAA', 'Clostridium sp. 7_2_43FAA', 'Desulfovibrio sp. 3_1_syn3', 'Escherichia sp. 1_1_43', 'Escherichia sp. 4_1_40B', 'Eubacterium sp. 3_1_31', 'Micromonospora sp. M42', 'Ruminococcus sp. 5_1_39BFAA', 'Synergistes sp. 3_1_syn1', 'Veillonella sp. 3_1_44', 'Clostridiales bacterium 1_7_47FAA', 'Erysipelotrichaceae bacterium 2_2_44A', 'Elioraea tepidiphila DSM 17972', 'Chloracidobacterium thermophilum B', 'Planomicrobium glaciei CHR43', 'Saccharibacillus kuerlensis DSM 22868', 'Kribbella catacumbae DSM 19601', 'Komagataella phaffii GS115', 'Ogataea polymorpha NCYC 495 leu1.1', 'Lactobacillus nodensis DSM 19682 = JCM 14932 = NBRC 107160', 'Actinomyces massiliensis F0489', 'Alkaliphilus oremlandii OhILAs', 'Babesia sp. Xinjiang', 'Pontibacillus yanchengensis Y32', 'Paxillus rubicundulus Ve08.2h10', 'Veillonella magna DSM 19857', 'Hemiselmis andersenii', 'Streptomyces sp. Mg1', 'Streptomyces sp. SPB074', 'Acinetobacter sp. Ver3', 'Singulisphaera acidiphila DSM 18658', 'Ilumatobacter coccineus YM16-304', 'Lachnoanaerobaculum saburreum F0468', 'Rhodobacteraceae bacterium KLH11', 'Sistotremastrum suecicum HHB10207 ss-3', 'Bacteroides sp. 1_1_14', 'Bacteroides sp. 2_1_22', 'Bacteroides sp. 2_1_33B', 'Bacteroides sp. 2_2_4', 'Parabacteroides sp. 20_3', 'Bacteroides sp. 3_1_19', 'Bacteroides sp. 3_1_40A', 'Coprobacillus sp. 8_2_54BFAA', 'Streptococcus sp. 2_1_36FAA', 'Burkholderiales bacterium 1_1_47', 'Erysipelotrichaceae bacterium 6_1_45', 'Prevotella histicola JCM 15637 = DNF00424', 'Cladophialophora yegresii', 'Gracilibacillus halophilus YIM-C55.5', 'Salinimicrobium terrae DSM 17865', 'Pantoea vagans C9-1', 'Gordonibacter pamelaeae 7-10-1-b', 'Geobacillus sp. WCH70', 'Dasania marina DSM 21967', 'Bifidobacterium bombi DSM 19703', 'Haloplasma contractile SSD-17B', 'Candidatus Desulforudis audaxviator MP104C', 'Nitratireductor basaltis', 'Nitrosococcus watsonii C-113', 'Colletotrichum gloeosporioides', 'Methanosphaerula palustris E1-9c', 'Pedobacter borealis DSM 19626', 'Pseudohaliea rubra DSM 19751', 'Leisingera aquimarina DSM 24565', 'Modestobacter marinus', 'Bacteroides graminisolvens DSM 19988 = JCM 15093', 'Aliiglaciecola lipolytica E3', 'Calditerrivibrio nitroreducens DSM 19672', 'Verrucomicrobia bacterium LP2A', 'Haematomicrobium sanguinis DSM 21259', 'Brevibacterium ravenspurgense 5401308 = CCUG 53855', 'Gluconobacter morbifer G707', 'Commensalibacter intestini A911', 'Myroides profundi', 'Bartonella rattaustraliani AUST/NH4', 'Lactobacillus otakiensis DSM 19908 = JCM 15040', 'Lactobacillus kisonensis F0435', 'Paenibacillus sp. Y412MC10', 'Galeopterus variegatus', 'Oscillatoria nigro-viridis PCC 7112', 'Burkholderia lata', 'Lactobacillus fabifermentans T30PCM01', 'Cystoisospora suis', 'Geoalkalibacter subterraneus', 'Paenibacillus riograndensis SBR5', 'Sphingobium sp. YBL2', 'Pelosinus sp. UFO1', 'Dialister succinatiphilus YIT 11850', 'Barnesiella intestinihominis YIT 11860', 'Parasutterella excrementihominis YIT 11859', 'Acinetobacter soli', 'Aequorivita capsosiphonis DSM 23843', 'Shewanella marina JCM 15074', 'Corynebacterium ulceribovis DSM 45146', 'Flavobacteria bacterium MS024-2A', 'Serratia sp. SCBI', 'Campylobacter peloridis LMG 23910', 'Desulfonatronospira thiodismutans ASO3-1', 'Halarchaeum acidiphilum MH1-52-1', 'Mesorhizobium metallidurans STM 2683', 'Corynebacterium sputi DSM 45148', 'Marinobacter sp. BSs20148', 'Litoreibacter arenae DSM 19593', 'Leucobacter chironomi DSM 19883', 'Brachymonas chironomi DSM 19884', 'Megamonas rupellensis DSM 19944', 'Bacillus velezensis FZB42', 'Dyadobacter alkalitolerans DSM 23607', 'Rhizobium alamii', 'Chryseobacterium palustre DSM 21579', 'Psychrobacter sp. TB15', 'Arthrobacter sp. TB 23', 'Spirosoma panaciterrae DSM 21099', 'Thermoanaerobacter pseudethanolicus ATCC 33223', 'Thauera sp. 63', 'Campylobacter subantarcticus LMG 24377', 'Candidatus Nitrososphaera gargensis Ga9.2', 'Brevibacillus panacihumi W25', 'Arenimonas oryziterrae DSM 21050 = YC6267', 'Flavobacterium rivuli WB 3.3-2 = DSM 21788', 'Borreliella finlandensis', 'Candidatus Korarchaeum cryptofilum OPF8', 'Tepidanaerobacter acetatoxydans Re1', 'Metarhizium brunneum ARSEF 3297', 'Streptomyces avicenniae', 'Glaciibacter superstes DSM 21135', 'Citreicella sp. SE45', 'Porphyromonas bennonis DSM 23058 = JCM 16335', 'Thermodesulfatator atlanticus DSM 21156', 'Butyricicoccus pullicaecorum 1.2', 'Thalassospira profundimaris WP0211', 'Deinococcus gobiensis I-0', 'Eggerthella sp. YY7918', 'Streptococcus porci DSM 23759', 'Aeromonas diversa CDC 2478-85', 'Salisaeta longa DSM 21114', 'Flavobacterium sasangense DSM 21067', 'Kushneria aurantia DSM 21353', 'Jejuia pallidilutea', 'Haloterrigena salina JCM 13891', 'Novosphingobium acidiphilum DSM 19966', 'Chromera velia CCMP2878', 'Rheinheimera sp. A13L', 'Leisingera caerulea DSM 24564', 'Cinara cedri', 'Peptoniphilus duerdenii ATCC BAA-1640', 'Cloacibacillus evryensis DSM 19522', 'Bradyrhizobium genosp. SA-4 str. CB756', 'Pedobacter sp. V48', 'Oceanimonas sp. GK1', 'Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2', 'Methylacidiphilum infernorum V4', 'Vibrio azureus NBRC 104587', 'Dictyoglomus turgidum DSM 6724', 'Caloramator australicus RC3', 'Lacticigenium naphtae DSM 19658', 'Prevotella falsenii DSM 22864 = JCM 15124', 'Nesterenkonia alba DSM 19423', 'Muricauda lutaonensis', 'Providencia burhodogranariea DSM 19968', 'Providencia sneebia DSM 19967', 'Jeotgalicoccus marinus DSM 19772', 'Pontibacillus litoralis JSM 072002', 'Pontibacillus halophilus JSM 076056 = DSM 19796', 'Pantoea sp. aB', 'Citromicrobium sp. JLT1363', 'Bifidobacterium mongoliense DSM 21395', 'Lactobacillus sucicola DSM 21376 = JCM 15457', 'Alcanivorax hongdengensis A-11-3', 'Deinococcus aquatilis DSM 23025', 'Elaphomyces granulatus', 'Ectothiorhodospira sp. PHS-1', 'Brucella sp. NVSL 07-0026', 'Brucella sp. 83/13', 'Acinetobacter sp. NIPH 817', 'Pseudomonas caeni DSM 24390', 'Sphingobium lactosutens DS20', 'Trichophyton mentagrophytes', 'Marinobacter santoriniensis NKSG1', 'Acinetobacter sp. ATCC 27244', 'Thiothrix lacustris DSM 21227', 'Haloglycomyces albus DSM 45210', 'Oceanibaculum indicum P24', 'Listeria marthii FSL S4-120', 'Thecamonas trahens', 'Rhodoluna lacicola', 'Pelagibacterium halotolerans B2', 'Flavobacteriaceae bacterium 3519-10', 'Actinopolymorpha alba DSM 45243', 'Mesorhizobium australicum WSM2073', 'Psychrobacter lutiphocae DSM 21542', 'Rudaea cellulosilytica DSM 22992', 'Thermus islandicus DSM 21543', 'Corynebacterium lubricantis DSM 45231', 'Peronospora effusa', 'Actinoplanes subtropicus', 'Geobacillus sp. Y412MC61', 'Actinomyces johnsonii F0510', 'Butyricimonas synergistica DSM 23225', 'Thioalkalivibrio sp. AKL11', 'Thioalkalivibrio sp. ALJ24', 'Alishewanella jeotgali KCTC 22429', 'Paraoerskovia marina DSM 21750', 'Sporothrix brasiliensis 5110', 'Hydrogenobaculum sp. 3684', 'Hydrogenobaculum sp. HO', 'Hydrogenobaculum sp. SN', 'Mycobacterium vulneris', 'Phycisphaera mikurensis NBRC 102666', 'Pseudogulbenkiania ferrooxidans 2002', 'Geobacillus sp. Y412MC52', 'Pseudonocardia acaciae DSM 45401', 'Aromatoleum aromaticum EbN1', 'Caldicoprobacter oshimai DSM 21659', 'Sediminimonas qiaohouensis DSM 21189', 'Salinarimonas rosea DSM 21201', 'Erysipelotrichaceae bacterium 5_2_54FAA', 'Ruminococcaceae bacterium D16', 'Cryptococcus gattii VGIII', 'Dehalogenimonas lykanthroporepellens BL-DC-9', 'Pseudomonas pelagia CL-AP6', 'Vibrio breoganii 1C10', 'Alishewanella agri BL06', 'Cobetia crustatorum', 'Halomonas jeotgali Hwa', 'Photobacterium leiognathi lrivu.4.1', 'Chlorella variabilis', 'Thiomonas sp. CB2', 'Flavobacterium chungangense LMG 26729', 'Galbibacter marinus', 'Staphylococcus massiliensis S46', 'Novosphingobium sp. Rr 2-17', 'Bacteroides sp. D1', 'Bacteroides sp. D2', 'Clostridium sp. D5', 'Coprobacillus sp. D7', 'Candidatus Liberibacter solanacearum CLso-ZC1', 'Propionibacterium acidifaciens DSM 21887', 'Corynebacterium freiburgense DSM 45254', 'Chryseobacterium piperi', 'Lentibacillus jeotgali', 'Salinicoccus carnicancri Crm', 'Aeromonas lacus', 'Aureobasidium namibiae CBS 147.97', 'Lysinibacillus sinduriensis BLB-1 = JCM 15800', 'Aliagarivorans taiwanensis DSM 22990', 'Prevotella sp. C561', 'Streptococcus sp. C300', 'Streptococcus sp. M143', 'Streptococcus sp. M334', 'Acidianus hospitalis W1', 'Salinisphaera hydrothermalis C41B8', 'Parabacteroides sp. D13', 'Scedosporium apiospermum', 'Geoglobus acetivorans', "Saccharomycetaceae sp. 'Ashbya aceri'", 'Metarhizium robertsii ARSEF 23', 'Dickeya poaceiphila', 'Cladophialophora immunda', 'Pseudoalteromonas lipolytica SCSIO 04301', 'Methanocella paludicola SANAE', 'Ochrobactrum rhizosphaerae SJY1', 'Psychrobacter sp. G', 'Encephalitozoon romaleae SJ-2008', 'Absidia idahoensis var. thermophila', 'Thermoanaerobacter sp. X513', 'Francisella salina', 'Candidatus Hodgkinia cicadicola Dsem', 'Pandoraea oxalativorans', 'Bacillus gaemokensis', 'Bacillus manliponensis', 'Parabacteroides gordonii MS-1 = DSM 23371', 'Pseudomonas taeanensis MS-3', 'Corynebacterium maris DSM 45190', 'Phialocephala subalpina', 'Polynucleobacter necessarius STIR1', 'Polynucleobacter asymbioticus QLW-P1DMWA-1', 'Streptomyces iranensis', 'Indibacter alkaliphilus LW1', 'Enterorhabdus mucosicola DSM 19490', 'Bacillus cytotoxicus NVH 391-98', 'Geobacillus sp. Y4.1MC1', 'Thermococcus paralvinellae', 'Rubidibacter lacunae KORDI 51-2', 'Thermoanaerobacter mathranii subsp. mathranii str. A3', 'Synechococcus sp. KORDI-49', 'Synechococcus sp. KORDI-52', 'Bacteroides sp. D20', 'Bacteroides sp. D22', 'Nematocida parisii', 'Oceanobacillus manasiensis', 'Terribacillus aidingensis', 'Myripristis murdjan', 'Pseudomonas chlororaphis', 'Rhizophagus irregularis', 'Patulibacter americanus DSM 16676', 'Kazachstania naganishii', 'Brevundimonas naejangsanensis', 'Prevotella fusca JCM 17724', 'Prevotella scopos JCM 17725', 'Alteromonas australica', 'Methylacidiphilum fumariolicum SolV', 'Streptomyces sp. SPB78', 'Streptomyces sp. AA4', 'Ignavibacterium album JCM 16511', 'Roseivivax isoporae LMG 25204', 'Piliocolobus tephrosceles', 'Pantoea sp. At-9b', 'Pantoea sp. Sc1', 'Mesorhizobium opportunistum WSM2075', 'Allofrancisella guangzhouensis', 'Rhodopirellula sp. SWK7', 'Prevotella aurantiaca JCM 15754', 'Desulfovibrio sp. U5L', 'Brenneria sp. EniD312', 'Corynebacterium pyruviciproducens ATCC BAA-1742', 'Fibroporia radiculosa', 'Meiothermus rufus DSM 22234', 'Neisseria wadsworthii 9715', 'Neisseria shayeganii 871', 'Dinoponera quadriceps', 'Asaia platycodi SF2.1', 'Harpegnathos saltator', 'Arenibacter algicola', 'Polycyclovorans algicola TG408', 'Methylocystis sp. ATCC 49242', 'Blattabacterium sp. (Blattella germanica) str. Bge', 'Bacteroides clarus YIT 12056', 'Bacteroides fluxus YIT 12057', 'Bacteroides oleiciplenus YIT 12058', 'Alistipes indistinctus YIT 12060', 'Odoribacter laneus YIT 12061', 'Slackia piriformis YIT 12062', 'Collinsella tanakaei YIT 12063', 'Succinatimonas hippei YIT 12066', 'Phascolarctobacterium succinatutens YIT 12067', 'Sphingobium sp. SYK-6', 'Sphingomonas sp. Mn802worker', 'Tomitella biformata AHU 1821', 'Thiorhodovibrio sp. 970', 'Saccharomonospora marina XMU15', 'Acinetobacter rudis CIP 110305', 'Thalassobium sp. R2A62', 'Prevotella saccharolytica F0055', 'Bifidobacterium bohemicum DSM 22767', 'Bifidobacterium actinocoloniiforme DSM 22766', 'Pyramidobacter piscolens W5455', 'Acidobacteriaceae bacterium KBS 146', 'Hoyosella subflava DQS3-9A1', 'Lactobacillus florum 2F', 'Burkholderia sp. CCGE1001', 'Burkholderia sp. CCGE1003', 'Clostridium sp. DL-VIII', 'Neisseria sp. oral taxon 014 str. F0314', 'Tatumella morbirosei', 'Silicibacter sp. TrichCH4B', 'Methanocaldococcus sp. FS406-22', 'Streptomyces sp. e14', 'Enterocytozoon hepatopenaei', 'Plasmodium gaboni', 'Methylobacterium sp. MB200', 'Micromonospora sp. L5', 'Cesiribacter andamanensis AMV16', 'Clostridium sp. ATCC BAA-442', 'Actinomyces sp. oral taxon 848 str. F0332', 'Acetomicrobium hydrogeniformans ATCC BAA-1850', 'Anaerostipes hadrus DSM 3319', 'Actinoplanes sp. N902-109', 'Sulfuricella denitrificans skB26', 'Fibrella aestuarina BUZ 2', 'Aurantimonas manganoxydans SI85-9A1', 'Kosmotoga olearia TBF 19.5.1', 'Actinomyces sp. oral taxon 180 str. F0310', 'Fretibacterium fastidiosum', 'Oribacterium sp. oral taxon 078 str. F0262', 'Bacteroidetes oral taxon 274 str. F0058', 'Peptoniphilus sp. oral taxon 386 str. F0131', 'Paenibacillus sp. oral taxon 786 str. D14', 'Prevotella sp. oral taxon 299 str. F0039', 'Prevotella sp. oral taxon 317 str. F0108', 'Actinomyces sp. oral taxon 849 str. F0330', 'Albugo laibachii', 'Prevotella sp. oral taxon 472 str. F0295', 'Pseudogymnoascus destructans 20631-21', 'Pandoraea vervacti', 'Halanaerobium hydrogeniformans', 'Ruminococcus sp. SR1/5', 'Flavobacterium beibuense F44-8', 'Candidatus Koribacter versatilis Ellin345', 'Ralstonia sp. 5_2_56FAA', 'Lachnospiraceae bacterium 1_1_57FAA', 'Lachnospiraceae bacterium 2_1_58FAA', 'Lachnospiraceae bacterium 6_1_63FAA', 'Lachnospiraceae bacterium 5_1_57FAA', 'Lachnospiraceae bacterium 3_1_57FAA_CT1', 'Lachnospiraceae bacterium 7_1_58FAA', 'Lachnospiraceae bacterium 9_1_43BFAA', 'Lachnospiraceae bacterium 5_1_63FAA', 'Pseudomonas sp. H2', 'Lachnospiraceae bacterium 1_4_56FAA', 'Lachnospiraceae bacterium 6_1_37FAA', 'Erysipelotrichaceae bacterium 21_3', 'Erysipelotrichaceae bacterium 3_1_53', 'Parabacteroides sp. D25', 'Porphyromonas sp. 31_2', 'Paraburkholderia acidipaludis NBRC 101816', 'Olsenella sp. oral taxon 809 str. F0356', 'Brachybacterium squillarum M-6-3', "Candidatus Parvarchaeum acidiphilum ARMAN-4_'5-way FS'", "Candidatus Parvarchaeum acidophilus ARMAN-5_'5-way FS'", 'Fibrisoma limi BUZ 3', 'Methylocapsa aurea', 'Leucobacter salsicius M1-8', 'Borreliella bavariensis PBi', 'Bacillus oceanisediminis 2691', 'Dietzia alimentaria 72', 'Campylobacter sp. 10_1_50', 'Clostridium sp. 7_3_54FAA', 'Coprobacillus sp. 3_3_56FAA', 'Desulfovibrio sp. 6_1_46AFAA', 'Eggerthella sp. 1_3_56FAA', 'Klebsiella sp. 4_1_44FAA', 'Neisseria sp. GT4A_CT1', 'Tannerella sp. 6_1_58FAA_CT1', 'Lachnospiraceae bacterium 3_1_46FAA', 'Lachnospiraceae bacterium 8_1_57FAA', 'Subdoligranulum sp. 4_3_54A2FAA', 'Bacillus sp. 7_6_55CFAA_CT2', 'Bacillus sp. BT1B_CT2', 'Bacillus sp. 2_A_57_CT2', 'Aquimarina macrocephali JAMB N27', 'Afipia sp. 1NLS2', 'Rhodanobacter denitrificans', 'Bacillus sp. 1NLA3E', 'Raphidiopsis brookii D9', 'Thelohanellus kitauei', 'Geminocystis herdmanii PCC 6308', 'Paenibacillus pini JCM 16418', 'Candidatus Profftella armatura', 'Microvirga aerilata', 'Candidatus Uzinura diaspidicola str. ASNER', 'Candidatus Methylomirabilis oxyfera', 'Leptotrichia sp. oral taxon 225 str. F0581', 'Alloprevotella rava F0323', 'Propionibacterium sp. oral taxon 192 str. F0372', 'Selenomonas artemidis F0399', 'Veillonella sp. oral taxon 158 str. F0412', 'Veillonella sp. oral taxon 780 str. F0422', 'Enterorhabdus caecimuris B7', 'Bacteroides sartorii dnLKV3', 'Microbacterium yannicii PS01', 'Cardinium endosymbiont cBtQ1 of Bemisia tabaci', 'Aciduliprofundum sp. MAR08-339', 'Candidatus Babela massiliensis', 'Bacteroides faecis MAJ27', 'Vibrio sp. RC586', 'Lachancea nothofagi', 'Fervidicoccus fontis Kam940', 'Sphingomonas sp. PR090111-T3T-6A', 'Pseudomonas sp. S9', 'Lichtheimia ramosa', 'Oribacterium sp. NK2B42', 'Colletotrichum fructicola Nara gc5', 'Rhizobium vignae', 'Geobacillus sp. C56-T3', 'Fonticula alba', 'Caldisericum exile AZM16c01', 'Vibrio atlanticus LGP32', 'Enterobacteriaceae bacterium strain FGI 57', 'Halogranum salarium B-1', 'Bilophila sp. 4_1_30', "Marssonina brunnea f. sp. 'multigermtubi' MB_m1", 'Virgibacillus alimentarius', 'Megasphaera genomosp. type_1 str. 28L', 'Vibrio caribbeanicus ATCC BAA-2122', 'Vibrio sp. N418', 'Novosphingobium sp. PP1Y', 'Saccharomyces arboricola H-6', 'Capnocytophaga sp. oral taxon 329 str. F0087', 'Actinomyces sp. oral taxon 171 str. F0337', 'Colletotrichum chlorophyti', 'Colletotrichum tofieldiae', 'Bradyrhizobiaceae bacterium SG-6C', 'Frankia sp. QA3', 'Actinomyces sp. oral taxon 178 str. F0338', 'Capnocytophaga sp. oral taxon 338 str. F0234', 'Colletotrichum fioriniae', 'Streptomyces sp. GXT6', 'Actinomyces sp. oral taxon 170 str. F0386', 'Actinomyces sp. oral taxon 172 str. F0311', 'Actinomyces sp. oral taxon 175 str. F0384', 'Actinomyces sp. oral taxon 181 str. F0379', 'Actinomyces sp. oral taxon 448 str. F0400', 'Aggregatibacter sp. oral taxon 458 str. W10330', 'Atopobium sp. oral taxon 199 str. F0494', 'Atopobium sp. oral taxon 810 str. F0209', 'Capnocytophaga sp. oral taxon 324 str. F0483', 'Capnocytophaga sp. oral taxon 326 str. F0382', 'Capnocytophaga sp. oral taxon 332 str. F0381', 'Capnocytophaga sp. oral taxon 336 str. F0502', 'Capnocytophaga sp. oral taxon 380 str. F0488', 'Fusobacterium sp. oral taxon 370 str. F0437', 'Leptotrichia sp. oral taxon 215 str. W9775', 'Microbacterium sp. oral taxon 186 str. F0373', 'Neisseria sp. oral taxon 020 str. F0370', 'Oribacterium sp. oral taxon 108 str. F0425', 'Peptoniphilus sp. oral taxon 375 str. F0436', 'Porphyromonas sp. oral taxon 278 str. W7784', 'Prevotella sp. oral taxon 306 str. F0472', 'Prevotella sp. oral taxon 473 str. F0040', 'Selenomonas sp. oral taxon 137 str. F0430', 'Selenomonas sp. oral taxon 138 str. F0429', 'Selenomonas sp. oral taxon 149 str. 67H29BP', 'Streptococcus sp. oral taxon 056 str. F0418', 'Streptococcus sp. oral taxon 058 str. F0407', 'Streptococcus sp. oral taxon 071 str. 73H25AP', 'Actinobaculum sp. oral taxon 183 str. F0552', 'Lachnospiraceae bacterium oral taxon 082 str. F0431', 'Lachnospiraceae oral taxon 107 str. F0167', 'Parvimonas sp. oral taxon 393 str. F0440', 'Candidatus Atelocyanobacterium thalassa isolate SIO64986', 'Alteromonas naphthalenivorans', 'Ensifer sojae CCBAU 05684', 'Caldicellulosiruptor obsidiansis OB47', 'Hyphopichia burtonii NRRL Y-1933', 'Hyphomicrobium sp. MC1', 'Plasmodium sp. DRC-Itaito', 'Nitratireductor indicus C115', 'Acidovorax ebreus TPSY', 'Vibrio genomosp. F10 str. ZF-129', 'Anncaliia algerae PRA109', 'Leptothrix ochracea L12', 'Rahnella sp. Y9602', 'Delftia sp. Cs1-4', 'Melanaphis sacchari', 'Collinsella sp. 4_8_47FAA', 'Lachnospiraceae bacterium 2_1_46FAA', 'Sphingobacterium sp. 21', 'Methylocystis sp. SB2', 'Ahrensia sp. R2A130', 'Roseibium sp. TrichSKD4', 'Sphingomonas sp. MM-1', 'Olleya sp. VCSM12', 'Mobilicoccus pelagius NBRC 104925', 'Aspergillus fumigatus Af293', 'Oceanobacillus kimchii X50', 'Azoarcus sp. KH32C', 'Pseudogulbenkiania sp. NH8B', 'Thioalkalivibrio sp. ALSr1', 'Sulfuritalea hydrogenivorans sk43H', 'Klebsiella sp. MS 92-3', 'Coprococcus sp. ART55/1', 'Halobacterium sp. DL1', 'Escherichia sp. TW09308', 'Winogradskyella sp. PG-2', 'Photobacterium aphoticum', 'Methylophaga nitratireducenticrescens', 'Methylophaga frappieri', 'Clostridium sp. BNL1100', 'Bacillus sp. WP8', 'Acinetobacter indicus CIP 110367', 'Burkholderia insecticola', 'Burkholderia sp. RPE67', 'Sporosarcina newyorkensis 2681', 'Massilia consociata', 'Bifidobacterium callitrichos DSM 23973', 'Bifidobacterium stellenboschense', 'Bifidobacterium biavatii DSM 23969', 'Siansivirga zeaxanthinifaciens CC-SAMT-1', 'Haemophilus sp. oral taxon 851 str. F0397', 'Paraburkholderia bannensis NBRC 103871', 'Moraxella macacae 0408225', 'Pyrenochaeta sp. DS3sAY3a', 'Stagonospora sp. SRC1lsM3a', 'Vibrio jasicida MWB 21', 'Citreicella sp. 357', 'Candidatus Puniceispirillum marinum IMCC1322', 'Serratia sp. AS12', 'Serratia sp. AS13', 'Sinorhizobium sp. CCBAU 05631', 'Opitutaceae bacterium TAV5', 'Burkholderiaceae bacterium PBA', 'Nesterenkonia sp. F', 'Sugiyamaella lignohabitans', 'Peptoanaerobacter stomatis', 'Stomatobaculum longum', 'Kipferlia bialata', 'Fonsecaea nubica', 'Cryptosporidium ubiquitum', 'Trichoderma parareesei', 'Caenispirillum salinarum AK4', 'Agrobacterium sp. H13-3', 'Gemmatirosa kalamazoonesis', 'Streptomyces sp. SirexAA-E', 'Thermincola potens JR', 'Burkholderiales bacterium JOSHI_001', 'Microvirga lotononidis', 'Oscillatoriales cyanobacterium C42_A2020_001', 'Schizosaccharomyces cryophilus', 'Methanothermobacter sp. CaT2', 'Chloroflexus sp. Y-396-1', 'Methanobacterium paludis', 'Ogataea angusta', 'Terriglobus saanensis SP1PR4', 'Bacteroides stercorirosoris JCM 17103', 'Lactobacillus pasteurii DSM 23907 = CRBIP 24.76', 'Celeribacter baekdonensis B30', 'Mycolicibacter sinensis', 'Peptoniphilus sp. 1-1', 'Methyloferula stellata AR4', 'Ruminococcus sp. NK3A76', 'Clostridiales bacterium NK3B98', 'Erysipelotrichaceae bacterium NK3D112', 'Lachnospiraceae bacterium NK4A136', 'Lachnospiraceae bacterium NK4A144', 'Lachnospiraceae bacterium NK4A179', 'Methanobacterium lacus', 'Chryseobacterium sp. StRB126', 'Pseudodesulfovibrio piezophilus C1TLV30', 'Cutaneotrichosporon oleaginosum', 'Plasmodium sp. gorilla clade G2', 'Fulvivirga imtechensis AK7', 'Methanoregula formicica SMSP', 'Schleiferia thermophila str. Yellowstone', 'Candidatus Zinderia insecticola CARI', 'Mageeibacillus indolicus UPII9-5', 'Fukomys damarensis', 'Desulfosporosinus acidiphilus SJ4', 'Methylovorus sp. MP688', 'Candidatus Nanosalina sp. J07AB43', 'Candidatus Nanosalinarum sp. J07AB56', 'Plautia stali symbiont', 'Nonlabens ulvanivorans', 'Phytopythium vexans DAOM BR484', 'Clostridium sp. HGF2', 'Alistipes sp. HGB5', 'Fusarium sp. FOSC 3-a', 'Actinokineospora spheciospongiae', 'SAR116 cluster alpha proteobacterium HIMB100', 'Pseudovibrio sp. FO-BEG1', 'Caldanaerobacter subterraneus subsp. tengcongensis MB4', 'Mycolicibacterium iranicum UM_TJL', 'Desulfosporosinus sp. OT', 'Knoellia flava TL1', 'Kangiella geojedonensis', 'Rhynchosporium commune', 'Rhynchosporium agropyri', 'Asinibacterium sp. OR53', 'Balearica regulorum', 'Synechocystis sp. PCC 7509', 'Bartonella florencae', 'Pseudomonas brassicacearum', 'Nonlabens marinus S1-08', 'Serratia sp. M24T3', 'Desulfosarcina sp. BuS5', 'Aminobacter sp. J41', 'Bacillus sp. J33', 'Bacillus sp. J37', 'Chelativorans sp. J32', 'Paenibacillus sp. J14', 'Paracoccus sp. J39', 'Luteimonas sp. J29', 'Nocardioides sp. J54', 'Rhizopus delemar', 'Mogibacterium sp. CM50', 'Desulfurispirillum indicum S5', 'Marinomonas posidonica IVIA-Po-181', 'Actinomyces sp. ICM47', 'Atopobium sp. BS2', 'Selenomonas sp. FOBRC6', 'Selenomonas sp. FOBRC9', 'Shuttleworthia sp. MSX8B', 'Streptococcus sp. CM6', 'Veillonella sp. AS16', 'Lachnoanaerobaculum sp. OBRC5-5', 'Lachnoanaerobaculum sp. MSX33', 'Casaltella massiliensis', 'Fenollaria massiliensis', 'Levyella massiliensis', 'Anaerococcus provencensis', 'Bacteroidetes bacterium SCGC AAA027-N21', 'Granulicella mallensis MP5ACTX8', 'Granulicella tundricola MP5ACTX9', 'Desulfovibrio sp. X2', 'Burkholderia sp. WSM2230', 'Hippea jasoniae', 'Hippea sp. KM1', 'Arcobacter sp. L', 'Gordonia neofelifaecis NRRL B-59395', 'Diplocarpon rosae', 'Salpingoeca rosetta', 'Arenimonas metalli CF5-1', 'Paraburkholderia dilworthii', 'Fusarium proliferatum', 'Palaeococcus pacificus DY20341', 'Bacillus sp. 17376', 'Fonsecaea multimorphosa CBS 102226', 'Leuconostoc sp. C2', 'Deinococcus wulumuqiensis R12', 'Aquimarina agarivorans', 'Morus notabilis', 'Ruegeria conchae', 'Lacinutrix sp. 5H-3-7-4', 'Glaciecola sp. 4H-3-7+YE-5', 'Dokdonia sp. 4H-3-7-5', 'Bifidobacterium reuteri DSM 23975', 'Heterobasidion irregulare', 'Mycoplasma parvum str. Indiana', 'Staphylococcus argenteus M21126', 'Vulcanisaeta moutnovskia 768-28', 'Ruegeria halocynthiae', 'Gillisia sp. CAL575', 'Staphylococcus agnetis', 'Lebetimonas sp. JS170', 'Polymorphum gilvum SL003B-26A1', 'Vibrio sp. HENC-03', 'Erosia sp. biolep03', 'Candidatus Kinetoplastibacterium desouzaii TCC079E', 'Candidatus Kinetoplastibacterium galatii TCC219', 'Candidatus Kinetoplastibacterium oncopeltii TCC290E', 'Desmospora sp. 8437', 'Porphyromonas sp. KLE 1280', 'Streptomyces himastatinicus ATCC 53653', 'Halomonas sp. TD01', 'Methylophaga lonarensis MPL', 'Selenomonas sp. F0473', 'Streptococcus sp. F0441', 'Streptococcus sp. F0442', 'Sedimentitalea nanhaiensis DSM 24252', 'Megasphaera sp. UPII 135-E', 'Cryobacterium roopkundense', 'Daldinia sp. EC12', 'Hypoxylon sp. CI-4A', 'Psychrobacter sp. 1501(2011)', 'Leisingera sp. ANG1', 'Candidatus Pelagibacter sp. IMCC9063', 'Verrucosispora maris AB-18-032', 'Fimbriimonas ginsengisoli Gsoil 348', 'Ogataea parapolymorpha DL-1', 'Metallosphaera cuprina Ar-4', 'Listeria weihenstephanensis FSL R9-0317', 'Defluviitoga tunisiensis', 'Candidatus Nitrosarchaeum limnium SFB1', 'Sphingomonas sp. S17', 'Pusillimonas sp. T7-7', 'Pyrococcus yayanosii CH1', 'Candidatus Tremblaya phenacola PAVE', 'Exophiala sideris', 'Nannospalax galili', 'Endozoicomonas montiporae', 'Pseudomonas sp. StFLB209', 'Acinetobacter sp. P8-3-8', 'Sphingomonas sp. KC8', 'Caloramator sp. ALD01', 'Campylobacter volucris LMG 24379', 'Corynebacterium nuruki S6-4', 'Bacillus timonensis', 'Brevibacterium senegalense', 'Kurthia sp. Dielmo', 'Kurthia massiliensis', 'Kurthia senegalensis', 'Exophiala aquamarina CBS 119918', 'Marinobacter adhaerens HP15', 'Thioalkalivibrio sulfidiphilus HL-EbGr7', 'Nitrososphaera viennensis EN76', 'Paenibacillus sp. HW567', 'Legionella massiliensis', 'Deferrisoma camini S3R1', 'Dehalobacter sp. FTH1', 'Idiomarina sp. A28L', 'Bradyrhizobium sp. WSM2793', 'Bradyrhizobium sp. WSM3983', 'Mesorhizobium sp. WSM3224', 'Mesorhizobium sp. WSM3626', 'Bradyrhizobium sp. ARR65', 'Drosophila rhopaloa', 'Ensifer sp. WSM1721', 'Candidatus Arthromitus sp. SFB-rat-Yit', 'Wickerhamomyces ciferrii', 'Aureobasidium subglaciale EXF-2481', 'Clostridium sp. SY8519', 'Rhizobium sp. IBUN', 'Ochrovirga pacifica', 'Thermococcus sp. 4557', 'Acidiphilium sp. PM', 'Demequina mangrovi', 'Citricoccus sp. CH26A', 'Oceaniovalibus guishaninsula JLT2003', 'Aminicenantes bacterium SCGC AAA252-A02', 'Zymoseptoria brevis', 'Zymoseptoria tritici', 'Candidatus Moranella endobia PCIT', 'Paracoccidioides lutzii', 'Anditalea andensis', 'Paenibacillus sp. Aloe-11', 'Verticillium alfalfae VaMs.102', 'Acetobacteraceae bacterium AT-5844', 'Thermoplasmatales archaeon BRNA1', 'Methylotenera versatilis 301', 'Psychrobacter sp. TB67', 'Grimontia indica', 'Nocardia sp. BMG51109', 'Ensifer sp. BR816', 'Azospirillum baldaniorum', 'Amycolatopsis halophila YIM 93223', 'Aspergillus luchuensis IFO 4308', 'Halonotius sp. J07HN4', 'Bacillus sp. NSP22.2', 'Tetrapisispora blattae', 'Caballeronia grimmiae', 'Lachancea dasiensis CBS 10888', 'Porticoccus hydrocarbonoclasticus MCTG13d', 'Armillaria solidipes', 'Pantoea rwandensis', 'Thiolapillus brandeum', 'Acetobacter okinawensis JCM 25146', 'Staphylococcus sp. HGB0015', 'Paenisporosarcina sp. HGH0030', 'Streptomyces sp. HGB0020', 'Parabacteroides sp. HGS0025', 'Bacteroides sp. HPS0048', 'Coprococcus sp. HPP0074', 'Coprococcus sp. HPP0048', 'Serinicoccus profundi MCCC 1A05965', 'Haemophilus sputorum CCUG 13788', 'Paenibacillus sp. HGH0039', 'Corynebacterium sp. HFH0082', 'Rhizobium mesoamericanum STM3625', 'Leucobacter chromiiresistens JG 31', 'Citrobacter sp. S-77', 'Saccharomyces eubayanus', 'Candidatus Aquiluna sp. IMCC13023', 'Hepatospora eriocheir', 'Enterospora canceri', 'Aquimarina agarilytica ZC1', 'Bartonella sp. DB5-6', 'Streptococcus sp. SK140', 'Streptococcus sp. SK643', 'Methylobacterium sp. GXF4', 'Arthrobacter sp. PAO19', 'Burkholderia sp. YI23', 'Coprobacter fastidiosus NSB1', 'Limnohabitans sp. Rim28', 'Limnohabitans sp. Rim47', 'Arthrobacter sp. MA-N2', 'Paracoccus sp. N5', 'Methylopila sp. M107', 'Methylobacterium sp. 10', 'Methylobacterium sp. 77', 'Methylophilaceae bacterium 11', 'Pyrobaculum ferrireducens', 'Actinomyces sp. ICM39', 'Clostridium sp. MSTE9', 'Rickettsia philipii str. 364D', 'Paenirhodobacter enshiensis', 'Penicillium rubens', 'Thermus sp. CCB_US3_UF1', 'Metallosphaera yellowstonensis MK1', 'Atopobium sp. BV3Ac4', 'Propionimicrobium sp. BV2F7', 'Peptoniphilus sp. BV3C26', 'Coriobacteriaceae bacterium BV3Ac1', 'Megasphaera sp. BV3C16-1', 'Psychrobacter sp. PAMC 21119', 'Sphingomonas sp. PAMC 26605', 'Sphingomonas sp. PAMC 26617', 'Methylophilus sp. 5', 'Arthrobacter sp. 31Y', 'Hoeflea sp. 108', 'Vibrio sp. EJY3', 'Elizabethkingia anophelis NUHP1', 'Brevibacillus massiliensis', 'Actinomyces sp. ph3', 'Halomonas sp. GFAJ-1', 'Arthrobacter sp. Rue61a', 'Rhizobium grahamii CCGE 502', 'Sphingopyxis sp. LC363', 'Methylopila sp. 73B', 'Mycobacterium sp. 141', 'Actinomadura flavalba DSM 45200', 'Corynebacterium doosanense CAU 212 = DSM 45436', 'Gordonia kroppenstedtii DSM 45133', 'Fodinicurvata fenggangensis DSM 21160', 'Fodinicurvata sediminis DSM 21159', 'Halomonas zhanjiangensis DSM 21076', 'Hirschia maritima DSM 19733', 'Pedobacter oryzae DSM 19973', 'Ponticaulis koreensis DSM 19734', 'Rubellimicrobium mesophilum DSM 19309', 'Thiomicrorhabdus sp. Kp2', 'Gonapodya prolifera JEL478', 'SAR86 cluster bacterium SAR86A', 'SAR86 cluster bacterium SAR86B', 'Magnetococcus marinus MC-1', 'Treponema sp. JC4', 'Pseudomonas sp. P179', 'Limimaricola cinnabarinus LL-001', 'Bosea sp. 117', 'Bradyrhizobium sp. DOA9', 'Paenibacillus beijingensis', 'Bacillus sp. JS', 'Paraglaciecola arctica BSs20135', 'Weissella oryzae SG25', 'Marine Group I thaumarchaeote SCGC AB-629-I23', 'Nitrospina sp. AB-629-B18', 'Dehalobacter sp. CF', 'Sphaerochaeta globosa str. Buddy', 'Sphaerochaeta pleomorpha str. Grapes', 'Flavobacterium sp. 83', 'Methylobacterium sp. 88A', 'Xanthobacter sp. 126', 'Arthrobacter sp. 35W', 'Bacillus sp. 37MA', 'Rhizobium sp. CCGE 510', 'Melioribacter roseus P3M-2', 'Alkalihalobacillus ligniniphilus', 'Cellvibrio sp. BR', 'Klebsiella michiganensis E718', 'Nocardiopsis sp. CNT312', 'Streptomyces sp. CNH099', 'Saccharomonospora sp. CNQ490', 'Xanthomarina gelatinilytica', 'Endozoicomonas numazuensis', 'Clostridium arbusti SL206', 'Mycobacterium paraintracellulare', 'Lactobacillus curieae', 'Pseudomassariella vexata', 'Homolaphlyctis polyrhiza', 'Novosphingobium sp. AP12', 'Sphingobium sp. AP49', 'Rhizobium sp. CF080', 'Rhizobium sp. CF122', 'Flavobacterium sp. CF136', 'Herbaspirillum sp. CF444', 'Pseudomonas sp. GM21', 'Herbaspirillum sp. YR522', 'Phyllobacterium sp. YR531', 'Tritrichomonas foetus', 'Acinetobacter sp. CIP 101934', 'Acinetobacter sp. CIP 101966', 'Acinetobacter sp. CIP 102082', 'Acinetobacter sp. CIP 102129', 'Acinetobacter sp. CIP 102136', 'Acinetobacter sp. CIP 102143', 'Acinetobacter sp. CIP 102159', 'Acinetobacter sp. CIP 102529', 'Acinetobacter sp. CIP 102637', 'Acinetobacter sp. CIP 51.11', 'Acinetobacter sp. CIP 53.82', 'Acinetobacter sp. CIP 56.2', 'Acinetobacter sp. CIP 64.7', 'Acinetobacter sp. CIP A162', 'Lysinibacillus varians', 'Dehalobacter sp. DCA', 'Ornithinibacillus scapharcae TW25', 'Achromobacter arsenitoxydans SY8', 'Acinetobacter oleivorans DR1', 'Geminisphaera colitermitum TAV2', 'Pseudomonas furukawaii', 'Arthrobacter sp. 9MFCol3.1', 'Leifsonia sp. 109', 'Tsukamurella sp. 1534', 'Arthrobacter sp. 161MFSha2.1', 'Arthrobacter sp. 162MFSha1.1', 'Microbacterium sp. 292MF', 'Nematocida sp. 1 ERTm2', 'Streptomyces sp. LaPpAH-108', 'Streptomyces sp. MspMP-M5', 'Moorea producens 3L', 'Streptococcus sp. I-G2', 'Streptococcus sp. I-P16', 'Streptomyces sp. HmicA12', 'Tumebacillus flagellatus', 'Streptomyces sp. LaPpAH-95', 'Streptomyces sp. Amel2xE9', 'Streptomyces sp. ATexAB-D23', 'Streptomyces sp. BoleA5', 'Streptomyces sp. PsTaAH-124', 'Streptomyces sp. FxanaC1', 'Mycobacterium sp. 155', 'Thermotoga sp. Cell2', 'Thermotoga sp. 2812B', 'Arthrobacter sp. 135MFCol5.1', 'Thioalkalivibrio sp. ALJT', 'Thioalkalivibrio sp. ALD1', 'Thioalkalivibrio sp. ALMg11', 'Thioalkalivibrio sp. ALE31', 'Thiomonas sp. FB-Cd', 'Prevotella sp. 10(H)', 'Desulfurobacterium sp. TC5-1', 'Persephonella sp. IF05-L8', 'Persephonella sp. KM09-Lau-8', 'Kosakonia sacchari SP1', 'Thioalkalivibrio sp. ALJ7', 'Thioalkalivibrio sp. ALJ11', 'Thioalkalivibrio sp. ALJ16', "Leptospirillum sp. Group II 'C75'", 'Ustilaginoidea virens', 'Bordetella sp. FB-8', 'Nocardia sp. BMG111209', 'Brucella sp. 63/311', 'Ruminococcus bicirculans', 'Candidatus Nasuia deltocephalinicola str. NAS-ALF', 'Euryhalocaulis caribicus', 'Streptococcus sp. ACC21', 'Ruminococcus champanellensis 18P13 = JCM 17042', 'Pseudomonas donghuensis', 'Clostridium sp. 12(A)', 'Cronobacter condimenti 1330', 'Richelia intracellularis HH01', 'Imtechella halotolerans K1', 'Methylotenera sp. 73s', 'Sulfurovum sp. AR', 'Enterobacter sp. R4-368', 'Halomonas xinjiangensis', 'Draconibacterium orientale', 'Xanthobacteraceae bacterium 501b', 'Mycobacterium sp. MOTT36Y', 'Mycobacterium sp. H4Y', 'Streptomyces pratensis ATCC 33331', 'Bacillus sp. 123MFChir2', 'Nocardia sp. CNY236', 'Streptomyces sp. CNT372', 'Streptomyces sp. CNY243', 'Brucella sp. F5/06', 'Brucella sp. 56/94', 'Citrobacter sp. KTE30', 'Escherichia sp. KTE114', 'Citrobacter sp. KTE151', 'Escherichia sp. KTE11', 'Escherichia sp. KTE31', 'Citrobacter sp. KTE32', 'Vitrella brassicaformis CCMP3155', 'Rhodobacteraceae bacterium PD-2', 'Streptomyces sp. 142MFCol3.1', 'Streptomyces sp. 351MFTsu5.1', 'Streptomyces sp. 303MFCol5.2', 'Nocardia sp. 348MFTsu5.1', 'Mycobacterium sp. 360MFTsu5.1', 'Terracoccus sp. 273MFTsu3.1', 'Oxytricha trifallax', 'Sulfurimonas hongkongensis', 'Catenovulum agarivorans DS-2', 'Fischerella sp. PCC 9431', 'Fischerella sp. PCC 9605', 'Geitlerinema sp. PCC 7407', 'Gloeocapsa sp. PCC 7428', 'Microcoleus sp. PCC 7113', 'Oscillatoria sp. PCC 10802', 'Chamaesiphon minutus PCC 6605', 'Synechococcus sp. PCC 7502', 'Leptolyngbya sp. PCC 6406', 'Colletotrichum sublineola', 'Fischerella sp. PCC 9339', 'Sphingopyxis sp. MC1', 'Herbaspirillum sp. GW103', 'Methanocella conradii HZ254', 'Methanocella arvoryzae MRE50', 'Peptoniphilus rhinitidis 1-13', 'Sulfurimonas gotlandica GD1', 'Agrobacterium fabrum str. C58', 'Alcanivorax nanhaiticus', 'Microbacterium sp. C448', 'Komagataeibacter medellinensis NBRC 3288', 'Halomonas huangheensis', 'Bacillus xiamenensis', 'Bacillus zhangzhouensis', 'Arenitalea lutea', 'Candidatus Photodesmus blepharus', 'Mycoplasma feriruminatoris', 'Pseudomonas sp. M47T1', 'Cladophialophora psammophila', 'Deinococcus swuensis', 'Escherichia sp. KTE52', 'Klebsiella sp. KTE92', 'Escherichia sp. KTE96', 'Escherichia sp. KTE159', 'Myroides injenensis M09-0166', 'Pyrococcus sp. ST04', 'Mesotoga prima MesG1.Ag.4.2', 'Thioclava dalianensis', 'Blattabacterium sp. (Blaberus giganteus)', 'Rhodovulum sp. PH10', 'Flavobacterium sp. ACAM 123', 'Burkholderia sp. lig30', 'Lactobacillus hokkaidonensis JCM 18461', 'Snodgrassella alvi', 'Gilliamella apicola', 'Corvus moneduloides', 'Clostridium sp. Maddingley MBC34-26', 'Paenibacillus sp. OSY-SE', 'Mangrovimonas yunxiaonensis', 'Arthrobacter sp. M2012083', 'Janthinobacterium sp. HH01', 'Thermogladius calderae 1633', 'Anaerovibrio sp. RM50', 'Ruminobacter sp. RM87', 'Bacteriovorax sp. Seq25_V', 'Bacteriovorax sp. BAL6_X', 'Flavobacterium sp. F52', 'Lactobacillus oryzae JCM 18671', 'Halopiger salifodinae', 'Achlya hypogyna', 'Lactobacillus hominis DSM 23910 = CRBIP 24.179', 'Geobacter daltonii FRC-32', 'Acidaminococcus sp. HPA0509', 'Actinomyces sp. HPA0247', 'Corynebacterium sp. KPL1814', 'Corynebacterium sp. KPL1817', 'Corynebacterium sp. KPL1818', 'Corynebacterium sp. KPL1821', 'Corynebacterium sp. KPL1824', 'Corynebacterium sp. KPL1855', 'Corynebacterium sp. KPL1856', 'Corynebacterium sp. KPL1857', 'Corynebacterium sp. KPL1859', 'Corynebacterium sp. KPL1860', 'Dermabacter sp. HFH0086', 'Propionibacterium sp. HGH0353', 'Propionibacterium sp. KPL1838', 'Propionibacterium sp. KPL1844', 'Propionibacterium sp. KPL1852', 'Pseudomonas sp. HPB0071', 'Streptococcus sp. HPH0090', 'Streptomyces sp. HPH0547', 'Veillonella sp. HPA0037', 'Corynebacterium sp. KPL1986', 'Corynebacterium sp. KPL1989', 'Corynebacterium sp. KPL1995', 'Corynebacterium sp. KPL1996', 'Corynebacterium sp. KPL1998', 'Corynebacterium sp. KPL2004', 'Propionibacterium sp. KPL2005', 'Propionibacterium sp. KPL2009', 'Streptomyces sp. CNR698', 'Novosphingobium sp. MBES04', 'Pseudomonas sp. Lz4W', 'Gallaecimonas xiamenensis 3-C-1', 'Idiomarina xiamenensis 10-D-4', 'Sphingobium sp. C100', 'Hyphomonas sp. L-53-1-40', 'Pseudomonas sp. UW4', 'Marinomonas profundimaris', 'Celeribacter indicus', 'Commensalibacter sp. MX01', 'Colletotrichum orchidophilum', 'Streptomyces sp. AA0539', 'Gemmata massiliana', 'Pseudoxanthomonas sp. GW2', 'Chelatococcus sp. GW1', 'Dyadobacter tibetensis Y620-1', 'Enterobacteriaceae bacterium B14', 'Acidocella sp. MX-AZ02', 'Diaporthe ampelina', 'Thermus tengchongensis YIM 77401', 'Amphibacillus jilinensis Y1', 'Clostridium bornimense', 'Acinetobacter sp. NIPH 542', 'Acinetobacter sp. NIPH 298', 'Acinetobacter sp. CIP 64.2', 'Acinetobacter sp. NIPH 1847', 'Acinetobacter sp. NIPH 3623', 'Acinetobacter sp. CIP 110321', 'Acinetobacter sp. CIP 70.18', 'Acinetobacter sp. ANC 3880', 'Acinetobacter sp. NIPH 1867', 'Acinetobacter sp. ANC 4105', 'Acinetobacter sp. NIPH 284', 'Acinetobacter sp. ANC 3862', 'Acinetobacter sp. NIPH 2168', 'Acinetobacter sp. ANC 3929', 'Acinetobacter sp. NIPH 2100', 'Acinetobacter sp. NIPH 713', 'Acinetobacter sp. NIPH 899', 'Acinetobacter sp. NIPH 236', 'Acinetobacter sp. NIPH 758', 'Acinetobacter sp. ANC 3789', 'Cupriavidus sp. BIS7', 'Roseomonas sp. B5', 'Xylona heveae TC161', 'Octadecabacter antarcticus 307', 'Streptomyces sp. GBA 94-10', 'Brucella inopinata BO1', 'Lactobacillus mellifer', 'Lactobacillus kullabergensis', 'Lactobacillus helsingborgensis', 'Lactobacillus kimbladii', 'Lactobacillus melliventris', 'Lactobacillus mellis', 'Acinetobacter nectaris CIP 110549', 'Actinomyces sp. S4-C9', 'Arcanobacterium sp. S3PF19', 'Peptostreptococcus sp. MV1', 'Methanobacterium sp. Maddingley MBC34', 'Altibacter lentus', 'Corynebacterium humireducens NBRC 106098 = DSM 45392', 'Enterobacteriaceae bacterium LSJC7', 'Mangrovibacter sp. MFB070', 'Pantoea sp. A4', 'Dickeya sp. DW 0440', 'Oscillibacter sp. KLE 1728', 'Oscillibacter sp. KLE 1745', 'Blautia sp. KLE 1732', 'Clostridium sp. KLE 1755', 'Streptomyces rapamycinicus NRRL 5491', 'Actinomyces sp. oral taxon 877 str. F0543', 'Capnocytophaga sp. oral taxon 863 str. F0517', 'Leptotrichia sp. oral taxon 879 str. F0557', 'Prevotella sp. F0091', 'Paenibacillus sp. FSL H7-689', 'Paenibacillus sp. FSL R7-277', 'Leptolyngbya sp. KIOST-1', 'Sphingobacterium deserti', 'Flavobacterium sp. WG21', 'Cupriavidus sp. GA3-3', 'Alkalibacterium sp. AK22', 'Candidatus Nitrosopumilus sediminis', 'Salimicrobium jeotgali', 'Bradyrhizobium sp. DFCI-1', 'Flaviramulus ichthyoenteri Th78', 'Lachancea sp. CBS 6924', 'Lachancea mirantina', 'Paenisporosarcina sp. TG-14', 'Nitratireductor pacificus pht-3B', 'Thermotoga sp. Mc24', 'Lactobacillus shenzhenensis LY-73', 'Clohesyomyces aquaticus', 'Desulfuromonas sp. TF', 'Corynebacterium ihumii', 'Megasphaera massiliensis', 'Nesterenkonia massiliensis', 'Nosocomiicoccus massiliensis', 'Enorma timonensis', 'Desulfobacula sp. TS', 'Clostridiales bacterium VE202-13', 'Clostridiales bacterium VE202-18', 'Clostridiales bacterium VE202-09', 'Clostridiales bacterium VE202-08', 'Clostridiales bacterium VE202-14', 'Clostridiales bacterium VE202-21', 'Marinobacterium sp. AK27', 'Geobacillus sp. GHH01', 'Chryseobacterium sp. JM1', 'Chryseobacterium sp. FH1', 'Staphylococcus sp. E463', 'Pacificimonas flava', 'Gayadomonas joobiniege G7', 'Ralstonia sp. AU12-08', 'Eubacterium sp. 14-2', 'Lachnospiraceae bacterium M18-1', 'Lachnospiraceae bacterium MD335', 'Firmicutes bacterium M10-2', 'Oscillibacter sp. 1-3', 'Dorea sp. 5-2', 'Lachnospiraceae bacterium MD308', 'Lachnospiraceae bacterium 10-1', 'Parabacteroides sp. ASF519', 'Anaerotruncus sp. G3(2012)', 'Candidatus Pantoea carbekii', 'Haloquadratum sp. J07HQX50', 'Halonotius sp. J07HN6', 'Halorubrum sp. J07HR59', 'Sodalis praecaptivus', 'Dokdonia sp. PRO95', 'Bacillus massiliogorillae', 'Luteimonas huabeiensis HB2', 'Campylobacter iguaniorum', 'Magnetospirillum caucaseum', 'Mariniradius saccharolyticus AK6', 'Lachancea lanzarotensis', 'Borreliella chilensis', 'Nocardiopsis potens DSM 45234', 'Rhizobium sp. 2MFCol3.1', 'Halobacillus sp. BAB-2008', 'Paramicrosporidium saccamoebae', 'Arsenophonus endosymbiont str. Hangzhou of Nilaparvata lugens', 'Microbacterium sp. UCD-TDU', 'Parvularcula oceani', 'Blastomonas sp. AAP53', 'Sandarakinorhabdus sp. AAP62', 'Porphyrobacter sp. AAP82', 'Candidatus Sulfuricurvum sp. RIFRC-1', 'Imhoffiella purpurea', 'Gillisia sp. Hel_I_29', 'Maribacter sp. Hel_I_7', 'Polaribacter sp. Hel1_85', 'Polaribacter sp. Hel_I_88', 'Muricauda sp. MAR_2010_75', 'Salegentibacter sp. Hel_I_6', 'Pseudomonas sp. FGI182', "Leptospirillum sp. Group IV 'UBA BS'", 'Streptomyces sp. 769', 'Phascolarctobacterium sp. CAG:207', 'Phascolarctobacterium sp. CAG:266', 'Oscillibacter ruminantium GH1', 'Edwardsiella piscicida C07-087', 'Candidatus Endolissoclinum faulkneri L2', 'Pseudomonas sp. URMO17WK12:I8', 'Streptomyces sp. PAMC 26508', 'Nafulsella turpanensis ZLM-10', 'Lysinibacillus manganicus DSM 26584', 'Thioalkalivibrio sp. ALE6', 'Thioalkalivibrio sp. ALE19', 'Thioalkalivibrio sp. AKL19', 'Frischella perrara', 'Sediminibacterium sp. C3', 'Acidobacteriaceae bacterium KBS 83', 'Acidobacteriaceae bacterium KBS 89', 'Pantoea sp. IMH', 'Pseudomonas sp. G5(2012)', 'Peptoniphilus timonensis JC401', 'Rhodococcus sp. AW25M09', 'Acidovorax sp. MR-S7', 'Thioalkalivibrio sp. ALR17-21', 'Flavobacterium sp. KJJ', 'Pedobacter sp. R20-19', 'Megasphaera sp. NM10', 'Liberibacter crescens BT-1', 'Mycobacterium sp. VKM Ac-1817D', 'Paenibacillus antibioticophila', 'Candidatus Hepatobacter penaei', 'Acidovorax sp. JHL-9', 'Escherichia sp. KTE172', 'Hippea alviniae EP5-r', 'Synechococcus sp. KORDI-100', 'Gorillibacterium massiliense', 'Butyrivibrio sp. AE2015', 'Butyrivibrio sp. VCD2006', 'Butyrivibrio sp. AE3009', 'Butyrivibrio sp. XPD2006', 'Butyrivibrio sp. FC2001', 'Butyrivibrio sp. AE3006', 'Prevotella sp. AGR2160', 'Butyrivibrio sp. WCD3002', 'Butyrivibrio sp. VCB2006', 'Butyrivibrio sp. LC3010', 'Butyrivibrio sp. WCD2001', 'Butyrivibrio sp. XBB1001', 'Butyrivibrio sp. NC3005', 'Butyrivibrio sp. MC2013', 'Meira miltonrushii', 'Hyphomonas pacifica', 'Hyphomonas sp. CY54-11-8', 'Hyphomonas beringensis', 'Hyphomonas chukchiensis', 'Hyphomonas atlantica', 'Asticcacaulis sp. AC460', 'Asticcacaulis sp. AC402', 'Asticcacaulis sp. AC466', 'Frankia sp. Iso899', 'Tolumonas lignilytica', 'Nocardioides sp. Iso805N', 'Paenibacillus sp. A9', 'Planktomarina temperata RCA23', 'Actinomyces sp. S6-Spd3', 'Tissierellia bacterium S7-1-4', 'Prevotella sp. S7-1-8', 'Pandoraea sp. SD6-2', 'Brachyspira hampsonii 30446', 'Mesorhizobium sp. L2C084A000', 'Mesorhizobium sp. LNJC398B00', 'Prevotella sp. S7 MS 2', 'Bacillus massiliosenegalensis JC6', 'Achromobacter insuavis AXX-A', 'Arcticibacter svalbardensis MN12-7', 'Streptomyces sp. CNT318', 'Streptomyces sp. TAA040', 'Anaerococcus senegalensis JC48', 'Alistipes senegalensis JC50', 'Actinomyces timonensis DSM 23838', 'Nitrosospira lacus', 'Magnetospira sp. QH-2', 'Streptomyces sp. TAA204', 'Candidatus Methanomethylophilus alvus Mx1201', 'Dietzia sp. UCD-THP', 'Kocuria sp. UCD-OTCP', 'Leucobacter sp. UCD-THU', 'Halopiger djelfimassiliensis', 'Halopiger goleimassiliensis', 'Pseudomonas sp. ATCC 13867', 'Photobacterium gaetbulicola Gung47', 'Thermodesulfobacterium geofontis OPF15', 'Parageobacillus genomosp. 1', 'Aquimarina pacifica', 'Mesorhizobium sp. STM 4661', 'Intestinimonas butyriciproducens', 'Myxococcus hansupus', 'Afipia sp. OHSU_I-C4', 'Bradyrhizobium sp. OHSU_III', 'Psychrobacter sp. JCM 18900', 'Mesorhizobium sp. URHA0056', 'Microbacterium sp. URHA0036', 'Marmoricola sp. URHB0036', 'Mycobacterium sp. URHD0025', 'Alteromonas sp. ALT199', 'Bradyrhizobium sp. URHA0002', 'Streptomyces sp. TAA486', 'Methanocaldococcus bathoardescens', 'Caldisalinibacter kiritimatiensis', 'Cellulomonas sp. KRMCY2', 'Clostridium sp. ASBs410', 'Geovibrio sp. L21-Ace-BES', 'Microbacterium sp. KROCY2', 'Oceanicola sp. HL-35', 'Marinobacter nanhaiticus D15-8W', 'Sporosarcina sp. EUR3 2.2.2', 'Alcanivorax pacificus W11-5', 'Termitomyces sp. J132', 'Streptomyces hokutonensis', 'Desulfohalovibrio reitneri', 'Salinispira pacifica', 'Arthrobacter sp. Br18', 'Arthrobacter sp. H14', 'Thermocrinis sp. GBS', 'Aureispira sp. CCB-QB1', 'Peniophora sp. CONT', 'Perkinsela sp. CCAP 1560/4', 'Streptococcus sp. HSISM1', 'Streptococcus sp. HSISB1', 'Streptococcus sp. HSISS1', 'Streptococcus sp. HSISS2', 'Streptococcus sp. HSISS3', 'Enterococcus sp. HSIEG1', 'Blattabacterium sp. (Nauphoeta cinerea)', 'Archaeoglobus sulfaticallidus PM70-1', 'Aquimarina atlantica', 'Thioclava atlantica', 'Candidatus Mycoplasma girerdii', 'Mesorhizobium sp. NBIMC_P2-C3', 'Clostridiales bacterium oral taxon 876 str. F0540', 'Mitsuokella sp. oral taxon 131 str. W9106', 'Peptostreptococcaceae bacterium oral taxon 113 str. W5053', 'Selenomonas sp. oral taxon 892 str. F0426', 'Rhodococcus defluvii', 'Mycobacterium sp. TKK-01-0059', 'Serratia sp. FS14', 'Prolemur simus', 'Thermoactinomyces daqus', 'Enterobacter sp. MGH 1', 'Enterobacter sp. MGH 3', 'Enterobacter sp. MGH 6', 'Enterobacter sp. MGH 7', 'Enterobacter sp. MGH 10', 'Enterobacter sp. MGH 15', 'Enterobacter sp. MGH 22', 'Enterobacter sp. MGH 23', 'Enterobacter sp. MGH 24', 'Enterobacter sp. MGH 25', 'Enterobacter sp. MGH 33', 'Enterobacter sp. MGH 37', 'Enterobacter sp. MGH 38', 'Enterobacter sp. BWH 37', 'Enterobacter sp. BIDMC 26', 'Enterobacter sp. BIDMC 27', 'Enterobacter sp. BIDMC 28', 'Enterobacter sp. BIDMC 29', 'Enterobacter sp. BIDMC 30', 'Novosphingobium lindaniclasticum LE124', 'Cycloclasticus zancles 78-ME', 'Thermus caliditerrae', 'Auricularia subglabra TFB-10046 SS5', 'Sphingobium baderi LL03', 'Candidatus Saccharimonas aalborgensis', 'Salinarchaeum sp. Harcht-Bsk1', 'Bifidobacterium moukalabense DSM 27321', 'Tepidicaulis marinus', 'Spiribacter salinus M19-40', 'Spiribacter curvatus', 'Sphingobium bisphenolivorans', 'Polaribacter sp. Hel1_33_49', 'Calothrix sp. 336/3', 'Bacillus sp. UNC438CL73TsuS30', 'Luminiphilus syltensis NOR5-1B', 'Flavobacterium enshiense DK69', 'Brucella sp. 04-5288', 'Sulfitobacter geojensis', 'Sulfitobacter noctilucicola', 'Sulfitobacter noctilucae', 'Saccharibacter sp. AM169', 'Epichloe mollis', 'Winogradskyella psychrotolerans RS-3', 'Halomonas sp. A3H3', 'Bacillus sp. EB01', 'Paucisalibacillus sp. EB02', 'Bacillus ndiopicus', 'Bacillus dielmoensis', 'Anaerosalibacter massiliensis', 'Bacteroides neonati', 'Pseudoalteromonas piratica', 'Arthrobacter sp. AK-YN10', 'Cyclobacterium qasimii M12-11B', 'Synechococcus sp. UTEX 2973', 'Thioclava indica', 'Bacteriovorax sp. BSW11_IV', 'Peptoniphilus mikwangii', 'Roseovarius sp. MCTG156(2b)', 'Arcobacter sp. AF1028', 'Arcobacter lanthieri', 'Bradyrhizobium diazoefficiens USDA 110', 'Rhodococcus sp. PML026', 'Hymenobacter sp. APR13', 'Batrachochytrium salamandrivorans', 'Lutibaculum baratangense AMV1', 'Thermofilum adornatum', 'Zygosaccharomyces parabailii', 'Rhodobacteraceae bacterium HIMB11', 'Fonsecaea erecta', 'Mycobacterium sp. UM_WGJ', 'Mycobacterium sp. UM_WWY', 'Firmicutes bacterium ASF500', 'Dyella jiangningensis', 'Gemmatimonas phototrophica', 'Desulfonauticus sp. A7A', 'Sphingomonas sp. FUKUSWIS1', 'Methanobacterium sp. MB1', 'Spirosoma radiotolerans', 'Streptomyces sp. URHA0041', 'Geodermatophilaceae bacterium URHB0048', 'Mesorhizobium sp. URHC0008', 'Cellulomonas sp. URHE0023', 'Bradyrhizobium sp. URHD0069', 'Blastococcus sp. URHD0036', 'Halomonas sp. 23_GOM-1509m', 'Sulfitobacter sp. 20_GPM-1509m', 'Intrasporangiaceae bacterium URHB0013', 'Ahrensia sp. 13_GOM-1096m', 'Tenacibaculum sp. 47A_GOM-205m', 'Mycobacterium sp. URHB0044', 'Alcanivorax sp. 43B_GOM-46m', 'Solirubrobacterales bacterium URHD0059', 'Dongia sp. URHE0060', 'Geodermatophilaceae bacterium URHA0031', 'Rhodospirillales bacterium URHD0088', 'Paenibacillus darwinianus', 'Streptomycetaceae bacterium MP113-05', 'Aliihoeflea sp. 2WW', 'Brevibacterium sp. VCM10', 'Caulobacteraceae bacterium PMMR1', 'Sporosarcina sp. D27', 'Thermogemmatispora carboxidivorans', 'Thermorudis peleae', 'Acidobacterium ailaaui', 'Methyloceanibacter caenitepidi', 'Francisella sp. W12-1067', 'Lysobacter arseniciresistens ZS79', 'Hymenobacter sp. DG25B', 'Leptolyngbya sp. Heron Island J', 'Exiguobacterium chiriqhucha RW-2', 'Sphingobacterium paucimobilis HER1398', 'Methylophilus sp. OH31', 'Staphylococcus sp. M0480', 'Clostridium sp. Ade.TY', 'Pseudogymnoascus sp. VKM F-3808', 'Kalmanozyma brasiliensis', 'Prevotella sp. HUN102', 'Eubacterium sp. AB3007', 'Flavimarina sp. Hel_I_48', 'Leeuwenhoekiella sp. MAR_2009_132', 'Sediminibacter sp. Hel_I_10', 'Ruminococcaceae bacterium AE2021', 'Lachnospiraceae bacterium AC2031', 'Bifidobacterium sp. 7101', 'Bifidobacterium sp. A11', 'Candidatus Saccharibacteria bacterium RAAC3_TM7_1', 'Thermosynechococcus sp. NK55a', 'Paenibacillus sp. MAEPY2', 'Haloferula sp. BvORR071', 'Verrucomicrobium sp. BvORR034', 'Marinobacter sp. ES-1', 'Leucobacter sp. PH1c', 'Serratia sp. H1n', 'Alcanivorax sp. P2S70', 'Halomonas sp. PBN3', 'Candidatus Micropelagos thuwalensis', 'Exiguobacterium sp. MH3', 'Ophiocordyceps australis', 'Bacteroidales bacterium CF', 'Flavobacterium limnosediminis JC2902', 'Sulfitobacter pseudonitzschiae', 'Streptomyces sp. A02', 'Verrucomicrobium sp. BvORR106', 'Corynebacterium glyciniphilum AJ 3170', 'Candidatus Methanomassiliicoccus intestinalis Issoire-Mx1', 'Synechococcus sp. NKBG15041c', 'Betaproteobacteria bacterium MOLA814', 'Bacillus sp. MB2021', 'Butyrivibrio sp. FCS014', 'Butyrivibrio sp. MC2021', 'Prevotella sp. MA2016', 'Oribacterium sp. FC2011', 'Pseudobutyrivibrio sp. LB2011', 'Lachnospiraceae bacterium AC2028', 'Lachnospiraceae bacterium AC3007', 'Lachnospiraceae bacterium MA2020', 'Lachnospiraceae bacterium MC2017', 'Youngiibacter fragilis 232.1', 'Candidatus Tachikawaea gelatinosa', 'Candidatus Nitrosopelagicus brevis', 'Bacteroides sp. Ga6A2', 'Treponema sp. C6A8', 'Oribacterium sp. P6A1', 'Prevotella sp. P6B1', 'Pseudobutyrivibrio sp. MD2005', 'Ruminococcus sp. FC2018', 'Selenomonas sp. ND2010', 'Serratia sp. DD3', 'Shinella sp. DD12', 'Lachnospiraceae bacterium C6A11', 'Lachnospiraceae bacterium FE2018', 'Lachnospiraceae bacterium MD2004', 'Lachnospiraceae bacterium NC2004', 'Lachnospiraceae bacterium ND2006', 'Lachnospiraceae bacterium P6A3', 'Lachnospiraceae bacterium P6B14', 'Lachnospiraceae bacterium V9D3004', 'Lachnospiraceae bacterium YSB2008', 'Propionibacteriaceae bacterium P6A17', 'Ruminococcaceae bacterium AB4001', 'Methyloglobulus morosus KoM1', 'Rhizobiales bacterium YIM 77505', 'Gammaproteobacteria bacterium MOLA455', 'Corynebacterium jeddahense', 'Clostridium saudiense', 'Pseudomonas sp. TKP', 'Candidatus Walczuchella monophlebidarum', 'Marinobacter sp. MCTG268', 'Halomonas sp. TG39a', 'Oceanicola sp. MCTG156(1a)', 'Gloeobacter kilaueensis JS1', 'Defluviimonas sp. 20V17', 'Streptococcus sp. VT 162', 'Pseudogymnoascus sp. VKM F-3775', 'Pseudogymnoascus sp. VKM F-4246', 'Pseudogymnoascus sp. VKM F-4281 (FW-2241)', 'Pseudogymnoascus sp. VKM F-4513 (FW-928)', 'Pseudogymnoascus sp. VKM F-4514 (FW-929)', 'Pseudogymnoascus sp. VKM F-4515 (FW-2607)', 'Pseudogymnoascus sp. VKM F-4516 (FW-969)', 'Pseudogymnoascus sp. VKM F-4517 (FW-2822)', 'Pseudogymnoascus sp. VKM F-103', 'Pseudogymnoascus sp. VKM F-4518 (FW-2643)', 'Pseudogymnoascus sp. VKM F-4519 (FW-2642)', 'Pseudogymnoascus sp. VKM F-4520 (FW-2644)', 'Marinobacter similis', 'Marinobacter salarius', 'Kurthia huakuii LAM0618', 'Bacillus sp. SJS', 'Hyphomicrobium nitrativorans NL23', 'Candidatus Entotheonella factor', 'Candidatus Entotheonella gemina', 'Afipia sp. P52-10', 'Geobacillus icigianus', 'Candidatus Halobonum tyrrellensis G22', 'Mannheimia sp. USDA-ARS-USMARC-1261', 'Mucinivorans hirudinis', 'Methanosarcina sp. Kolksee', 'Methanosarcina sp. MTP4', 'Methanosarcina sp. WH1', 'Methanosarcina sp. WWM596', 'Acinetobacter bohemicus ANC 3994', 'Alcanivorax sp. 97CO-5', 'Candidatus Symbiobacter mobilis CR', 'Pseudogymnoascus sp. VKM F-3557', 'Citrobacter sp. MGH 55', 'Pseudomonas sp. BAY1663', 'Talaromyces atroroseus', 'Clostridium sp. K25', 'Aquimarina megaterium XH134', 'Candidatus Protochlamydia massiliensis', 'Candidatus Rubidus massiliensis', 'Xylella taiwanensis', 'Gynuella sunshinyii YC6258', 'Sciscionella sp. SE31', 'Hymenobacter swuensis DY53', 'Bacillus sp. Pc3', 'Campylobacter corcagiensis', 'Halobellus rufus', 'Arthrobacter sp. UNC362MFTsu5.1', 'Mycobacterium sp. UNC280MFTsu5.1', 'Caulobacter sp. UNC358MFTsu5.1', 'Clostridium sp. KNHs205', 'Microbacterium sp. UNCCL10', 'Paenibacillus sp. UNC451MF', 'Phyllobacterium sp. UNC302MFCol5.2', 'Rhodococcus sp. UNC23MFCrub1.1', 'Rhodococcus sp. UNC363MFTsu5.1', 'Sphingomonas sp. UNC305MFCol5.2', 'Thermus amyloliquefaciens', 'Bacillus sp. TS-2', 'Microbacterium sp. MRS-1', 'Microbacterium sp. Cr-K32', 'Microbacterium sp. Cr-K20', 'Pseudomonas sp. RL', 'Chryseobacterium hispalense DSM 25574', 'Microbulbifer sp. HZ11', 'Candidatus Accumulibacter sp. BA-93', 'Cellulomonas sp. HZM', 'Chlamydia avium 10DC88', 'Chlamydia gallinacea 08-1274/3', 'Halapricum salinum', 'Caballeronia jiangsuensis', 'Serpentinomonas raichei', 'Serpentinomonas mccroryi', 'Candidatus Phaeomarinobacter ectocarpi', 'Lachnospiraceae bacterium AC2029', 'Candidatus Nitrososphaera evergladensis SR1', 'Geomicrobium sp. JCM 19037', 'Geomicrobium sp. JCM 19038', 'Bacillus sp. JCM 19046', 'Paraphaeosphaeria sporulosa', 'Weeksella massiliensis', 'Haemophilus massiliensis', 'Neobacillus jeddahensis', 'Jeotgalicoccus saudimassiliensis', 'Metalysinibacillus saudimassiliensis', 'Actibacterium atlanticum', 'Pseudooceanicola atlanticus', 'Pseudoalteromonas sp. SCSIO_11900', 'Virgibacillus massiliensis', 'Oceanobacillus jeddahense', 'Brucella papionis', 'Klebsiella quasipneumoniae subsp. quasipneumoniae UCICRE 14', 'Actinosporangium sp. NRRL B-3428', 'Glycomyces sp. NRRL B-16210', 'Saccharothrix sp. NRRL B-16314', 'Streptomyces sp. NRRL F-2580', 'Streptomyces sp. NRRL F-2890', 'Streptomyces sp. NRRL F-5008', 'Streptomyces sp. NRRL F-5053', 'Streptomyces sp. NRRL F-5065', 'Streptomyces sp. NRRL F-5123', 'Streptomyces sp. NRRL F-5126', 'Streptomyces sp. NRRL F-5135', 'Streptomyces sp. NRRL F-525', 'Streptomyces sp. NRRL F-5630', 'Streptomyces sp. NRRL F-6677', 'Streptomyces sp. NRRL S-118', 'Streptomyces sp. NRRL S-149', 'Streptomyces sp. NRRL S-1777', 'Streptomyces sp. NRRL S-237', 'Streptomyces sp. NRRL S-337', 'Streptomyces sp. NRRL S-340', 'Streptomyces sp. NRRL S-37', 'Streptomyces sp. NRRL S-474', 'Streptomyces sp. NRRL S-646', 'Streptomyces sp. NRRL S-87', 'Streptomyces sp. NRRL S-920', 'Streptomyces sp. NRRL WC-3626', 'Streptomyces sp. NRRL WC-3742', 'Streptomyces sp. NRRL WC-3773', 'Micromonospora parva', 'Aeromicrobium massiliense JC14', 'Peptoniphilus grossensis ph5', 'Peptoniphilus senegalensis JC140', "Oceanobacillus massiliensis str. N'diop", 'Paenibacillus senegalensis JC66', 'Clostridium senegalense JC122', 'Cellulomonas massiliensis JC225', 'Noviherbaspirillum massiliense JC206', 'Timonella senegalensis JC301', 'Burkholderia sp. 2002721687', 'Bacillus massilioanorexius AP8', 'Bartonella senegalensis OS02', 'Holdemania massiliensis AP2', 'Thioalkalivibrio sp. HK1', 'Burkholderiales bacterium GJ-E10', 'Lacinutrix jangbogonensis', 'Rhodovulum sp. NI22', 'Kineothrix alysoides', 'Alistipes ihumii AP11', 'Candidatus Stoquefichus massiliensis AP9', 'Clostridium ihumii AP5', 'Candidatus Blastococcus massiliensis AP3', 'Streptomyces sp. Tu 6176', 'Sphingomonas sp. RIT328', 'Pseudomonas sp. RIT357', 'Prochlorococcus sp. scB241_528O2', 'Prochlorococcus sp. scB245a_520K10', 'Talaromyces cellulolyticus', 'Basilea psittacipulmonis DSM 24701', 'Falsirhodobacter sp. alg1', 'Burkholderia sp. K24', 'Enorma massiliensis phI', 'Kallipyga massiliensis ph2', 'Senegalimassilia anaerobia JC110', 'Lysinibacillus sp. BF-4', 'Mizugakiibacter sediminis', 'Deinococcus phoenicis', 'Streptomyces sp. NRRL B-24720', 'Peptostreptococcaceae bacterium VA2', 'Halomonas sp. HL-48', 'Marinobacter sp. HL-58', 'Oceanicaulis sp. HL-87', 'Porphyrobacter sp. HL-46', 'Curtobacterium sp. S6', 'Spirochaeta lutea', 'Pantoea sp. PSNIH2', 'Pantoea sp. PSNIH1', 'Psychroserpens jangbogonensis', 'Exiguobacterium sp. AB2', 'Rhodoferax saidenbachensis ED16', 'Cadophora sp. DSE1049', 'Selenomonas sp. AE3005', 'Ferriphaselus sp. R-1', 'Ghiorsea bivora', 'Mitosporidium daphniae', 'Martelella endophytica', 'Candidatus Sodalis pierantonius str. SOPE', 'Clostridium sp. HMP27', 'Desulfosporosinus sp. HMP52', 'Corynebacterium sp. ATCC 6931', 'Pseudomonas sp. Ant30-3', 'Deinococcus sp. RL', 'Trichoderma guizhouense', 'Flavobacterium gilvum', 'Flavobacterium seoulense', 'Gammaproteobacteria bacterium MFB021', 'Arthrobacter sp. PAMC 25486', 'Mesoaciditoga lauensis cd-1655R = DSM 25116', 'Pseudomonas sp. WCS374', 'Penicillium cf. griseofulvum UFMGCB 6741', 'Candidatus Evansia muelleri', 'Cyanobium sp. CACIAM 14', 'Listeriaceae bacterium FSL A5-0209', 'Prochlorococcus sp. MIT 0601', 'Prochlorococcus sp. MIT 0602', 'Prochlorococcus sp. MIT 0701', 'Bacillus rubiinfantis', 'Clostridium sp. CL-6', 'Clostridium sp. CL-2', 'Bacillus andreraoultii', 'Pseudomonas saudiphocaensis', 'Clostridium amazonitimonense', 'Candidatus Moduliflexus flocculans', 'Candidatus Vecturithrix granuli', 'Paenibacillus sp. TCA20', 'Rhizobium sp. YR295', 'Rhizobium sp. YR519', 'Chryseobacterium sp. CF284', 'Rhizobium sp. CF097', 'Rhizobium sp. CF394', 'Rhizobium sp. OK494', 'Luteibacter sp. 9143', 'Luteibacter sp. 9135', 'Massilia sp. 9096', 'Burkholderia sp. 9120', 'Campylobacter sp. RM16704', 'Paenibacillus tyrfis', 'Prochlorococcus sp. MIT 0604', 'Prochlorococcus sp. MIT 0801', 'Oribacterium parvum ACB8', 'Oribacterium asaccharolyticum ACB7', 'Alistipes inops', 'Devosia sp. LC5', 'Methylotenera sp. L2L1', 'Pseudomonas sp. AAC', 'Sphingopyxis sp. LC81', 'Bosea sp. LC85', 'Massilia sp. LC238', 'Veillonella seminalis ACS-216-V-Col6b', 'Polaromonas sp. CG9_12', 'Halomonas sp. KO116', 'Chitinivibrio alkaliphilus ACht1', 'Blochmannia endosymbiont of Polyrhachis (Hedomyrma) turneri', 'Blochmannia endosymbiont of Camponotus (Colobopsis) obliquus', 'Candidatus Schmidhempelia bombi str. Bimp', 'Thermococcus eurythermalis', 'Flavobacterium sp. Fl', 'Butyrivibrio sp. AE3004', 'Rachicladosporium antarcticum', 'Jeotgalibacillus malaysiensis', 'Candidatus Arthromitus sp. SFB-mouse-NL', 'Acinetobacter sp. HR7', 'Pseudorhizobium pelagicum', 'Candidatus Nitrosopumilus koreensis AR1', 'Bosea sp. UNC402CLCol', 'Ruminococcus sp. HUN007', 'Sphingopyxis fribergensis', 'Porphyromonas sp. COT-239 OH1446', 'Porphyromonas sp. COT-290 OH860', 'Shewanella mangrovi', 'Idiomarina atlantica', 'Vibrio sp. ER1A', 'Porphyromonadaceae bacterium COT-184 OH4590', 'Anopheles coluzzii', 'Oscillibacter sp. ER4', 'Candidatus Thermochlorobacteriaceae bacterium GBChlB', 'Chloroflexus sp. MS-G', 'Sphingobium sp. ba1', 'Ceraceosorus guamensis', 'Pseudomonas sp. ML96', 'Serratia sp. Ag1', 'Planococcus sp. PAMC 21323', 'Rickettsiales bacterium Ac37b', 'Thalassospira australica', 'Acinetobacter seifertii', 'Palleronia rufa', 'Coriobacteriaceae bacterium 68-1-3', 'Torrubiella hemipterigena', 'Achromobacter sp. RTa', 'Rhizobium sp. YS-1r', 'Devosia sp. 17-2-E-8', 'Thalassotalea sp. ND16A', 'Paenibacillus sp. FSL P4-0081', 'Paenibacillus sp. FSL R5-0345', 'Paenibacillus sp. FSL R5-0912', 'Paenibacillus sp. FSL R7-0273', 'Paenibacillus sp. FSL R7-0331', 'Paenibacillus sp. FSL H7-0357', 'Paenibacillus sp. FSL H7-0737', 'Sphingopyxis sp. MWB1', 'Sulfurospirillum sp. SCADC', 'Sulfuricurvum sp. MLSB', 'Alteromonas sp. LOR', 'Micromonospora sp. HK10', 'Aquabacterium sp. NJ1', 'Sphingobacterium sp. ML3W', 'Treponema sp. OMZ 838', 'Deinococcus sp. YIM 77859', 'Clostridium sp. KNHs214', 'Myxosarcina sp. GI1', 'Candidatus Izimaplasma sp. HR1', 'Candidatus Izimaplasma sp. HR2', 'Oleiagrimonas soli', 'Lactobacillus sp. wkB10', 'Lactobacillus sp. wkB8', 'Sphingomonas sp. 35-24ZXX', 'Hoeflea sp. BAL378', 'Francisella sp. FSC1006', 'Helicobacter sp. MIT 11-5569', 'Campylobacter sp. MIT 97-5078', 'Sphingomonas taxi', 'Sphingomonas sp. 37zxx', 'Sphingobacteriaceae bacterium DW12', 'Thermofilum uzonense', 'Listeria booriae', 'Caenorhabditis tropicalis', 'Fermentimonas caenicola', 'Rhodococcus sp. B7740', 'Shewanella sp. ECSMB14101', 'Sulfurospirillum sp. MES', 'Rugosibacter aromaticivorans', 'Bacillus sp. X1(2014)', 'Paenibacillus sp. IHBB 10380', 'Paracoccus sp. PAMC 22219', 'Phaeobacter sp. S60', 'Jaminaea rosea', 'Bacillus sp. BH072', 'Bacillus sp. YP1', 'Candidatus Methanoplasma termitum', 'Dickeya undicola', 'Nitrosopumilus adriaticus', 'Pseudomonas sp. HMSC05H02', 'Neisseria sp. HMSC06F02', 'Candidatus Methylopumilus planktonicus', 'Nitrosopumilus piranensis', 'Fusobacterium hwasookii ChDC F128', 'Myroides sp. A21', 'Agrobacterium arsenijevicii', 'Pseudomonas sp. 10B238', 'Haloarcula sp. CBA1115', 'Enterobacteriaceae bacterium ATCC 29904', 'Candidatus Nitrosotenuis cloacae', 'Halanaeroarchaeum sulfurireducens', 'Sinocyclocheilus anshuiensis', 'Candidatus Filomicrobium marinum', 'Sphingomonas hengshuiensis', 'Pseudomonas sp. MRSN12121', 'Vibrio sp. S234-5', 'Psychromicrobium lacuslunae', 'Bacillus sp. LM 4-2', 'Sulfuricella sp. T08', 'Verrucomicrobia bacterium IMCC26134', 'Chania multitudinisentens RB-25', 'Bacillus paralicheniformis ATCC 9945a', 'Metarhizium rileyi RCEF 4871', 'Metarhizium majus ARSEF 297', 'Blattabacterium cuenoti BPAA', 'Lachancea quebecensis', 'Emmonsia sp. CAC-2015a', 'Blastomyces percursus', 'Phialophora attinorum', 'Violaceomyces palustris', 'Paramormyrops kingsleyae', 'Blastomyces gilchristii SLH14081', 'Pseudomicrostroma glucosiphilum', 'Wallemia mellicola CBS 633.66', 'Baudoinia panamericana UAMH 10762', 'Leucoagaricus sp. SymC.cos', 'Pezoloma ericae', 'Neocallimastix californiae', 'Piromyces finnis', 'Anaeromyces robustus', 'Mesorhizobium erdmanii USDA 3471', 'Nematocida displodere', 'Enterobacter roggenkampii EC_38VIM1', 'Edwardsiella anguillarum ET080813', 'Gopherus evgoodei', 'Dacryopinax primogenitus', 'Cryptococcus gattii VGII LA55', 'Cryptococcus gattii VGIV IND107', 'Amphiamblys sp. WSBS2006', 'Carlito syrichta', 'Pseudocercospora fijiensis CIRAD86', 'Testicularia cyperi', 'Xanthomonas cannabis pv. phaseoli', 'Planoprotostelium fungivorum', 'Fortiea contorta PCC 7126', 'Pectobacterium parmentieri WPP163', 'Geobacillus genomosp. 3', 'Bifiguratus adelaidae', 'Emergomyces pasteurianus Ep9510', 'Dinothrombium tinctorium', 'Rachicladosporium sp. CCFEE 5018', 'Xanthomonas phaseoli pv. phaseoli', 'Cordyceps sp. RAO-2017', 'Ophiocordyceps camponoti-rufipedis', 'Ooceraea biroi', 'Malassezia vespertilionis', 'Coniella lustricola', 'Globisporangium ultimum DAOM BR144', 'Blastomyces silverae', 'Mesorhizobium japonicum MAFF 303099', 'Rutstroemia sp. NJR-2017a WRK4', 'Rutstroemia sp. NJR-2017a BVV2', 'Rutstroemia sp. NJR-2017a BBW', 'Cervus hanglu yarkandensis', 'Lactobacillus paragasseri JV-V03', 'Photorhabdus laumondii subsp. laumondii TTO1', 'Pyrrhoderma noxium', 'Hondaea fermentalgiana', 'Yamadazyma tenuis ATCC 10573', 'Hyaloscypha bicolor E', 'Hyaloscypha variabilis F', 'Nothophytophthora sp. Chile5', 'Strigops habroptila', 'Fusarium odoratissimum NRRL 54006', 'Gloeothece citriformis PCC 7424', 'Gloeothece verrucosa PCC 7822', 'Crocosphaera subtropica ATCC 51142', 'Crocosphaera chwakensis CCY0110', 'Rippkaea orientalis PCC 8802', 'Thermothielavioides terrestris NRRL 8126', 'Podospora anserina S mat+', 'Dacryopinax sp. DJM 731 SSP-1', 'Akanthomyces lecanii RCEF 1005', 'Fusarium vanettenii 77-13-4']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', consistency_score_threshold: Fraction = 0.5, filter_consistency_score: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the PhylomeDB database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

param map_to_organism

organism name or NCBI taxon ID of the target species for ortholog mapping.

type map_to_organism

str or int

param map_from_organism

organism name or NCBI taxon ID of the input genes’ source species.

type map_from_organism

str or int

param gene_id_type

the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

type gene_id_type

str or ‘auto’ (default=’auto’)

` :param consistency_score_threshold: the minimum consistency score required for an ortholog mapping to be considered valid. Consistency scores are calculated by PhylomeDB and represent the confidence of the ortholog mapping. setting consistency_score_threshold to 0 will keep all mappings. You can read more about PhylomeDB consistency score on the PhylomeDB website: orthology.phylomedb.org/help

type consistency_score_threshold

float between 0 and 1 (default=0.5)

param filter_consistency_score

if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest consistency score.

type filter_consistency_score

bool (default=True)

param non_unique_mode

How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

type non_unique_mode

‘first’, ‘last’, ‘random’, or ‘none’ (default=’first’)

param remove_unmapped_genes

if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

type remove_unmapped_genes

bool (default=False)

type inplace

bool (default=True)

param inplace

If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

return

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

number_filters(column: ColumnName, operator: Literal['greater than', 'equals', 'lesser than'], value: float, opposite: bool = False, inplace: bool = True)

Applay a number filter (greater than, equal, lesser than) on a particular column in the Filter object.

Parameters

• column (str) – name of the column to filter by

• operator (str: 'gt' / 'greater than' / '>', 'eq' / 'equals' / '=', 'lt' / 'lesser than' / '<') – the operator to filter the column by (greater than, equal or lesser than)

• value (float) – the value to filter by

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/test_deseq.csv')
>>> #keep only rows that have a value greater than 5900 in the column 'baseMean'.
>>> filt.number_filters('baseMean','gt',5900)
Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

>>> filt = filtering.Filter('tests/test_files/test_deseq.csv')
>>> #keep only rows that have a value greater than 5900 in the column 'baseMean'.
>>> filt.number_filters('baseMean','greater than',5900)
Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

>>> filt = filtering.Filter('tests/test_files/test_deseq.csv')
>>> #keep only rows that have a value greater than 5900 in the column 'baseMean'.
>>> filt.number_filters('baseMean','>',5900)
Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

print_features()

Print the feature indices in the Filter object, sorted by their current order in the FIlter object, and separated by newline.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.sort(by='cond1',ascending=False)
>>> counts.print_features()
WBGene00007075
WBGene00043988
WBGene00043990
WBGene00007079
WBGene00007076
WBGene00043989
WBGene00007063
WBGene00007077
WBGene00007078
WBGene00007071
WBGene00007064
WBGene00007066
WBGene00007074
WBGene00043987
WBGene00007067
WBGene00014997
WBGene00044022
WBGene00077503
WBGene00077504
WBGene00077502
WBGene00007069
WBGene00044951

save_csv(alt_filename: Union[None, str, Path] = None)

Saves the current filtered data to a .csv file.

Parameters

alt_filename (str, pathlib.Path, or None (default)) – If None, file name will be generated automatically according to the filtering methods used. If it’s a string, it will be used as the name of the saved file. Example input: ‘myfilename’

save_parquet(alt_filename: Union[None, str, Path] = None)

Saves the current filtered data to a .parquet file.

Parameters

alt_filename (str, pathlib.Path, or None (default)) – If None, file name will be generated automatically according to the filtering methods used. If it’s a string, it will be used as the name of the saved file. Example input: ‘myfilename’

save_table(suffix: Literal['.csv', '.tsv', '.parquet'] = '.csv', alt_filename: Union[None, str, Path] = None)

Save the current filtered data table.

Parameters

• suffix ('.csv', '.tsv', or '.parquet' (default='.csv')) – the file suffix

• alt_filename (str, pathlib.Path, or None (default)) – If None, file name will be generated automatically according to the filtering methods used. If it’s a string, it will be used as the name of the saved file. Example input: ‘myfilename’

sort(by: Union[str, List[str]], ascending: Union[bool, List[bool]] = True, na_position: str = 'last', inplace: bool = True)

Sort the rows by the values of specified column or columns.

Parameters

• by (str or list of str) – Names of the column or columns to sort by.

• ascending (bool or list of bool (default=True)) – Sort ascending vs. descending. Specify list for multiple sort orders. If this is a list of bools, it must have the same length as ‘by’.

• na_position ('first' or 'last', default 'last') – If ‘first’, puts NaNs at the beginning; if ‘last’, puts NaNs at the end.

• inplace (bool (default=True)) – If True, perform operation in-place. Otherwise, returns a sorted copy of the Filter object without modifying the original.

Returns

None if inplace=True, a sorted Filter object otherwise.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.head()
                cond1  cond2  cond3  cond4
WBGene00007063    633    451    365    388
WBGene00007064     60     57     20     23
WBGene00044951      0      0      0      1
WBGene00007066     55    266     46     39
WBGene00007067     15     13      1      0
>>> counts.sort(by='cond1',ascending=True)
>>> counts.head()
                cond1  cond2  cond3  cond4
WBGene00044951      0      0      0      1
WBGene00077504      0      0      0      0
WBGene00007069      0      2      1      0
WBGene00077502      0      0      0      0
WBGene00077503      1      4      2      0

split_by_attribute(attributes: Union[str, List[str]], ref: Union[str, Path, Literal['predefined']] = 'predefined') → tuple

Splits the features in the Filter object into multiple Filter objects, each corresponding to one of the specified Attribute Reference Table attributes. Each new Filter object will contain only features that belong to its Attribute Reference Table attribute.

Parameters

• attributes (list of strings) – list of attribute names from the Attribute Reference Table to filter by.

• ref – filename/path of the reference table to be used as reference.

Return type

Tuple[filtering.Filter]

Returns

A tuple of Filter objects, each containing only features that match one Attribute Reference Table attribute; the Filter objects are returned in the same order the attributes were given in.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> attribute1,attribute2 = counts.split_by_attribute(['attribute1','attribute2'],
... ref='tests/attr_ref_table_for_examples.csv')
Filtered 15 features, leaving 7 of the original 22 features. Filtering result saved to new object.
Filtered 20 features, leaving 2 of the original 22 features. Filtering result saved to new object.

split_by_percentile(percentile: Fraction, column: ColumnName) → tuple

Splits the features in the Filter object into two non-overlapping Filter objects: one containing features below the specified percentile in the specfieid column, and the other containing features about the specified percentile in the specified column.

Parameters

• percentile (float between 0 and 1) – The percentile that all features above it will be filtered out.

• column (str) – Name of the DataFrame column according to which the filtering will be performed.

Return type

Tuple[filtering.Filter, filtering.Filter]

Returns

a tuple of two Filter objects: the first contains all of the features below the specified percentile, and the second contains all of the features above and equal to the specified percentile.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> below, above = d.split_by_percentile(0.75,'log2FoldChange')
Filtered 7 features, leaving 21 of the original 28 features. Filtering result saved to new object.
Filtered 21 features, leaving 7 of the original 28 features. Filtering result saved to new object.

symmetric_difference(other: Union[Filter, set], return_type: Literal['set', 'str'] = 'set')

Returns a set/string of the WBGene indices that exist either in the first Filter object/set OR the second, but NOT in both (set symmetric difference).

Parameters

• other (Filter or set.) – a second Filter object/set to calculate symmetric difference with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the features that exist in exactly one Filter object. If ‘str’, returns a string of the features that exist in exactly one Filter object, delimited by a comma.

Return type

set or str

Returns

a set/string of the features that that exist t in exactly one Filter. (set symmetric difference).

Examples

>>> from rnalysis import filtering
>>> d = filtering.DESeqFilter("tests/test_files/test_deseq.csv")
>>> counts = filtering.CountFilter('tests/test_files/counted.csv')
>>> # calculate difference and return a set
>>> d.symmetric_difference(counts)
{'WBGene00000017', 'WBGene00077504', 'WBGene00000024', 'WBGene00000010', 'WBGene00000020',
'WBGene00007069', 'WBGene00007063', 'WBGene00007067', 'WBGene00007078', 'WBGene00000029', 'WBGene00000006',
'WBGene00007064', 'WBGene00000019', 'WBGene00000004', 'WBGene00007066', 'WBGene00014997', 'WBGene00000023',
'WBGene00007074', 'WBGene00000025', 'WBGene00043989', 'WBGene00043988', 'WBGene00000014', 'WBGene00000027',
'WBGene00000021', 'WBGene00044022', 'WBGene00007079', 'WBGene00000012', 'WBGene00000005', 'WBGene00077503',
'WBGene00000026', 'WBGene00000003', 'WBGene00000002', 'WBGene00077502', 'WBGene00044951', 'WBGene00007077',
'WBGene00000007', 'WBGene00000008', 'WBGene00007076', 'WBGene00000013', 'WBGene00043990', 'WBGene00043987',
'WBGene00007071', 'WBGene00000011', 'WBGene00000015', 'WBGene00000018', 'WBGene00000016', 'WBGene00000028',
'WBGene00007075', 'WBGene00000022', 'WBGene00000009'}

tail(n: PositiveInt = 5) → DataFrame

Return the last n rows of the Filter object. See pandas.DataFrame.tail documentation.

Parameters

n (positive int, default 5) – Number of rows to show.

Return type

pandas.DataFrame

Returns

returns the last n rows of the Filter object.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> d.tail()
                   baseMean  log2FoldChange  ...        pvalue          padj
WBGene00000025  2236.185837        2.477374  ...  1.910000e-81  1.460000e-78
WBGene00000026   343.648987       -4.037191  ...  2.320000e-75  1.700000e-72
WBGene00000027   175.142856        6.352044  ...  1.580000e-74  1.120000e-71
WBGene00000028   219.163200        3.913657  ...  3.420000e-72  2.320000e-69
WBGene00000029  1066.242402       -2.811281  ...  1.420000e-70  9.290000e-68

[5 rows x 6 columns]

>>> d.tail(8) # returns the last 8 rows
                   baseMean  log2FoldChange  ...        pvalue          padj
WBGene00000022   365.813048        6.101303  ...  2.740000e-97  2.400000e-94
WBGene00000023  3168.566714        3.906719  ...  1.600000e-93  1.340000e-90
WBGene00000024   221.925724        4.801676  ...  1.230000e-84  9.820000e-82
WBGene00000025  2236.185837        2.477374  ...  1.910000e-81  1.460000e-78
WBGene00000026   343.648987       -4.037191  ...  2.320000e-75  1.700000e-72
WBGene00000027   175.142856        6.352044  ...  1.580000e-74  1.120000e-71
WBGene00000028   219.163200        3.913657  ...  3.420000e-72  2.320000e-69
WBGene00000029  1066.242402       -2.811281  ...  1.420000e-70  9.290000e-68

[8 rows x 6 columns]

text_filters(column: ColumnName, operator: Literal['equals', 'contains', 'starts with', 'ends with'], value: str, opposite: bool = False, inplace: bool = True)

Applay a text filter (equals, contains, starts with, ends with) on a particular column in the Filter object.

Parameters

• column (str) – name of the column to filter by

• operator (str: 'eq' / 'equals' / '=', 'ct' / 'contains' / 'in', 'sw' / 'starts with', 'ew' / 'ends with') – the operator to filter the column by (equals, contains, starts with, ends with)

• value (number (int or float)) – the value to filter by

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/text_filters.csv')
>>> # keep only rows that have a value that starts with 'AC3' in the column 'name'.
>>> filt.text_filters('name','sw','AC3')
Filtered 17 features, leaving 5 of the original 22 features. Filtered inplace.

transform(function: Union[Literal['Box-Cox', 'log2', 'log10', 'ln', 'Standardize'], Callable], columns: Union[ColumnNames, Literal['all']] = 'all', inplace: bool = True, **function_kwargs)

Transform the values in the Filter object with the specified function.

Parameters

• function (Callable or str ('logx' for base-x log of the data + 1, 'box-cox' for Box-Cox transform of the data + 1, 'standardize' for standardization)) – The function or function name to be applied.

• columns (str, list of str, or 'all' (default='all')) – The columns to which the transform should be applied.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

• function_kwargs – Any additional keyworded arguments taken by the supplied function.

Returns

If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/counted.csv')
>>> filt_log10 = filt.transform('log10', inplace=False)
Transformed 22 features. Transformation result saved to new object.
>>> filt.transform(lambda x: x+1, columns=['cond1','cond4'])
Transformed 22 features. Transformed inplace.

translate_gene_ids(translate_to: Union[str, Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']], translate_from: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', remove_unmapped_genes: bool = False, inplace: bool = True)

Translates gene names/IDs from one type to another. Mapping is done using the UniProtKB Gene ID Mapping service. You can choose to optionally drop from the table all rows that failed to be translated.

Parameters

• translate_to (str) – the gene ID type to translate gene names/IDs to. For example: UniProtKB, Ensembl, Wormbase.

• translate_from (str or 'auto' (default='auto')) – the gene ID type to translate gene names/IDs from. For example: UniProtKB, Ensembl, Wormbase. If translate_from=’auto’, RNAlysis will attempt to automatically determine the gene ID type of the features in the table.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be translated will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and translated instance of the Filter object.

union(*others: Union[Filter, set], return_type: Literal['set', 'str'] = 'set')

Returns a set/string of the union of features between multiple Filter objects/sets (the features that exist in at least one of the Filter objects/sets).

Parameters

• others (Filter or set objects.) – Objects to calculate union with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the union features. If ‘str’, returns a string of the union WBGene indices, delimited by a comma.

Return type

set or str

Returns

a set/string of the WBGene indices that exist in at least one of the Filter objects.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # calculate union and return a set
>>> d.union(counts)
{'WBGene00000017', 'WBGene00000021', 'WBGene00044022', 'WBGene00077504', 'WBGene00000012',
'WBGene00000024', 'WBGene00007079', 'WBGene00000010', 'WBGene00000020', 'WBGene00000005', 'WBGene00007069',
'WBGene00007063', 'WBGene00007067', 'WBGene00077503', 'WBGene00007078', 'WBGene00000026', 'WBGene00000029',
'WBGene00000002', 'WBGene00000003', 'WBGene00000006', 'WBGene00007064', 'WBGene00077502', 'WBGene00044951',
'WBGene00000007', 'WBGene00000008', 'WBGene00000019', 'WBGene00007077', 'WBGene00000004', 'WBGene00007066',
'WBGene00007076', 'WBGene00000013', 'WBGene00014997', 'WBGene00000023', 'WBGene00043990', 'WBGene00007074',
'WBGene00000025', 'WBGene00000011', 'WBGene00043987', 'WBGene00007071', 'WBGene00000015', 'WBGene00000018',
'WBGene00043989', 'WBGene00043988', 'WBGene00000014', 'WBGene00000016', 'WBGene00000027', 'WBGene00000028',
'WBGene00007075', 'WBGene00000022', 'WBGene00000009'}

class rnalysis.filtering.FoldChangeFilter(fname: Union[str, Path, tuple], numerator_name: str, denominator_name: str, suppress_warnings: bool = False)

Bases: Filter

A class that contains a single column, representing the gene-specific fold change between two conditions.

this class does not support ‘inf’ and ‘0’ values, and importing a file with such values could lead to incorrect filtering and statistical analyses.

Attributes

df: pandas Series

A Series that contains the fold change values. The Series is modified upon usage of filter operations.

shape: tuple (rows, columns)

The dimensions of df.

columns: list

The columns of df.

fname: pathlib.Path

The path and filename for the purpose of saving df as a csv file. Updates automatically when filter operations are applied.

index_set: set

All of the indices in the current DataFrame (which were not removed by previously used filter methods) as a set.

index_string: string

A string of all feature indices in the current DataFrame separated by newline.

numerator: str

Name of the numerator used to calculate the fold change.

denominator: str

Name of the denominator used to calculate the fold change.

static _from_string(msg: str = '', delimiter: str = '\n')

Takes a manual string input from the user, and then splits it using a delimiter into a list of values.

param msg

a promprt to be printed to the user

param delimiter

the delimiter used to separate the values. Default is ‘

‘

return

A list of the comma-seperated values the user inserted.

_inplace(new_df: DataFrame, opposite: bool, inplace: bool, suffix: str, printout_operation: str = 'filter', **filter_update_kwargs)

Executes the user’s choice whether to filter in-place or create a new instance of the Filter object.

Parameters

• new_df (pd.DataFrame) – the post-filtering DataFrame

• opposite (bool) – Determines whether to return the filtration ,or its opposite.

• inplace (bool) – Determines whether to filter in-place or not.

• suffix (str) – The suffix to be added to the filename

Returns

If inplace is False, returns a new instance of the Filter object.

_set_ops(others, return_type: Literal['set', 'str'], op: Any, **kwargs)

Apply the supplied set operation (union/intersection/difference/symmetric difference) to the supplied objects.

Parameters

• others (Filter or set objects.) – the other objects to apply the set operation to

• return_type ('set' or 'str') – the return type of the output

• op (function (set.union, set.intersection, set.difference or set.symmetric_difference)) – the set operation

• kwargs – any additional keyworded arguments to be supplied to the set operation.

Returns

a set/string of indices resulting from the set operation

Return type

set or str

_sort(by: Union[str, List[str]], ascending: Union[bool, List[bool]] = True, na_position: str = 'last', inplace: bool = True)

Sort the rows by the values of specified column or columns.

Parameters

• by (str or list of str) – Names of the column or columns to sort by.

• ascending (bool or list of bool, default True) – Sort ascending vs. descending. Specify list for multiple sort orders. If this is a list of bools, it must have the same length as ‘by’.

• na_position ('first' or 'last', default 'last') – If ‘first’, puts NaNs at the beginning; if ‘last’, puts NaNs at the end.

• inplace (bool, default True) – If True, perform operation in-place. Otherwise, returns a sorted copy of the Filter object without modifying the original.

Returns

None if inplace=True, a sorted Filter object otherwise.

biotypes_from_gtf(gtf_path: Union[str, Path], attribute_name: Union[Literal['biotype', 'gene_biotype', 'transcript_biotype', 'gene_type', 'transcript_type'], str] = 'gene_biotype', feature_type: Literal['gene', 'transcript'] = 'gene', long_format: bool = False) → DataFrame

Returns a DataFrame describing the biotypes in the table and their count. The data about feature biotypes is drawn from a GTF (Gene transfer format) file supplied by the user.

Parameters

• gtf_path (str or Path) – Path to your GTF (Gene transfer format) file. The file should match the type of gene names/IDs you use in your table, and should contain an attribute describing biotype.

• attribute_name (str (default='gene_biotype')) – name of the attribute in your GTF file that describes feature biotype.

• feature_type ('gene' or 'transcript' (default='gene')) – determined whether the features/rows in your data table describe individual genes or transcripts.

:param long_format:if True, returns a short-form DataFrame, which states the biotypes in the Filter object and their count. Otherwise, returns a long-form DataFrame, which also provides descriptive statistics of each column per biotype. :rtype: pandas.DataFrame :returns: a pandas DataFrame showing the number of values belonging to each biotype, as well as additional descriptive statistics of format==’long’.

biotypes_from_ref_table(long_format: bool = False, ref: Union[str, Path, Literal['predefined']] = 'predefined') → DataFrame

Returns a DataFrame describing the biotypes in the table and their count. The data about feature biotypes is drawn from a Biotype Reference Table supplied by the user.

:param long_format:if True, returns a short-form DataFrame, which states the biotypes in the Filter object and their count. Otherwise, returns a long-form DataFrame, which also provides descriptive statistics of each column per biotype. :param ref: Name of the biotype reference table used to determine biotype. Default is ce11 (included in the package). :rtype: pandas.DataFrame :returns: a pandas DataFrame showing the number of values belonging to each biotype, as well as additional descriptive statistics of format==’long’.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> # short-form view
>>> d.biotypes_from_ref_table(ref='tests/biotype_ref_table_for_tests.csv')
                gene
biotype
protein_coding    26
pseudogene         1
unknown            1

>>> # long-form view
>>> d.biotypes_from_ref_table(long_format=True,ref='tests/biotype_ref_table_for_tests.csv')
               baseMean               ...           padj
                  count         mean  ...            75%            max
biotype                               ...
protein_coding     26.0  1823.089609  ...   1.005060e-90   9.290000e-68
pseudogene          1.0  2688.043701  ...   1.800000e-94   1.800000e-94
unknown             1.0  2085.995094  ...  3.070000e-152  3.070000e-152

[3 rows x 48 columns]

property columns: list

The columns of df.

Returns

a list of the columns in the Filter object.

Return type

list

denominator

name of the denominator

describe(percentiles: Union[float, List[float]] = (0.01, 0.25, 0.5, 0.75, 0.99)) → DataFrame

Generate descriptive statistics that summarize the central tendency, dispersion and shape of the dataset’s distribution, excluding NaN values. For more information see the documentation of pandas.DataFrame.describe.

Parameters

percentiles (list-like of floats (default=(0.01, 0.25, 0.5, 0.75, 0.99))) – The percentiles to include in the output. All should fall between 0 and 1. The default is [.25, .5, .75], which returns the 25th, 50th, and 75th percentiles.

Returns

Summary statistics of the dataset.

Return type

Series or DataFrame

Examples

>>> from rnalysis import filtering
>>> import numpy as np
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.describe()
              cond1         cond2         cond3         cond4
count     22.000000     22.000000     22.000000     22.000000
mean    2515.590909   2209.227273   4230.227273   3099.818182
std     4820.512674   4134.948493   7635.832664   5520.394522
min        0.000000      0.000000      0.000000      0.000000
1%         0.000000      0.000000      0.000000      0.000000
25%        6.000000      6.250000      1.250000      0.250000
50%       57.500000     52.500000     23.500000     21.000000
75%     2637.000000   2479.000000   6030.500000   4669.750000
99%    15054.950000  12714.290000  21955.390000  15603.510000
max    15056.000000  12746.000000  22027.000000  15639.000000

>>> # show the deciles (10%, 20%, 30%... 90%) of the columns
>>> counts.describe(percentiles=np.arange(0.1, 1, 0.1))
              cond1         cond2         cond3         cond4
count     22.000000     22.000000     22.000000     22.000000
mean    2515.590909   2209.227273   4230.227273   3099.818182
std     4820.512674   4134.948493   7635.832664   5520.394522
min        0.000000      0.000000      0.000000      0.000000
10%        0.000000      0.200000      0.000000      0.000000
20%        1.400000      3.200000      1.000000      0.000000
30%       15.000000     15.700000      2.600000      1.000000
40%       28.400000     26.800000     14.000000      9.000000
50%       57.500000     52.500000     23.500000     21.000000
60%       82.000000    106.800000     44.000000     33.000000
70%      484.200000    395.500000    305.000000    302.500000
80%     3398.600000   3172.600000   7981.400000   6213.000000
90%     8722.100000   7941.800000  16449.500000  12129.900000
max    15056.000000  12746.000000  22027.000000  15639.000000

df

difference(*others: Union[Filter, set], return_type: Literal['set', 'str'] = 'set', inplace: bool = False)

Keep only the features that exist in the first Filter object/set but NOT in the others. Can be done inplace on the first Filter object, or return a set/string of features.

Parameters

• others (Filter or set objects.) – Objects to calculate difference with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the features that exist only in the first Filter object. If ‘str’, returns a string of the WBGene indices that exist only in the first Filter object, delimited by a comma.

• inplace (bool, default False) – If True, filtering will be applied to the current Filter object. If False (default), the function will return a set/str that contains the intersecting features.

Return type

set or str

Returns

If inplace=False, returns a set/string of the features that exist only in the first Filter object/set (set difference).

Examples

>>> from rnalysis import filtering
>>> d = filtering.DESeqFilter("tests/test_files/test_deseq.csv")
>>> counts = filtering.CountFilter('tests/test_files/counted.csv')
>>> a_set = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> # calculate difference and return a set
>>> d.difference(counts, a_set)
{'WBGene00007063', 'WBGene00007064', 'WBGene00007066', 'WBGene00007067', 'WBGene00007069', 'WBGene00007071',
 'WBGene00007074', 'WBGene00007075', 'WBGene00007076', 'WBGene00007077', 'WBGene00007078', 'WBGene00007079',
 'WBGene00014997', 'WBGene00043987', 'WBGene00043988', 'WBGene00043989', 'WBGene00043990', 'WBGene00044022',
 'WBGene00044951', 'WBGene00077502', 'WBGene00077503', 'WBGene00077504'}

# calculate difference and filter in-place >>> d.difference(counts, a_set, inplace=True) Filtered 2 features, leaving 26 of the original 28 features. Filtered inplace.

drop_columns(columns: ColumnNames, inplace: bool = True)

Drop specific columns from the table.

Parameters

• columns (str or list of str) – The names of the column/columns to be dropped fro mthe table.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

filter_abs_log2_fold_change(abslog2fc: float = 1, opposite: bool = False, inplace: bool = True)

Filters out all features whose absolute log2 fold change is below the indicated threshold. For example: if log2fc is 1.0, all features whose log2 fold change is between 1 and -1 (went up less than two-fold or went down less than two-fold) will be filtered out.

Parameters

• abslog2fc – The threshold absolute log2 fold change for filtering out a feature. Float or int. All features whose absolute log2 fold change is lower than log2fc will be filtered out.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current FoldChangeFilter object. If False, the function will return a new FoldChangeFilter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of FoldChangeFilter.

Examples

>>> from rnalysis import filtering
>>> f = filtering.FoldChangeFilter('tests/test_files/fc_1.csv','numerator name','denominator name')
>>> f.filter_abs_log2_fold_change(2) # keep only rows whose log2(fold change) is >=2 or <=-2
Filtered 18 features, leaving 4 of the original 22 features. Filtered inplace.

filter_biotype_from_gtf(gtf_path: Union[str, Path], biotype: Union[Literal['protein_coding', 'pseudogene', 'lincRNA', 'miRNA', 'ncRNA', 'piRNA', 'rRNA', 'snoRNA', 'snRNA', 'tRNA'], str, List[str]] = 'protein_coding', attribute_name: Union[Literal['biotype', 'gene_biotype', 'transcript_biotype', 'gene_type', 'transcript_type'], str] = 'gene_biotype', feature_type: Literal['gene', 'transcript'] = 'gene', opposite: bool = False, inplace: bool = True)

Filters out all features that do not match the indicated biotype/biotypes (for example: ‘protein_coding’, ‘ncRNA’, etc). The data about feature biotypes is drawn from a GTF (Gene transfer format) file supplied by the user.

Parameters

• gtf_path (str or Path) – Path to your GTF (Gene transfer format) file. The file should match the type of gene names/IDs you use in your table, and should contain an attribute describing biotype.

• biotype (str or list of strings) – the biotypes which will not be filtered out.

• attribute_name (str (default='gene_biotype')) – name of the attribute in your GTF file that describes feature biotype.

• feature_type ('gene' or 'transcript' (default='gene')) – determined whether the features/rows in your data table describe individual genes or transcripts.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

filter_biotype_from_ref_table(biotype: Union[Literal['protein_coding', 'pseudogene', 'lincRNA', 'miRNA', 'ncRNA', 'piRNA', 'rRNA', 'snoRNA', 'snRNA', 'tRNA'], str, List[str]] = 'protein_coding', ref: Union[str, Path, Literal['predefined']] = 'predefined', opposite: bool = False, inplace: bool = True)

Filters out all features that do not match the indicated biotype/biotypes (for example: ‘protein_coding’, ‘ncRNA’, etc). The data about feature biotypes is drawn from a Biotype Reference Table supplied by the user.

Parameters

• biotype (string or list of strings) – the biotypes which will not be filtered out.

• ref – Name of the biotype reference file used to determine biotypes. Default is the path defined by the user in the settings.yaml file.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows whose biotype is 'protein_coding'
>>> counts.filter_biotype_from_ref_table('protein_coding',ref='tests/biotype_ref_table_for_tests.csv')
Filtered 9 features, leaving 13 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows whose biotype is 'protein_coding' or 'pseudogene'
>>> counts.filter_biotype_from_ref_table(['protein_coding','pseudogene'],ref='tests/biotype_ref_table_for_tests.csv')
Filtered 0 features, leaving 22 of the original 22 features. Filtered inplace.

filter_by_attribute(attributes: Union[str, List[str]] = None, mode: Literal['union', 'intersection'] = 'union', ref: Union[str, Path, Literal['predefined']] = 'predefined', opposite: bool = False, inplace: bool = True)

Filters features according to user-defined attributes from an Attribute Reference Table. When multiple attributes are given, filtering can be done in ‘union’ mode (where features that belong to at least one attribute are not filtered out), or in ‘intersection’ mode (where only features that belong to ALL attributes are not filtered out). To learn more about user-defined attributes and Attribute Reference Tables, read the user guide.

Parameters

• attributes (string or list of strings, which are column titles in the user-defined Attribute Reference Table.) – attributes to filter by.

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

• ref (str or pathlib.Path (default='predefined')) – filename/path of the attribute reference table to be used as reference.

• opposite (bool (default=False)) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new and filtered instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that belong to the attribute 'attribute1'
>>> counts.filter_by_attribute('attribute1',ref='tests/attr_ref_table_for_examples.csv')
Filtered 15 features, leaving 7 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that belong to the attributes 'attribute1' OR 'attribute3' (union)
>>> counts.filter_by_attribute(['attribute1','attribute3'],ref='tests/attr_ref_table_for_examples.csv')
Filtered 14 features, leaving 8 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that belong to both attributes 'attribute1' AND 'attribute3' (intersection)
>>> counts.filter_by_attribute(['attribute1','attribute3'],mode='intersection',
... ref='tests/attr_ref_table_for_examples.csv')
Filtered 19 features, leaving 3 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that DON'T belong to either 'attribute1','attribute3' or both
>>> counts.filter_by_attribute(['attribute1','attribute3'],ref='tests/attr_ref_table_for_examples.csv',
... opposite=True)
Filtered 8 features, leaving 14 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only rows that DON'T belong to both 'attribute1' AND 'attribute3'
>>> counts.filter_by_attribute(['attribute1','attribute3'],mode='intersection',
... ref='tests/attr_ref_table_for_examples.csv',opposite=True)
Filtered 3 features, leaving 19 of the original 22 features. Filtered inplace.

filter_by_go_annotations(go_ids: Union[str, List[str]], mode: Literal['union', 'intersection'] = 'union', organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', propagate_annotations: bool = True, evidence_types: Union[Literal['any', 'experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = 'any', excluded_evidence_types: Union[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = (), databases: Union[str, Iterable[str]] = 'any', excluded_databases: Union[str, Iterable[str]] = (), qualifiers: Union[Literal['any', 'not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'any', excluded_qualifiers: Union[Literal['not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'not', opposite: bool = False, inplace: bool = True)

Filters genes according to GO annotations, keeping only genes that are annotated with a specific GO term. When multiple GO terms are given, filtering can be done in ‘union’ mode (where genes that belong to at least one GO term are not filtered out), or in ‘intersection’ mode (where only genes that belong to ALL GO terms are not filtered out).

Parameters

• go_ids (str or list of str) –

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

param organism: organism name or NCBI taxon ID for which the function will fetch GO annotations. :type organism: str or int :param gene_id_type: the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping :type gene_id_type: str or ‘auto’ (default=’auto’) :param propagate_annotations: determines the propagation method of GO annotations. ‘no’ does not propagate annotations at all; ‘classic’ propagates all annotations up to the DAG tree’s root; ‘elim’ terminates propagation at nodes which show significant enrichment; ‘weight’ performs propagation in a weighted manner based on the significance of children nodes relatively to their parents; and ‘allm’ uses a combination of all proopagation methods. To read more about the propagation methods, see Alexa et al: https://pubmed.ncbi.nlm.nih.gov/16606683/ :type propagate_annotations: ‘classic’, ‘elim’, ‘weight’, ‘all.m’, or ‘no’ (default=’elim’) :param evidence_types: only annotations with the specified evidence types will be included in the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/ :type evidence_types: str, Iterable of str, ‘experimental’, ‘phylogenetic’ ,’computational’, ‘author’, ‘curator’, ‘electronic’, or ‘any’ (default=’any’) :param excluded_evidence_types: annotations with the specified evidence types will be excluded from the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/ :type excluded_evidence_types: str, Iterable of str, ‘experimental’, ‘phylogenetic’ ,’computational’, ‘author’, ‘curator’, ‘electronic’, or None (default=None) :param databases: only annotations from the specified databases will be included in the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type databases: str, Iterable of str, or ‘any’ (default) :param excluded_databases: annotations from the specified databases will be excluded from the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type excluded_databases: str, Iterable of str, or None (default) :param qualifiers: only annotations with the speficied qualifiers will be included in the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type qualifiers: str, Iterable of str, or ‘any’ (default) :param excluded_qualifiers: annotations with the speficied qualifiers will be excluded from the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type excluded_qualifiers: str, Iterable of str, or None (default=’not’) :type opposite: bool (default=False) :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current FeatureSet object. If False, the function will return a new FeatureSet instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new, filtered instance of the FeatureSet object.

filter_by_kegg_annotations(kegg_ids: Union[str, List[str]], mode: Literal['union', 'intersection'] = 'union', organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', opposite: bool = False, inplace: bool = True)

Filters genes according to KEGG pathways, keeping only genes that belong to specific KEGG pathway. When multiple KEGG IDs are given, filtering can be done in ‘union’ mode (where genes that belong to at least one pathway are not filtered out), or in ‘intersection’ mode (where only genes that belong to ALL pathways are not filtered out).

Parameters

• kegg_ids (str or list of str) – the KEGG pathway IDs according to which the table will be filtered. An example for a legal KEGG pathway ID would be ‘path:cel04020’ for the C. elegans calcium signaling pathway.

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

param organism: organism name or NCBI taxon ID for which the function will fetch GO annotations. :type organism: str or int :param gene_id_type: the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping :type gene_id_type: str or ‘auto’ (default=’auto’) :type opposite: bool (default=False) :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new, filtered instance of the Filter object.

filter_by_row_name(row_names: Union[str, List[str]], opposite: bool = False, inplace: bool = True)

Filter out specific rows from the table by their name (index).

Parameters

• row_names (str or list of str) – list of row names to be removed from the table.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

filter_duplicate_ids(keep: Literal['first', 'last', 'neither'] = 'first', opposite: bool = False, inplace: bool = True)

Filter out rows with duplicate names/IDs (index).

Parameters

• keep ('first', 'last', or 'neither' (default='first')) – determines which of the duplicates to keep for each group of duplicates. ‘first’ will keep the first duplicate found for each group; ‘last’ will keep the last; and ‘neither’ will remove all of the values in the group.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

filter_fold_change_direction(direction: Literal['pos', 'neg'] = 'pos', opposite: bool = False, inplace: bool = True)

Filters out features according to the direction in which they changed between the two conditions.

Parameters

• direction – ‘pos’ or ‘neg’. If ‘pos’, will keep only features that have positive log2foldchange. If ‘neg’, will keep only features that have negative log2foldchange.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current FoldChangeFilter object. If False, the function will return a new FoldChangeFilter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of FoldChangeFilter.

Examples

>>> from rnalysis import filtering
>>> f = filtering.FoldChangeFilter('tests/test_files/fc_1.csv','numerator name','denominator name')
>>> # keep only rows with a positive log2(fold change) value
>>> f.filter_fold_change_direction('pos')
Filtered 10 features, leaving 12 of the original 22 features. Filtered inplace.

>>> f = filtering.FoldChangeFilter('tests/test_files/fc_1.csv','numerator name','denominator name')
>>>  # keep only rows with a negative log2(fold change) value
>>> f.filter_fold_change_direction('neg')
Filtered 14 features, leaving 8 of the original 22 features. Filtered inplace.

>>> f = filtering.FoldChangeFilter('tests/test_files/fc_1.csv','numerator name','denominator name')
>>> # keep only rows with a non-positive log2(fold change) value
>>> f.filter_fold_change_direction('pos', opposite=True)
Filtered 12 features, leaving 10 of the original 22 features. Filtered inplace.

filter_missing_values(opposite: bool = False, inplace: bool = True)

Remove all rows with missing values.

Parameters

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of the Filter object.

filter_percentile(percentile: Fraction, opposite: bool = False, inplace: bool = True)

Removes all entries above the specified percentile. For example, if the percentile was 0.5, then all features whose value is above the median value will be filtered out.

Parameters

• percentile (float between 0 and 1) – The percentile that all features above it will be filtered out.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new CountFilter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and filtered instance of the Filter object.

filter_top_n(by: ColumnNames, n: NonNegativeInt = 100, ascending: Union[bool, List[bool]] = True, na_position: str = 'last', opposite: bool = False, inplace: bool = True)

Sort the rows by the values of specified column or columns, then keep only the top ‘n’ rows.

Parameters

• by (name of column/columns (str/List[str])) – Names of the column or columns to sort and then filter by.

• n (int) – How many features to keep in the Filter object.

• ascending (bool or list of bools (default=True)) – Sort ascending vs. descending. Specify list for multiple sort orders. If this is a list of bools, it must have the same length as ‘by’.

• na_position ('first' or 'last', default 'last') – If ‘first’, puts NaNs at the beginning; if ‘last’, puts NaNs at the end.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of Filter.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only the 10 rows with the highest values in the columns 'cond1'
>>> counts.filter_top_n(by='cond1',n=10, ascending=False)
Filtered 12 features, leaving 10 of the original 22 features. Filtered inplace.

>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # keep only the 10 rows which have the lowest values in the columns 'cond1'
>>> # and then the highest values in the column 'cond2'
>>> counts.filter_top_n(by=['cond1','cond2'],n=10, ascending=[True,False])
Filtered 12 features, leaving 10 of the original 22 features. Filtered inplace.

find_paralogs_ensembl(organism: Union[Literal['auto'], str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_percent_identity: bool = True)

Find paralogs within the same species using the Ensembl database.

Parameters

• organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_percent_identity (bool (default=True)) – if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest percent_identity score.

Returns

DataFrame describing all discovered paralog mappings.

find_paralogs_panther(organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto')

Find paralogs within the same species using the PantherDB database.

Parameters

• organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

Returns

DataFrame describing all discovered paralog mappings.

fname

head(n: PositiveInt = 5) → DataFrame

Return the first n rows of the Filter object. See pandas.DataFrame.head documentation.

Parameters

n (positive int, default 5) – Number of rows to show.

Returns

returns the first n rows of the Filter object.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> d.head()
                   baseMean  log2FoldChange  ...         pvalue           padj
WBGene00000002  6820.755327        7.567762  ...   0.000000e+00   0.000000e+00
WBGene00000003  3049.625670        9.138071  ...  4.660000e-302  4.280000e-298
WBGene00000004  1432.911791        8.111737  ...  6.400000e-237  3.920000e-233
WBGene00000005  4028.154186        6.534112  ...  1.700000e-228  7.800000e-225
WBGene00000006  1230.585240        7.157428  ...  2.070000e-216  7.590000e-213

[5 rows x 6 columns]

>>> d.head(3) # return only the first 3 rows
                   baseMean  log2FoldChange  ...         pvalue           padj
WBGene00000002  6820.755327        7.567762  ...   0.000000e+00   0.000000e+00
WBGene00000003  3049.625670        9.138071  ...  4.660000e-302  4.280000e-298
WBGene00000004  1432.911791        8.111737  ...  6.400000e-237  3.920000e-233

[3 rows x 6 columns]

property index_set: set

Returns all of the features in the current DataFrame (which were not removed by previously used filter methods) as a set. if any duplicate features exist in the filter object (same WBGene appears more than once), the corresponding WBGene index will appear in the returned set ONLY ONCE.

Returns

A set of WBGene names.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> myset = counts.index_set
>>> print(myset)
{'WBGene00044022', 'WBGene00077504', 'WBGene00007079', 'WBGene00007069', 'WBGene00007063',
'WBGene00007067', 'WBGene00077503', 'WBGene00007078', 'WBGene00007064', 'WBGene00077502', 'WBGene00044951',
'WBGene00007077', 'WBGene00007066', 'WBGene00007076', 'WBGene00014997', 'WBGene00043990', 'WBGene00007074',
'WBGene00043987', 'WBGene00007071', 'WBGene00043989', 'WBGene00043988', 'WBGene00007075'}

property index_string: str

Returns a string of all feature indices in the current DataFrame, sorted by their current order in the FIlter object, and separated by newline.

This includes all of the feature indices which were not filtered out by previously-used filter methods.

if any duplicate features exist in the filter object (same index appears more than once),

the corresponding index will appear in the returned string ONLY ONCE.

Returns

A string of WBGene indices separated by newlines (\n).

For example, “WBGene00000001\nWBGene00000003\nWBGene12345678”.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.sort(by='cond1',ascending=False)
>>> mystring = counts.index_string
>>> print(mystring)
WBGene00007075
WBGene00043988
WBGene00043990
WBGene00007079
WBGene00007076
WBGene00043989
WBGene00007063
WBGene00007077
WBGene00007078
WBGene00007071
WBGene00007064
WBGene00007066
WBGene00007074
WBGene00043987
WBGene00007067
WBGene00014997
WBGene00044022
WBGene00077503
WBGene00077504
WBGene00077502
WBGene00007069
WBGene00044951

intersection(*others: Union[Filter, set], return_type: Literal['set', 'str'] = 'set', inplace: bool = False)

Keep only the features that exist in ALL of the given Filter objects/sets. Can be done either inplace on the first Filter object, or return a set/string of features.

Parameters

• others (Filter or set objects.) – Objects to calculate intersection with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the intersecting features. If ‘str’, returns a string of the intersecting features, delimited by a comma.

• inplace (bool (default=False)) – If True, the function will be applied in-place to the current Filter object. If False (default), the function will return a set/str that contains the intersecting indices.

Return type

set or str

Returns

If inplace=False, returns a set/string of the features that intersect between the given Filter objects/sets.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> a_set = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> # calculate intersection and return a set
>>> d.intersection(a_set)
{'WBGene00000002', 'WBGene00000003'}

# calculate intersection and filter in-place >>> d.intersection(a_set, inplace=True) Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

majority_vote_intersection(*others: Union[Filter, set], majority_threshold: float = 0.5, return_type: Literal['set', 'str'] = 'set')

Returns a set/string of the features that appear in at least (majority_threhold * 100)% of the given Filter objects/sets. Majority-vote intersection with majority_threshold=0 is equivalent to Union. Majority-vote intersection with majority_threshold=1 is equivalent to Intersection.

Parameters

• others (Filter or set objects.) – Objects to calculate intersection with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the intersecting WBGene indices. If ‘str’, returns a string of the intersecting indices, delimited by a comma.

• majority_threshold (float (default=0.5)) – The threshold that determines what counts as majority. Features will be returned only if they appear in at least (majority_threshold * 100)% of the given Filter objects/sets.

Return type

set or str

Returns

If inplace=False, returns a set/string of the features that uphold majority vote intersection between two given Filter objects/sets.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> a_set = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> b_set = {'WBGene00000002','WBGene00000004'}
>>> # calculate majority-vote intersection and return a set
>>> d.majority_vote_intersection(a_set, b_set, majority_threshold=2/3)
{'WBGene00000002', 'WBGene00000003', 'WBGene00000004'}

map_orthologs_ensembl(map_to_organism: Union[str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']], map_from_organism: Union[Literal['auto'], str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_percent_identity: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the Ensembl database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_percent_identity (bool (default=True)) – if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest percent_identity score.

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_orthoinspector(map_to_organism: Union[str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']], map_from_organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the OrthoInspector database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_panther(map_to_organism: Union[str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']], map_from_organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_least_diverged: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the PantherDB database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_least_diverged (bool (default=True)) – if True (default), RNAlysis will only fetch ortholog mappings that were flagged as a ‘least diverged ortholog’ on the PantherDB database. You can read more about this flag on the PantherDB website: https://www.pantherdb.org/genes/

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_phylomedb(map_to_organism: Union[str, int, Literal['Azorhizobium caulinodans ORS 571', 'Buchnera aphidicola str. G002 (Myzus persicae)', 'Cellulomonas gilvus ATCC 13127', 'Dictyoglomus thermophilum H-6-12', 'Methylophilus methylotrophus DSM 46235 = ATCC 53528', 'Pelobacter carbinolicus DSM 2380', 'Shewanella putrefaciens CN-32', 'Myxococcus fulvus HW-1', 'Myxococcus xanthus DK 1622', 'Stigmatella aurantiaca DW4/3-1', 'Cystobacter fuscus DSM 2262', 'Chondromyces apiculatus DSM 436', 'Sorangium cellulosum So0157-2', 'Vitreoscilla stercoraria DSM 513', 'Herpetosiphon aurantiacus DSM 785', 'Simonsiella muelleri ATCC 29453', 'Hyphomonas jannaschiana VP2', 'Flectobacillus major DSM 103', 'Cyclobacterium marinum DSM 745', 'Runella slithyformis DSM 19594', 'Spirosoma linguale DSM 74', 'Rubinisphaera brasiliensis DSM 5305', 'Planctopirus limnophila DSM 3776', 'Gimesia maris DSM 8797', 'Blastopirellula marina DSM 3645', 'Pirellula staleyi DSM 6068', 'Isosphaera pallida ATCC 43644', 'Methylocystis parvus OBBP', 'Borreliella burgdorferi B31', 'Borrelia hermsii DAH', 'Borrelia parkeri SLO', 'Borrelia turicatae 91E135', 'Borrelia anserina BA2', 'Sediminispirochaeta bajacaliforniensis DSM 16054', 'Spirochaeta thermophila DSM 6192', 'Treponema denticola ATCC 35405', 'Brachyspira hyodysenteriae WA1', 'Treponema pallidum subsp. pallidum str. Nichols', 'Treponema phagedenis F0421', 'Treponema bryantii NK4A124', 'Treponema saccharophilum DSM 2985', 'Treponema succinifaciens DSM 2489', "Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'", 'Leptospira interrogans serovar Lai str. 56601', 'Leptospira borgpetersenii serovar Hardjo-bovis str. L550', 'Leptospirillum ferrooxidans C2-3', 'Leptonema illini DSM 21528', 'Novispirillum itersonii subsp. itersonii ATCC 12639', 'Aquaspirillum serpens DSM 68', 'Azospirillum sp. B510', 'Campylobacter coli 76339', 'Campylobacter fetus subsp. venerealis NCTC 10354', 'Campylobacter jejuni subsp. jejuni 414', 'Campylobacter concisus 13826', 'Campylobacter curvus 525.92', 'Campylobacter lari RM2100', 'Campylobacter rectus RM3267', 'Campylobacter showae CSUNSWCD', 'Campylobacter sputorum biovar sputorum', 'Helicobacter pylori 26695', 'Helicobacter acinonychis str. Sheeba', 'Helicobacter cinaedi CCUG 18818 = ATCC BAA-847', 'Helicobacter felis ATCC 49179', 'Helicobacter fennelliae MRY12-0050', 'Helicobacter mustelae 12198', 'Pseudoalteromonas haloplanktis ATCC 14393', 'Brucella abortus 2308', 'Brucella ovis ATCC 25840', 'Elizabethkingia meningoseptica ATCC 13253 = NBRC 12535', 'Flavobacterium aquatile LMG 4008 = ATCC 11947', 'Empedobacter brevis NBRC 14943 = ATCC 43319', 'Chryseobacterium gleum ATCC 35910', 'Psychroflexus gondwanensis ACAM 44', 'Chryseobacterium indologenes NBRC 14944', 'Myroides odoratus DSM 2801', 'Sphingobacterium spiritivorum ATCC 33861', 'Francisella cf. tularensis subsp. novicida 3523', 'Paracoccus denitrificans PD1222', 'Thermus aquaticus Y51MC23', 'Thermus thermophilus HB8', 'Meiothermus ruber DSM 1279', 'Xanthobacter autotrophicus Py2', 'Comamonas testosteroni KF-1', 'Pseudomonas aeruginosa PAO1', 'Pseudoalteromonas atlantica T6c', 'Burkholderia cepacia', 'Brevundimonas diminuta 470-4', 'Pseudomonas fluorescens NCIMB 11764', 'Pseudomonas fragi B25', 'Pseudomonas mendocina NK-01', 'Pseudomonas pseudoalcaligenes AD6', 'Pseudomonas putida KT2440', 'Ralstonia solanacearum GMI1000', 'Pseudomonas stutzeri MF28', 'Pseudomonas syringae pv. syringae B728a', 'Ralstonia pickettii DTP0602', 'Burkholderia glumae BGR1', 'Xanthomonas campestris pv. campestris', 'Xanthomonas translucens DAR61454', 'Xanthomonas citri pv. citri str. 306', 'Xanthomonas oryzae pv. oryzae PXO99A', 'Azotobacter chroococcum NCIMB 8003', 'Azotobacter vinelandii DJ', 'Agrobacterium radiobacter K84', 'Agrobacterium rhizogenes', 'Agrobacterium vitis S4', 'Bradyrhizobium japonicum', 'Sinorhizobium fredii USDA 257', 'Mesorhizobium loti CJ3sym', 'Sinorhizobium meliloti 1021', 'Rhizobium leguminosarum bv. viciae GB30', 'Rhizobium tropici CIAT 899', 'Neorhizobium galegae bv. orientalis str. HAMBI 540', 'Methylobacillus flagellatus KT', 'Methylobacillus glycogenes JCM 2850', 'Methylorubrum extorquens AM1', 'Methylococcus capsulatus str. Bath', 'Methylomonas methanica MC09', 'Methylosinus trichosporium OB3b', 'Acetobacter aceti ATCC 23746', 'Komagataeibacter hansenii ATCC 23769', 'Acetobacter pasteurianus 3P3', 'Gluconobacter oxydans H24', 'Legionella pneumophila str. Paris', 'Legionella hackeliae', 'Legionella longbeachae NSW150', 'Tatlockia micdadei', 'Fluoribacter dumoffii NY 23', 'Acinetobacter baumannii', 'Acinetobacter calcoaceticus ANC 3680', 'Moraxella catarrhalis O35E', 'Neisseria cinerea ATCC 14685', 'Neisseria flavescens NRL30031/H210', 'Neisseria gonorrhoeae NCCP11945', 'Neisseria lactamica 020-06', 'Neisseria meningitidis MC58', 'Neisseria mucosa ATCC 25996', 'Neisseria polysaccharea ATCC 43768', 'Neisseria sicca ATCC 29256', 'Neisseria elongata subsp. glycolytica ATCC 29315', 'Neisseria macacae ATCC 33926', 'Thermomicrobium roseum DSM 5159', 'Kingella denitrificans ATCC 33394', 'Kingella kingae ATCC 23330', 'Kingella oralis ATCC 51147', 'Alcaligenes faecalis', 'Bordetella bronchiseptica RB50', 'Bordetella parapertussis Bpp5', 'Bordetella pertussis Tohama I', 'Bordetella avium 197N', 'Acidiphilium angustum ATCC 35903', 'Acidiphilium cryptum JF-5', 'Acidocella facilis ATCC 35904', 'Ochrobactrum anthropi ATCC 49188', 'Polaribacter irgensii 23-P', 'Beijerinckia indica subsp. indica ATCC 9039', 'Chromobacterium violaceum ATCC 12472', 'Eikenella corrodens ATCC 23834', 'Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821', 'Citrobacter koseri ATCC BAA-895', 'Citrobacter freundii MGH 56', 'Klebsiella aerogenes KCTC 2190', 'Pantoea agglomerans', 'Enterobacter cloacae subsp. cloacae ATCC 13047', 'Erwinia amylovora CFBP1430', 'Pantoea ananatis LMG 20103', 'Pectobacterium carotovorum subsp. carotovorum PC1', 'Dickeya chrysanthemi Ech1591', 'Escherichia coli K-12', 'Shimwellia blattae DSM 4481 = NBRC 105725', 'Escherichia fergusonii B253', 'Atlantibacter hermannii NBRC 105704', 'Pseudescherichia vulneris NBRC 102420', 'Hafnia alvei FB1', 'Klebsiella oxytoca', 'Klebsiella pneumoniae', 'Morganella morganii subsp. morganii KT', 'Proteus mirabilis HI4320', 'Proteus vulgaris', 'Providencia rettgeri DSM 1131', 'Providencia stuartii ATCC 25827', 'Serratia liquefaciens ATCC 27592', 'Serratia marcescens subsp. marcescens Db11', 'Serratia odorifera DSM 4582', 'Shigella boydii CDC 3083-94', 'Shigella dysenteriae 1617', 'Shigella flexneri 2a str. 301', 'Shigella sonnei Ss046', 'Xenorhabdus nematophila ATCC 19061', 'Yersinia enterocolitica LC20', 'Yersinia intermedia ATCC 29909', 'Yersinia pestis CO92', 'Yersinia pseudotuberculosis', 'Edwardsiella tarda ATCC 15947 = NBRC 105688', 'Aeromonas hydrophila subsp. hydrophila ATCC 7966', 'Aeromonas salmonicida subsp. salmonicida A449', 'Aeromonas media WS', 'Aeromonas veronii B565', 'Photobacterium phosphoreum ANT-2200', 'Photobacterium angustum S14', 'Vibrio alginolyticus NBRC 15630 = ATCC 17749', 'Vibrio cholerae O395', 'Aliivibrio fischeri ES114', 'Vibrio parahaemolyticus RIMD 2210633', 'Vibrio proteolyticus NBRC 13287', 'Vibrio vulnificus', 'Grimontia hollisae CIP 101886', 'Vibrio mimicus MB451', 'Vibrio campbellii ATCC BAA-1116', 'Vibrio diazotrophicus NBRC 103148', 'Plesiomonas shigelloides 302-73', 'Aggregatibacter actinomycetemcomitans HK1651', 'Actinobacillus pleuropneumoniae serovar 1 str. 4074', 'Actinobacillus suis H91-0380', 'Actinobacillus capsulatus DSM 19761', 'Actinobacillus equuli subsp. equuli', 'Actinobacillus ureae ATCC 25976', 'Haemophilus haemolyticus M21639', 'Haemophilus influenzae Rd KW20', 'Avibacterium paragallinarum 221', 'Haemophilus parainfluenzae T3T1', 'Histophilus somni 129PT', 'Aggregatibacter aphrophilus NJ8700', 'Haemophilus paraphrohaemolyticus HK411', 'Glaesserella parasuis ZJ0906', 'Aggregatibacter segnis ATCC 33393', 'Pasteurella multocida', 'Gallibacterium anatis UMN179', 'Pasteurella bettyae CCUG 2042', 'Pasteurella dagmatis ATCC 43325', 'Rodentibacter pneumotropicus', 'Anaplasma centrale str. Israel', 'Anaplasma marginale str. St. Maries', 'Bartonella bacilliformis KC583', 'Coxiella burnetii RSA 493', 'Ehrlichia ruminantium str. Welgevonden', 'Rickettsia conorii str. Malish 7', 'Rickettsia prowazekii str. Madrid E', 'Rickettsia rickettsii str. Iowa', 'Orientia tsutsugamushi str. Boryong', 'Rickettsia typhi str. Wilmington', 'Rickettsia akari str. Hartford', 'Rickettsia australis str. Cutlack', 'Rickettsia canadensis str. McKiel', 'Bartonella quintana str. Toulouse', 'Bartonella elizabethae F9251 = ATCC 49927', 'Chlamydia trachomatis D/UW-3/CX', 'Bacteroides fragilis 3_1_12', 'Bacteroides thetaiotaomicron VPI-5482', 'Bacteroides uniformis ATCC 8492', 'Bacteroides vulgatus ATCC 8482', 'Parabacteroides distasonis ATCC 8503', 'Campylobacter gracilis RM3268', 'Sebaldella termitidis ATCC 33386', 'Campylobacter ureolyticus', 'Butyrivibrio fibrisolvens ND3005', 'Fibrobacter succinogenes subsp. succinogenes S85', 'Porphyromonas gingivalis ATCC 33277', 'Prevotella ruminicola 23', 'Prevotella loescheii DSM 19665 = JCM 12249 = ATCC 15930', 'Wolinella succinogenes DSM 1740', 'Oxalobacter formigenes HOxBLS', 'Fusobacterium gonidiaformans ATCC 25563', 'Fusobacterium mortiferum ATCC 9817', 'Fusobacterium nucleatum subsp. nucleatum ATCC 25586', 'Fusobacterium perfoetens ATCC 29250', 'Faecalibacterium prausnitzii A2-165', 'Fusobacterium russii ATCC 25533', 'Fusobacterium varium ATCC 27725', 'Fusobacterium necrophorum subsp. funduliforme ATCC 51357', 'Fusobacterium periodonticum ATCC 33693', 'Fusobacterium ulcerans ATCC 49185', 'Syntrophomonas wolfei subsp. wolfei str. Goettingen G311', 'Dichelobacter nodosus VCS1703A', 'Desulfocurvibacter africanus subsp. africanus str. Walvis Bay', 'Desulfovibrio desulfuricans ND132', 'Desulfovibrio fructosivorans JJ', 'Desulfovibrio gigas DSM 1382 = ATCC 19364', 'Desulfovibrio salexigens DSM 2638', 'Desulfovibrio vulgaris str. Hildenborough', 'Thermodesulfobacterium thermophilum DSM 1276', 'Desulfovibrio longus DSM 6739', 'Desulfobulbus propionicus DSM 2032', 'Desulfococcus multivorans DSM 2059', 'Desulfomicrobium baculatum DSM 4028', 'Desulfovibrio piger ATCC 29098', 'Acidaminococcus fermentans DSM 20731', 'Megasphaera elsdenii DSM 20460', 'Nitrobacter hamburgensis X14', 'Nitrobacter winogradskyi Nb-255', 'Nitrosomonas europaea ATCC 19718', 'Nitrosomonas eutropha C91', 'Acidithiobacillus ferrooxidans ATCC 23270', 'Starkeya novella DSM 506', 'Thiomonas intermedia K12', 'Halothiobacillus neapolitanus c2', 'Thermithiobacillus tepidarius DSM 3134', 'Acidithiobacillus thiooxidans ATCC 19377', 'Thiobacillus thioparus DSM 505', 'Thiomicrospira pelophila DSM 1534', 'Hydrogenobacter thermophilus TK-6', 'Ehrlichia canis str. Jake', 'Ehrlichia chaffeensis str. Arkansas', 'Anaplasma phagocytophilum str. HZ', 'Neorickettsia risticii str. Illinois', 'Neorickettsia sennetsu str. Miyayama', 'Bdellovibrio bacteriovorus HD100', 'Herbaspirillum seropedicae SmR1', 'Selenomonas ruminantium AB3002', 'Cellulophaga lytica DSM 7489', 'Saccharicrinis fermentans DSM 9555 = JCM 21142', 'Pedobacter heparinus DSM 2366', 'Cytophaga hutchinsonii ATCC 33406', 'Flavobacterium johnsoniae UW101', 'Marinilabilia salmonicolor JCM 21150', 'Flavobacterium hydatis', 'Solitalea canadensis DSM 3403', 'Flavobacterium columnare ATCC 49512', 'Bernardetia litoralis DSM 6794', 'Marivirga tractuosa DSM 4126', 'Saprospira grandis str. Lewin', 'Weeksella virosa DSM 16922', 'Bergeyella zoohelcum ATCC 43767', 'Capnocytophaga gingivalis ATCC 33624', 'Capnocytophaga ochracea F0287', 'Capnocytophaga sputigena ATCC 33612', 'Beggiatoa alba B18LD', 'Microscilla marina ATCC 23134', 'Thiothrix nivea DSM 5205', 'Afipia clevelandensis ATCC 49720', 'Afipia felis ATCC 53690', 'Erythrobacter longus', 'Allochromatium vinosum DSM 180', 'Halorhodospira halochloris str. A', 'Halorhodospira halophila SL1', 'Rhodobacter capsulatus SB 1003', 'Rhodobacter sphaeroides 2.4.1', 'Rhodomicrobium vannielii ATCC 17100', 'Rhodopseudomonas palustris CGA009', 'Phaeospirillum fulvum MGU-K5', 'Phaeospirillum molischianum DSM 120', 'Pararhodospirillum photometricum DSM 122', 'Rhodospirillum rubrum ATCC 11170', 'Rhodovibrio salinarum DSM 9154', 'Chlorobium limicola DSM 245', 'Chlorobium phaeovibrioides DSM 265', 'Chlorobium phaeobacteroides DSM 266', 'Chlorobaculum tepidum TLS', 'Pelodictyon luteolum DSM 273', 'Prosthecochloris aestuarii DSM 271', 'Chloroflexus aurantiacus J-10-fl', 'Chlorogloeopsis fritschii PCC 6912', 'Microcystis aeruginosa NIES-843', 'Synechocystis sp. PCC 6714', 'Synechocystis sp. PCC 6803 substr. Kazusa', 'Planktothrix agardhii NIVA-CYA 126/8', 'Anabaena cylindrica PCC 7122', 'Leptolyngbya boryana PCC 6306', 'Tolypothrix sp. PCC 7601', 'Trichodesmium erythraeum IMS101', 'Prochlorococcus marinus str. AS9601', 'Prochlorothrix hollandica PCC 9006 = CALU 1027', 'Nitrosococcus oceani ATCC 19707', 'Nitrosospira multiformis ATCC 25196', 'Leuconostoc gelidum subsp. gasicomitatum LMG 18811', 'Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293', 'Leuconostoc lactis', 'Oenococcus oeni PSU-1', 'Weissella paramesenteroides ATCC 33313', 'Leuconostoc fallax KCTC 3537', 'Leuconostoc carnosum JB16', 'Pediococcus acidilactici DSM 20284', 'Pediococcus pentosaceus ATCC 25745', 'Finegoldia magna ATCC 53516', 'Peptostreptococcus anaerobius VPI 4330 = DSM 2949', 'Ruminococcus albus 8', 'Ruminococcus flavefaciens FD-1', 'Micrococcus luteus NCTC 2665', 'Dermacoccus nishinomiyaensis', 'Kytococcus sedentarius DSM 20547', 'Staphylococcus aureus subsp. aureus Mu50', 'Staphylococcus carnosus subsp. carnosus TM300', 'Staphylococcus epidermidis RP62A', 'Staphylococcus haemolyticus JCSC1435', 'Staphylococcus hyicus', 'Staphylococcus intermedius NCTC 11048', 'Staphylococcus simulans UMC-CNS-990', 'Staphylococcus xylosus', 'Staphylococcus hominis SK119', 'Staphylococcus warneri L37603', 'Staphylococcus sciuri subsp. sciuri Z8', 'Deinococcus radiodurans R1', 'Streptococcus gordonii str. Challis substr. CH1', 'Streptococcus oralis subsp. tigurinus AZ_3a', 'Streptococcus salivarius 57.I', 'Streptococcus sanguinis SK1057', 'Streptococcus suis R61', 'Streptococcus thermophilus LMG 18311', 'Streptococcus mutans UA159', 'Streptococcus sobrinus W1703', 'Streptococcus agalactiae LMG 14747', 'Streptococcus pneumoniae R6', 'Streptococcus pyogenes', 'Streptococcus downei F0415', 'Streptococcus parasanguinis ATCC 903', 'Blautia hansenii DSM 20583', 'Faecalicoccus pleomorphus DSM 20574', 'Streptococcus anginosus DORA_7', 'Streptococcus canis FSL Z3-227', 'Streptococcus criceti HS-6', 'Streptococcus dysgalactiae subsp. equisimilis AC-2713', 'Streptococcus equinus ATCC 9812', 'Streptococcus equi subsp. zooepidemicus', 'Streptococcus intermedius B196', 'Streptococcus macacae NCTC 11558', 'Streptococcus porcinus str. Jelinkova 176', 'Streptococcus ratti FA-1 = DSM 20564', 'Streptococcus vestibularis F0396', 'Streptococcus ferus DSM 20646', 'Streptococcus iniae', 'Streptococcus parauberis NCFD 2020', 'Streptococcus uberis 0140J', 'Enterococcus faecalis V583', 'Enterococcus faecium C68', 'Enterococcus gallinarum EG2', 'Enterococcus hirae ATCC 9790', 'Enterococcus columbae DSM 7374 = ATCC 51263', 'Enterococcus sulfureus ATCC 49903', 'Lactococcus lactis subsp. cremoris SK11', 'Lactococcus garvieae DCC43', 'Lactococcus piscium MKFS47', 'Lactococcus raffinolactis 4877', 'Aerococcus urinae ACS-120-V-Col10a', 'Aerococcus viridans ATCC 11563 = CCUG 4311', 'Gemella haemolysans M341', 'Atopobium minutum 10063974', 'Atopobium parvulum DSM 20469', 'Atopobium rimae ATCC 49626', 'Bacillus amyloliquefaciens Y2', 'Aneurinibacillus aneurinilyticus ATCC 12856', 'Bacillus anthracis str. Ames', 'Brevibacillus brevis X23', 'Bacillus cereus', 'Bacillus coagulans 36D1', 'Bacillus firmus DS1', 'Bacillus licheniformis DSM 13 = ATCC 14580', 'Bacillus megaterium QM B1551', 'Bacillus mycoides KBAB4', 'Paenibacillus polymyxa SC2', 'Bacillus psychrosaccharolyticus ATCC 23296', 'Bacillus pumilus SAFR-032', 'Bacillus sp. (in: Bacteria)', 'Bacillus akibai JCM 9157', 'Bacillus cellulosilyticus DSM 2522', 'Lysinibacillus sphaericus OT4b.31', 'Bacillus subtilis subsp. subtilis str. 168', 'Parageobacillus thermoglucosidasius C56-YS93', 'Bacillus thuringiensis serovar kurstaki', 'Bacillus alcalophilus ATCC 27647 = CGMCC 1.3604', 'Amphibacillus xylanus NBRC 15112', 'Alicyclobacillus acidoterrestris ATCC 49025', 'Bacillus atrophaeus 1942', 'Geobacillus kaustophilus HTA426', 'Paenibacillus larvae subsp. larvae DSM 25430', 'Brevibacillus laterosporus DSM 25', 'Bacillus methanolicus PB1', 'Peribacillus simplex BA2H3', 'Bacillus smithii 7_3_47FAA', 'Virgibacillus halodenitrificans 1806', 'Clostridium acetobutylicum ATCC 824', 'Paraclostridium bifermentans WYM', 'Clostridium botulinum A2 str. Kyoto', 'Clostridium butyricum E4 str. BoNT E BL5262', 'Clostridium cellulovorans 743B', 'Clostridioides difficile', 'Ruminiclostridium josui JCM 17888', 'Clostridium pasteurianum BC1', 'Clostridium perfringens ATCC 13124', 'Paeniclostridium sordellii VPI 9048', 'Clostridium sp. ATCC 29733', 'Clostridium sporogenes PA 3679', 'Thermoclostridium stercorarium subsp. stercorarium DSM 8532', 'Acetoanaerobium sticklandii', 'Clostridium tetani 12124569', 'Hungateiclostridium thermocellum ATCC 27405', 'Thermoanaerobacter thermohydrosulfuricus WC1', 'Thermoanaerobacterium thermosaccharolyticum DSM 571', 'Clostridium tyrobutyricum DSM 2637 = ATCC 25755 = JCM 11008', 'Clostridium beijerinckii NCIMB 8052', 'Ruminiclostridium cellulolyticum H10', 'Moorella thermoacetica ATCC 39073', 'Clostridium cadaveris AGR2141', 'Clostridium kluyveri DSM 555', 'Clostridium ljungdahlii DSM 13528', 'Clostridioides mangenotii TR', 'Clostridium novyi B str. NCTC 9691', 'Erysipelatoclostridium ramosum DSM 1402', 'Clostridium scatologenes', 'Clostridium tetanomorphum DSM 665', 'Gottschalkia acidurici 9a', 'Peptoclostridium litorale DSM 5388', 'Clostridium baratii str. Sullivan', 'Desulfosporosinus orientis DSM 765', 'Desulfotomaculum ruminis DSM 2154', 'Desulfotomaculum nigrificans DSM 574', 'Halobacillus halophilus DSM 2266', 'Sporosarcina ureae DSM 2281', 'Leifsonia xyli subsp. cynodontis DSM 46306', 'Lactobacillus acidophilus 30SC', 'Lactobacillus brevis ATCC 367', 'Lactobacillus buchneri ATCC 11577', 'Lactobacillus casei BL23', 'Weissella confusa LBAE C39-2', 'Lactobacillus delbrueckii subsp. bulgaricus 2038', 'Lactobacillus helveticus CNRZ32', 'Lactobacillus hilgardii DSM 20176 = ATCC 8290', 'Lactobacillus pentosus KCA1', 'Lactobacillus plantarum WCFS1', 'Lactobacillus gasseri ATCC 33323 = JCM 1131', 'Lactobacillus paracasei subsp. paracasei ATCC 25302', 'Lactobacillus reuteri 100-23', 'Lactobacillus sakei subsp. sakei 23K', 'Lactobacillus amylovorus GRL 1112', 'Lactobacillus animalis', 'Lactobacillus coryniformis subsp. coryniformis KCTC 3167 = DSM 20001', 'Lactobacillus farciminis KCTC 3681 = DSM 20184', 'Lactobacillus fermentum IFO 3956', 'Lactobacillus fructivorans KCTC 3543 = DSM 20203', 'Weissella halotolerans DSM 20190', 'Lactobacillus murinus ASF361', 'Lactobacillus ruminis ATCC 27782', 'Lactobacillus salivarius UCC118', 'Lactobacillus sanfranciscensis TMW 1.1304', 'Kandleria vitulina MC3001', 'Fructobacillus fructosus KCTC 3544', 'Lactobacillus oris F0423', 'Lactobacillus vaginalis DSM 5837 = ATCC 49540', 'Listeria ivanovii subsp. londoniensis', 'Listeria monocytogenes EGD-e', 'Listeria seeligeri serovar 1/2b str. SLCC3954', 'Listeria grayi DSM 20601', 'Listeria innocua Clip11262', 'Listeria welshimeri serovar 6b str. SLCC5334', 'Renibacterium salmoninarum ATCC 33209', 'Erysipelothrix rhusiopathiae str. Fujisawa', 'Alloiococcus otitis ATCC 51267', 'Actinomyces naeslundii str. Howell 279', 'Actinomyces viscosus C505', 'Actinomyces israelii DSM 43320', 'Schaalia odontolytica ATCC 17982', 'Trueperella pyogenes TP8', 'Arthrobacter globiformis NBRC 12137', 'Bifidobacterium adolescentis', 'Bifidobacterium bifidum NCIMB 41171', 'Bifidobacterium angulatum DSM 20098 = JCM 7096', 'Bifidobacterium asteroides PRL2011', 'Bifidobacterium breve UCC2003', 'Bifidobacterium catenulatum DSM 16992 = JCM 1194 = LMG 11043', 'Bifidobacterium coryneforme', 'Bifidobacterium cuniculi', 'Bifidobacterium dentium Bd1', 'Bifidobacterium indicum LMG 11587 = DSM 20214', 'Bifidobacterium magnum', 'Bifidobacterium minimum', 'Bifidobacterium pseudolongum subsp. globosum', 'Corynebacterium ammoniagenes DSM 20306', 'Brevibacterium linens BL2', 'Cellulomonas fimi ATCC 484', 'Cellulosimicrobium cellulans J36', 'Cellulomonas flavigena DSM 20109', 'Oerskovia turbata', 'Corynebacterium diphtheriae PW8', 'Corynebacterium glutamicum', 'Corynebacterium pseudotuberculosis', 'Corynebacterium callunae DSM 20147', 'Corynebacterium variabile DSM 44702', 'Peptoclostridium acidaminophilum DSM 3953', 'Holdemanella biformis DSM 3989', 'Eubacterium limosum KIST612', 'Thermodesulfobacterium commune DSM 2178', 'Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1', 'Cutibacterium acnes KPA171202', 'Acidipropionibacterium acidipropionici ATCC 4875', 'Acidipropionibacterium jensenii DSM 20535', 'Pseudopropionibacterium propionicum F0230a', 'Acidipropionibacterium thoenii DSM 20276', 'Mycobacterium avium subsp. avium', 'Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841', 'Mycobacterium intracellulare ATCC 13950', 'Mycobacterium kansasii 732', 'Mycobacterium leprae TN', 'Mycolicibacterium phlei RIVM601174', 'Mycolicibacterium smegmatis MC2 155', 'Mycobacterium tuberculosis H37Rv', 'Mycobacteroides chelonae', 'Mycobacterium marinum M', 'Mycobacterium asiaticum DSM 44297', 'Mycolicibacterium neoaurum VKM Ac-1815D', 'Mycolicibacterium thermoresistibile ATCC 19527', 'Mycolicibacterium chubuense NBB4', 'Mycolicibacterium farcinogenes', 'Mycolicibacterium gilvum PYR-GCK', 'Mycobacterium ulcerans Agy99', 'Mycolicibacterium vaccae ATCC 25954', 'Amycolatopsis methanolica 239', 'Nocardia otitidiscaviarum NBRC 14405', 'Nocardia asteroides NBRC 15531', 'Rhodococcus fascians', 'Rhodococcus rhodochrous ATCC 21198', 'Rhodococcus ruber Chol-4', 'Rhodococcus erythropolis PR4', 'Saccharopolyspora erythraea NRRL 2338', 'Actinopolyspora halophila DSM 43834', 'Saccharomonospora viridis DSM 43017', 'Frankia alni ACN14a', 'Geodermatophilus obscurus DSM 43160', 'Actinoplanes missouriensis 431', 'Actinoplanes utahensis', 'Streptomyces albus subsp. albus', 'Kitasatospora aureofaciens', 'Streptomyces bikiniensis', 'Streptomyces coelicolor A3(2)', 'Streptomyces fradiae', 'Streptomyces glaucescens', 'Streptomyces griseus subsp. griseus NBRC 13350', 'Streptomyces hygroscopicus subsp. jinggangensis 5008', 'Streptomyces lividans 1326', 'Streptomyces scabiei 87.22', 'Streptomyces viridochromogenes DSM 40736', 'Streptomyces halstedii', 'Streptomyces purpureus KA281', 'Streptomyces sclerotialus', 'Streptomyces virginiae', 'Streptomyces cellulosae', 'Streptomyces chartreusis NRRL 12338', 'Actinomadura atramentaria DSM 43919', 'Actinomadura madurae LIID-AJ290', 'Microtetraspora glauca', 'Streptosporangium roseum DSM 43021', 'Streptosporangium amethystogenes', 'Thermobispora bispora DSM 43833', 'Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111', 'Nocardiopsis prasina DSM 43845', 'Thermomonospora curvata DSM 43183', 'Thermobifida fusca YX', 'Microbacterium testaceum StLB037', 'Curtobacterium flaccumfaciens UCD-AKU', 'Tropheryma whipplei str. Twist', 'Pimelobacter simplex', 'Rothia dentocariosa ATCC 17931', 'Mobiluncus curtisii ATCC 43063', 'Mobiluncus mulieris 28-1', 'Gordonia bronchialis DSM 43247', 'Gordonia terrae', 'Sphaerobacter thermophilus DSM 20745', 'Tsukamurella paurometabola DSM 20162', 'Kitasatospora setae KM-6054', 'Pseudonocardia autotrophica', 'Mycoplasma arginini 7264', 'Mycoplasma capricolum subsp. capricolum ATCC 27343', 'Mycoplasma gallisepticum', 'Mycoplasma genitalium G37', 'Mycoplasma hominis', 'Mycoplasma hyopneumoniae J', 'Mycoplasma hyorhinis SK76', 'Mycoplasma mycoides subsp. mycoides SC str. PG1', 'Mycoplasma pneumoniae', 'Mycoplasma leachii PG50', 'Mycoplasma pulmonis', 'Mycoplasma synoviae 53', 'Mycoplasma agalactiae PG2', 'Mycoplasma arthritidis 158L3-1', 'Mycoplasma bovigenitalium 51080', 'Mycoplasmopsis californica', 'Mycoplasma fermentans PG18', 'Mycoplasma iowae 695', 'Mycoplasma mobile', 'Mycoplasma putrefaciens Mput9231', 'Mycoplasma flocculare ATCC 27399', 'Ureaplasma urealyticum serovar 7 str. ATCC 27819', 'Spiroplasma melliferum IPMB4A', 'Spiroplasma apis B31', 'Spiroplasma mirum ATCC 29335', 'Spiroplasma taiwanense CT-1', 'Acholeplasma laidlawii PG-8A', 'Acholeplasma modicum ATCC 29102', 'Mesoplasma florum L1', 'Methanobrevibacter smithii ATCC 35061', 'Methanohalophilus mahii DSM 5219', 'Methanothermus fervidus DSM 2088', 'Methanothermococcus thermolithotrophicus DSM 2095', 'Methanococcus vannielii SB', 'Methanococcus voltae A3', 'Methanotorris igneus Kol 5', 'Methanocaldococcus jannaschii DSM 2661', 'Methanoculleus marisnigri JR1', 'Methanofollis liminatans DSM 4140', 'Methanospirillum hungatei JF-1', 'Methanomicrobium mobile BP', 'Methanosarcina barkeri str. Fusaro', 'Methanosarcina mazei Go1', 'Methanosarcina thermophila TM-1', 'Methanosarcina acetivorans C2A', 'Methanosarcina vacuolata Z-761', 'Methanothrix soehngenii GP6', 'Methanothrix thermoacetophila PT', 'Methanococcoides methylutens MM1', 'Archaeoglobus fulgidus DSM 4304', 'Haloarcula marismortui ATCC 43049', 'Halobacterium salinarum NRC-1', 'Haloferax volcanii DS2', 'Halorubrum lacusprofundi ATCC 49239', 'Halorubrum saccharovorum DSM 1137', 'Halococcus morrhuae DSM 1307', 'Haloferax mediterranei ATCC 33500', 'Natronomonas pharaonis DSM 2160', 'Pyrococcus furiosus DSM 3638', 'Thermococcus litoralis DSM 5473', 'Thermofilum pendens Hrk 5', 'Thermoproteus tenax Kra 1', 'Desulfurococcus mucosus DSM 2162', 'Pyrobaculum islandicum DSM 4184', 'Staphylothermus marinus F1', 'Sulfolobus acidocaldarius DSM 639', 'Saccharolobus solfataricus P2', 'Desulfobacter curvatus DSM 3379', 'Desulfobacter postgatei 2ac9', 'Desulfobacterium autotrophicum HRM2', 'Thermoplasma acidophilum DSM 1728', 'Methanoplanus limicola DSM 2279', 'Methanosphaera stadtmanae DSM 3091', 'Methanopyrus kandleri AV19', 'Methanohalobium evestigatum Z-7303', 'Thermoanaerobacter kivui', 'Halanaerobium praevalens DSM 2228', 'Thermotoga maritima MSB8', 'Thermotoga neapolitana DSM 4359', 'Solemya velum gill symbiont', 'Haliscomenobacter hydrossis DSM 1100', 'Flexistipes sinusarabici DSM 4947', 'Desulfomonile tiedjei DSM 6799', 'Xylella fastidiosa 9a5c', 'Acetonema longum DSM 6540', 'Sporomusa ovata DSM 2662', 'Thermosipho africanus TCF52B', 'Fervidobacterium islandicum', 'Fervidobacterium nodosum Rt17-B1', 'Teredinibacter turnerae T7901', 'Roseobacter denitrificans OCh 114', 'Gardnerella vaginalis 6119V5', 'Citrus sinensis', 'Cardiobacterium hominis ATCC 15826', 'Hirschia baltica ATCC 49814', 'Symbiobacterium thermophilum IAM 14863', 'Verrucomicrobium spinosum DSM 4136 = JCM 18804', 'Marinobacter hydrocarbonoclasticus VT8', 'Halomonas elongata DSM 2581', 'Carnobacterium divergens DSM 20623', 'Carnobacterium gallinarum DSM 4847', 'Carnobacterium mobile DSM 4848', 'Carnobacterium maltaromaticum LMA28', 'Carnobacterium funditum DSM 5970', 'Synergistes jonesii', 'Chondrus crispus', 'Phaeodactylum tricornutum', 'Ectocarpus siliculosus', 'Cryptomonas paramecium', 'Emiliania huxleyi', 'Symbiodinium microadriaticum', 'Chlamydomonas reinhardtii', 'Volvox carteri', 'Auxenochlorella protothecoides', 'Marchantia polymorpha', 'Physcomitrium patens', 'Cannabis sativa', 'Actinidia chinensis var. chinensis', 'Theobroma cacao', 'Carica papaya', 'Citrullus lanatus', 'Cucumis melo', 'Cucumis sativus', 'Populus trichocarpa', 'Arabidopsis thaliana', 'Brassica napus', 'Brassica rapa', 'Brassica oleracea', 'Malus domestica', 'Prunus dulcis', 'Prunus persica', 'Cajanus cajan', 'Cicer arietinum', 'Glycine max', 'Glycine soja', 'Lupinus angustifolius', 'Medicago truncatula', 'Phaseolus vulgaris', 'Vigna angularis', 'Manihot esculenta', 'Ricinus communis', 'Linum usitatissimum', 'Daucus carota subsp. sativus', 'Capsicum annuum', 'Solanum lycopersicum', 'Nicotiana sylvestris', 'Nicotiana tabacum', 'Nicotiana tomentosiformis', 'Nicotiana benthamiana', 'Solanum commersonii', 'Solanum tuberosum', 'Olea europaea', 'Erythranthe guttata', 'Sesamum indicum', 'Helianthus annuus', 'Cynara cardunculus var. scolymus', 'Nelumbo nucifera', 'Hordeum vulgare', 'Oryza longistaminata', 'Oryza rufipogon', 'Oryza sativa Japonica Group', 'Oryza brachyantha', 'Oryza nivara', 'Oryza punctata', 'Oryza glaberrima', 'Setaria italica', 'Setaria viridis', 'Sorghum bicolor', 'Triticum aestivum', 'Triticum turgidum subsp. durum', 'Triticum urartu', 'Zea mays', 'Ananas comosus', 'Musa acuminata', 'Pneumocystis carinii', 'Plasmopara halstedii', 'Phytophthora infestans', 'Phytophthora nicotianae', 'Phytophthora parasitica', 'Phytophthora megakarya', 'Phytophthora palmivora var. palmivora', 'Phycomyces blakesleeanus', 'Schizosaccharomyces pombe 972h-', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces octosporus', 'Cyberlindnera jadinii', 'Pichia kudriavzevii', 'Kluyveromyces marxianus DMKU3-1042', 'Lachancea waltii', 'Pachysolen tannophilus NRRL Y-2460', 'Millerozyma farinosa', 'Komagataella pastoris', 'Scheffersomyces stipitis', 'Pichia membranifaciens NRRL Y-2026', 'Wickerhamomyces anomalus', 'Meyerozyma guilliermondii', 'Saccharomyces bayanus', 'Saccharomyces cerevisiae S288C', 'Lachancea kluyveri', 'Torulaspora delbrueckii CBS 1146', 'Yarrowia lipolytica CLIB122', 'Zygosaccharomyces bailii CLIB 213', 'Lachancea fermentati', 'Zygosaccharomyces rouxii', 'Debaryomyces hansenii', 'Kockovaella imperatae', 'Brettanomyces bruxellensis', 'Taphrina deformans PYCC 5710', 'Bipolaris maydis', 'Bipolaris zeicola', 'Leptosphaeria maculans', 'Histoplasma capsulatum', 'Blastomyces dermatitidis', 'Acremonium chrysogenum ATCC 11550', 'Aspergillus aculeatus', 'Aspergillus clavatus', 'Aspergillus flavus', 'Aspergillus niger', 'Aspergillus oryzae', 'Penicillium camemberti', 'Penicillium chrysogenum', 'Penicillium roqueforti', 'Amorphotheca resinae ATCC 22711', 'Ascosphaera apis ARSEF 7405', 'Claviceps purpurea 20.1', 'Epichloe typhina E8', 'Cryphonectria parasitica', 'Fusarium fujikuroi', 'Neurospora crassa OR74A', 'Sordaria macrospora k-hell', 'Ophiostoma ulmi', 'Sclerotinia sclerotiorum 1980 UF-70', 'Cryptococcus neoformans var. neoformans JEC21', 'Cryptococcus depauperatus CBS 7841', 'Tremella mesenterica', 'Exidia glandulosa HHB12029', 'Ustilago maydis 521', 'Microbotryum violaceum', 'Tilletiaria anomala UBC 951', 'Rhodotorula toruloides', 'Puccinia graminis f. sp. tritici CRL 75-36-700-3', 'Phanerochaete chrysosporium', 'Pleurotus ostreatus var. ostreatus', 'Trametes versicolor FP-101664 SS1', 'Schizophyllum commune', 'Agaricus bisporus', 'Coprinopsis cinerea', 'Lentinula edodes', 'Suillus luteus UH-Slu-Lm8-n1', 'Ascochyta rabiei', 'Colletotrichum orbiculare', 'Candida albicans SC5314', 'Candida maltosa', 'Candida parapsilosis', 'Diutina rugosa', 'Candida tropicalis', 'Coccidioides immitis', 'Fusarium oxysporum', 'Fusarium culmorum CS7071', 'Fusarium graminearum', 'Metarhizium anisopliae ARSEF 549', 'Rhodotorula glutinis', 'Trichoderma harzianum', 'Trichoderma longibrachiatum ATCC 18648', 'Trichophyton rubrum', 'Aureobasidium pullulans EXF-150', 'Alternaria alternata', 'Phialophora americana', 'Saitoella complicata NRRL Y-17804', 'Cryptococcus wingfieldii CBS 7118', 'Grifola frondosa', 'Laetiporus sulphureus 93-53', 'Trametes cinnabarina', 'Leishmania braziliensis MHOM/BR/75/M2904', 'Leishmania donovani BPK282A1', 'Leishmania major', 'Leishmania mexicana MHOM/GT/2001/U1103', 'Leishmania infantum JPCM5', 'Leishmania panamensis', 'Leptomonas seymouri', 'Leishmania tarentolae', 'Trypanosoma brucei brucei', 'Trypanosoma cruzi', 'Trypanosoma equiperdum', 'Trypanosoma rangeli SC58', 'Trichomonas vaginalis', 'Giardia lamblia ATCC 50803', 'Acanthamoeba castellanii str. Neff', 'Entamoeba histolytica', 'Naegleria gruberi', 'Dictyostelium purpureum', 'Eimeria acervulina', 'Eimeria tenella', 'Eimeria maxima', 'Cryptosporidium parvum Iowa II', 'Cryptosporidium muris', 'Toxoplasma gondii ME49', 'Plasmodium berghei', 'Plasmodium chabaudi', 'Plasmodium cynomolgi strain B', 'Plasmodium falciparum 3D7', 'Plasmodium gallinaceum', 'Plasmodium knowlesi strain H', 'Plasmodium reichenowi', 'Plasmodium vivax Sal-1', 'Plasmodium fragile', 'Plasmodium malariae', 'Plasmodium vinckei', 'Plasmodium yoelii yoelii', 'Babesia bovis T2Bo', 'Babesia bigemina', 'Theileria equi', 'Theileria annulata', 'Theileria parva', 'Paramecium tetraurelia', 'Tetrahymena thermophila', 'Ichthyophthirius multifiliis', 'Stylonychia lemnae', 'Stentor coeruleus', 'Exophiala dermatitidis', 'Encephalitozoon cuniculi', 'Hydra vulgaris', 'Schistosoma japonicum', 'Schistosoma mansoni', 'Schistosoma haematobium', 'Echinococcus multilocularis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Ascaris suum', 'Brugia malayi', 'Onchocerca volvulus', 'Meloidogyne hapla', 'Bursaphelenchus xylophilus', 'Trichinella spiralis', 'Helobdella robusta', 'Aplysia californica', 'Biomphalaria glabrata', 'Crassostrea virginica', 'Mizuhopecten yessoensis', 'Daphnia pulex', 'Tigriopus californicus', 'Ixodes scapularis', 'Blattella germanica', 'Acyrthosiphon pisum', 'Bemisia tabaci', 'Tribolium castaneum', 'Bombyx mori', 'Aedes aegypti', 'Aedes albopictus', 'Anopheles gambiae', 'Anopheles albimanus', 'Anopheles dirus', 'Anopheles arabiensis', 'Culex pipiens', 'Culex quinquefasciatus', 'Lutzomyia longipalpis', 'Loa loa', 'Ceratitis capitata', 'Drosophila ananassae', 'Drosophila erecta', 'Drosophila grimshawi', 'Drosophila melanogaster', 'Drosophila mojavensis', 'Drosophila persimilis', 'Drosophila pseudoobscura pseudoobscura', 'Drosophila sechellia', 'Drosophila simulans', 'Drosophila virilis', 'Drosophila yakuba', 'Drosophila willistoni', 'Drosophila saltans', 'Musca domestica', 'Lucilia cuprina', 'Glossina morsitans morsitans', 'Glossina austeni', 'Glossina fuscipes fuscipes', 'Glossina palpalis gambiensis', 'Glossina pallidipes', 'Nasonia vitripennis', 'Apis mellifera', 'Lingula anatina', 'Strongylocentrotus purpuratus', 'Ciona intestinalis', 'Branchiostoma floridae', 'Branchiostoma lanceolatum', 'Petromyzon marinus', 'Eptatretus burgeri', 'Callorhinchus milii', 'Latimeria chalumnae', 'Lepisosteus oculatus', 'Clupea harengus', 'Danio rerio', 'Carassius auratus', 'Cyprinus carpio', 'Astyanax mexicanus', 'Ictalurus punctatus', 'Electrophorus electricus', 'Esox lucius', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Salmo salar', 'Salmo trutta', 'Gadus morhua', 'Fundulus heteroclitus', 'Poecilia reticulata', 'Xiphophorus maculatus', 'Oryzias latipes', 'Cyclopterus lumpus', 'Oreochromis niloticus', 'Haplochromis burtoni', 'Astatotilapia calliptera', 'Sparus aurata', 'Lates calcarifer', 'Xenopus tropicalis', 'Chelonia mydas', 'Chelydra serpentina', 'Chrysemys picta', 'Alligator mississippiensis', 'Crocodylus porosus', 'Sphenodon punctatus', 'Laticauda laticaudata', 'Notechis scutatus', 'Pseudonaja textilis', 'Dromaius novaehollandiae', 'Struthio camelus', 'Apteryx haastii', 'Apteryx owenii', 'Anas platyrhynchos', 'Anser cygnoides', 'Cairina moschata domestica', 'Chaetura pelagica', 'Columba livia', 'Falco peregrinus', 'Aquila chrysaetos chrysaetos', 'Haliaeetus albicilla', 'Numida meleagris', 'Gallus gallus', 'Pavo cristatus', 'Phasianus colchicus', 'Chrysolophus pictus', 'Meleagris gallopavo', 'Serinus canaria', 'Parus major', 'Phalacrocorax carbo', 'Phoenicopterus ruber ruber', 'Aptenodytes forsteri', 'Pygoscelis adeliae', 'Calypte anna', 'Ornithorhynchus anatinus', 'Sarcophilus harrisii', 'Notamacropus eugenii', 'Choloepus hoffmanni', 'Dasypus novemcinctus', 'Erinaceus europaeus', 'Echinops telfairi', 'Pteropus alecto', 'Callithrix jacchus', 'Cercocebus atys', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Papio anubis', 'Theropithecus gelada', 'Mandrillus leucophaeus', 'Gorilla gorilla gorilla', 'Pan paniscus', 'Pan troglodytes', 'Pongo abelii', 'Homo sapiens', 'Canis lupus familiaris', 'Vulpes vulpes', 'Ursus thibetanus thibetanus', 'Ursus americanus', 'Ailuropoda melanoleuca', 'Mustela putorius', 'Felis catus', 'Panthera leo', 'Panthera onca', 'Panthera pardus', 'Panthera tigris', 'Zalophus californianus', 'Odobenus rosmarus', 'Leptonychotes weddellii', 'Orcinus orca', 'Tursiops truncatus', 'Delphinapterus leucas', 'Physeter catodon', 'Balaenoptera acutorostrata', 'Balaenoptera musculus', 'Trichechus manatus', 'Loxodonta africana', 'Equus asinus asinus', 'Equus caballus', 'Procavia capensis', 'Orycteropus afer', 'Sus scrofa', 'Camelus dromedarius', 'Bison bison bison', 'Bos taurus', 'Capra hircus', 'Ovis aries', 'Ochotona princeps', 'Oryctolagus cuniculus', 'Marmota marmota marmota', 'Urocitellus parryii', 'Dipodomys ordii', 'Cricetulus griseus', 'Mesocricetus auratus', 'Peromyscus maniculatus', 'Meriones unguiculatus', 'Mus caroli', 'Mus musculus', 'Mus pahari', 'Mus spretus', 'Mus spicilegus', 'Rattus norvegicus', 'Cavia porcellus', 'Octodon degus', 'Heterocephalus glaber', 'Saccoglossus kowalevskii', 'Trichoplax adhaerens', 'Sagitta elegans', 'Atta cephalotes', 'Blastocystis hominis', 'Danaus plexippus', 'Lynx lynx', 'Melopsittacus undulatus', 'Myzus persicae', 'Rhodnius prolixus', 'Tilletia caries', 'Tilletia controversa', 'Amborella trichopoda', 'Anaerobiospirillum succiniciproducens DSM 6400', 'Arthrobotrys oligospora ATCC 24927', 'Burkholderia mallei ATCC 23344', 'Dicentrarchus labrax', 'Monodelphis domestica', 'Parastagonospora nodorum SN15', 'Solenopsis invicta', 'Sphingomonas paucimobilis', 'Sphingobium yanoikuyae', 'Syncephalastrum racemosum', 'Pelodiscus sinensis', 'Utricularia gibba', 'Natrialba magadii ATCC 43099', 'Pyrobaculum aerophilum str. IM2', 'Brachypodium distachyon', 'Naumovozyma castellii', 'Naumovozyma dairenensis CBS 421', 'Saccharomyces paradoxus', 'Saccharomyces pastorianus Weihenstephan 34/70', 'Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993', 'Penicillium expansum', 'Verticillium dahliae VdLs.17', 'Schizopora paradoxa', 'Puccinia coronata var. avenae f. sp. avenae', 'Puccinia sorghi', 'Puccinia striiformis', 'Saimiri boliviensis', 'Erpetoichthys calabaricus', 'Mnemiopsis leidyi', 'Encephalitozoon hellem ATCC 50504', 'Nosema bombycis CQ1', 'Strigomonas culicis', 'Bifidobacterium animalis subsp. lactis BB-12', 'Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505', 'Lysinibacillus fusiformis ZC1', 'Staphylococcus lugdunensis HKU09-01', 'Streptococcus mitis B6', 'Lactobacillus curvatus CRL 705', 'Saccharopolyspora rectivirgula', 'Acidothermus cellulolyticus 11B', 'Lachnospira multipara ATCC 19207', 'Rubrivivax gelatinosus IL144', 'Nostoc sp. PCC 7524', 'Campylobacter upsaliensis RM3195', 'Legionella anisa str. Linanisette', 'Legionella sainthelensi ATCC 35248 = DSM 19231', 'Acinetobacter lwoffii SH145', 'Neisseria weaveri LMG 5135', 'Burkholderia gladioli BSR3', 'Mesorhizobium huakuii 7653R', "Alteromonas macleodii str. 'Black Sea 11'", 'Francisella philomiragia subsp. philomiragia ATCC 25017', 'Bacteroides eggerthii DSM 20697', 'Tannerella forsythia 92A2', 'Porphyromonas levii DSM 23370', 'Porphyromonas macacae', 'Bacteroides ovatus ATCC 8483', 'Alistipes putredinis DSM 17216', 'Odoribacter splanchnicus DSM 20712', 'Porphyromonas asaccharolytica DSM 20707', 'Porphyromonas endodontalis ATCC 35406', 'Prevotella bivia DNF00188', 'Prevotella buccae ATCC 33574', 'Prevotella buccalis ATCC 35310', 'Prevotella corporis DSM 18810 = JCM 8529', 'Prevotella denticola F0289', 'Prevotella disiens JCM 6334 = ATCC 29426', 'Prevotella intermedia 17', 'Prevotella melaninogenica ATCC 25845', 'Prevotella nigrescens ATCC 33563', 'Prevotella oralis ATCC 33269', 'Prevotella oris C735', 'Prevotella oulorum JCM 14966', 'Prevotella veroralis F0319', 'Rikenella microfusus DSM 15922', 'Cronobacter sakazakii ATCC BAA-894', 'Serratia proteamaculans 568', 'Yersinia kristensenii', 'Vibrio metschnikovii CIP 69.14', 'Vibrio nigripulchritudo SOn1', 'Vibrio orientalis CIP 102891 = ATCC 33934', 'Candidatus Photodesmus katoptron', 'Acetohalobium arabaticum DSM 5501', 'Capnocytophaga canimorsus Cc5', 'Capnocytophaga cynodegmi DSM 19736', 'Arcobacter butzleri RM4018', 'Arcobacter nitrofigilis DSM 7299', 'Sphingomonas parapaucimobilis NBRC 15100', 'Desulfobacula toluolica Tol2', 'Mycoplasma penetrans', 'Colwellia psychrerythraea', 'Carnobacterium alterfunditum DSM 5972', 'Geobacter metallireducens GS-15', 'Ornithobacterium rhinotracheale DSM 15997', 'Cobetia marina', 'Thermodesulfovibrio yellowstonii DSM 11347', 'Arcanobacterium haemolyticum DSM 20595', 'Anolis carolinensis', 'Herbidospora cretacea', 'Clavibacter michiganensis subsp. sepedonicus', 'Komagataeibacter xylinus E25', 'Neisseria subflava NJ9703', 'Burkholderia pseudomallei K96243', 'Tarenaya hassleriana', 'Talaromyces stipitatus ATCC 10500', 'Talaromyces islandicus', 'Allomyces macrogynus', 'Elephantulus edwardii', 'Cyprinodon variegatus', 'Thermoanaerobacterium saccharolyticum JW/SL-YS485', 'Salmonella enterica subsp. enterica serovar Typhimurium str. LT2', 'Mycoplasma bovis PG45', 'Kluyveromyces lactis', 'Alternaria brassicicola', 'Drosophila eugracilis', 'Drosophila takahashii', 'Phlebotomus papatasi', 'Panthera uncia', 'Ursus maritimus', 'Eptesicus fuscus', 'Vombatus ursinus', 'Mytilus galloprovincialis', 'Crassostrea gigas', 'Neospora caninum', 'Haloarcula japonica DSM 6131', 'Natronococcus occultus SP4', 'Methanococcoides burtonii DSM 6242', 'Pyrococcus abyssi GE5', 'Streptomyces cattleya NRRL 8057 = DSM 46488', 'Streptomyces griseoluteus', 'Paenarthrobacter nicotinovorans 231Sha2.1M6', 'Corynebacterium otitidis ATCC 51513', 'Thermoanaerobacter brockii subsp. finnii Ako-1', 'Thermoanaerobacterium xylanolyticum LX-11', 'Ruminiclostridium cellobioparum subsp. termitidis CT1112', 'Cellulosilyticum lentocellum DSM 5427', 'Tyzzerella nexilis DSM 1787', 'Ruminiclostridium papyrosolvens DSM 2782', 'Clostridium paraputrificum AGR2156', 'Staphylococcus caprae M23864:W1', 'Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292', 'Staphylococcus capitis C87', 'Gemella morbillorum M424', 'Dolosigranulum pigrum ATCC 51524', 'Microlunatus phosphovorus NM-1', 'Helicobacter canis NCTC 12740', 'Legionella oakridgensis ATCC 33761 = DSM 21215', 'Acinetobacter haemolyticus MTCC 9819', 'Psychrobacter phenylpyruvicus DSM 7000 = NBRC 102152', 'Pseudomonas savastanoi pv. phaseolicola 1448A', 'Xanthomonas albilineans GPE PC73', 'Bradyrhizobium elkanii WSM2783', 'Rhizobium etli CIAT 652', 'Rhizobium leucaenae USDA 9039', 'Brucella melitensis bv. 1 str. 16M', 'Brucella neotomae 5K33', 'Brucella suis 1330', 'Veillonella parvula DSM 2008', 'Pectobacterium atrosepticum SCRI1043', 'Yersinia aldovae ATCC 35236', 'Yersinia frederiksenii ATCC 33641', 'Yersinia rohdei', 'Yersinia ruckeri', 'Vibrio furnissii NCTC 11218', 'Vibrio navarrensis', 'Vibrio splendidus ZS-139', 'Vibrio tubiashii ATCC 19109', 'Mycoplasma haemofelis Ohio2', 'Turneriella parva DSM 21527', 'Borreliella afzelii PKo', 'Borreliella garinii BgVir', 'Borrelia crocidurae DOU', 'Cytophaga aurantiaca DSM 3654', 'Flavobacterium succinicans LMG 10402', 'Pelobacter propionicus DSM 2379', 'Lawsonia intracellularis PHE/MN1-00', 'Rhodothermus marinus DSM 4252', 'Acholeplasma axanthum ATCC 25176', 'Mycoplasma canadense', 'Mycoplasma canis PG 14', 'Mycoplasma meleagridis', 'Mycoplasma ovipneumoniae 14811', 'Taylorella equigenitalis MCE9', 'Janthinobacterium lividum', 'Dioscorea cayenensis subsp. rotundata', 'Gossypium raimondii', 'Vitis vinifera', 'Lipomyces starkeyi NRRL Y-11557', 'Lachancea cidri', 'Hanseniaspora uvarum DSM 2768', 'Penicillium vulpinum', 'Gaeumannomyces graminis', 'Trichoderma virens', 'Neurospora discreta FGSC 8579', 'Laccaria bicolor', 'Calocera cornea HHB12733', 'Rhodotorula graminis WP1', 'Sporothrix schenckii', 'Tolypocladium inflatum', 'Phytophthora cactorum', 'Drosophila elegans', 'Drosophila emarginata', 'Drosophila ficusphila', 'Drosophila kikkawai', 'Drosophila neocordata', 'Drosophila prosaltans', 'Drosophila sturtevanti', 'Anopheles merus', 'Anopheles stephensi', 'Bombus terrestris', 'Opisthocomus hoazin', 'Fulmarus glacialis', 'Bubo bubo', 'Nothoprocta perdicaria', 'Tinamus major', 'Bos grunniens', 'Bos indicus x Bos taurus', 'Vicugna pacos', 'Microcebus murinus', 'Otolemur garnettii', 'Oryzias melastigma', 'Takifugu rubripes', 'Caenorhabditis remanei', 'Perkinsus marinus ATCC 50983', 'Enterocytozoon bieneusi H348', 'Colletotrichum graminicola M1.001', 'Caldicellulosiruptor bescii DSM 6725', 'Halothermothrix orenii H 168', 'Amycolatopsis orientalis DSM 40040 = KCTC 9412', 'Amycolatopsis lurida NRRL 2430', 'Absiella dolichum DSM 3991', 'Eggerthia catenaformis OT 569 = DSM 20559', 'Methylobacterium radiotolerans JCM 2831', 'Helicobacter hepaticus ATCC 51449', 'Synechococcus elongatus', 'Synechococcus sp. PCC 7002', 'Synechococcus sp. WH 7803', 'Calothrix sp. PCC 6303', 'Calothrix sp. PCC 7103', 'Tetranychus urticae', 'Xiphophorus couchianus', 'Neolamprologus brichardi', 'Desulfurella acetivorans A63', 'Winkia neuii subsp. neuii DSM 8576', 'Cutibacterium avidum 44067', 'Cutibacterium granulosum TM11', 'Propionimicrobium lymphophilum ACS-093-V-SCH5', 'Sporolactobacillus laevolacticus DSM 442', 'Anaerococcus hydrogenalis DSM 7454', 'Peptoniphilus indolicus ATCC 29427', 'Peptoniphilus lacrimalis 315-B', 'Anaerococcus lactolyticus ATCC 51172', 'Parvimonas micra ATCC 33270', 'Anaerococcus prevotii DSM 20548', 'Blautia producta', 'Anaerococcus tetradius ATCC 35098', 'Anaerococcus vaginalis ATCC 51170', 'Coprococcus eutactus ATCC 27759', 'Bartonella doshiae NCTC 12862 = ATCC 700133', 'Bartonella grahamii as4aup', 'Bartonella taylorii 8TBB', 'Bartonella vinsonii subsp. arupensis Pm136co', 'Candidatus Kinetoplastibacterium crithidii TCC036E', 'Acidithiobacillus caldus ATCC 51756', 'Gloeobacter violaceus PCC 7421', 'Acidobacterium capsulatum ATCC 51196', 'Entamoeba invadens IP1', 'Eremothecium gossypii ATCC 10895', 'Aspergillus terreus', 'Uncinocarpus reesii 1704', 'Purpureocillium lilacinum', 'Gambusia affinis', 'Coriobacterium glomerans PW2', 'Catenuloplanes japonicus', 'Brevibacterium casei S18', 'Streptomyces galbus', 'Streptomyces avermitilis MA-4680 = NBRC 14893', 'Bifidobacterium thermophilum', 'Actinopolyspora mortivallis DSM 44261', 'Amycolatopsis mediterranei U32', 'Anoxybacillus flavithermus subsp. yunnanensis str. E13', 'Geobacillus thermodenitrificans NG80-2', 'Geobacillus thermoleovorans CCB_US3_UF5', 'Kyrpidia tusciae DSM 2912', 'Enterococcus avium ATCC 14025', 'Acetobacterium woodii DSM 1030', 'Lactobacillus johnsonii NCC 533', 'Leuconostoc citreum KM20', 'Leuconostoc pseudomesenteroides 4882', 'Melissococcus plutonius ATCC 35311', 'Rickettsia amblyommatis str. GAT-30V', 'Rickettsia bellii OSU 85-389', 'Rickettsia montanensis str. OSU 85-930', 'Rickettsia rhipicephali str. 3-7-female6-CWPP', 'Neorickettsia helminthoeca str. Oregon', 'Gluconacetobacter diazotrophicus PA1 5', 'Paracoccus aminophilus JCM 7686', 'Paracoccus versutus', 'Azospirillum halopraeferens DSM 3675', 'Rhodospirillum centenum SW', 'Candidatus Liberibacter asiaticus str. gxpsy', 'Leptothrix cholodnii SP-6', 'Rahnella aquatilis CIP 78.65 = ATCC 33071', 'Variovorax paradoxus 110B', 'Riemerella anatipestifer RA-GD', 'Pedobacter antarcticus 4BY', 'Pelodictyon phaeoclathratiforme BU-1', 'Sphaerotilus natans subsp. natans DSM 6575', 'Streptobacillus moniliformis DSM 12112', 'Lotus japonicus', 'Mixia osmundae', 'Blumeria graminis', 'Trichophyton tonsurans', 'Trichophyton violaceum', 'Conidiobolus coronatus NRRL 28638', 'Strongyloides ratti', 'Anopheles melas', 'Anopheles quadriannulatus', 'Heliconius melpomene plesseni', 'Chinchilla lanigera', 'Thalassiosira pseudonana', 'Nosema apis BRL 01', 'Eubacterium brachy ATCC 33089', 'Eubacterium nodatum ATCC 33099', 'Daphnia magna', 'Geobacter sulfurreducens PCA', 'Stomoxys calcitrans', 'Streptomyces griseoflavus Tu4000', 'Streptomyces mobaraensis NBRC 13819 = DSM 40847', 'Acholeplasma oculi', 'Naja naja', 'Heliobacterium modesticaldum Ice1', 'Citrobacter amalonaticus', 'Epichloe festucae', 'Macrophomina phaseolina MS6', 'Sporichthya polymorpha DSM 43042', 'Dactylosporangium aurantiacum', 'Corynebacterium kutscheri', 'Corynebacterium pilosum DSM 20521', 'Bifidobacterium choerinum', "Peanut witches'-broom phytoplasma NTU2011", 'Coprothermobacter proteolyticus DSM 5265', 'Rickettsia africae ESF-5', 'Rickettsia helvetica C9P9', 'Rickettsia japonica YH', 'Rickettsia massiliae str. AZT80', 'Rickettsia parkeri str. Portsmouth', 'Rickettsia sibirica 246', 'Rickettsia slovaca str. D-CWPP', 'Ehrlichia muris AS145', 'Nitrococcus mobilis Nb-231', 'Nitrosospira briensis C-128', 'Nitrospina gracilis 3/211', 'Rhodovulum sulfidophilum DSM 1374', 'Bordetella holmesii ATCC 51541', 'Helicobacter heilmannii ASB1.4', 'Helicobacter pullorum MIT 98-5489', 'Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933', 'Hungateiclostridium cellulolyticum CD2', 'Bilophila wadsworthia ATCC 49260', 'Holophaga foetida DSM 6591', 'Bacillus thermoamylovorans', 'Ipomoea triloba', 'Cyberlindnera fabianii', 'Vanderwaltozyma polyspora DSM 70294', 'Fusarium poae', 'Cantharellus cibarius var. cibarius', 'Ganoderma sinense ZZ0214-1', 'Mucor circinelloides', 'Megaselia scalaris', 'Pelecanus crispus', 'Plasmodium ovale curtisi', 'Globisporangium irregulare', 'Aspergillus fischeri NRRL 181', 'Penicillium coprophilum', 'Penicillium digitatum', 'Dermabacter hominis 1368', 'Clostridium saccharoperbutylacetonicum N1-4(HMT)', 'Pseudomonas cichorii JBC1', 'Gaeumannomyces tritici', 'Mycobacteroides abscessus', 'Mycobacterium genavense ATCC 51234', 'Mycolicibacterium rhodesiae JS60', 'Gordonia aichiensis NBRC 108223', 'Gordonia amarae NBRC 15530', 'Gordonia sputi NBRC 100414', 'Clostridium celatum DSM 1785', 'Clostridium intestinale URNW', 'Desulfitobacterium dehalogenans ATCC 51507', 'Brucella canis ATCC 23365', 'Thiobacillus denitrificans DSM 12475', 'Paraburkholderia xenovorans LB400', 'Porphyromonas cangingivalis', 'Porphyromonas canoris', 'Clavispora lusitaniae', 'Lodderomyces elongisporus', 'Glossina brevipalpis', 'Kryptolebias marmoratus', 'Suricata suricatta', 'Gavia stellata', 'Aotus nancymaae', 'Nocardia brasiliensis ATCC 700358', 'Nocardia brevicatena NBRC 12119', 'Nocardia carnea NBRC 14403', 'Nocardia farcinica IFM 10152', 'Nocardia nova SH22a', 'Nocardia transvalensis NBRC 15921', 'Tupaia belangeri', 'Plasmodiophora brassicae', 'Helicobacter bilis ATCC 43879', 'Pisolithus tinctorius Marx 270', 'Laceyella sacchari 1-1', 'Marichromatium purpuratum 984', 'Cavia aperea', 'Thermus scotoductus SA-01', 'Octopus bimaculoides', 'Clostridium algidicarnis', 'Aegilops tauschii', 'Candidatus Phytoplasma mali AT', 'Talaromyces marneffei ATCC 18224', 'Enterococcus casseliflavus EC20', 'Cryptococcus gattii EJB2', 'Heterorhabditis bacteriophora', 'Rhytidhysteron rufulum', 'Rhodococcus opacus', 'Methanosarcina siciliae C2J', 'Chaetomium globosum', 'Rhynchosporium secalis', 'Corynebacterium accolens ATCC 49725', 'Corynebacterium genitalium ATCC 33030', 'Corynebacterium jeikeium K411', 'Photobacterium damselae subsp. damselae CIP 102761', 'Streptomyces pristinaespiralis ATCC 25486', 'Corynebacterium pseudogenitalium ATCC 33035', 'Corynebacterium vitaeruminis DSM 20294', 'Gluconobacter frateurii NBRC 103465', 'Rhodococcus rhodnii LMG 5362', 'Shewanella algae JCM 14758', 'Bartonella henselae str. Houston-1', 'Erysipelothrix tonsillarum DSM 14972', 'Eragrostis curvula', 'Phascolarctos cinereus', 'Alligator sinensis', 'Panicum virgatum', 'Gopherus agassizii', 'Neolentinus lepideus HHB14362 ss-1', 'Micromonas pusilla', 'Fraxinus excelsior', 'Acholeplasma palmae J233', 'Methanococcus maripaludis C6', 'Tuber melanosporum Mel28', 'Faecalitalea cylindroides ATCC 27803', 'Agathobaculum desmolans ATCC 43058', 'Dorea formicigenerans 4_6_53AFAA', 'Anaerobutyricum hallii DSM 3353', 'Eubacterium ramulus ATCC 29099', 'Eubacterium ventriosum ATCC 27560', 'Eubacterium xylanophilum ATCC 35991', 'Mesorhizobium ciceri biovar biserrulae WSM1271', 'Cellvibrio mixtus subsp. mixtus J3-8', 'Methanosalsum zhilinae DSM 4017', 'Mayetiola destructor', 'Hydrogenovibrio crunogenus XCL-2', 'Sulfurimonas denitrificans DSM 1251', 'Blattabacterium sp. (Mastotermes darwiniensis) str. MADAR', 'Methylomicrobium album BG8', 'Veillonella atypica KON', 'Veillonella dispar ATCC 17748', 'Corynebacterium glucuronolyticum ATCC 51867', 'Erythrobacter litoralis HTCC2594', 'Legionella moravica DSM 19234', 'Hypsizygus marmoreus', 'Helcococcus kunzii ATCC 51366', 'Bipolaris victoriae FI3', 'Neurospora tetrasperma', 'Oligotropha carboxidovorans OM5', 'Oryza glumipatula', 'Oryza meridionalis', 'Monodon monoceros', 'Lonchura striata domestica', 'Fusarium avenaceum', 'Acinetobacter johnsonii SH046', 'Acinetobacter junii', 'Acinetobacter radioresistens SH164', 'Junco hyemalis', 'Aliivibrio salmonicida LFI1238', 'Penicillium italicum', 'Nosema ceranae BRL01', 'Streptomyces nodosus', 'Stenotrophomonas maltophilia K279a', 'Fonsecaea pedrosoi CBS 271.37', 'Acinetobacter sp. CIP-A165', 'Daedalea quercina L-15889', 'Fistulina hepatica ATCC 64428', 'Fomitopsis pinicola', 'Stereum hirsutum', 'Ruminococcus bromii L2-63', 'Ruminococcus callidus ATCC 27760', 'Blautia obeum ATCC 29174', 'Leptotrichia buccalis C-1013-b', 'Sutterella wadsworthensis HGA0223', 'Botrytis cinerea', 'Sporobolomyces roseus IAM 13481', 'Actinosynnema mirum DSM 43827', 'Lentzea albidocapillata', 'Xenorhabdus bovienii SS-2004', 'Xenorhabdus poinarii G6', 'Claviceps paspali', 'Claviceps fusiformis', 'Balansia obtecta', 'Thioploca ingrica', 'Borrelia duttonii Ly', 'Rhopalosiphum padi', 'Saccharomonospora azurea SZMC 14600', 'Saccharomonospora cyanea NA-134', 'Saccharomonospora glauca K62', 'Aspergillus carbonarius ITEM 5010', 'Elsinoe australis', 'Penicilliopsis zonata CBS 506.65', 'Ewingella americana ATCC 33852', 'Anopheles atroparvus', 'Seriola dumerili', 'Lomentospora prolificans', 'Bathycoccus prasinos', 'Candidatus Microthrix parvicella RN1', 'Amanita muscaria Koide BX008', 'Porphyromonas catoniae F0037', 'Enterococcus saccharolyticus subsp. saccharolyticus ATCC 43076', 'Drosophila bipectinata', 'Pneumocystis jirovecii SE8', 'Ureaplasma diversum NCTC 246', 'Phocoena sinus', 'Prunus avium', 'Streptomyces acidiscabies 84-104', 'Tuber magnatum', 'Tuber borchii', 'Desulfovibrio termitidis HI1', 'Sorex araneus', 'Rubrobacter radiotolerans', 'Phoenix dactylifera', 'Aciculosporium take MAFF-241224', 'Candida dubliniensis', 'Vittaforma corneae ATCC 50505', 'Halobacteroides halobius DSM 5150', 'Roseobacter litoralis Och 149', 'Lichtheimia corymbifera', 'Desulfofundulus thermocisternus DSM 10259', 'Pygocentrus nattereri', 'Halomonas salina', 'Streptomyces collinus Tu 365', 'Gelatoporia subvermispora B', 'Epichloe amarillans E57', 'Corynebacterium argentoratense DSM 44202', 'Ammonifex degensii KC4', 'Staphylococcus lentus F1142', 'Rickettsia felis URRWXCal2', 'Methanococcus aeolicus Nankai-3', 'Anopheles christyi', 'Tilletia indica', 'Sulfolobus islandicus REY15A', 'Rhopalosiphum maidis', 'Anopheles darlingi', 'Ictidomys tridecemlineatus', 'Capronia epimyces', 'Capronia coronata', 'Pseudomonas alcaligenes NBRC 14159', 'Butyrivibrio proteoclasticus P6B7', 'Prauserella rugosa', 'Kutzneria albida DSM 43870', 'Cathartes aura', 'Zosterops lateralis melanops', 'Halanaerobium saccharolyticum subsp. saccharolyticum DSM 6643', 'Pseudoalteromonas citrea DSM 8771', 'Pseudoalteromonas luteoviolacea B = ATCC 29581', 'Pseudoalteromonas rubra DSM 6842', 'Paenarthrobacter aurescens TC1', 'Brachybacterium faecium DSM 4810', 'Jonesia denitrificans DSM 20603', 'Rothia mucilaginosa DY-18', 'Metallosphaera sedula DSM 5348', 'Monopterus albus', 'Streptomyces wedmorensis', 'Corynebacterium amycolatum SK46', 'Rhodococcus hoagii 103S', 'Corynebacterium matruchotii ATCC 14266', 'Corynebacterium propinquum DSM 44285', 'Corynebacterium striatum ATCC 6940', 'Corynebacterium urealyticum DSM 7109', 'Tolumonas auensis DSM 9187', 'Johnsonella ignava ATCC 51276', 'Catonella morbi ATCC 51271', 'Caldicellulosiruptor saccharolyticus DSM 8903', 'Enterococcus cecorum DSM 20682 = ATCC 43198', 'Enterococcus dispar ATCC 51266', 'Ferrimonas balearica DSM 9799', 'Aureococcus anophagefferens', 'Streptomyces megasporus', 'Trichomonascus ciferrii', 'Paenibacillus alvei TS-15', 'Paenibacillus durus', 'Paenibacillus macerans', 'Bradyrhizobium oligotrophicum S58', 'Caldanaerobius polysaccharolyticus DSM 13641', 'Erythrura gouldiae', 'Zonotrichia albicollis', 'Eimeria mitis', 'Borrelia persica No12', 'Borrelia recurrentis A1', 'Natronococcus amylolyticus DSM 10524', 'Nitrosomonas cryotolerans ATCC 49181', 'Sulfurospirillum barnesii SES-3', 'Geothrix fermentans DSM 14018', 'Dictyostelium discoideum', 'Natronobacterium gregoryi SP2', 'Legionella fairfieldensis ATCC 49588', 'Legionella lansingensis DSM 19556 = ATCC 49751', 'Legionella shakespearei DSM 23087', 'Bipolaris sorokiniana', 'Pyrenophora tritici-repentis Pt-1C-BFP', 'Cyanidioschyzon merolae', 'Tolypocladium capitatum', 'Capnocytophaga granulosa ATCC 51502', 'Leucothrix mucor DSM 2157', 'Eremothecium cymbalariae', 'Eremothecium sinecaudum', 'Nematostella vectensis', 'Mycoplasma conjunctivae HRC/581', 'Mycoplasma bovoculi M165/69', 'Mycoplasma alkalescens 14918', 'Brevibacillus borstelensis 3096-7', 'Wickerhamiella sorbophila', 'Babjeviella inositovora NRRL Y-12698', 'Streptococcus cristatus AS 1.3089', 'Vibrio scophthalmi LMG 19158', 'Desulfohalobium retbaense DSM 5692', 'Nadsonia fulvescens', 'Butyrivibrio crossotus DSM 2876', 'Staphylococcus pasteuri SP1', 'Granulicatella adiacens ATCC 49175', 'Abiotrophia defectiva ATCC 49176', 'Staphylococcus chromogenes MU 970', 'Pseudobutyrivibrio ruminis CF1b', 'Anabaena sp. 90', 'Weissella hellenica', 'Pseudomonas avellanae BPIC 631', 'Mycolicibacterium hassiacum DSM 44199', 'Thermoanaerobacter wiegelii Rt8.B1', 'Spirochaeta africana DSM 8902', 'Sphingobium chlorophenolicum', 'Reticulomyxa filosa', 'Orenia marismortui DSM 5156', 'Parabacteroides merdae ATCC 43184', 'Bacteroides stercoris ATCC 43183', 'Thermosipho melanesiensis BI429', 'Suhomyces tanzawaensis', 'Aureobasidium melanogenum', 'Pseudomonas nitroreducens HBP1', 'Entamoeba dispar', 'Cenarchaeum symbiosum A', 'Dethiosulfovibrio peptidovorans DSM 11002', 'Desulfovibrio bastinii DSM 16055', 'Massilia timonae CCUG 45783', 'Neogobius melanostomus', 'Armillaria gallica', 'Armillaria ostoyae', 'Borrelia miyamotoi LB-2001', 'Rickettsia peacockii str. Rustic', 'Lautropia mirabilis ATCC 51599', 'Bacteroides caccae ATCC 43185', 'Mycoplasma alligatoris A21JP2', 'Lactobacillus rhamnosus GG', 'Streptomyces olivaceus', 'Bibersteinia trehalosi USDA-ARS-USMARC-189', 'Atkinsonella hypoxylon', 'Streptomyces sulphureus DSM 40104', 'Streptomyces lydicus', 'Lactobacillus crispatus ST1', 'Epichloe baconii ATCC 200745', 'Mycobacterium triplex', 'Micromonospora aurantiaca ATCC 27029', 'Pseudomonas amygdali pv. mori str. 301020', 'Pseudomonas corrugata CFBP 5454', 'Pseudomonas fulva 12-X', 'Pseudomonas synxantha BG33R', 'Pseudomonas luteola XLDN4-9', 'Serratia fonticola AU-AP2C', 'Vibrio cyclitrophicus FF75', 'Oreochromis aureus', 'Hyphomicrobium zavarzinii ATCC 27496', 'Acinetobacter pittii PHEA-2', 'Xanthomonas fragariae LMG 25863', 'Neolecta irregularis DAH-3', 'Penicillium freii', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Orchesella cincta', 'Geospiza fortis', 'Novosphingobium aromaticivorans DSM 12444', 'Sporisorium scitamineum', 'Candidatus Arthromitus sp. SFB-mouse-Japan', 'Kineosporia aurantiaca JCM 3230', 'Marinobacterium stanieri S30', 'Psychroserpens burtonensis DSM 12212', 'Rubrobacter xylanophilus DSM 9941', 'Desulfitobacterium hafniense Y51', 'Coffea canephora', 'Nicotiana attenuata', 'Holospora obtusa F1', 'Mycoplasma crocodyli MP145', 'Rhizobium sullae WSM1592', 'Thermoplasma volcanium GSS1', 'Charadrius vociferus', 'Pinctada fucata', 'Arabis alpina', 'Helicobacter trogontum', 'Actinobacillus minor NM305', 'Eubacterium saphenum ATCC 49989', 'Catagonus wagneri', 'Treponema maltophilum ATCC 51939', 'Ureibacillus thermosphaericus str. Thermo-BF', 'Syntrophobotulus glycolicus DSM 8271', 'Wigglesworthia glossinidia endosymbiont of Glossina morsitans morsitans (Yale colony)', 'Kluyvera ascorbata ATCC 33433', 'Eimeria brunetti', 'Eimeria praecox', 'Jaculus jaculus', 'Castor canadensis', 'Mycoplasma auris 15026', 'Mycoplasma yeatsii 13926', 'Trichoderma reesei', 'Ciona savignyi', 'Spraguea lophii 42_110', 'Haloarcula hispanica ATCC 33960', 'Kluyveromyces dobzhanskii CBS 2104', 'Nakaseomyces delphensis', 'Nakaseomyces bacillisporus', 'Tetragenococcus halophilus NBRC 12172', 'Tortispora caseinolytica', 'Meiothermus silvanus DSM 9946', 'Calidithermus chliarophilus DSM 9957', 'Acinetobacter venetianus RAG-1 = CIP 110063', 'Mitsuokella multacida DSM 20544', 'Prevotella dentalis DSM 3688', 'Lactobacillus gallinarum DSM 10532 = JCM 2011', 'Sarcoptes scabiei', 'Plasmodium inui San Antonio 1', 'Brachyspira pilosicoli 95/1000', 'Erysiphe necator', 'Sulfitobacter sp. EE-36', 'Sagittula stellata E-37', 'Haliaeetus leucocephalus', 'Bartonella alsatica IBS 382', 'Caldicellulosiruptor kristjanssonii I77R1B', 'Caldicellulosiruptor lactoaceticus 6A', 'Schaalia georgiae DSM 6843', 'Scophthalmus maximus', 'Desulfonatronovibrio hydrogenovorans DSM 9292', 'Desulfospira joergensenii DSM 10085', 'Enterococcus durans ATCC 6056', 'Enterococcus mundtii QU 25', 'Intrasporangium calvum DSM 43043', 'Brevibacterium mcbrellneri ATCC 49030', 'Hamadaea tsunoensis DSM 44101', 'Hyphomicrobium denitrificans 1NES1', 'Pseudomonas coronafaciens pv. oryzae str. 1_6', 'Pseudomonas resinovorans NBRC 106553', 'Xanthomonas axonopodis pv. vasculorum', 'Treponema lecithinolyticum ATCC 700332', 'Treponema socranskii subsp. socranskii VPI DR56BR1116 = ATCC 35536', 'Thermobrachium celere DSM 8682', 'Thermodesulfobacterium hveragerdense DSM 12571', 'Gordonia hirsuta DSM 44140 = NBRC 16056', 'Treponema paraluiscuniculi Cuniculi A', 'Nocardiopsis alba ATCC BAA-2165', 'Blautia hydrogenotrophica DSM 10507', 'Nakamurella multipartita DSM 44233', 'Mycolicibacterium mageritense DSM 44476 = CIP 104973', 'Pyrenophora teres', 'Sulfobacillus acidophilus TPY', 'Acidimicrobium ferrooxidans DSM 10331', 'Hanseniaspora valbyensis NRRL Y-1626', 'Octadecabacter arcticus 238', 'Pyrococcus horikoshii OT3', 'Peptoniphilus harei ACS-146-V-Sch2b', 'Pseudonocardia asaccharolytica DSM 44247 = NBRC 16224', 'Thermococcus zilligii AN1', 'Methanolacinia petrolearia DSM 11571', 'Pristionchus pacificus', 'Colobus angolensis palliatus', 'Ascoidea rubescens DSM 1968', 'Hyperthermus butylicus DSM 5456', 'Pyrolobus fumarii 1A', 'Thermosphaera aggregans DSM 11486', 'Ferroglobus placidus DSM 10642', 'Raoultella ornithinolytica B6', 'Chroococcidiopsis thermalis PCC 7203', 'Pleurocapsa sp. PCC 7327', 'Spirulina subsalsa PCC 9445', 'Mesitornis unicolor', 'Cariama cristata', 'Eurypyga helias', 'Streptomyces venezuelae ATCC 10712', 'Salmonella bongori N268-08', 'Streptococcus thoraltensis DSM 12221', 'Deinococcus proteolyticus MRP', 'Sciurus vulgaris', 'Flavobacterium branchiophilum FL-15', 'Epichloe elymi E56', 'Caldicellulosiruptor owensensis OL', 'Sediminispirochaeta smaragdinae DSM 11293', 'Pectobacterium betavasculorum', 'Ruegeria lacuscaerulensis ITI-1157', 'Thermonema rossianum DSM 10300', 'Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628', 'Pistacia vera', 'Magnetospirillum gryphiswaldense MSR-1 v2', 'Guillardia theta', 'Actinomyces graevenitzii C83', 'Dehalobacter restrictus DSM 9455', 'Vibrio anguillarum', 'Cuculus canorus', 'Thermococcus barophilus MP', 'Malurus cyaneus samueli', 'Streptomyces toyocaensis', 'Tyto alba', 'Hanseniaspora guilliermondii', 'Hanseniaspora osmophila', 'Bartonella clarridgeiae 73', 'Xanthomonas arboricola pv. celebensis', 'Xanthomonas cassavae CFBP 4642', 'Xanthomonas hortorum pv. carotae str. M081', 'Xanthomonas sacchari', 'Xanthomonas campestris pv. musacearum NCPPB 4379', 'Xanthomonas vesicatoria ATCC 35937', 'Protomyces lactucaedebilis', 'Aeropyrum pernix K1', 'Cottoperca gobio', 'Labrus bergylta', 'Rhizobium gallicum bv. gallicum R602sp', 'Rhizobium giardinii bv. giardinii H152', 'Eubacterium infirmum F0142', 'Glaciecola punicea ACAM 611', 'Shewanella frigidimarina NCIMB 400', 'Helicobacter bizzozeronii CIII-1', 'Afipia broomeae ATCC 49717', 'Thermus oshimai JL-2', 'Psychroflexus torquis ATCC 700755', 'Lactobacillus zeae DSM 20178 = KCTC 3804', 'Acanthisitta chloris', 'Mycoplasma suis str. Illinois', 'Apaloderma vittatum', 'Colius striatus', 'Merops nubicus', 'Trifolium pratense', 'Sulfurospirillum arcachonense DSM 9755', 'Rhizobium mongolense USDA 1844', 'Halomicrobium mukohataei DSM 12286', 'Enterococcus asini ATCC 700915', 'Fragaria vesca subsp. vesca', 'Burkholderia thailandensis MSMB43', 'Daktulosphaira vitifoliae', 'Spirillospora albida', 'Desulfofundulus kuznetsovii DSM 6115', 'Desulfofarcimen acetoxidans DSM 771', 'Desulfovibrio alaskensis G20', 'Treponema medium ATCC 700293', 'Archaeoglobus veneficus SNP6', 'Rhizopus microsporus', 'Streptomyces celluloflavus', 'Kitasatospora azatica KCTC 9699', 'Kitasatospora mediocidica KCTC 9733', 'Debaryomyces fabryi', 'Encephalitozoon intestinalis ATCC 50506', 'Trichoderma citrinoviride', 'Tilletiopsis washingtonensis', 'Rickettsiella grylli', 'Streptococcus macedonicus ACA-DC 198', 'Myotis lucifugus', 'Rhinolophus ferrumequinum', 'Actinotignum schaalii FB123-CNA-2', 'Pantholops hodgsonii', 'Corynespora cassiicola Philippines', 'Cellulophaga algicola DSM 14237', 'Desulfotomaculum reducens MI-1', 'Helicobacter rodentium ATCC 700285', 'Arabidopsis lyrata', 'Taeniopygia guttata', 'Candidatus Phytoplasma australiense', 'Alcanivorax borkumensis SK2', 'Angomonas deanei', 'Sphingomonas echinoides ATCC 14820', 'Paenibacillus alginolyticus DSM 5050 = NBRC 15375', 'Paenibacillus curdlanolyticus YK9', 'Paenibacillus peoriae KCTC 3763', 'Ficedula albicollis', 'Cyanobium gracile PCC 6307', 'Synechococcus sp. WH 7805', 'Prevotella pallens ATCC 700821', 'Penicillium polonicum', 'Penicillium solitum', 'Penicillium nalgiovense', 'Shewanella violacea DSS12', 'Shewanella amazonensis SB2B', 'Shewanella sp. MR-4', 'Shewanella sp. MR-7', 'Lactobacillus paraplantarum', 'Burkholderia vietnamiensis G4', 'Chlorocebus sabaeus', 'Halogeometricum borinquense DSM 11551', 'Phaeobacter gallaeciensis DSM 26640', 'Desulfobacca acetoxidans DSM 11109', 'Saccharopolyspora spinosa NRRL 18395', 'Sanguibacter keddieii DSM 10542', 'Shewanella woodyi ATCC 51908', 'Holdemania filiformis DSM 12042', 'Monilinia laxa', 'Varanus komodoensis', 'Ophiostoma piceae', 'Lynx canadensis', 'Dehalococcoides mccartyi 195', 'Coniosporium apollinis', 'Corynebacterium durum F0235', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Paenibacillus mucilaginosus KNP414', 'Acholeplasma brassicae', 'Enterobacter asburiae LF7a', 'Lelliottia amnigena CHS 78', 'Pluralibacter gergoviae', 'Amphilophus citrinellus', 'Nomascus leucogenys', 'Natronorubrum bangense JCM 10635', 'Hucho hucho', 'Borreliella valaisiana Tom4006', 'Acidiphilium multivorum AIU301', 'Haloterrigena turkmenica DSM 5511', 'Shewanella baltica OS117', 'Anopheles funestus', 'Saccharum spontaneum', 'Natronorubrum tibetense GA33', 'Calocera viscosa TUFC12733', 'Zobellia galactanivorans', 'Aquifex aeolicus VF5', 'Melanopsichium pennsylvanicum 4', 'Trichophyton benhamiae', 'Nannizzia gypsea CBS 118893', 'Microsporum canis CBS 113480', 'Trichophyton verrucosum', 'Trichophyton equinum', 'Desulfovibrio oxyclinae DSM 11498', 'Trichoderma atroviride', "Sodalis glossinidius str. 'morsitans'", 'Hydrogenovibrio kuenenii DSM 12350', 'Sideroxydans lithotrophicus ES-1', 'Demetria terragena DSM 11295', 'Nevskia ramosa DSM 11499', 'Bacillus pseudomycoides DSM 12442', 'Anabas testudineus', 'Desulfurobacterium thermolithotrophum DSM 11699', 'Podarcis muralis', 'Coleofasciculus chthonoplastes PCC 7420', 'Carnimonas nigrificans ATCC BAA-78', 'Dothistroma septosporum', 'Synechococcus sp. CC9311', 'Rhizopus oryzae', 'Mortierella alpina ATCC 32222', 'Lobosporangium transversale', 'Natrialba asiatica DSM 12278', 'Tetragenococcus muriaticus DSM 15685', 'Borreliella bissettii DN127', 'Terasakiella pusilla DSM 6293', 'Marinospirillum minutulum DSM 6287', 'Alcanivorax jadensis T9', 'Corynebacterium ulcerans BR-AD22', 'Pythium aphanidermatum DAOM BR444', 'Halothece sp. PCC 7418', 'Mycoplasma wenyonii str. Massachusetts', 'Oryza barthii', 'Actinoalloteichus cyanogriseus', 'Meiothermus cerbereus DSM 11376', 'Sulfurospirillum deleyianum DSM 6946', 'Desulfocapsa sulfexigens DSM 10523', 'Serendipita indica', 'Erwinia tracheiphila PSU-1', 'Pseudomonas knackmussii B13', 'Wolbachia sp. wRi', 'Lachnoclostridium phytofermentans ISDg', 'Gleimia europaea ACS-120-V-Col10b', 'Komagataeibacter intermedius AF2', 'Pantoea stewartii', 'Streptomyces niger', 'Streptomyces violens', 'Papilio xuthus', 'Streptomyces roseoverticillatus', 'Sulfurospirillum multivorans DSM 12446', 'Streptomyces afghaniensis 772', 'Streptomyces atroolivaceus', 'Streptomyces bicolor', 'Streptomyces catenulae', 'Streptomyces griseorubens', 'Trypanosoma theileri', 'Streptomyces alboflavus', 'Streptomyces aureocirculatus', 'Streptomyces filamentosus NRRL 15998', 'Streptomyces flavidovirens DSM 40150', 'Streptomyces lavenduligriseus', 'Streptomyces mutabilis', 'Kitasatospora purpeofusca', 'Streptomyces resistomycificus', 'Streptomyces varsoviensis', 'Rheinheimera baltica DSM 14885', 'Streptomyces viridosporus ATCC 14672', 'Phytophthora sojae', 'Methanocaldococcus infernus ME', 'Edwardsiella ictaluri 93-146', 'Citrobacter farmeri GTC 1319', 'Citrobacter rodentium ICC168', 'Citrobacter sedlakii NBRC 105722', 'Actinobacillus succinogenes 130Z', 'Lentzea aerocolonigenes', 'Streptomyces cyaneogriseus subsp. noncyanogenus', 'Streptomyces durhamensis', 'Streptomyces flavochromogenes', 'Streptomyces fulvissimus DSM 40593', 'Streptomyces griseoaurantiacus M045', 'Streptomyces iakyrus', 'Streptomyces katrae', 'Streptomyces pyridomyceticus', 'Streptomyces violaceusniger Tu 4113', 'Moschus moschiferus', 'Streptomyces albulus', 'Sphaerobolus stellatus SS14', 'Scleroderma citrinum Foug A', 'Rasamsonia emersonii CBS 393.64', 'Theileria orientalis', 'Streptococcus peroris ATCC 700780', 'Streptococcus infantis SK970', 'Deinococcus geothermalis DSM 11300', 'Anopheles farauti', 'Synechococcus sp. WH 5701', 'Enterobacter cancerogenus ATCC 35316', 'Dickeya paradisiaca Ech703', 'Aquamicrobium defluvii', 'Gasterosteus aculeatus', 'Microplitis demolitor', 'Pseudomonas sp. VLB120', 'Chara braunii', 'Caulobacter henricii', 'Petrotoga mobilis SJ95', 'Natrinema pellirubrum DSM 15624', 'Natrinema pallidum DSM 3751', 'Treponema vincentii ATCC 35580', 'Penicillium oxalicum 114-2', 'Selenomonas sputigena ATCC 35185', 'Trichophyton soudanense CBS 452.61', 'Macrococcus caseolyticus JCSC5402', 'Ostreococcus tauri', 'Edhazardia aedis USNM 41457', 'Pyrobaculum neutrophilum V24Sta', 'Pseudomonas plecoglossicida NB2011', 'Nodularia spumigena CCY9414', 'Shewanella oneidensis MR-1', 'Shewanella pealeana ATCC 700345', 'Flexithrix dorotheae DSM 6795', 'Lewinella cohaerens DSM 23179', 'Lewinella persica DSM 23188', 'Eucalyptus grandis', 'Paxillus involutus ATCC 200175', 'Staphylococcus vitulinus F1028', 'Vibrio halioticoli NBRC 102217', 'Mesorhizobium amorphae CCNWGS0123', 'Enterococcus malodoratus ATCC 43197', 'Enterococcus raffinosus ATCC 49464', 'Tolypocladium ophioglossoides CBS 100239', 'Lonsdalea quercina subsp. quercina', 'Waddlia chondrophila WSU 86-1044', 'Naematelia encephala', 'Hypholoma sublateritium FD-334 SS-4', 'Kocuria rhizophila P7-4', 'Bos mutus', 'Sphaeroforma arctica JP610', 'Thielaviopsis punctulata', 'Lepeophtheirus salmonis', 'Citromicrobium bathyomarinum JL354', 'Ophiocordyceps sinensis', 'Trachipleistophora hominis', 'Bacillus mojavensis RO-H-1 = KCTC 3706', 'Drosophila austrosaltans', 'Drosophila lusaltans', 'Drosophila milleri', 'Nannochloropsis gaditana CCMP526', 'Achromobacter piechaudii HLE', 'Sporisorium reilianum', 'Boechera stricta', 'Eutrema salsugineum', 'Dechloromonas agitata is5', 'Streptomyces seoulensis', 'Thiocystis violascens DSM 198', 'Emmonsia crescens UAMH 3008', 'Cordyceps militaris', 'Piromyces sp. E2', 'Methanocaldococcus vulcanius M7', 'Thermaerobacter marianensis DSM 12885', 'Photobacterium profundum SS9', 'Brevundimonas bacteroides DSM 4726', 'Brevundimonas subvibrioides ATCC 15264', 'Maricaulis maris MCS10', 'Hyphomonas polymorpha PS728', 'Sulfitobacter guttiformis KCTC 32187', 'Thraustotheca clavata', 'Rosa chinensis', 'Stachybotrys chartarum IBT 7711', 'Pseudomonas balearica DSM 6083', 'Anopheles maculatus', 'Anopheles sinensis', 'Oncorhynchus tshawytscha', 'Paraburkholderia caribensis MBA4', 'Saccharomonospora xinjiangensis XJ-54', 'Sinocyclocheilus grahami', 'Pseudomonas mandelii PD30', 'Castellaniella defragrans 65Phen', 'Anas zonorhyncha', 'Thermocrinis ruber DSM 12173', 'Mycolicibacterium tusciae JS617', 'Mannheimia haemolytica M42548', 'Thauera linaloolentis 47Lol = DSM 12138', 'Thauera terpenica 58Eu', 'Alloprevotella tannerae ATCC 51259', 'Prevotella enoeca JCM 12259', 'Vibrio rumoiensis 1S-45', 'Campylobacter hominis ATCC BAA-381', 'Cellulophaga baltica 13', 'Mycetocola saprophilus', 'Streptomyces vitaminophilus DSM 41686', 'Sinorhizobium arboris LMG 14919', 'Pseudomonas monteilii SB3078', 'Malassezia globosa CBS 7966', 'Malassezia sympodialis ATCC 42132', 'Myroides odoratimimus H1bi', 'Solibacillus silvestris StLB046', 'Streptococcus constellatus subsp. pharyngis SK1060 = CCUG 46377', 'Hebeloma cylindrosporum h7', 'Caldivirga maquilingensis IC-167', 'Asticcacaulis biprosthecum C19', 'Sphingobium herbicidovorans NBRC 16415', 'Malassezia pachydermatis', 'Cylindrospermopsis raciborskii CS-505', 'Wolbachia endosymbiont of Drosophila simulans wNo', 'Rosellinia necatrix', 'Sclerotinia borealis F-4128', 'Dendroctonus ponderosae', 'Plasmodium gonderi', 'Leersia perrieri', 'Bifidobacterium subtile', 'Prevotella albensis DSM 11370 = JCM 12258', 'Succinispira mobilis DSM 6222', 'Oidiodendron maius', 'Parascardovia denticolens DSM 10105 = JCM 12538', 'Scardovia inopinata F0304', 'Pseudomonas mosselii SJ10', 'Mycobacterium canettii CIPT 140070017', 'Bifidobacterium gallicum DSM 20093 = LMG 11596', 'Bifidobacterium gallinarum', 'Bifidobacterium merycicum', 'Bifidobacterium ruminantium', 'Streptomyces somaliensis DSM 40738', 'Pectobacterium odoriferum', 'Neonectria ditissima', 'Bifidobacterium pullorum DSM 20433', 'Rhizobium undicola ORS 992 = ATCC 700741', 'Thermothelomyces thermophilus', 'Asticcacaulis excentricus CB 48', 'Podila verticillata', 'Desulfosporosinus meridiei DSM 13257', 'Chitinophaga pinensis DSM 2588', 'Epichloe brachyelytri', 'Microtus ochrogaster', 'Cimex lectularius', 'Bacillus clausii KSM-K16', 'Bacillus pseudofirmus OF4', 'Erwinia pyrifoliae Ep1/96', 'Coniophora puteana', 'Piloderma croceum F 1598', 'Thioflavicoccus mobilis 8321', 'Aphis gossypii', 'Haliangium ochraceum DSM 14365', 'Wolbachia endosymbiont strain TRS of Brugia malayi', 'Aliivibrio wodanis', 'Moritella viscosa', 'Delftia acidovorans SPH-1', 'Acidovorax avenae subsp. avenae ATCC 19860', 'Acidovorax citrulli AAC00-1', 'Cryptosporangium arvum DSM 44712', 'Hylemonella gracilis str. Niagara R', 'Simplicispira psychrophila DSM 11588', 'Colletotrichum higginsianum', 'Acanthochromis polyacanthus', 'Amphiprion ocellaris', 'Treponema brennaborense DSM 12168', 'Hyphomonas adhaerens MHS-3', 'Hyphomonas johnsonii MHS-2', 'Hyphomonas neptunium ATCC 15444', 'Hyphomonas oceanitis SCH89', 'Wolfiporia cocos MD-104 SS10', 'Desulfovibrio alcoholivorans DSM 5433', 'Parageobacillus caldoxylosilyticus CIC9', 'Aminomonas paucivorans DSM 12260', 'Desulfovibrio aminophilus DSM 12254', 'Thermanaerovibrio acidaminovorans DSM 6589', 'Aminobacterium mobile DSM 12262', 'Aminobacterium colombiense DSM 12261', 'Frateuria aurantia DSM 6220', 'Monosiga brevicollis', 'Kitasatospora cheerisanensis KCTC 2395', 'Vagococcus lutrae LBD1', 'Arabidopsis halleri subsp. gemmifera', 'Capsella rubella', 'Picrophilus torridus DSM 9790', 'Atopobium vaginae DSM 15829', 'Centipeda periodontii DSM 2778', 'Phlebiopsis gigantea 11061_1 CR5-6', 'Facklamia languida CCUG 37842', 'Paracoccus pantotrophus J46', 'Anaerovibrio lipolyticus LB2005', 'Anaeroarcus burkinensis DSM 6283', 'Trichosporon asahii', 'Pseudanabaena sp. PCC 7367', 'Streptococcus ovis DSM 16829', 'Pythium arrhenomanes ATCC 12531', 'Buttiauxella agrestis ATCC 33320', 'Budvicia aquatica DSM 5075 = ATCC 35567', 'Leminorella grimontii ATCC 33999 = DSM 5078', 'Tatumella ptyseos ATCC 33301', 'Serratia grimesii', 'Serratia plymuthica', 'Methanocaldococcus fervens AG86', 'Sulfitobacter mediterraneus', 'Prevotella brevis P6B11', 'Gordonia rhizosphera NBRC 16068', 'Myxococcus stipitatus DSM 14675', 'Linepithema humile', 'Parachlamydia acanthamoebae UV-7', 'Chlamydia psittaci 10_1398_11', 'Chlamydia abortus S26/3', 'Chlamydia felis Fe/C-56', 'Chlamydia caviae GPIC', 'Chlamydia pneumoniae TW-183', 'Chlamydia suis MD56', 'Chlamydia muridarum str. Nigg', 'Simkania negevensis Z', 'Leclercia adecarboxylata ATCC 23216 = NBRC 102595', 'Lactobacillus amylolyticus DSM 11664', 'Succinimonas amylolytica DSM 2873', 'Succinivibrio dextrinosolvens H5', 'Methanobrevibacter ruminantium M1', 'Trypanosoma conorhini', 'Methanocorpusculum labreanum Z', 'Methanoculleus bourgensis MS2', 'Clostridium autoethanogenum DSM 10061', 'Clostridium haemolyticum NCTC 9693', 'Gordonia alkanivorans NBRC 16433', 'Slackia exigua ATCC 700122', 'Slackia heliotrinireducens DSM 20476', 'Eggerthella lenta DSM 2243', 'Gemella sanguinis M325', 'Gemella bergeri ATCC 700627', 'Archaeoglobus profundus DSM 5631', 'Magnetospirillum magneticum AMB-1', 'Cryptobacterium curtum DSM 15641', 'Brachyspira intermedia PWS/A', 'Brachyspira murdochii DSM 12563', 'Hippea maritima DSM 10411', 'Lysobacter antibioticus', 'Synechococcus sp. WH 8102', 'Taylorella asinigenitalis MCE3', 'Gordonia polyisoprenivorans VH2', 'Staphylothermus hellenicus DSM 12710', 'Candidatus Odyssella thessalonicensis L13', 'Anthracocystis flocculosa', 'Moesziomyces antarcticus', 'Moesziomyces aphidis DSM 70725', 'Beutenbergia cavernae DSM 12333', 'Desulfotalea psychrophila LSv54', 'Corvus brachyrhynchos', 'Pseudarthrobacter chlorophenolicus A6', 'Clogmia albipunctata', 'Mannheimia varigena USDA-ARS-USMARC-1296', 'Plasmodium relictum', 'Thauera sp. MZ1T', 'Citrus clementina', 'Triticum dicoccoides', 'Achromobacter xylosoxidans A8', 'Bartonella tribocorum CIP 105476', 'Thermacetogenium phaeum DSM 12270', 'Sphaerulina musiva', 'Serpula lacrymans', 'Chlamydia pecorum E58', 'Cladophialophora carrionii', 'Rhinocladiella mackenziei CBS 650.93', 'Arenibacter latericius DSM 15913', 'Syntrophothermus lipocalidus DSM 12680', 'Phaseolibacter flectens ATCC 12775', 'Saccharophagus degradans 2-40', 'Mycoplasma dispar', 'Bacillus flexus T6186-2', 'Bacillus halodurans C-125', 'Propionispira raffinosivorans DSM 20765', 'Camarhynchus parvulus', 'Facklamia sourekii ATCC 700629', 'Burkholderia multivorans ATCC 17616', 'Selaginella moellendorffii', 'Treponema primitia ZAS-2', 'Eremococcus coleocola DSM 15696', 'Thermus igniterrae ATCC 700962', 'Thermus antranikianii DSM 12462', 'Dorea longicatena AGR2136', 'Cyclospora cayetanensis', 'Megaselia abdita', 'Caulobacter segnis ATCC 21756', 'Ceratocystis platani', 'Borreliella spielmanii A14S', 'Streptomyces yeochonensis CN732', 'Gordonia amicalis CCMA-559', 'Corynebacterium terpenotabidum Y-11', 'Ruegeria pomeroyi DSS-3', 'Laccaria amethystina LaAM-08-1', 'Bubalus bubalis', 'Cladophialophora bantiana CBS 173.52', 'Moraxella caprae DSM 19149', 'Oligella ureolytica DSM 18253', 'Oligella urethralis DNF00040', 'Absidia repens', 'Camelina sativa', 'Moritella marina ATCC 15381', 'Hydrogenovibrio sp. Milos-T1', 'Thiomicrorhabdus sp. Milos-T2', 'Enterovibrio calviensis 1F-211', 'Polistes canadensis', 'Synechococcus sp. PCC 7335', 'Aspergillus udagawae', 'Candidatus Paracaedibacter acanthamoebae', 'Mucor ambiguus', 'Candidatus Portiera aleyrodidarum BT-QVLC', 'Exophiala spinifera', 'Hortaea werneckii', 'Catharus ustulatus', 'Bartonella koehlerae C-29', 'Thiomicrospira aerophila AL3', 'Metarhizium album ARSEF 1941', 'Metarhizium acridum CQMa 102', 'Herbaspirillum frisingense GSF30', 'Fischerella muscicola PCC 7414', 'Ketogulonicigenium vulgare WSH-001', 'Pandoraea apista', 'Pandoraea pnomenusa', 'Pandoraea pulmonicola', 'Pandoraea sputorum', 'Pseudaminobacter salicylatoxidans KCT001', 'Edwardsiella hoshinae NBRC 105699 = ATCC 33379', 'Fervidobacterium pennivorans DSM 9078', 'Exserohilum turcicum', 'Roseivivax halodurans JCM 10272', 'Myzus cerasi', 'Thermotoga petrophila RKU-1', 'Thermotoga naphthophila RKU-10', 'Coturnix japonica', 'Cryptosporidium meleagridis', 'Thermicanus aegyptius DSM 12793', 'Shewanella sp. ANA-3', 'Rhizophagus clarus', 'Ramlibacter tataouinensis TTB310', 'Tolypocladium paradoxum', 'Mola mola', 'Dyadobacter fermentans DSM 18053', 'Bordetella petrii', 'Ochrobactrum intermedium LMG 3301', 'Besnoitia besnoiti', 'Desulfurococcus amylolyticus 1221n', 'Gavialis gangeticus', 'Helicobacter pametensis ATCC 51478', 'Burkholderia cenocepacia J2315', 'Pseudomonas sp. M1', 'Legionella fallonii LLAP-10', 'Flavobacterium psychrophilum JIP02/86', 'Salvator merianae', 'Lactobacillus hamsteri DSM 5661 = JCM 6256', 'Halobacteriovorax marinus SJ', 'Eutypa lata', 'Phaethon lepturus', 'Lactobacillus sp. ASF360', 'Clostridium sp. MD294', 'Eubacterium plexicaudatum ASF492', 'Ferroplasma acidarmanus fer1', 'Acetomicrobium mobile DSM 13181', 'Lactobacillus mucosae LM1', 'Periconia macrospinosa', 'Bacillus sp. OxB-1', 'Drechmeria coniospora', 'Mycolicibacterium septicum DSM 44393', 'Phlebia centrifuga', 'Pyrobaculum oguniense TE7', 'Hammondia hammondi', 'Flavobacterium frigidarium DSM 17623', 'Calothrix sp. PCC 7507', 'Spermophilus dauricus', 'Tetraodon nigroviridis', 'Austwickia chelonae NBRC 105200', 'Onion yellows phytoplasma', 'Chloroherpeton thalassium ATCC 35110', 'Verticillium longisporum', 'Madurella mycetomatis', 'Falco tinnunculus', 'Wolbachia endosymbiont of Onchocerca ochengi', 'Fusarium pseudograminearum CS3096', 'Choanephora cucurbitarum', 'Hesseltinella vesiculosa', 'Bipolaris oryzae', 'Methanomethylovorans hollandica DSM 15978', 'Trichoderma asperellum CBS 433.97', 'Saprolegnia parasitica CBS 223.65', 'Aequorivita sublithincola DSM 14238', 'Trichophyton interdigitale H6', 'Candidatus Blochmannia pennsylvanicus str. BPEN', 'Burkholderia ubonensis MSMB22', 'Tetrasphaera elongata Lp2', 'Glarea lozoyensis ATCC 20868', 'Prunus mume', 'Stanieria cyanosphaera PCC 7437', 'Xenococcus sp. PCC 7305', 'Leptolyngbya sp. PCC 7375', 'Desulfallas gibsoniae DSM 7213', 'Solobacterium moorei DSM 22971', 'Gloeocapsa sp. PCC 73106', 'Cyanobacterium stanieri PCC 7202', 'Streptococcus infantarius subsp. infantarius CJ18', 'Proteus penneri ATCC 35198', 'Streptococcus didelphis DSM 15616', 'Acromyrmex echinatior', 'Vavraia culicis subsp. floridensis', 'Gleimia coleocanis DSM 15436', 'Actinomyces urogenitalis DSM 15434', 'Nostoc sp. PCC 7120 = FACHB-418', 'Pogona vitticeps', 'Saccharothrix espanaensis DSM 44229', 'Saccharothrix syringae', 'Riemerella columbina DSM 16469', 'Rhodococcus pyridinivorans SB3094', 'Bordetella hinzii ATCC 51730', 'Oscillochloris trichoides DG-6', 'Penicillium brasilianum', 'Postia placenta Mad-698-R', 'Gloeophyllum trabeum', 'Camponotus floridanus', 'Serratia sp. ATCC 39006', 'Helicobacter suis HS1', 'Cryptococcus amylolentus', 'Adineta vaga', 'Nothobranchius furzeri', 'Ralstonia mannitolilytica', 'Streptacidiphilus neutrinimicus', 'Streptacidiphilus carbonis', 'Streptacidiphilus albus', 'Desulfohalotomaculum alkaliphilum DSM 12257', 'Valsa mali var. pyri', 'Methylibium petroleiphilum PM1', 'Epicoccum nigrum', 'Cryptotermes secundus', 'Anaerostipes caccae DSM 14662', 'Leucosporidium creatinivorum', 'Frankia casuarinae', 'Thermoanaerobacter siderophilus SR4', 'Maylandia zebra', 'Pseudoflavonifractor capillosus ATCC 29799', 'Cupriavidus necator H16', 'Ensifer adhaerens OV14', 'Acinetobacter bereziniae', 'Acinetobacter guillouiae NIPH 991', 'Acinetobacter sp. RUH2624', 'Chelonoidis abingdonii', 'Tenacibaculum maritimum NCIMB 2154', 'Methylosinus sp. LW3', 'Methylosinus sp. PW1', 'Opitutus terrae PB90-1', 'Thermanaerovibrio velox DSM 12556', 'Thermoanaerobacter italicus Ab9', 'Corynebacterium falsenii DSM 44353', 'Coprothermobacter platensis DSM 11748', 'Acinetobacter ursingii DSM 16037 = CIP 107286', 'Acinetobacter schindleri NIPH 900', 'Rickettsia monacensis', 'Hippocampus comes', 'Anaerovorax odorimutans DSM 5092', 'Leptotrichia trevisanii DSM 22070', 'Varroa destructor', 'Myotis brandtii', 'Galerina marginata CBS 339.88', 'Spizellomyces punctatus', 'Lactobacillus jensenii 115-3-CHN', 'Batrachochytrium dendrobatidis JAM81', 'Catenaria anguillulae PL171', 'Serendipita vermifera MAFF 305830', 'Nocardioides sp. CF8', 'Sinorhizobium medicae WSM419', 'Gregarina niphandrodes', 'Pelotomaculum thermopropionicum SI', 'Mycolicibacterium vanbaalenii PYR-1', 'Synechococcus sp. CC9605', 'Synechococcus sp. CC9616', 'Eragrostis tef', 'Porphyromonas gulae', 'Muricauda ruestringensis DSM 13258', 'Bartonella birtlesii E11', 'Kineosphaera limosa NBRC 100340', 'Leptolyngbya sp. PCC 7376', 'Sulfurisphaera tokodaii str. 7', 'Ignatzschineria larvae DSM 13226', 'Aphanomyces astaci', 'Saprolegnia diclina', 'Anopheles minimus', 'Ramularia collo-cygni', 'Enterococcus villorum ATCC 700913', 'Streptococcus australis ATCC 700641', 'Pseudocercospora musae', 'Pseudoramibacter alactolyticus ATCC 23263', 'Melitaea cinxia', 'Bradyrhizobium sp. Tv2a-2', 'Scleropages formosus', 'Actinoplanes globisporus DSM 43857', 'Tetrapisispora phaffii CBS 4417', 'Geoglobus ahangari', 'Dichomitus squalens LYAD-421 SS1', 'Candidatus Carsonella ruddii DC', 'Cordyceps fumosorosea ARSEF 2679', 'Saccharomyces kudriavzevii', 'Saccharomyces mikatae', 'Bradyrhizobium sp. ORS 278', 'Methylobacterium nodulans ORS 2060', 'Alkaliphilus transvaalensis ATCC 700919', 'Streptococcus orisratti DSM 15617', 'Streptomyces auratus AGR0001', 'Mycoplasmopsis columbinum SF7', 'Phoronis australis', 'Globisporangium iwayamae', 'Coprococcus catus GD/7', 'Lactobacillus psittaci DSM 15354', 'Cryptosporidium andersoni', 'Tilletia walkeri', 'Fusarium verticillioides', 'Sphingopyxis alaskensis RB2256', 'Denitrovibrio acetiphilus DSM 12809', 'Pleurocapsa sp. PCC 7319', 'Pseudanabaena sp. PCC 6802', 'Picoides pubescens', 'Beauveria brongniartii RCEF 3172', 'Oscillatoria acuminata PCC 6304', 'Arthrospira platensis NIES-39', 'Nicotiana noctiflora var. noctiflora', 'Bulleidia extructa W1219', 'Lipotes vexillifer', 'Cupriavidus metallidurans CH34', 'Pseudothermotoga thermarum DSM 5069', 'Syntrophobacter fumaroxidans MPOB', 'Microcoleus vaginatus FGP-2', 'Bacillus sonorensis L12', 'Marinomonas mediterranea MMB-1', 'Ustilago hordei Uh4857-4', 'Brucella pinnipedialis B2/94', 'Brucella ceti M644/93/1', 'Roseiflexus castenholzii DSM 13941', 'Ferrimicrobium acidiphilum DSM 19497', 'Helicocarpus griseus UAMH5409', 'Schaalia suimastitidis DSM 15538', 'Pediculus humanus corporis', 'Pyrobaculum arsenaticum DSM 13514', 'Sphingobium xenophagum QYY', 'Tauraco erythrolophus', 'Pannonibacter phragmitetus DSM 14782', 'Photobacterium sp. SKA34', 'Paracoccidioides brasiliensis', 'Diaphorina citri', 'Pseudomonas psychrophila HA-4', 'Cercospora beticola', 'Alicyclobacillus herbarius DSM 13609', 'Oryzias javanicus', 'Helicobacter canadensis MIT 98-5491', 'Bordetella trematum', 'Nocardiopsis xinjiangensis YIM 90004', 'Thiolinea disciformis DSM 14473', 'Thiofilum flexile DSM 14609', 'Drosophila biarmipes', 'Halodesulfovibrio aestuarii DSM 10141', 'Providencia alcalifaciens DSM 30120', 'Thermotoga sp. RQ7', 'Thermotoga sp. RQ2', 'Strigamia maritima', 'Nipponia nippon', 'Catelliglobosispora koreensis DSM 44566', 'Drosophila santomea', 'Phytophthora lateralis MPF4', 'Arthrospira maxima CS-328', 'Carboxydothermus hydrogenoformans Z-2901', 'Halobiforma nitratireducens JCM 10879', 'Galdieria sulphuraria', 'Corynebacterium capitovis DSM 44611', 'Schaalia turicensis ACS-279-V-Col4', 'Thiomicrorhabdus arctica DSM 13458', 'Kineococcus radiotolerans SRS30216 = ATCC BAA-149', 'Bombus impatiens', 'Candidatus Glomeribacter gigasporarum BEG34', 'Nocardia veterana NBRC 100344', 'Anser brachyrhynchus', 'Pteropus vampyrus', 'Rhodococcus jostii RHA1', 'Exiguobacterium antarcticum B7', 'Citrobacter youngae ATCC 29220', 'Caldilinea aerophila DSM 14535 = NBRC 104270', 'Nitrosococcus halophilus Nc 4', 'Methylocapsa acidiphila B2', 'Frankliniella occidentalis', 'Leisingera methylohalidivorans DSM 14336', 'Olsenella uli DSM 7084', 'Phytomonas sp. isolate EM1', 'Phytomonas sp. isolate Hart1', 'Corynebacterium freneyi DNF00450', 'Acinetobacter parvus NIPH 1103', 'Acinetobacter gyllenbergii NIPH 230', 'Paraburkholderia fungorum', 'Ministeria vibrans', 'Actinoplanes sp. SE50/110', 'Ureaplasma parvum serovar 3 str. ATCC 27815', 'Selenomonas flueggei ATCC 43531', 'Selenomonas infelix ATCC 43532', 'Selenomonas noxia ATCC 43541', 'Paenibacillus daejeonensis DSM 15491', 'Nocardia cyriacigeorgica GUH-2', 'Geobacillus vulcani PSS1', 'Idiomarina loihiensis L2TR', 'Caenorhabditis brenneri', 'Bacillus endophyticus 2102', 'Zootermopsis nevadensis', 'Thermocrinis albus DSM 14484', 'Knoellia sinensis KCTC 19936', 'Mycoplasma haemocanis str. Illinois', 'Kocuria polaris', 'Atopobacter phocae ATCC BAA-285', 'Leuconostoc kimchii IMSNU 11154', 'Methylosinus sp. LW4', 'Weissella cibaria KACC 11862', 'Facklamia ignava CCUG 37419', 'Granulicatella elegans ATCC 700633', 'Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)', 'Candidatus Regiella insecticola LSR1', "Serratia symbiotica str. 'Cinara cedri'", 'Blastococcus saxobsidens DD2', 'Helicobacter cetorum MIT 00-7128', 'Olsenella profusa F0195', 'Sistotremastrum niveocremeum HHB9708', 'Isoptericola variabilis 225', 'Plicaturopsis crispa FD-325 SS-3', 'Teleopsis dalmanni', 'Anopheles culicifacies', 'Shimazuella kribbensis DSM 45090', 'Lachnobacterium bovis', 'Nicotiana cordifolia', 'Candidatus Mycoplasma haemolamae str. Purdue', 'Nocardiopsis kunsanensis DSM 44524', 'Cylindrospermum stagnale PCC 7417', 'Desulfitobacterium metallireducens DSM 15288', 'Zobellia uliginosa', 'Filifactor alocis ATCC 35896', 'Eubacterium sulci ATCC 35585', 'Diuraphis noxia', 'Sipha flava', 'Pogonomyrmex barbatus', 'Mobiluncus holmesii ATCC 35242', 'Leifsonia aquatica H1aii', 'Stegastes partitus', 'Methanothermobacter thermautotrophicus str. Delta H', 'Methanothermobacter marburgensis str. Marburg', 'Rathayibacter toxicus DSM 7488', 'Thermosynechococcus elongatus BP-1', 'Halorhabdus utahensis DSM 12940', 'Pseudoloma neurophilia', 'Salinibacter ruber DSM 13855', 'Streptomyces griseofuscus', 'Azovibrio restrictus DSM 23866', 'Azospira oryzae PS', 'Collinsella stercoris DSM 13279', 'Collinsella intestinalis DSM 13280', 'Agrobacterium albertimagni AOL15', 'Thiomicrospira cyclica ALM1', 'Limnospira indica PCC 8005', 'Paracoccus yeei ATCC BAA-599', 'Carnobacterium inhibens subsp. gilichinskyi', 'Lactobacillus iners AB-1', 'Magnaporthiopsis poae', 'Pyricularia grisea', 'Paraburkholderia phymatum STM815', 'Lactobacillus ingluviei str. Autruche 4', 'Sulfuricurvum kujiense DSM 16994', 'Lactobacillus kunkeei', 'Wallemia sebi', 'Streptococcus urinalis 2285-97', 'Phialocephala scopiformis', 'Marinitoga piezophila KA3', 'Streptococcus lutetiensis 033', 'Halonatronum saccharophilum DSM 13868', 'Gemella cuniculi DSM 15828', 'Sporothrix insectorum RCEF 264', 'Escovopsis weberi', 'Pseudomonas sp. MT-1', 'Treponema azotonutricium ZAS-9', 'Pseudoalteromonas ruthenica CP76', 'Bacteroides coprosuis DSM 18011', 'Afipia birgiae 34632', 'Xenophilus azovorans DSM 13620', 'Pseudopedobacter saltans DSM 12145', 'Chloroflexus aggregans DSM 9485', 'Lactobacillus suebicus DSM 5007 = KCTC 3549', 'Thioalkalivibrio thiocyanoxidans ARh 4', 'Burkholderia ambifaria AMMD', 'Burkholderia dolosa PC543', 'Sphingomonas melonis DAPP-PG 224', 'Corynebacterium efficiens YS-314', 'Desulforegula conservatrix Mb1Pa', 'Oceanicaulis alexandrii DSM 11625', 'Alysiella crassa DSM 2578', 'Conchiformibius steedae DSM 2580', 'Kozakia baliensis', 'Moniliophthora perniciosa FA553', 'Sporocytophaga myxococcoides', 'Nitrosomonas sp. AL212', 'Hungatella hathewayi DSM 13479', 'Turicibacter sanguinis PC909', 'Thiorhodospira sibirica ATCC 700588', 'Trametes pubescens', 'Enterococcus phoeniculicola ATCC BAA-412', 'Cellvibrio japonicus Ueda107', 'Bartonella bovis 91-4', 'Bacillus toyonensis BCT-7112', 'Gallibacterium genomosp. 1', 'Enterococcus moraviensis ATCC BAA-383', 'Enterococcus haemoperoxidus ATCC BAA-382', 'Streptococcus entericus DSM 14446', 'Methanothermococcus okinawensis IH1', 'Caulobacter vibrioides NA1000', 'Actinokineospora enzanensis DSM 44649', 'Acaryochloris marina MBIC11017', 'Anaeroglobus geminatus F0357', 'Tulasnella calospora MUT 4182', 'Cyanistes caeruleus', 'Alteromonadales bacterium TW-7', 'Flavobacteria bacterium BBFL7', 'Dysgonomonas gadei ATCC BAA-286', 'Corynebacterium imitans', 'Aphanomyces invadans', 'Jeotgalicoccus psychrophilus DSM 19085', 'Helicobacter winghamensis ATCC BAA-430', 'Leptomonas pyrrhocoris', 'Leptotrichia wadei F0279', 'Leptotrichia hofstadii F0254', 'Leptotrichia shahii DSM 19757', 'Leptotrichia goodfellowii F0264', 'Pseudomonas parafulva NBRC 16636 = DSM 17004', 'Pseudomonas cremoricolorata', 'Vigna radiata var. radiata', 'Phaeomoniella chlamydospora', 'Chromohalobacter salexigens DSM 3043', 'Hahella chejuensis KCTC 2396', 'Folsomia candida', 'Betta splendens', 'Cedecea davisae DSM 4568', 'Novosphingobium resinovorum', 'Trametes coccinea BRFM310', 'Diaporthe helianthi', 'Bifidobacterium scardovii', 'Terrapene carolina triunguis', 'Cedecea neteri', 'Enterobacter sp. MGH 2', 'Megamonas hypermegale DSM 1672', 'Providencia rustigianii DSM 4541', 'Trabulsiella guamensis ATCC 49490', 'Yokenella regensburgei ATCC 43003', 'Collimonas fungivorans Ter331', 'Roseibacterium elongatum DSM 19469', 'Embleya scabrispora DSM 41855', 'Paraburkholderia sacchari', 'Paenibacillus terrae HPL-003', 'Thalassiosira oceanica', 'Microbacterium gubbeenense DSM 15944', 'Nanoarchaeum equitans Kin4-M', 'Ignicoccus hospitalis KIN4/I', 'Corynebacterium casei LMG S-19264', 'Enterococcus gilvus ATCC BAA-350', 'Enterococcus pallens ATCC BAA-351', 'Sphingomonas wittichii RW1', 'Paenibacillus borealis', 'Acidithiobacillus ferrivorans SS3', 'Auricularia delicata', 'Thermodesulfobacterium hydrogeniphilum', 'Planococcus antarcticus DSM 14505', 'Anaeromyxobacter dehalogenans 2CP-C', 'Erythrobacter sp. SD-21', 'Amphiprion percula', 'Corynebacterium kroppenstedtii DSM 44385', 'Corynebacterium lipophiloflavum DSM 44291', 'Corynebacterium mastitidis DSM 44356', 'Corynebacterium camporealensis', 'Corynebacterium singulare', 'Beta vulgaris', 'Aspergillus nidulans FGSC A4', 'Thermococcus cleftensis', 'Wolbachia endosymbiont of Drosophila melanogaster', 'Dysgonomonas mossii DSM 22836', 'Algicola sagamiensis DSM 14643', 'Anabaena sp. PCC 7108', 'Phytophthora ramorum', 'Lactobacillus fuchuensis DSM 14340 = JCM 11249', 'Vulcanisaeta distributa DSM 14429', 'Blattabacterium sp. (Cryptocercus punctulatus) str. Cpu', 'Cupriavidus taiwanensis LMG 19424', 'Mycobacterium sp. MCS', 'Mycobacterium sp. JLS', 'Weissella koreensis KACC 15510', 'Prevotella copri DSM 18205', 'Bartonella schoenbuchensis m07a', 'Synechococcus sp. WH 8109', 'Synechococcus sp. WH 8016', 'Roseburia intestinalis L1-82', 'Thermobaculum terrenum ATCC BAA-798', 'Pseudoalteromonas translucida TAC125', 'Allofustis seminis DSM 15817', 'Ilyobacter polytropus DSM 2926', 'Anaerolinea thermophila UNI-1', 'Candidatus Ishikawaella capsulata Mpkobe', 'Marvinbryantia formatexigens DSM 14469', 'Laribacter hongkongensis HLHK9', 'Salinispora tropica CNB-440', 'Salinispora arenicola CNS-205', 'Legionella drancourtii LLAP12', 'Metarhizium guizhouense ARSEF 977', 'Gelidibacter mesophilus DSM 14095', 'Novosphingobium tardaugens NBRC 16725', 'Exiguobacterium undae DSM 14481', 'Corynebacterium aurimucosum ATCC 700975', 'Anaerotruncus colihominis DSM 17241', 'Saccharospirillum impatiens DSM 12546', 'Clostridium saccharobutylicum DSM 13864', 'Paenibacillus stellifer', 'Epichloe aotearoae', 'Staphylococcus pettenkoferi VCU012', 'Vibrio brasiliensis LMG 20546', 'Vibrio kanaloae 5S-149', 'Methanosarcina lacustris Z-7289', 'Sulfurihydrogenibium subterraneum DSM 15120', 'Halosimplex carlsbadense 2-9-1', 'Mycoplasma anatis 1340', 'Mycoplasma cynos C142', 'Tistrella mobilis KA081020-065', 'Mycoplasma ovis str. Michigan', 'Oceanobacillus picturae', 'Thermodesulfatator indicus DSM 15286', 'Rothia aeria F0184', 'Elizabethkingia miricola', 'Thermococcus sibiricus MM 739', 'Bradyrhizobium sp. th.b2', 'Meiothermus taiwanensis DSM 14542', 'Echeneis naucrates', 'Brachybacterium paraconglomeratum LC44', 'Methylobacter tundripaludum SV96', 'Gemmatimonas aurantiaca T-27', 'Gordonia sihwensis NBRC 108236', 'Ordospora colligata OC4', 'Allobaculum stercoricanis DSM 13633', 'Gordonia paraffinivorans NBRC 108238', 'Thermaerobacter subterraneus DSM 13965', 'Buceros rhinoceros', 'Nestor notabilis', 'Streptococcus sinensis', 'Pseudoalteromonas agarivorans S816', 'Beauveria bassiana', 'Halomonas halocynthiae DSM 14573', 'Lactobacillus malefermentans DSM 5705 = KCTC 3548', 'Python bivittatus', 'Coniochaeta ligniaria NRRL 30616', 'Anaerophaga thermohalophila DSM 12881', 'Pseudothermotoga lettingae TMO', 'Shuttleworthia satelles DSM 14600', 'Facklamia hominis ACS-120-V-Sch10', 'Leptospirillum ferriphilum ML-04', 'Pisolithus microcarpus 441', 'Acetobacter malorum', 'Clostridium colicanis 209318', 'Alicycliphilus denitrificans K601', 'Culicoides sonorensis', 'Sphingomonas elodea ATCC 31461', 'Rhizopogon vesiculosus', 'Cyanobium sp. PCC 7001', 'Robinsoniella peoriensis', 'Salinisphaera shabanensis E1L3A', 'Proteocatella sphenisci DSM 23131', 'Carnobacterium pleistocenium FTR1', 'Pseudopodoces humilis', 'Salarias fasciatus', 'Pyrobaculum calidifontis JCM 11548', 'Schaalia cardiffensis F0333', 'Cyanoderma ruficeps', 'Desulfococcus oleovorans Hxd3', 'Lactobacillus coleohominis 101-4-CHN', 'Pseudodesulfovibrio aespoeensis Aspo-2', 'Erwinia billingiae Eb661', 'Rubritepida flocculans DSM 14296', 'Kribbella flavida DSM 17836', 'Oceanobacillus iheyensis HTE831', 'Oryzias sinensis', 'Stemphylium lycopersici', 'Pseudo-nitzschia multistriata', 'Pseudomonas mediterranea CFBP 5447', 'Schaalia vaccimaxillae DSM 15804', 'Thermodesulfobium narugense DSM 14796', 'Thermoproteus uzoniensis 768-20', 'Crocinitomix catalasitica ATCC 23190', 'Varibaculum cambriense DORA_20', 'Knoellia subterranea KCTC 19937', 'Corallococcus coralloides DSM 2259', 'Desulfovibrio magneticus RS-1', 'Prevotella oryzae DSM 17970', 'Prevotella paludivivens DSM 17968 = JCM 13650', 'Paludibacter propionicigenes WB4', 'Chrysochloris asiatica', 'Fragilariopsis cylindrus CCMP1102', 'Xylanimonas cellulosilytica DSM 15894', 'Marinithermus hydrothermalis DSM 14884', 'Candidatus Baumannia cicadellinicola', 'Bartonella washoeensis Sb944nv', 'Thioalkalivibrio nitratireducens DSM 14787', 'Sneathia amnii', 'Oceanithermus profundus DSM 14977', 'Caldithrix abyssi DSM 13497', 'Methylocystis sp. SC2', 'Labrenzia aggregata IAM 12614', 'Megasphaera micronuciformis F0359', 'Acidaminococcus intestini RyC-MR95', 'Veillonella montpellierensis DNF00314', 'Chlamydotis macqueenii', 'Paracoccus zeaxanthinifaciens ATCC 21588', 'Pediococcus claussenii ATCC BAA-344', 'Thalassolituus oleivorans MIL-1', 'Thermococcus gammatolerans EJ3', 'Mitsuokella jalaludinii DSM 13811', 'Enterovibrio norvegicus FF-33', 'Leptosomus discolor', 'Egretta garzetta', 'Dermacoccus sp. Ellin185', 'Oleispira antarctica RB-8', 'Cetobacterium somerae ATCC BAA-474', 'Candidatus Tremblaya princeps PCIT', 'Paenibacillus graminis', 'Paenibacillus odorifer', 'Babesia ovata', 'Paenibacillus elgii B69', 'Prevotella marshii DSM 16973 = JCM 13450', 'Prevotella micans F0438', 'Bradyrhizobium sp. Ec3.3', 'Mycobacterium sp. KMS', 'Actinotignum urinale DSM 15805', 'Idiomarina baltica OS145', 'Vibrio coralliilyticus ATCC BAA-450', 'Desulfovibrio hydrothermalis AM13 = DSM 14728', 'Rhodococcus aetherivorans', 'Leifsonia rubra CMS 76R', 'Conexibacter woesei DSM 14684', 'Epilithonimonas tenax DSM 16811', 'Fluviicola taffensis DSM 16823', 'Corynebacterium atypicum', 'Plesiocystis pacifica SIR-1', 'Lynx pardinus', 'Chthoniobacter flavus Ellin428', 'Shewanella denitrificans OS217', 'Rhodoferax ferrireducens T118', 'Capsaspora owczarzaki ATCC 30864', 'Streptomyces niveus NCIMB 11891', 'Lactobacillus versmoldensis DSM 14857 = KCTC 3814', 'Athene cunicularia', 'Cardiobacterium valvarum F0432', 'Sphingomonas sp. ATCC 31555', 'Sinorhizobium americanum CCGM7', 'Chroomonas mesostigmatica CCMP1168', 'Haematobacter massiliensis', 'Synechococcus sp. PCC 7336', 'Synechococcus sp. PCC 6312', 'Thermococcus nautili', 'Gillisia limnaea DSM 15749', 'Caldimonas manganoxidans ATCC BAA-369', 'Microdochium bolleyi', 'Nocardioides sp. JS614', 'Caballeronia sordidicola', 'Bradyrhizobium sp. Ai1a-2', 'Porphyrobacter cryptus DSM 12079', 'Actinoplanes friuliensis DSM 7358', 'Deferribacter desulfuricans SSM1', 'Alkanindiges illinoisensis DSM 15370', 'Paraglaciecola mesophila KMM 241', 'Psychroflexus tropicus DSM 15496', 'Haemophilus aegyptius ATCC 11116', 'Streptococcus pasteurianus ATCC 43144', 'Candidatus Pelagibacter ubique HTCC7217', 'Anoxybacillus gonensis', 'Talaromyces verruculosus', 'Calidris pugnax', 'Candidatus Paraburkholderia kirkii UZHbot1', 'Coccidioides posadasii RMSCC 3488', 'Microbacterium paraoxydans 77MFTsu3.2', 'Methylocella silvestris BL2', 'Anopheles epiroticus', 'Nicotiana obtusifolia', 'Caldisphaera lagunensis DSM 15908', 'Pseudomonas poae RE*1-1-14', 'Strix occidentalis caurina', 'Lysinibacillus odysseyi 34hs-1 = NBRC 100172', 'Jaapia argillacea MUCL 33604', 'Punctularia strigosozonata', 'Sulfurimonas autotrophica DSM 16294', 'Actinobaculum massiliense ACS-171-V-Col2', 'Acinetobacter baylyi ADP1', 'Acinetobacter bouvetii DSM 14964 = CIP 107468', 'Acinetobacter gerneri', 'Acinetobacter tandoii', 'Acinetobacter tjernbergiae', 'Acinetobacter towneri', 'Tepidiphilus margaritifer DSM 15129', 'Longispora albida DSM 44784', 'Candidatus Blochmannia floridanus', 'Melampsora larici-populina 98AG31', 'Dickeya dadantii 3937', 'Dickeya zeae Ech586', 'Alicyclobacillus pomorum DSM 14955', 'Bacteroides massiliensis B84634 = Timone 84634 = DSM 17679 = JCM 13223', 'Roseomonas cervicalis ATCC 49957', 'Herminiimonas arsenicoxydans', 'Nitratireductor aquibiodomus NL21 = JCM 21793', 'Mastacembelus armatus', 'Novosphingobium pentaromativorans US6-1', 'Panicum hallii', 'Gymnopus luxurians FD-317 M1', 'Sulfurovum lithotrophicum', 'Bermanella marisrubri', 'Neptuniibacter caesariensis', 'Parvularcula bermudensis HTCC2503', 'Alkaliphilus metalliredigens QYMF', 'Puccinia triticina 1-1 BBBD Race 1', 'Amycolatopsis japonica', 'Amycolatopsis balhimycina FH 1894', 'Amycolatopsis vancoresmycina', 'Plasmodium coatneyi', 'Carnobacterium sp. 17-4', 'Fomitiporia mediterranea', 'Escherichia albertii KF1', 'Nocardia niigatensis NBRC 100131', 'Chaetomium thermophilum', "Candidatus Mycoplasma haemominutum 'Birmingham 1'", 'Marinobacter lipolyticus SM19', 'Afifella pfennigii DSM 17143', 'Corchorus capsularis', 'Nymphaea colorata', 'Thiorhodococcus drewsii AZ1', 'Sandarakinorhabdus limnophila DSM 17366', 'Parambassis ranga', 'Hanseniaspora opuntiae', 'Allokutzneria albata', 'Conchiformibius kuhniae DSM 17694', 'Accipiter nisus', 'Colwellia piezophila ATCC BAA-637', 'Mycobacterium sp. JS623', 'Exophiala mesophila', 'Halomonas campaniensis', 'Shewanella waksmanii ATCC BAA-643', 'Subdoligranulum variabile DSM 15176', 'Anaerofustis stercorihominis DSM 17244', 'Alistipes finegoldii DSM 17242', 'Komagataeibacter rhaeticus AF1', 'Exophiala oligosperma', 'Acaromyces ingoldii', 'Larimichthys crocea', 'Treponema caldarium DSM 7334', 'Erwinia sp. Ejp617', 'Thermomonas fusca DSM 15424', 'Roseovarius mucosus DSM 17069', 'Enhygromyxa salina', 'Dinoroseobacter shibae DFL 12 = DSM 16493', 'Pseudomonas rhizosphaerae', 'Polaromonas naphthalenivorans CJ2', 'Stenotrophomonas rhizophila', 'Bifidobacterium longum NCC2705', 'Spiroplasma chrysopicola DF-1', 'Spiroplasma culicicola AES-1', 'Spiroplasma diminutum CUAS-1', 'Spiroplasma sabaudiense Ar-1343', 'Spiroplasma syrphidicola EA-1', 'Clostridium carboxidivorans P7', 'Microvirga flocculans ATCC BAA-817', 'Marinospirillum insulare DSM 21763', 'Neomegalonema perideroedes DSM 15528', 'Fulvimarina pelagi HTCC2506', 'Anoplophora glabripennis', 'Bifidobacterium psychraerophilum', 'Bacillus vietnamensis', 'Dialister invisus DSM 15470', 'Aquilegia coerulea', 'Brachybacterium muris UCD-AY4', 'Micromonospora sp. ATCC 39149', 'Aeromicrobium marinum DSM 15272', 'Rhodanobacter fulvus Jip2', 'Gemmobacter nectariphilus DSM 15620', 'Bathymodiolus platifrons', 'Bacillus bataviensis LMG 21833', 'Bacillus vireti LMG 21834', 'Thalassospira xiamenensis M-5 = DSM 17429', 'Treponema putidum', 'Kordia algicida OT-1', 'Moniliophthora roreri', 'Mastigocladopsis repens PCC 10914', 'Synechococcus sp. RS9916', 'Synechococcus sp. RS9917', 'Polytolypa hystricis UAMH7299', 'Phaeobacter inhibens DSM 17395', 'Frankia elaeagni', 'Natrinema altunense', 'Kocuria marina', 'Phaeoacremonium minimum', 'Halomonas boliviensis LC1', 'Hymenobacter norwichensis DSM 15439', 'Exiguobacterium oxidotolerans JCM 12280', 'Methylorubrum populi BJ001', 'Buteo japonicus', 'Methanobrevibacter sp. AbM4', 'Pyrus x bretschneideri', 'Lottia gigantea', 'Geobacter bemidjiensis Bem', 'Geopsychrobacter electrodiphilus DSM 16401', 'Enhydrobacter aerosaccus SK60', 'Corynebacterium halotolerans YIM 70093 = DSM 44683', 'Erysiphe pulchra', 'Myotis davidii', 'Sulfitobacter indolifex HEL-45', 'Yaniella halotolerans DSM 15476', 'Paenibacillus sanguinis 2301083 = DSM 16941', 'Paenibacillus massiliensis 2301065 = DSM 16942', 'Fictibacillus gelatini DSM 15865', 'Comamonas aquatica NBRC 14918', 'Aestuariibacter salexigens DSM 15300', 'Salvia miltiorrhiza', 'Algoriphagus mannitolivorans DSM 15301', 'Rickettsia heilongjiangensis 054', 'Grosmannia clavigera kw1407', 'Bigelowiella natans', 'Corynebacterium ciconiae DSM 44920', 'Lactobacillus antri DSM 16041', 'Lactobacillus ultunensis DSM 16047', 'Paenibacillus lactis 154', 'Nocardia higoensis NBRC 100133', 'Nocardia pneumoniae NBRC 100136', 'Prevotella shahii DSM 15611 = JCM 12083', 'Prevotella salivae DSM 15606', 'Thermovibrio ammonificans HB-1', 'Arenibacter certesii DSM 19833', 'Flavobacterium frigoris PS1', 'Arsenicicoccus bolidensis DSM 15745', "Aster yellows witches'-broom phytoplasma AYWB", 'Streptococcus minor DSM 17118', 'Halobiforma lacisalsi AJ5', 'Aeropyrum camini SY1 = JCM 12091', 'Methylophaga aminisulfidivorans MP', 'Scardovia wiggsiae F0424', 'Lactobacillus rossiae DSM 15814', 'Saccharibacter floricola DSM 15669', 'Streptococcus devriesei DSM 19639', 'Beijerinckia mobilis', 'Desulfobulbus japonicus DSM 18378', 'Dyella japonica A8', 'Phanerochaete carnosa HHB-10118-sp', 'Belliella baltica DSM 15883', 'Effusibacillus pohliae DSM 22757', 'Halomonas alkaliantarctica', 'Synechococcus sp. CB0101', 'Acidovorax sp. JS42', 'Desulfitobacterium dichloroeliminans LMG P-21439', 'Candidatus Kinetoplastibacterium blastocrithidii (ex Strigomonas culicis)', 'Candidatus Midichloria mitochondrii IricVA', 'Corynebacterium caspium DSM 44850', 'Pseudoalteromonas sp. SM9913', 'Amanita thiersii Skay4041', 'Streptacidiphilus jiangxiensis', 'Alcanivorax sp. DG881', 'Marinobacter algicola DG893', 'Diplodia corticola', 'Chryseobacterium formosense', 'Candidatus Scalindua brodae', 'Lactobacillus kitasatonis DSM 16761 = JCM 1039', 'Oribacterium sinus F0268', 'Pseudomonas alkylphenolica', 'Pseudomonas psychrotolerans L19', 'Erythrobacter sp. NAP1', 'Lactobacillus vini DSM 20605', 'Akkermansia muciniphila ATCC BAA-835', 'Nocardiopsis valliformis DSM 45023', 'Nocardiopsis ganjiahuensis DSM 45031', 'Mycobacterium parascrofulaceum ATCC BAA-614', 'Pterocles gutturalis', 'Woodsholea maritima DSM 17123', 'Halobacillus dabanensis', 'Pseudonocardia dioxanivorans CB1190', 'Crinalium epipsammum PCC 9333', 'Helcococcus sueciensis DSM 17243', 'Amazona collaria', 'Ostreococcus lucimarinus CCE9901', 'Xenoturbella bocki', 'Acidilobus saccharovorans 345-15', 'Prevotella bergensis DSM 17361', 'Thioalkalivibrio thiocyanodenitrificans ARhD 1', 'Burkholderia sp. Ch1-1', 'Pseudomonas lutea', 'Methylohalobius crimeensis 10Ki', 'Klebsiella variicola UCI 18', 'Cynoglossus semilaevis', 'Thiocapsa marina 5811', 'Candidatus Paracaedimonas acanthamoebae', 'Candidatus Paracaedibacter symbiosus', 'Hoeflea phototrophica DFL-43', 'Nautilia profundicola AmH', 'Fictibacillus macauensis ZFHKF-1', 'Wallemia ichthyophaga', 'Yoonia vestfoldensis SKA53', "Acidomyces sp. 'richmondensis'", 'Enterococcus italicus DSM 15952', 'Bacillus bogoriensis ATCC BAA-922', 'Wolbachia endosymbiont of Cimex lectularius', 'Staphylococcus equorum subsp. equorum Mu2', 'Tupaia chinensis', 'Bacteroides cellulosilyticus WH2', 'Thermococcus sp. AM4', 'Serinicoccus marinus DSM 15273', 'Candidatus Jettenia caeni', 'Cupriavidus pinatubonensis JMP134', 'Mucispirillum schaedleri ASF457', 'Psychrobacter aquaticus CMS 56', 'Nocardia testacea NBRC 100365', 'Coccomyxa subellipsoidea', 'Cardinium endosymbiont cEper1 of Encarsia pergandiella', 'Deinococcus frigens DSM 12807', 'Deinococcus marmoris DSM 12784', 'Candidatus Blochmannia vafer str. BVAF', 'Candidatus Blochmannia chromaiodes str. 640', 'Pseudomonas syringae pv. tomato str. DC3000', 'Oceanicola granulosus HTCC2516', 'Robiginitalea biformata HTCC2501', 'Vibrio ezurae NBRC 102218', 'Saccharomyces boulardii (nom. inval.)', 'Clytia hemisphaerica', 'Mahella australiensis 50-1 BON', 'Paraburkholderia phenoliruptrix BR3459a', 'Natronolimnohabitans innermongolicus JCM 12255', 'Ethanoligenens harbinense YUAN-3', 'Owenweeksia hongkongensis DSM 17368', 'Verruconis gallopava', 'Streptomyces sp. C', 'Fonsecaea monophora', 'Solimonas variicoloris DSM 15731', 'Bacillus fordii DSM 16014 = CIP 108821', 'Streptococcus castoreus DSM 17536', 'Paeniglutamicibacter gangotriensis Lz1y', 'Arcobacter cibarius LMG 21996', 'Glycomyces arizonensis DSM 44726', 'Parvibaculum lavamentivorans DS-1', 'Glutamicibacter arilaitensis Re117', 'Gulosibacter molinativorax DSM 13485', 'Lentisphaera araneosa HTCC2155', 'Sphingomonas phyllosphaerae 5.2', 'Nocardia aobensis NBRC 100429', 'Nocardia concava NBRC 100430', 'Pleomorphomonas koreensis DSM 23070', 'Roseomonas gilardii subsp. rosea ATCC BAA-691', 'Streptococcus pseudopneumoniae IS7493', 'Otus sunia', 'Kitasatospora arboriphila', 'Corynebacterium resistens DSM 45100', 'Mycolicibacterium cosmeticum', 'Halomonas anticariensis FP35 = DSM 16096', 'Desulfatibacillum alkenivorans AK-01', 'Nocardia takedensis NBRC 100417', 'Dechloromonas aromatica RCB', 'Microbulbifer agarilyticus S89', 'Campylobacter insulaenigrae NCTC 12927', 'Nitrosomonas sp. Is79A3', 'Intestinibacter bartlettii DSM 16795', 'Paraburkholderia phytofirmans PsJN', 'Mycobacterium liflandii 128FXT', 'Cavenderia fasciculata', 'Thermosinus carboxydivorans Nor1', 'Pleomorphomonas oryzae DSM 16300', 'Kangiella koreensis DSM 16069', 'Kangiella aquimarina DSM 16071', 'Marinobacter daepoensis DSM 16072', 'Lysobacter concretionis Ko07 = DSM 16239', 'Acinetobacter beijerinckii CIP 110307', 'Jonesia quinghaiensis DSM 15701', 'Salipiger mucosus DSM 16094', 'Wolbachia endosymbiont of Culex quinquefasciatus Pel', 'Viridibacillus arenosi FSL R5-213', 'Crocosphaera watsonii WH 8501', 'Pneumocystis murina', 'Marinomonas ushuaiensis DSM 15871', 'Gordonia effusa NBRC 100432', 'Algoriphagus marincola DSM 16067', 'Botryobasidium botryosum', 'Capsella grandiflora', 'Oceanimonas smirnovii ATCC BAA-899', 'Acholeplasma equifetale ATCC 29724', 'Acholeplasma granularum ATCC 19168', 'Acholeplasma hippikon ATCC 29725', 'Trichormus variabilis ATCC 29413', 'Byssochlamys spectabilis No. 5', 'Salinimonas chungwhensis DSM 16280', 'Pontibacillus chungwhensis BH030062', 'Silanimonas lenta DSM 16282', 'Desulfurispora thermophila DSM 16022', 'Desulfallas alcoholivorax DSM 16058', 'Rhodopirellula baltica SH 1', 'Anoxybacillus tepidamans PS2', 'Methylovorus glucosetrophus SIP3-4', 'Pseudocohnilembus persalinus', 'Chryseobacterium antarcticum', 'Porphyromonas gingivicanis', 'Chelativorans sp. BNC1', 'Microbulbifer variabilis ATCC 700307', 'Thalassobacter stenotrophicus', 'Granulicoccus phenolivorans DSM 17626 = NBRC 107789 = JCM 15570', 'Neisseria bacilliformis ATCC BAA-1200', 'Lactobacillus kefiranofaciens ZW3', 'Paenibacillus wynnii', 'Nitratifractor salsuginis DSM 16511', 'Microbotryum intermedium', 'Streptococcus marimammalium DSM 18627', 'Sporolactobacillus terrae DSM 11697', 'Atopococcus tabaci DSM 17538', 'Bartonella rattimassiliensis 15908', 'Marinobacter sp. ELB17', 'Fangia hongkongensis FSC776 = DSM 21703', 'Methylomicrobium alcaliphilum 20Z', 'Shewanella sediminis HAW-EB3', 'Shewanella halifaxensis HAW-EB4', 'Flavobacterium antarcticum DSM 19726', 'Arthrobacter castelli DSM 16402', 'Nostoc punctiforme PCC 73102', 'Olleya marilimosa CAM030', 'Actinomyces dentalis DSM 19115', 'Hyaloperonospora arabidopsidis', 'Pontibacillus marinus BH030004 = DSM 16465', 'Candida orthopsilosis Co 90-125', 'Candida metapsilosis', 'Sphaerochaeta coccoides DSM 17374', 'Exiguobacterium marinum DSM 16307', 'Microbacterium oleivorans', 'Chlorobaculum parvum NCIB 8327', 'Limimaricola hongkongensis DSM 17492', 'Opitutaceae bacterium TAV1', 'Acidobacteriaceae bacterium TAA 166', 'Collimonas arenae', 'Aquimarina muelleri DSM 19832', 'Gramella echinicola DSM 19838', 'Novosphingopyxis baekryungensis DSM 16222', 'Agromyces italicus DSM 16388', 'Antrostomus carolinensis', 'Nocardiopsis baichengensis YIM 90130', 'Pochonia chlamydosporia 170', 'Azorhizobium doebereinerae UFLA1-100', 'Candidatus Amoebophilus asiaticus 5a2', 'Caenorhabditis japonica', 'Rozella allomycis CSF55', 'Porphyromonas uenonis 60-3', 'Prevotella multiformis DSM 16608', 'Nocardia jiangxiensis NBRC 101359', 'Sander lucioperca', 'Kosakonia radicincitans DSM 16656', 'Pseudoalteromonas sp. Bsw20308', 'Staphylococcus pseudintermedius ED99', 'Stackebrandtia nassauensis DSM 44728', 'Capitella teleta', 'Phenylobacterium zucineum HLK1', 'Streptomyces flavovariabilis', 'Alcanivorax dieselolei B5', 'Thioclava pacifica DSM 10166', 'Acetobacter nitrogenifigens DSM 23921 = LMG 23498', 'Streptomyces roseochromogenus subsp. oscitans DS 12.976', 'Streptomyces xylophagus', 'Streptomyces sviceus ATCC 29083', 'Streptomyces fulvoviolaceus', 'Streptomyces thermolilacinus SPC6', 'Micromonospora lupini str. Lupac 08', 'Hahella ganghwensis DSM 17046', 'Episyrphus balteatus', 'Alkaliflexus imshenetskii DSM 15055', 'Segniliparus rotundus DSM 44985', 'Segniliparus rugosus ATCC BAA-974', 'Hellea balneolensis DSM 19091', 'Haliea salexigens DSM 19537', 'Balneola vulgaris DSM 17893', 'Amycolatopsis rifamycinica', 'Bradyrhizobium sp. BTAi1', 'Kordiimonas gwangyangensis DSM 19435 = JCM 12864', 'Microbotryum lychnidis-dioicae p1A1 Lamole', 'Hungateiclostridium clariflavum DSM 19732', 'Microbotryum aff. violaceum TUB 011817', 'Bacteroides helcogenes P 36-108', 'Nocardia exalbida NBRC 100660', "Penicillium sp. 'occitanis'", 'Comamonas granuli NBRC 101663', 'Arthrobacter sp. FB24', 'Jannaschia sp. CCS1', 'Aminiphilus circumscriptus DSM 16581', 'Photorhabdus asymbiotica', 'Bartonella melophagi K-2C', 'Bacteroides salyersiae WAL 10018 = DSM 18765 = JCM 12988', 'Bacteroides nordii CL02T12C05', 'Acaricomes phytoseiuli DSM 14247', 'Erythrobacter vulgaris', 'Thermosediminibacter oceani DSM 16646', 'Ruegeria sp. TM1040', 'Dactylococcopsis salina PCC 8305', 'Flavonifractor plautii 1_3_50AFAA', 'Lysinibacillus massiliensis 4400831 = CIP 108448 = CCUG 49529', 'Martelella mediterranea DSM 17316', 'Haloquadratum walsbyi J07HQW2', 'Cyphellophora europaea', 'Desulfovibrio alkalitolerans DSM 16529', 'Agromyces subbeticus DSM 16689', 'Proteiniphilum acetatigenes DSM 18083', 'Rubellimicrobium thermophilum DSM 16684', 'Candidatus Hepatoplasma crinochetorum Av', 'Micromonas commoda', 'Polaromonas sp. JS666', 'Caldalkalibacillus thermarum TA2.A1', 'Patulibacter minatonensis DSM 18081', 'Frankia sp. EAN1pec', 'Frankia inefficax', 'Frankia saprophytica', 'Pseudoalteromonas spongiae UST010723-006', 'Denticeps clupeoides', 'Leptotrombidium deliense', 'Adhaeribacter aquaticus DSM 16391', 'Francisella orientalis str. Toba 04', 'Rhodococcus triatomae BKS 15-14', 'Glaciecola nitratireducens FR1064', 'Lachancea meyersii CBS 8951', 'Catellicoccus marimammalium M35/04/3', 'Bacillus lehensis G1', 'Roseburia hominis A2-183', 'Methanosaeta harundinacea 6Ac', 'Seriola lalandi dorsalis', 'Advenella mimigardefordensis DPN7', 'Corynebacterium tuscaniense DNF00037', 'Halobacillus kuroshimensis DSM 18393', 'Pundamilia nyererei', 'Lactobacillus apis', 'Lactobacillus harbinensis DSM 16991', 'Catenulispora acidiphila DSM 44928', 'Actinospica robiniae DSM 44927', 'Thauera sp. 27', 'Endozoicomonas elysicola', 'Pusillimonas noertemannii BS8', 'Marinimicrobium agarilyticum DSM 16975', 'Calidithermus timidus DSM 17022', 'Lactobacillus apodemi DSM 16634 = JCM 16172', 'Chryseobacterium vrystaatense', 'Aphis glycines', 'Gracilibacillus boraciitolerans JCM 21714', 'Sinocyclocheilus rhinocerous', 'Apteryx rowi', 'Bacillus boroniphilus JCM 21738', 'Dialister microaerophilus UPII 345-E', 'Chrysiogenes arsenatis DSM 11915', 'Persephonella marina EX-H1', 'Sulfurihydrogenibium azorense Az-Fu1', 'Candidatus Liberibacter americanus str. Sao Paulo', 'Deinococcus apachensis DSM 19763', 'Deinococcus maricopensis DSM 21211', 'Deinococcus pimensis DSM 21231', 'Bacteroides plebeius DSM 17135', 'Bacteroides coprocola DSM 17136', 'Bacteroides pyogenes JCM 10003', 'Neofusicoccum parvum', 'Prevotella multisaccharivorax DSM 17128', 'Advenella kashmirensis W13003', 'Deinococcus deserti VCD115', 'Modiolus philippinarum', 'Linnemannia elongata AG-77', 'Paraburkholderia terrae NBRC 100964', 'Thermococcus kodakarensis KOD1', 'Paraburkholderia mimosarum LMG 23256 = NBRC 106338', 'Flavobacterium indicum GPTSA100-9 = DSM 17447', 'Emticicia oligotrophica DSM 17448', 'Pseudomonas entomophila L48', 'Streptococcus massiliensis DSM 18628', 'Croceibacter atlanticus HTCC2559', 'Janibacter sp. HTCC2649', 'Dokdonia sp. MED134', 'Polaribacter sp. MED152', 'Maribacter sp. HTCC2170', 'Lyngbya sp. PCC 8106', 'Synechococcus sp. BL107', 'Bacillus sp. NRRL B-14911', 'Geobacter lovleyi SZ', 'Drechslerella stenobrocha 248', 'Nitrobacter sp. Nb-311A', 'Oceanicaulis sp. HTCC2633', 'Pseudooceanicola batsensis HTCC2597', 'Roseobacter sp. MED193', 'Roseovarius nubinhibens ISM', 'Roseovarius sp. 217', 'Sphingomonas sp. SKA58', 'Sulfitobacter sp. NAS-14.1', 'Rhodobacteraceae bacterium HTCC2083', 'Alteromonas mediterranea', 'Marinomonas sp. MED121', 'Pseudoalteromonas tunicata D2', 'Psychromonas sp. CNPT3', 'Vibrio sp. MED222', 'Prolixibacter bellariivorans ATCC BAA-1284', 'Mariprofundus ferrooxydans PV-1', 'Pseudoxanthomonas suwonensis 11-1', 'Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069', 'Belgica antarctica', 'Leadbetterella byssophila DSM 17132', 'Syntrophus aciditrophicus SB', 'Synechococcus sp. RCC307', 'Synechococcus sp. CC9902', 'Microbispora sp. ATCC PTA-5024', 'Rubrivivax benzoatilyticus JA2 = ATCC BAA-35', 'Kuraishia capsulata', 'Enterococcus caccae ATCC BAA-1240', 'Nostoc sp. PCC 7107', 'Mycolicibacterium rufum', 'Mycolicibacterium aromaticivorans JS19b1 = JCM 16368', 'Clostridium sulfidigenes', 'Pyricularia oryzae 70-15', 'Bradyrhizobium sp. WSM1743', 'Bradyrhizobium sp. WSM1253', 'Bradyrhizobium sp. WSM471', 'Nonlabens sediminis', 'Clostridium lundense DSM 17049', 'Formosa agariphila KMM 3901', 'Gordonia soli NBRC 108243', 'Pseudocercospora eumusae', 'Synechococcus sp. JA-3-3Ab', "Synechococcus sp. JA-2-3B'a(2-13)", 'Lepidothrix coronata', 'Pseudomonas moraviensis R28-S', 'Pseudomonas simiae', 'Wheat blue dwarf phytoplasma', 'Porphyromonas somerae DSM 23386', 'Sharpea azabuensis DSM 18934', 'Sphingomonas sp. BHC-A', 'Leptolyngbya valderiana BDU 20041', 'Paenibacillus sp. JDR-2', 'Bacillus infantis NRRL B-14911', 'Kwoniella bestiolae CBS 10118', 'Kwoniella dejecticola CBS 10117', 'Moelleriella libera RCEF 2490', 'Phytophthora kernoviae', 'Coxiella endosymbiont of Amblyomma americanum', 'Paraglaciecola psychrophila 170', 'Pseudozyma hubeiensis', 'Candidatus Accumulibacter phosphatis clade IIA str. UW-1', 'Bifidobacterium crudilactis', 'Syntrophorhabdus aromaticivorans UI', 'Nonlabens dokdonensis DSW-6', 'Parabacteroides goldsteinii dnLKV18', 'Alistipes onderdonkii WAL 8169 = DSM 19147', 'Alistipes shahii WAL 8301', 'Manacus vitellinus', 'Rhizoclosmatium globosum', 'Flavobacterium saliperosum S13', 'Bacteroides intestinalis DSM 17393', 'Amycolatopsis jejuensis', 'Nitrospira defluvii', 'Psychrobacter cryohalolentis K5', 'Kamptonema formosum PCC 6407', 'Sphingobium japonicum UT26S', 'Clostridium drakei', 'Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7', 'Candidatus Solibacter usitatus Ellin6076', 'Halococcus hamelinensis 100A6', 'Truepera radiovictrix DSM 17093', 'Exiguobacterium sibiricum 255-15', 'Hirsutella minnesotensis 3608', 'Alkalihalobacillus okhensis', 'Psychrobacter arcticus 273-4', 'Rickettsia tamurae', 'Ignisphaera aggregans DSM 17230', 'Methylobacterium oryzae CBMB20', 'Halococcus thailandensis JCM 13552', 'Thermovirga lienii DSM 17291', 'Candidatus Sulcia muelleri PSPU', 'Rhodonellum psychrophilum GCM71 = DSM 17998', 'Oenococcus kitaharae DSM 17330', 'Pyronema omphalodes', 'Chlorobium chlorochromatii CaD3', 'Gordonia sp. KTR9', 'Halorubrum ezzemoulense DSM 17463', 'Pseudodonghicola xiamenensis DSM 18339', 'Bacteroides finegoldii DSM 17565', 'Nitrosopumilus maritimus SCM1', 'Erwinia tasmaniensis Et1/99', 'Mycobacterium colombiense CECT 3035', 'Desulfosporosinus youngiae DSM 17734', 'Criblamydia sequanensis CRIB-18', 'Thermodesulfovibrio thiophilus DSM 17215', 'Tuberibacillus calidus DSM 17572', 'Spathaspora passalidarum NRRL Y-27907', 'Amorphus coralli DSM 19760', 'Desulfovibrio frigidus DSM 17176', 'Ascodesmis nigricans', 'Peptostreptococcus stomatis DSM 17678', 'Agrococcus lahaulensis DSM 17612', 'Methylophilaceae bacterium B1', 'Burkholderia oklahomensis', 'Thermococcus onnurineus NA1', 'Pyrococcus sp. NA2', 'Paenibacillus barengoltzii G22', 'Salipiger bermudensis HTCC2601', 'Flavobacterium soli DSM 19725', 'Kutzneria sp. 744', 'Podiceps cristatus', 'Geobacter pickeringii', 'Amycolatopsis benzoatilytica AK 16/65', 'Lysobacter daejeonensis GH1-9', 'Echinicola pacifica DSM 19836', 'Moraxella boevrei DSM 14165', 'Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896', 'Rhodanobacter spathiphylli B39', 'Streptomyces davaonensis JCM 4913', 'Exophiala xenobiotica', 'Streptacidiphilus oryzae TH49', 'Rhizobium favelukesii', 'Spironucleus salmonicida', 'Desulfovirgula thermocuniculi DSM 16036', 'Cercospora zeina', 'Psychrobacter sp. PRwf-1', 'Micavibrio aeruginosavorus ARL-13', 'Corynebacterium marinum DSM 44953', 'Flavobacterium daejeonense DSM 17708', 'Flavobacterium suncheonense GH29-5 = DSM 17707', 'Roseobacter sp. AzwK-3b', 'Alkalilimnicola ehrlichii MLHE-1', 'Oscillibacter valericigenes Sjm18-20', 'Salinispora pacifica CNT003', 'Geobacter uraniireducens Rf4', 'Xenorhabdus doucetiae', 'Shewanella sp. W3-18-1', 'Halostagnicola larsenii XH-48', 'Arenimonas malthae CC-JY-1', 'Niastella koreensis GR20-10', 'Streptomyces sp. Tu6071', 'Limnoperna fortunei', 'Alloscardovia criceti DSM 17774', 'Bifidobacterium tsurumiense', 'Micromonospora chokoriensis', 'Phocaeicola dorei', 'Lactobacillus parabrevis ATCC 53295', 'Cercospora berteroae', 'Psychromonas ingrahamii 37', 'Roseiflexus sp. RS-1', 'Microbacterium indicum DSM 19969', 'Acidovorax sp. KKS102', 'Methanoregula boonei 6A8', 'Streptomyces olindensis', 'Pseudomonas extremaustralis 14-3 substr. 14-3b', 'Shewanella loihica PV-4', 'Smaragdicoccus niigatensis DSM 44881 = NBRC 103563', 'Methylotenera mobilis 13', 'Bryobacter aggregatus MPL3', 'Zavarzinella formosa DSM 19928', 'Schlesneria paludicola DSM 18645', 'Leeuwenhoekiella blandensis MED217', 'Roseburia inulinivorans DSM 16841', 'Exiguobacterium sp. AT1b', 'Rubritalea marina DSM 17716', 'Tieghemostelium lacteum', 'Streptococcus pseudoporcinus SPIN 20026', 'Pseudarthrobacter phenanthrenivorans Sphe3', 'Streptomyces vietnamensis', 'Flavobacterium reichenbachii', 'Candidatus Protochlamydia amoebophila UWE25', 'Kaistia granuli DSM 23481', 'Prevotella stercorea DSM 18206', 'Ktedonobacter racemifer DSM 44963', 'Dyella ginsengisoli LA-4', 'Janibacter hoylei PVAS-1', 'Verminephrobacter eiseniae EF01-2', 'Granulibacter bethesdensis CGDNIH1', 'Endocarpon pusillum Z07020', 'Ferrimonas futtsuensis DSM 18154', 'Chryseobacterium caeni DSM 17710', 'Pelosinus fermentans DSM 17108', 'Frankia discariae', 'Belnapia moabensis DSM 16746', 'Paenibacillus sabinae T27', 'Ruania albidiflava DSM 18029', 'Caulobacter sp. K31', 'Haladaptatus paucihalophilus DX253', 'Yersinia similis', 'Phycicoccus jejuensis', 'Rhodobacterales bacterium HTCC2255', 'Pelusios castaneus', 'Blattabacterium sp. (Periplaneta americana) str. BPLAN', 'Blattabacterium sp. (Blatta orientalis) str. Tarazona', 'Rheinheimera perlucida DSM 18276', 'Paenibacillus terrigena DSM 21567', 'Mesonia mobilis DSM 19841', 'Haloterrigena limicola JCM 13563', 'Gallionella capsiferriformans ES-2', 'Arenimonas composti TR7-09 = DSM 18010', 'Flavobacterium filum DSM 17961', 'Brevundimonas aveniformis DSM 17977', 'Erwinia typographi', 'Bacteroides xylanisolvens XB1A', 'Rhodobacter sp. SW2', 'Fischerella thermalis PCC 7521', 'Bartonella tamiae Th239', 'Rivularia sp. PCC 7116', 'Campylobacter cuniculorum DSM 23162 = LMG 24588', 'Reinekea blandensis MED297', 'Janthinobacterium sp. Marseille', 'Pseudooceanicola nanhaiensis DSM 18065', 'Sphaeramia orbicularis', 'Natranaerobius thermophilus JW/NM-WN-LF', 'Haloplanus natans DSM 17983', 'Gordonia shandongensis DSM 45094', 'Olivibacter sitiensis DSM 17696', 'Zhouia amylolytica AD3', 'Paracoccus halophilus', 'Bacteroides barnesiae DSM 18169 = JCM 13652', 'Phocaeicola salanitronis DSM 18170', 'Thermobacillus composti KWC4', 'Methyloversatilis universalis FAM5', 'Novosphingobium nitrogenifigens DSM 19370', 'Cyanobacterium aponinum PCC 10605', 'Streptomyces bingchenggensis BCW-1', 'Vibrio sinaloensis DSM 21326', 'Propithecus coquereli', 'Aciduliprofundum boonei T469', 'Paenibacillus fonticola DSM 21315', 'Niabella aurantiaca DSM 17617', 'Pseudomonas protegens CHA0', 'Cohnella laeviribosi DSM 21336', 'Lactobacillus namurensis str. Chizuka 01', 'Streptococcus ictaluri 707-05', 'Hydrogenobaculum sp. Y04AAS1', 'Lachancea thermotolerans', 'Amycolatopsis nigrescens CSC17Ta-90', 'Algiphilus aromaticivorans DG1253', 'Verrucomicrobiae bacterium DG1235', 'Erythrobacter sp. JL475', 'Ornithinimicrobium pekingense DSM 21552', 'Bacillus aidingensis DSM 18341', 'Cycloclasticus sp. P1', 'Pseudophaeobacter arcticus DSM 23566', 'Thermophagus xiamenensis', 'Paraburkholderia ferrariae NBRC 106233', 'Prevotella timonensis 4401737 = DSM 22865 = JCM 15640', 'Methanobacterium arcticum', 'Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)', 'Moraxella bovoculi 237', 'Bacteroides coprophilus DSM 18228 = JCM 13818', 'Nitratiruptor sp. SB155-2', 'Sulfurovum sp. NBC37-1', 'Halovivax ruber XH-70', 'Halopiger xanaduensis SH-6', 'Parabacteroides johnsonii CL02T12C29', 'Cupriavidus sp. amp6', 'Natronorubrum sulfidifaciens JCM 14089', 'Rhodobacteraceae bacterium HTCC2150', 'Labrenzia alexandrii DFL-11', 'Algoriphagus machipongonensis', 'Bartonella australis Aust/NH1', 'Roseobacter sp. SK209-2-6', 'Hydnomerulius pinastri MD-312', 'Stachybotrys chlorohalonata IBT 40285', 'Wenxinia marina DSM 24838', 'Lactobacillus farraginis DSM 18382 = JCM 14108', 'Lactobacillus parafarraginis F0439', 'Echinicola vietnamensis DSM 17526', 'Actinocatenispora sera', 'Ehrlichia sp. HF', 'Vibrio sp. 16', 'Roseobacter sp. GAI101', 'Roseobacter sp. CCS2', 'Pedobacter sp. BAL39', 'Flavobacteria bacterium BAL38', 'Brevundimonas sp. BAL3', 'Stenotrophomonas sp. SKA14', 'Flavobacteriales bacterium ALC-1', 'Roseovarius sp. TM1035', 'Lysobacter defluvii IMMIB APB-9 = DSM 18482', 'Alicyclobacillus macrosporangiidus CPP55', 'Alicyclobacillus contaminans DSM 17975', 'Paraburkholderia nodosa DSM 21604', 'Sphingomonas jaspsi DSM 18422', 'Deinococcus misasensis DSM 22328', 'Methylophaga thiooxydans DMS010', 'Perlucidibaca piscinae DSM 21586', 'Terriglobus roseus DSM 18391', 'Uliginosibacterium gangwonense DSM 18521', 'Halalkalibacillus halophilus DSM 18494', 'Mesoflavibacter zeaxanthinifaciens S86', 'Gracilibacillus lacisalsi DSM 19029', 'Pestalotiopsis fici', 'Congregibacter litoralis KT71', 'Porphyromonas crevioricanis', 'Bhargavaea cecembensis DSE10', 'Cylindrobasidium torrendii FP15055 ss-10', 'Lactobacillus ceti DSM 22408', 'Coraliomargarita akajimensis DSM 45221', 'Bartonella rochalimae ATCC BAA-1498', 'Cyanothece sp. PCC 7425', 'Gilvimarinus chinensis DSM 19667', 'Brachybacterium phenoliresistens', 'Aspergillus ruber CBS 135680', 'Acinetobacter brisouii ANC 4119', 'Aestuariimicrobium kwangyangense DSM 21549', 'Thioalkalivibrio sp. K90mix', 'Lactobacillus hayakitensis DSM 18933 = JCM 14209', 'Andreprevotia chitinilytica DSM 18519', 'Sphingomonas sanxanigenens DSM 19645 = NX02', 'Marmoricola aequoreus', 'Lachnospiraceae bacterium 28-4', 'Lachnospiraceae bacterium 3-1', 'Lachnospiraceae bacterium A2', 'Lachnospiraceae bacterium A4', 'Barnesiella viscericola DSM 18177', 'Segetibacter koreensis DSM 18137', 'Proteiniclasticum ruminis DSM 24773', 'Agrilactobacillus composti DSM 18527 = JCM 14202', 'Helicobacter macacae MIT 99-5501', 'Trichoderma gamsii', 'Zunongwangia profunda SM-A87', 'Desulfocurvus vexinensis DSM 17965', 'Thermoanaerobacter sp. X514', 'Enterobacter sp. 638', 'Streptococcus merionis DSM 19192', 'Pontibacter korlensis', 'Marinomonas sp. MWYL1', 'Amphimedon queenslandica', 'Wohlfahrtiimonas chitiniclastica DSM 18708', 'Corynebacterium ureicelerivorans', 'Aureimonas ureilytica DSM 18598 = NBRC 106430', 'Candidatus Riesia pediculicola USDA', 'Actinomycetospora chiangmaiensis DSM 45062', 'Haloferax mucosum ATCC BAA-1512', 'Sphingobacterium sp. PM2-P1-29', 'Virgibacillus sp. SK37', 'Shewanella piezotolerans WP3', 'Maritimibacter alkaliphilus HTCC2654', 'Nonomuraea coxensis DSM 45129', 'Anaeromyxobacter sp. Fw109-5', 'Marinobacterium litorale DSM 23545', 'Geminicoccus roseus DSM 18922', 'Alicyclobacillus acidocaldarius subsp. acidocaldarius Tc-4-1', 'Leisingera daeponensis DSM 23529', 'Streptacidiphilus rugosus AM-16', 'Bacillus sp. m3-13', 'Natrinema sp. J7-2', 'Sphingomonas astaxanthinifaciens DSM 22298', 'Stegodyphus mimosarum', 'Prevotella pleuritidis JCM 14110', 'Streptomyces xiamenensis', 'Bacillus coahuilensis m4-4', 'Nocardioidaceae bacterium Broad-1', 'Clostridiisalibacter paucivorans DSM 22131', 'Treponema pedis str. T A4', 'Blastobotrys adeninivorans', 'Periophthalmus magnuspinnatus', 'Coprococcus comes ATCC 27758', 'Gordonia malaquae NBRC 108250', 'Gramella forsetii KT0803', 'Halogeometricum pallidum JCM 14848', 'Clostridium sp. SS2/1', 'Clostridium sp. M62/1', 'Clostridium sp. L2-50', 'Chryseobacterium daeguense DSM 19388', 'Entamoeba nuttalli P19', 'Paracoccus sp. TRP', 'Intrasporangium oryzae NRRL B-24470', 'Desulfotomaculum hydrothermale Lam5 = DSM 18033', 'Mycetohabitans rhizoxinica HKI 454', 'Candidatus Vesicomyosocius okutanii', 'Solimonas soli DSM 21787', 'Cronobacter turicensis z3032', 'Halalkalicoccus jeotgali B3', 'Halorubrum halophilum', 'Caldicellulosiruptor hydrothermalis 108', 'Caldicellulosiruptor kronotskyensis 2002', 'Lysobacter dokdonensis DS-58', 'Planococcus donghaensis MPA1U2', 'Actinopolyspora erythraea', 'Pseudoxanthomonas spadix BD-a59', 'Solimonas flava DSM 18980', 'Nodosilinea nodulosa PCC 7104', 'Rhodanobacter thiooxydans LCS2', 'Natronomonas moolapensis 8.8.11', 'Burkholderia sp. KJ006', 'Penicillium antarcticum', 'Selenomonas bovis DSM 23594', 'Notospermus geniculatus', 'Neptunomonas japonica DSM 18939', 'Methanosarcina horonobensis HB-1 = JCM 15518', 'Blautia wexlerae DSM 19850', 'Salinicoccus albus DSM 19776', 'Nevskia soli DSM 19509', 'Prevotella amnii CRIS 21A-A', 'Alloscardovia omnicolens DSM 21503', 'Yersinia massiliensis CCUG 53443', 'Microvirga lupini', 'Lactobacillus equicursoris DSM 19284 = JCM 14600 = CIP 110162', 'Diplodia seriata', 'Methanolobus psychrophilus R15', 'Paraburkholderia bryophila 376MFSha3.1', 'Sphingobium ummariense RL-3', 'Sulfitobacter donghicola DSW-25 = KCTC 12864 = JCM 14565', 'Chryseobacterium oranimense G311', 'Chryseobacterium halperniae', 'Chryseobacterium luteum', 'Stenoxybacter acetivorans DSM 19021', 'Mucilaginibacter paludis DSM 18603', 'Basidiobolus meristosporus CBS 931.73', 'Elusimicrobium minutum Pei191', 'Rhizobium sp. IRBG74', 'Helicobacter japonicus', 'Calidris pygmaea', 'Thiomonas arsenitoxydans', 'Methylobacterium sp. 4-46', 'Flavobacterium subsaxonicum WB 4.1-42 = DSM 21790', 'Algoriphagus vanfongensis DSM 17529', 'Nocardia rhamnosiphila', 'Bacillus chagannorensis DSM 18086', 'Salsuginibacillus kocurii DSM 18087', 'Humibacter albus DSM 18994', 'Desulfurivibrio alkaliphilus AHT 2', 'Dethiobacter alkaliphilus AHT 1', 'Moritella dasanensis ArB 0140', 'Candidatus Riesia pediculischaeffi PTSU', 'Jonquetella anthropi E3_33 E1', 'Dactylellina haptotyla', 'Halorhabdus tiamatea SARL4B', 'Baudoinia compniacensis', 'Spirosoma luteum DSM 19990', 'Spirosoma spitsbergense DSM 19989', 'Paenibacillus ginsengihumi DSM 21568', 'Kazachstania africana CBS 2517', 'Deinococcus peraridilitoris DSM 19664', 'Nocardioides halotolerans DSM 19273', 'Streptococcus sp. C150', 'Idiomarina salinarum', 'Fibularhizoctonia sp. CBS 109695', 'Sulfurihydrogenibium sp. YO3AOP1', 'Streptacidiphilus jeojiense', 'Robiginitomaculum antarcticum DSM 21748', 'Brucella sp. UK1/97', 'Brucella sp. F23/97', 'Brucella sp. F96/2', 'Brucella sp. UK40/99', 'Brucella sp. F8/99', 'Brucella sp. F5/99', 'Megamonas funiformis YIT 11815', 'Sutterella parvirubra YIT 11816', 'Ruminococcus gauvreauii DSM 19829', 'Streptococcus henryi DSM 19005', 'Streptococcus caballi DSM 19004', 'Candidatus Pelagibacter sp. HTCC7211', 'Pseudovibrio sp. JE062', 'Rhodobacterales bacterium Y4I', 'Ruegeria sp. R11', 'Prevotella maculosa DSM 19339 = JCM 15638', 'Promicromonospora kroppenstedtii DSM 19349', 'Pseudomonas sp. Chol1', 'Gouania willdenowi', 'Corynebacterium timonense 5401744', 'Corynebacterium massiliense DSM 45435', 'Hofstenia miamia', 'Knoellia aerolata DSM 18566', 'Geobacter sp. M18', 'Geobacter sp. M21', 'Bradyrhizobium sp. Cp5.3', 'Brucella microti CCM 4915', 'Sporolactobacillus vineae DSM 21990 = SL153', 'Maribacter forsetii DSM 18668', 'Gryllotalpicola ginsengisoli DSM 22003', 'Rickettsia endosymbiont of Ixodes scapularis', 'Psychromonas ossibalaenae ATCC BAA-1528', 'Reyranella massiliensis 521', 'Leptobrachium leishanense', 'Chryseobacterium soli', 'Adlercreutzia equolifaciens DSM 19450', 'Eudoraea adriatica DSM 19308', 'Niabella soli DSM 19437', 'Anaeromyxobacter sp. K', 'Epichloe gansuensis', 'Simiduia agarivorans SA1 = DSM 21679', 'Rhizobium selenitireducens ATCC BAA-1503', 'Microbacterium profundi', 'Propionibacterium sp. 5_U_42AFAA', 'Veillonella sp. 6_1_27', 'Rudanella lutea DSM 19387', 'Microbacterium luticocti DSM 19459', 'Streptomyces scopuliridis RB72', 'Pseudoclavibacter soli DSM 23366', 'Amphritea japonica ATCC BAA-1530', 'Neovison vison', 'Roseomonas aerilata DSM 19363', 'Desulfarculus baarsii DSM 2075', 'Kwoniella pini CBS 10737', 'Bdellovibrio exovorus JSS', 'Haladaptatus cibarius D43', 'Henriciella marina DSM 19595', 'Joostella marina DSM 19592', 'Halomonas lutea DSM 23508', 'Paraprevotella clara YIT 11840', 'Paraprevotella xylaniphila YIT 11841', 'Kiloniella laminariae DSM 19542', 'Chthonomonas calidirosea T49', 'Gracilimonas tropica DSM 19535', 'Spongiibacter tropicus DSM 19543', 'Glaciecola sp. HTCC2999', 'Chryseobacterium gregarium DSM 19109', 'Xanthomonas campestris pv. vesicatoria str. 85-10', 'Bizionia argentinensis JUB59', 'Saccharibacillus sacchari DSM 19268', 'Candidatus Cloacimonas acidaminovorans str. Evry', 'Streptococcus plurextorum DSM 22810', 'Rhizoctonia solani AG-8 WAC10335', 'Bacteroides sp. 1_1_30', 'Bacteroides sp. 3_1_23', 'Bacteroides sp. 3_1_33FAA', 'Bacteroides sp. 3_2_5', 'Bacteroides sp. 4_1_36', 'Bacteroides sp. 4_3_47FAA', 'Bacteroides sp. 9_1_42FAA', 'Clostridium sp. 7_2_43FAA', 'Desulfovibrio sp. 3_1_syn3', 'Escherichia sp. 1_1_43', 'Escherichia sp. 4_1_40B', 'Eubacterium sp. 3_1_31', 'Micromonospora sp. M42', 'Ruminococcus sp. 5_1_39BFAA', 'Synergistes sp. 3_1_syn1', 'Veillonella sp. 3_1_44', 'Clostridiales bacterium 1_7_47FAA', 'Erysipelotrichaceae bacterium 2_2_44A', 'Elioraea tepidiphila DSM 17972', 'Chloracidobacterium thermophilum B', 'Planomicrobium glaciei CHR43', 'Saccharibacillus kuerlensis DSM 22868', 'Kribbella catacumbae DSM 19601', 'Komagataella phaffii GS115', 'Ogataea polymorpha NCYC 495 leu1.1', 'Lactobacillus nodensis DSM 19682 = JCM 14932 = NBRC 107160', 'Actinomyces massiliensis F0489', 'Alkaliphilus oremlandii OhILAs', 'Babesia sp. Xinjiang', 'Pontibacillus yanchengensis Y32', 'Paxillus rubicundulus Ve08.2h10', 'Veillonella magna DSM 19857', 'Hemiselmis andersenii', 'Streptomyces sp. Mg1', 'Streptomyces sp. SPB074', 'Acinetobacter sp. Ver3', 'Singulisphaera acidiphila DSM 18658', 'Ilumatobacter coccineus YM16-304', 'Lachnoanaerobaculum saburreum F0468', 'Rhodobacteraceae bacterium KLH11', 'Sistotremastrum suecicum HHB10207 ss-3', 'Bacteroides sp. 1_1_14', 'Bacteroides sp. 2_1_22', 'Bacteroides sp. 2_1_33B', 'Bacteroides sp. 2_2_4', 'Parabacteroides sp. 20_3', 'Bacteroides sp. 3_1_19', 'Bacteroides sp. 3_1_40A', 'Coprobacillus sp. 8_2_54BFAA', 'Streptococcus sp. 2_1_36FAA', 'Burkholderiales bacterium 1_1_47', 'Erysipelotrichaceae bacterium 6_1_45', 'Prevotella histicola JCM 15637 = DNF00424', 'Cladophialophora yegresii', 'Gracilibacillus halophilus YIM-C55.5', 'Salinimicrobium terrae DSM 17865', 'Pantoea vagans C9-1', 'Gordonibacter pamelaeae 7-10-1-b', 'Geobacillus sp. WCH70', 'Dasania marina DSM 21967', 'Bifidobacterium bombi DSM 19703', 'Haloplasma contractile SSD-17B', 'Candidatus Desulforudis audaxviator MP104C', 'Nitratireductor basaltis', 'Nitrosococcus watsonii C-113', 'Colletotrichum gloeosporioides', 'Methanosphaerula palustris E1-9c', 'Pedobacter borealis DSM 19626', 'Pseudohaliea rubra DSM 19751', 'Leisingera aquimarina DSM 24565', 'Modestobacter marinus', 'Bacteroides graminisolvens DSM 19988 = JCM 15093', 'Aliiglaciecola lipolytica E3', 'Calditerrivibrio nitroreducens DSM 19672', 'Verrucomicrobia bacterium LP2A', 'Haematomicrobium sanguinis DSM 21259', 'Brevibacterium ravenspurgense 5401308 = CCUG 53855', 'Gluconobacter morbifer G707', 'Commensalibacter intestini A911', 'Myroides profundi', 'Bartonella rattaustraliani AUST/NH4', 'Lactobacillus otakiensis DSM 19908 = JCM 15040', 'Lactobacillus kisonensis F0435', 'Paenibacillus sp. Y412MC10', 'Galeopterus variegatus', 'Oscillatoria nigro-viridis PCC 7112', 'Burkholderia lata', 'Lactobacillus fabifermentans T30PCM01', 'Cystoisospora suis', 'Geoalkalibacter subterraneus', 'Paenibacillus riograndensis SBR5', 'Sphingobium sp. YBL2', 'Pelosinus sp. UFO1', 'Dialister succinatiphilus YIT 11850', 'Barnesiella intestinihominis YIT 11860', 'Parasutterella excrementihominis YIT 11859', 'Acinetobacter soli', 'Aequorivita capsosiphonis DSM 23843', 'Shewanella marina JCM 15074', 'Corynebacterium ulceribovis DSM 45146', 'Flavobacteria bacterium MS024-2A', 'Serratia sp. SCBI', 'Campylobacter peloridis LMG 23910', 'Desulfonatronospira thiodismutans ASO3-1', 'Halarchaeum acidiphilum MH1-52-1', 'Mesorhizobium metallidurans STM 2683', 'Corynebacterium sputi DSM 45148', 'Marinobacter sp. BSs20148', 'Litoreibacter arenae DSM 19593', 'Leucobacter chironomi DSM 19883', 'Brachymonas chironomi DSM 19884', 'Megamonas rupellensis DSM 19944', 'Bacillus velezensis FZB42', 'Dyadobacter alkalitolerans DSM 23607', 'Rhizobium alamii', 'Chryseobacterium palustre DSM 21579', 'Psychrobacter sp. TB15', 'Arthrobacter sp. TB 23', 'Spirosoma panaciterrae DSM 21099', 'Thermoanaerobacter pseudethanolicus ATCC 33223', 'Thauera sp. 63', 'Campylobacter subantarcticus LMG 24377', 'Candidatus Nitrososphaera gargensis Ga9.2', 'Brevibacillus panacihumi W25', 'Arenimonas oryziterrae DSM 21050 = YC6267', 'Flavobacterium rivuli WB 3.3-2 = DSM 21788', 'Borreliella finlandensis', 'Candidatus Korarchaeum cryptofilum OPF8', 'Tepidanaerobacter acetatoxydans Re1', 'Metarhizium brunneum ARSEF 3297', 'Streptomyces avicenniae', 'Glaciibacter superstes DSM 21135', 'Citreicella sp. SE45', 'Porphyromonas bennonis DSM 23058 = JCM 16335', 'Thermodesulfatator atlanticus DSM 21156', 'Butyricicoccus pullicaecorum 1.2', 'Thalassospira profundimaris WP0211', 'Deinococcus gobiensis I-0', 'Eggerthella sp. YY7918', 'Streptococcus porci DSM 23759', 'Aeromonas diversa CDC 2478-85', 'Salisaeta longa DSM 21114', 'Flavobacterium sasangense DSM 21067', 'Kushneria aurantia DSM 21353', 'Jejuia pallidilutea', 'Haloterrigena salina JCM 13891', 'Novosphingobium acidiphilum DSM 19966', 'Chromera velia CCMP2878', 'Rheinheimera sp. A13L', 'Leisingera caerulea DSM 24564', 'Cinara cedri', 'Peptoniphilus duerdenii ATCC BAA-1640', 'Cloacibacillus evryensis DSM 19522', 'Bradyrhizobium genosp. SA-4 str. CB756', 'Pedobacter sp. V48', 'Oceanimonas sp. GK1', 'Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2', 'Methylacidiphilum infernorum V4', 'Vibrio azureus NBRC 104587', 'Dictyoglomus turgidum DSM 6724', 'Caloramator australicus RC3', 'Lacticigenium naphtae DSM 19658', 'Prevotella falsenii DSM 22864 = JCM 15124', 'Nesterenkonia alba DSM 19423', 'Muricauda lutaonensis', 'Providencia burhodogranariea DSM 19968', 'Providencia sneebia DSM 19967', 'Jeotgalicoccus marinus DSM 19772', 'Pontibacillus litoralis JSM 072002', 'Pontibacillus halophilus JSM 076056 = DSM 19796', 'Pantoea sp. aB', 'Citromicrobium sp. JLT1363', 'Bifidobacterium mongoliense DSM 21395', 'Lactobacillus sucicola DSM 21376 = JCM 15457', 'Alcanivorax hongdengensis A-11-3', 'Deinococcus aquatilis DSM 23025', 'Elaphomyces granulatus', 'Ectothiorhodospira sp. PHS-1', 'Brucella sp. NVSL 07-0026', 'Brucella sp. 83/13', 'Acinetobacter sp. NIPH 817', 'Pseudomonas caeni DSM 24390', 'Sphingobium lactosutens DS20', 'Trichophyton mentagrophytes', 'Marinobacter santoriniensis NKSG1', 'Acinetobacter sp. ATCC 27244', 'Thiothrix lacustris DSM 21227', 'Haloglycomyces albus DSM 45210', 'Oceanibaculum indicum P24', 'Listeria marthii FSL S4-120', 'Thecamonas trahens', 'Rhodoluna lacicola', 'Pelagibacterium halotolerans B2', 'Flavobacteriaceae bacterium 3519-10', 'Actinopolymorpha alba DSM 45243', 'Mesorhizobium australicum WSM2073', 'Psychrobacter lutiphocae DSM 21542', 'Rudaea cellulosilytica DSM 22992', 'Thermus islandicus DSM 21543', 'Corynebacterium lubricantis DSM 45231', 'Peronospora effusa', 'Actinoplanes subtropicus', 'Geobacillus sp. Y412MC61', 'Actinomyces johnsonii F0510', 'Butyricimonas synergistica DSM 23225', 'Thioalkalivibrio sp. AKL11', 'Thioalkalivibrio sp. ALJ24', 'Alishewanella jeotgali KCTC 22429', 'Paraoerskovia marina DSM 21750', 'Sporothrix brasiliensis 5110', 'Hydrogenobaculum sp. 3684', 'Hydrogenobaculum sp. HO', 'Hydrogenobaculum sp. SN', 'Mycobacterium vulneris', 'Phycisphaera mikurensis NBRC 102666', 'Pseudogulbenkiania ferrooxidans 2002', 'Geobacillus sp. Y412MC52', 'Pseudonocardia acaciae DSM 45401', 'Aromatoleum aromaticum EbN1', 'Caldicoprobacter oshimai DSM 21659', 'Sediminimonas qiaohouensis DSM 21189', 'Salinarimonas rosea DSM 21201', 'Erysipelotrichaceae bacterium 5_2_54FAA', 'Ruminococcaceae bacterium D16', 'Cryptococcus gattii VGIII', 'Dehalogenimonas lykanthroporepellens BL-DC-9', 'Pseudomonas pelagia CL-AP6', 'Vibrio breoganii 1C10', 'Alishewanella agri BL06', 'Cobetia crustatorum', 'Halomonas jeotgali Hwa', 'Photobacterium leiognathi lrivu.4.1', 'Chlorella variabilis', 'Thiomonas sp. CB2', 'Flavobacterium chungangense LMG 26729', 'Galbibacter marinus', 'Staphylococcus massiliensis S46', 'Novosphingobium sp. Rr 2-17', 'Bacteroides sp. D1', 'Bacteroides sp. D2', 'Clostridium sp. D5', 'Coprobacillus sp. D7', 'Candidatus Liberibacter solanacearum CLso-ZC1', 'Propionibacterium acidifaciens DSM 21887', 'Corynebacterium freiburgense DSM 45254', 'Chryseobacterium piperi', 'Lentibacillus jeotgali', 'Salinicoccus carnicancri Crm', 'Aeromonas lacus', 'Aureobasidium namibiae CBS 147.97', 'Lysinibacillus sinduriensis BLB-1 = JCM 15800', 'Aliagarivorans taiwanensis DSM 22990', 'Prevotella sp. C561', 'Streptococcus sp. C300', 'Streptococcus sp. M143', 'Streptococcus sp. M334', 'Acidianus hospitalis W1', 'Salinisphaera hydrothermalis C41B8', 'Parabacteroides sp. D13', 'Scedosporium apiospermum', 'Geoglobus acetivorans', "Saccharomycetaceae sp. 'Ashbya aceri'", 'Metarhizium robertsii ARSEF 23', 'Dickeya poaceiphila', 'Cladophialophora immunda', 'Pseudoalteromonas lipolytica SCSIO 04301', 'Methanocella paludicola SANAE', 'Ochrobactrum rhizosphaerae SJY1', 'Psychrobacter sp. G', 'Encephalitozoon romaleae SJ-2008', 'Absidia idahoensis var. thermophila', 'Thermoanaerobacter sp. X513', 'Francisella salina', 'Candidatus Hodgkinia cicadicola Dsem', 'Pandoraea oxalativorans', 'Bacillus gaemokensis', 'Bacillus manliponensis', 'Parabacteroides gordonii MS-1 = DSM 23371', 'Pseudomonas taeanensis MS-3', 'Corynebacterium maris DSM 45190', 'Phialocephala subalpina', 'Polynucleobacter necessarius STIR1', 'Polynucleobacter asymbioticus QLW-P1DMWA-1', 'Streptomyces iranensis', 'Indibacter alkaliphilus LW1', 'Enterorhabdus mucosicola DSM 19490', 'Bacillus cytotoxicus NVH 391-98', 'Geobacillus sp. Y4.1MC1', 'Thermococcus paralvinellae', 'Rubidibacter lacunae KORDI 51-2', 'Thermoanaerobacter mathranii subsp. mathranii str. A3', 'Synechococcus sp. KORDI-49', 'Synechococcus sp. KORDI-52', 'Bacteroides sp. D20', 'Bacteroides sp. D22', 'Nematocida parisii', 'Oceanobacillus manasiensis', 'Terribacillus aidingensis', 'Myripristis murdjan', 'Pseudomonas chlororaphis', 'Rhizophagus irregularis', 'Patulibacter americanus DSM 16676', 'Kazachstania naganishii', 'Brevundimonas naejangsanensis', 'Prevotella fusca JCM 17724', 'Prevotella scopos JCM 17725', 'Alteromonas australica', 'Methylacidiphilum fumariolicum SolV', 'Streptomyces sp. SPB78', 'Streptomyces sp. AA4', 'Ignavibacterium album JCM 16511', 'Roseivivax isoporae LMG 25204', 'Piliocolobus tephrosceles', 'Pantoea sp. At-9b', 'Pantoea sp. Sc1', 'Mesorhizobium opportunistum WSM2075', 'Allofrancisella guangzhouensis', 'Rhodopirellula sp. SWK7', 'Prevotella aurantiaca JCM 15754', 'Desulfovibrio sp. U5L', 'Brenneria sp. EniD312', 'Corynebacterium pyruviciproducens ATCC BAA-1742', 'Fibroporia radiculosa', 'Meiothermus rufus DSM 22234', 'Neisseria wadsworthii 9715', 'Neisseria shayeganii 871', 'Dinoponera quadriceps', 'Asaia platycodi SF2.1', 'Harpegnathos saltator', 'Arenibacter algicola', 'Polycyclovorans algicola TG408', 'Methylocystis sp. ATCC 49242', 'Blattabacterium sp. (Blattella germanica) str. Bge', 'Bacteroides clarus YIT 12056', 'Bacteroides fluxus YIT 12057', 'Bacteroides oleiciplenus YIT 12058', 'Alistipes indistinctus YIT 12060', 'Odoribacter laneus YIT 12061', 'Slackia piriformis YIT 12062', 'Collinsella tanakaei YIT 12063', 'Succinatimonas hippei YIT 12066', 'Phascolarctobacterium succinatutens YIT 12067', 'Sphingobium sp. SYK-6', 'Sphingomonas sp. Mn802worker', 'Tomitella biformata AHU 1821', 'Thiorhodovibrio sp. 970', 'Saccharomonospora marina XMU15', 'Acinetobacter rudis CIP 110305', 'Thalassobium sp. R2A62', 'Prevotella saccharolytica F0055', 'Bifidobacterium bohemicum DSM 22767', 'Bifidobacterium actinocoloniiforme DSM 22766', 'Pyramidobacter piscolens W5455', 'Acidobacteriaceae bacterium KBS 146', 'Hoyosella subflava DQS3-9A1', 'Lactobacillus florum 2F', 'Burkholderia sp. CCGE1001', 'Burkholderia sp. CCGE1003', 'Clostridium sp. DL-VIII', 'Neisseria sp. oral taxon 014 str. F0314', 'Tatumella morbirosei', 'Silicibacter sp. TrichCH4B', 'Methanocaldococcus sp. FS406-22', 'Streptomyces sp. e14', 'Enterocytozoon hepatopenaei', 'Plasmodium gaboni', 'Methylobacterium sp. MB200', 'Micromonospora sp. L5', 'Cesiribacter andamanensis AMV16', 'Clostridium sp. ATCC BAA-442', 'Actinomyces sp. oral taxon 848 str. F0332', 'Acetomicrobium hydrogeniformans ATCC BAA-1850', 'Anaerostipes hadrus DSM 3319', 'Actinoplanes sp. N902-109', 'Sulfuricella denitrificans skB26', 'Fibrella aestuarina BUZ 2', 'Aurantimonas manganoxydans SI85-9A1', 'Kosmotoga olearia TBF 19.5.1', 'Actinomyces sp. oral taxon 180 str. F0310', 'Fretibacterium fastidiosum', 'Oribacterium sp. oral taxon 078 str. F0262', 'Bacteroidetes oral taxon 274 str. F0058', 'Peptoniphilus sp. oral taxon 386 str. F0131', 'Paenibacillus sp. oral taxon 786 str. D14', 'Prevotella sp. oral taxon 299 str. F0039', 'Prevotella sp. oral taxon 317 str. F0108', 'Actinomyces sp. oral taxon 849 str. F0330', 'Albugo laibachii', 'Prevotella sp. oral taxon 472 str. F0295', 'Pseudogymnoascus destructans 20631-21', 'Pandoraea vervacti', 'Halanaerobium hydrogeniformans', 'Ruminococcus sp. SR1/5', 'Flavobacterium beibuense F44-8', 'Candidatus Koribacter versatilis Ellin345', 'Ralstonia sp. 5_2_56FAA', 'Lachnospiraceae bacterium 1_1_57FAA', 'Lachnospiraceae bacterium 2_1_58FAA', 'Lachnospiraceae bacterium 6_1_63FAA', 'Lachnospiraceae bacterium 5_1_57FAA', 'Lachnospiraceae bacterium 3_1_57FAA_CT1', 'Lachnospiraceae bacterium 7_1_58FAA', 'Lachnospiraceae bacterium 9_1_43BFAA', 'Lachnospiraceae bacterium 5_1_63FAA', 'Pseudomonas sp. H2', 'Lachnospiraceae bacterium 1_4_56FAA', 'Lachnospiraceae bacterium 6_1_37FAA', 'Erysipelotrichaceae bacterium 21_3', 'Erysipelotrichaceae bacterium 3_1_53', 'Parabacteroides sp. D25', 'Porphyromonas sp. 31_2', 'Paraburkholderia acidipaludis NBRC 101816', 'Olsenella sp. oral taxon 809 str. F0356', 'Brachybacterium squillarum M-6-3', "Candidatus Parvarchaeum acidiphilum ARMAN-4_'5-way FS'", "Candidatus Parvarchaeum acidophilus ARMAN-5_'5-way FS'", 'Fibrisoma limi BUZ 3', 'Methylocapsa aurea', 'Leucobacter salsicius M1-8', 'Borreliella bavariensis PBi', 'Bacillus oceanisediminis 2691', 'Dietzia alimentaria 72', 'Campylobacter sp. 10_1_50', 'Clostridium sp. 7_3_54FAA', 'Coprobacillus sp. 3_3_56FAA', 'Desulfovibrio sp. 6_1_46AFAA', 'Eggerthella sp. 1_3_56FAA', 'Klebsiella sp. 4_1_44FAA', 'Neisseria sp. GT4A_CT1', 'Tannerella sp. 6_1_58FAA_CT1', 'Lachnospiraceae bacterium 3_1_46FAA', 'Lachnospiraceae bacterium 8_1_57FAA', 'Subdoligranulum sp. 4_3_54A2FAA', 'Bacillus sp. 7_6_55CFAA_CT2', 'Bacillus sp. BT1B_CT2', 'Bacillus sp. 2_A_57_CT2', 'Aquimarina macrocephali JAMB N27', 'Afipia sp. 1NLS2', 'Rhodanobacter denitrificans', 'Bacillus sp. 1NLA3E', 'Raphidiopsis brookii D9', 'Thelohanellus kitauei', 'Geminocystis herdmanii PCC 6308', 'Paenibacillus pini JCM 16418', 'Candidatus Profftella armatura', 'Microvirga aerilata', 'Candidatus Uzinura diaspidicola str. ASNER', 'Candidatus Methylomirabilis oxyfera', 'Leptotrichia sp. oral taxon 225 str. F0581', 'Alloprevotella rava F0323', 'Propionibacterium sp. oral taxon 192 str. F0372', 'Selenomonas artemidis F0399', 'Veillonella sp. oral taxon 158 str. F0412', 'Veillonella sp. oral taxon 780 str. F0422', 'Enterorhabdus caecimuris B7', 'Bacteroides sartorii dnLKV3', 'Microbacterium yannicii PS01', 'Cardinium endosymbiont cBtQ1 of Bemisia tabaci', 'Aciduliprofundum sp. MAR08-339', 'Candidatus Babela massiliensis', 'Bacteroides faecis MAJ27', 'Vibrio sp. RC586', 'Lachancea nothofagi', 'Fervidicoccus fontis Kam940', 'Sphingomonas sp. PR090111-T3T-6A', 'Pseudomonas sp. S9', 'Lichtheimia ramosa', 'Oribacterium sp. NK2B42', 'Colletotrichum fructicola Nara gc5', 'Rhizobium vignae', 'Geobacillus sp. C56-T3', 'Fonticula alba', 'Caldisericum exile AZM16c01', 'Vibrio atlanticus LGP32', 'Enterobacteriaceae bacterium strain FGI 57', 'Halogranum salarium B-1', 'Bilophila sp. 4_1_30', "Marssonina brunnea f. sp. 'multigermtubi' MB_m1", 'Virgibacillus alimentarius', 'Megasphaera genomosp. type_1 str. 28L', 'Vibrio caribbeanicus ATCC BAA-2122', 'Vibrio sp. N418', 'Novosphingobium sp. PP1Y', 'Saccharomyces arboricola H-6', 'Capnocytophaga sp. oral taxon 329 str. F0087', 'Actinomyces sp. oral taxon 171 str. F0337', 'Colletotrichum chlorophyti', 'Colletotrichum tofieldiae', 'Bradyrhizobiaceae bacterium SG-6C', 'Frankia sp. QA3', 'Actinomyces sp. oral taxon 178 str. F0338', 'Capnocytophaga sp. oral taxon 338 str. F0234', 'Colletotrichum fioriniae', 'Streptomyces sp. GXT6', 'Actinomyces sp. oral taxon 170 str. F0386', 'Actinomyces sp. oral taxon 172 str. F0311', 'Actinomyces sp. oral taxon 175 str. F0384', 'Actinomyces sp. oral taxon 181 str. F0379', 'Actinomyces sp. oral taxon 448 str. F0400', 'Aggregatibacter sp. oral taxon 458 str. W10330', 'Atopobium sp. oral taxon 199 str. F0494', 'Atopobium sp. oral taxon 810 str. F0209', 'Capnocytophaga sp. oral taxon 324 str. F0483', 'Capnocytophaga sp. oral taxon 326 str. F0382', 'Capnocytophaga sp. oral taxon 332 str. F0381', 'Capnocytophaga sp. oral taxon 336 str. F0502', 'Capnocytophaga sp. oral taxon 380 str. F0488', 'Fusobacterium sp. oral taxon 370 str. F0437', 'Leptotrichia sp. oral taxon 215 str. W9775', 'Microbacterium sp. oral taxon 186 str. F0373', 'Neisseria sp. oral taxon 020 str. F0370', 'Oribacterium sp. oral taxon 108 str. F0425', 'Peptoniphilus sp. oral taxon 375 str. F0436', 'Porphyromonas sp. oral taxon 278 str. W7784', 'Prevotella sp. oral taxon 306 str. F0472', 'Prevotella sp. oral taxon 473 str. F0040', 'Selenomonas sp. oral taxon 137 str. F0430', 'Selenomonas sp. oral taxon 138 str. F0429', 'Selenomonas sp. oral taxon 149 str. 67H29BP', 'Streptococcus sp. oral taxon 056 str. F0418', 'Streptococcus sp. oral taxon 058 str. F0407', 'Streptococcus sp. oral taxon 071 str. 73H25AP', 'Actinobaculum sp. oral taxon 183 str. F0552', 'Lachnospiraceae bacterium oral taxon 082 str. F0431', 'Lachnospiraceae oral taxon 107 str. F0167', 'Parvimonas sp. oral taxon 393 str. F0440', 'Candidatus Atelocyanobacterium thalassa isolate SIO64986', 'Alteromonas naphthalenivorans', 'Ensifer sojae CCBAU 05684', 'Caldicellulosiruptor obsidiansis OB47', 'Hyphopichia burtonii NRRL Y-1933', 'Hyphomicrobium sp. MC1', 'Plasmodium sp. DRC-Itaito', 'Nitratireductor indicus C115', 'Acidovorax ebreus TPSY', 'Vibrio genomosp. F10 str. ZF-129', 'Anncaliia algerae PRA109', 'Leptothrix ochracea L12', 'Rahnella sp. Y9602', 'Delftia sp. Cs1-4', 'Melanaphis sacchari', 'Collinsella sp. 4_8_47FAA', 'Lachnospiraceae bacterium 2_1_46FAA', 'Sphingobacterium sp. 21', 'Methylocystis sp. SB2', 'Ahrensia sp. R2A130', 'Roseibium sp. TrichSKD4', 'Sphingomonas sp. MM-1', 'Olleya sp. VCSM12', 'Mobilicoccus pelagius NBRC 104925', 'Aspergillus fumigatus Af293', 'Oceanobacillus kimchii X50', 'Azoarcus sp. KH32C', 'Pseudogulbenkiania sp. NH8B', 'Thioalkalivibrio sp. ALSr1', 'Sulfuritalea hydrogenivorans sk43H', 'Klebsiella sp. MS 92-3', 'Coprococcus sp. ART55/1', 'Halobacterium sp. DL1', 'Escherichia sp. TW09308', 'Winogradskyella sp. PG-2', 'Photobacterium aphoticum', 'Methylophaga nitratireducenticrescens', 'Methylophaga frappieri', 'Clostridium sp. BNL1100', 'Bacillus sp. WP8', 'Acinetobacter indicus CIP 110367', 'Burkholderia insecticola', 'Burkholderia sp. RPE67', 'Sporosarcina newyorkensis 2681', 'Massilia consociata', 'Bifidobacterium callitrichos DSM 23973', 'Bifidobacterium stellenboschense', 'Bifidobacterium biavatii DSM 23969', 'Siansivirga zeaxanthinifaciens CC-SAMT-1', 'Haemophilus sp. oral taxon 851 str. F0397', 'Paraburkholderia bannensis NBRC 103871', 'Moraxella macacae 0408225', 'Pyrenochaeta sp. DS3sAY3a', 'Stagonospora sp. SRC1lsM3a', 'Vibrio jasicida MWB 21', 'Citreicella sp. 357', 'Candidatus Puniceispirillum marinum IMCC1322', 'Serratia sp. AS12', 'Serratia sp. AS13', 'Sinorhizobium sp. CCBAU 05631', 'Opitutaceae bacterium TAV5', 'Burkholderiaceae bacterium PBA', 'Nesterenkonia sp. F', 'Sugiyamaella lignohabitans', 'Peptoanaerobacter stomatis', 'Stomatobaculum longum', 'Kipferlia bialata', 'Fonsecaea nubica', 'Cryptosporidium ubiquitum', 'Trichoderma parareesei', 'Caenispirillum salinarum AK4', 'Agrobacterium sp. H13-3', 'Gemmatirosa kalamazoonesis', 'Streptomyces sp. SirexAA-E', 'Thermincola potens JR', 'Burkholderiales bacterium JOSHI_001', 'Microvirga lotononidis', 'Oscillatoriales cyanobacterium C42_A2020_001', 'Schizosaccharomyces cryophilus', 'Methanothermobacter sp. CaT2', 'Chloroflexus sp. Y-396-1', 'Methanobacterium paludis', 'Ogataea angusta', 'Terriglobus saanensis SP1PR4', 'Bacteroides stercorirosoris JCM 17103', 'Lactobacillus pasteurii DSM 23907 = CRBIP 24.76', 'Celeribacter baekdonensis B30', 'Mycolicibacter sinensis', 'Peptoniphilus sp. 1-1', 'Methyloferula stellata AR4', 'Ruminococcus sp. NK3A76', 'Clostridiales bacterium NK3B98', 'Erysipelotrichaceae bacterium NK3D112', 'Lachnospiraceae bacterium NK4A136', 'Lachnospiraceae bacterium NK4A144', 'Lachnospiraceae bacterium NK4A179', 'Methanobacterium lacus', 'Chryseobacterium sp. StRB126', 'Pseudodesulfovibrio piezophilus C1TLV30', 'Cutaneotrichosporon oleaginosum', 'Plasmodium sp. gorilla clade G2', 'Fulvivirga imtechensis AK7', 'Methanoregula formicica SMSP', 'Schleiferia thermophila str. Yellowstone', 'Candidatus Zinderia insecticola CARI', 'Mageeibacillus indolicus UPII9-5', 'Fukomys damarensis', 'Desulfosporosinus acidiphilus SJ4', 'Methylovorus sp. MP688', 'Candidatus Nanosalina sp. J07AB43', 'Candidatus Nanosalinarum sp. J07AB56', 'Plautia stali symbiont', 'Nonlabens ulvanivorans', 'Phytopythium vexans DAOM BR484', 'Clostridium sp. HGF2', 'Alistipes sp. HGB5', 'Fusarium sp. FOSC 3-a', 'Actinokineospora spheciospongiae', 'SAR116 cluster alpha proteobacterium HIMB100', 'Pseudovibrio sp. FO-BEG1', 'Caldanaerobacter subterraneus subsp. tengcongensis MB4', 'Mycolicibacterium iranicum UM_TJL', 'Desulfosporosinus sp. OT', 'Knoellia flava TL1', 'Kangiella geojedonensis', 'Rhynchosporium commune', 'Rhynchosporium agropyri', 'Asinibacterium sp. OR53', 'Balearica regulorum', 'Synechocystis sp. PCC 7509', 'Bartonella florencae', 'Pseudomonas brassicacearum', 'Nonlabens marinus S1-08', 'Serratia sp. M24T3', 'Desulfosarcina sp. BuS5', 'Aminobacter sp. J41', 'Bacillus sp. J33', 'Bacillus sp. J37', 'Chelativorans sp. J32', 'Paenibacillus sp. J14', 'Paracoccus sp. J39', 'Luteimonas sp. J29', 'Nocardioides sp. J54', 'Rhizopus delemar', 'Mogibacterium sp. CM50', 'Desulfurispirillum indicum S5', 'Marinomonas posidonica IVIA-Po-181', 'Actinomyces sp. ICM47', 'Atopobium sp. BS2', 'Selenomonas sp. FOBRC6', 'Selenomonas sp. FOBRC9', 'Shuttleworthia sp. MSX8B', 'Streptococcus sp. CM6', 'Veillonella sp. AS16', 'Lachnoanaerobaculum sp. OBRC5-5', 'Lachnoanaerobaculum sp. MSX33', 'Casaltella massiliensis', 'Fenollaria massiliensis', 'Levyella massiliensis', 'Anaerococcus provencensis', 'Bacteroidetes bacterium SCGC AAA027-N21', 'Granulicella mallensis MP5ACTX8', 'Granulicella tundricola MP5ACTX9', 'Desulfovibrio sp. X2', 'Burkholderia sp. WSM2230', 'Hippea jasoniae', 'Hippea sp. KM1', 'Arcobacter sp. L', 'Gordonia neofelifaecis NRRL B-59395', 'Diplocarpon rosae', 'Salpingoeca rosetta', 'Arenimonas metalli CF5-1', 'Paraburkholderia dilworthii', 'Fusarium proliferatum', 'Palaeococcus pacificus DY20341', 'Bacillus sp. 17376', 'Fonsecaea multimorphosa CBS 102226', 'Leuconostoc sp. C2', 'Deinococcus wulumuqiensis R12', 'Aquimarina agarivorans', 'Morus notabilis', 'Ruegeria conchae', 'Lacinutrix sp. 5H-3-7-4', 'Glaciecola sp. 4H-3-7+YE-5', 'Dokdonia sp. 4H-3-7-5', 'Bifidobacterium reuteri DSM 23975', 'Heterobasidion irregulare', 'Mycoplasma parvum str. Indiana', 'Staphylococcus argenteus M21126', 'Vulcanisaeta moutnovskia 768-28', 'Ruegeria halocynthiae', 'Gillisia sp. CAL575', 'Staphylococcus agnetis', 'Lebetimonas sp. JS170', 'Polymorphum gilvum SL003B-26A1', 'Vibrio sp. HENC-03', 'Erosia sp. biolep03', 'Candidatus Kinetoplastibacterium desouzaii TCC079E', 'Candidatus Kinetoplastibacterium galatii TCC219', 'Candidatus Kinetoplastibacterium oncopeltii TCC290E', 'Desmospora sp. 8437', 'Porphyromonas sp. KLE 1280', 'Streptomyces himastatinicus ATCC 53653', 'Halomonas sp. TD01', 'Methylophaga lonarensis MPL', 'Selenomonas sp. F0473', 'Streptococcus sp. F0441', 'Streptococcus sp. F0442', 'Sedimentitalea nanhaiensis DSM 24252', 'Megasphaera sp. UPII 135-E', 'Cryobacterium roopkundense', 'Daldinia sp. EC12', 'Hypoxylon sp. CI-4A', 'Psychrobacter sp. 1501(2011)', 'Leisingera sp. ANG1', 'Candidatus Pelagibacter sp. IMCC9063', 'Verrucosispora maris AB-18-032', 'Fimbriimonas ginsengisoli Gsoil 348', 'Ogataea parapolymorpha DL-1', 'Metallosphaera cuprina Ar-4', 'Listeria weihenstephanensis FSL R9-0317', 'Defluviitoga tunisiensis', 'Candidatus Nitrosarchaeum limnium SFB1', 'Sphingomonas sp. S17', 'Pusillimonas sp. T7-7', 'Pyrococcus yayanosii CH1', 'Candidatus Tremblaya phenacola PAVE', 'Exophiala sideris', 'Nannospalax galili', 'Endozoicomonas montiporae', 'Pseudomonas sp. StFLB209', 'Acinetobacter sp. P8-3-8', 'Sphingomonas sp. KC8', 'Caloramator sp. ALD01', 'Campylobacter volucris LMG 24379', 'Corynebacterium nuruki S6-4', 'Bacillus timonensis', 'Brevibacterium senegalense', 'Kurthia sp. Dielmo', 'Kurthia massiliensis', 'Kurthia senegalensis', 'Exophiala aquamarina CBS 119918', 'Marinobacter adhaerens HP15', 'Thioalkalivibrio sulfidiphilus HL-EbGr7', 'Nitrososphaera viennensis EN76', 'Paenibacillus sp. HW567', 'Legionella massiliensis', 'Deferrisoma camini S3R1', 'Dehalobacter sp. FTH1', 'Idiomarina sp. A28L', 'Bradyrhizobium sp. WSM2793', 'Bradyrhizobium sp. WSM3983', 'Mesorhizobium sp. WSM3224', 'Mesorhizobium sp. WSM3626', 'Bradyrhizobium sp. ARR65', 'Drosophila rhopaloa', 'Ensifer sp. WSM1721', 'Candidatus Arthromitus sp. SFB-rat-Yit', 'Wickerhamomyces ciferrii', 'Aureobasidium subglaciale EXF-2481', 'Clostridium sp. SY8519', 'Rhizobium sp. IBUN', 'Ochrovirga pacifica', 'Thermococcus sp. 4557', 'Acidiphilium sp. PM', 'Demequina mangrovi', 'Citricoccus sp. CH26A', 'Oceaniovalibus guishaninsula JLT2003', 'Aminicenantes bacterium SCGC AAA252-A02', 'Zymoseptoria brevis', 'Zymoseptoria tritici', 'Candidatus Moranella endobia PCIT', 'Paracoccidioides lutzii', 'Anditalea andensis', 'Paenibacillus sp. Aloe-11', 'Verticillium alfalfae VaMs.102', 'Acetobacteraceae bacterium AT-5844', 'Thermoplasmatales archaeon BRNA1', 'Methylotenera versatilis 301', 'Psychrobacter sp. TB67', 'Grimontia indica', 'Nocardia sp. BMG51109', 'Ensifer sp. BR816', 'Azospirillum baldaniorum', 'Amycolatopsis halophila YIM 93223', 'Aspergillus luchuensis IFO 4308', 'Halonotius sp. J07HN4', 'Bacillus sp. NSP22.2', 'Tetrapisispora blattae', 'Caballeronia grimmiae', 'Lachancea dasiensis CBS 10888', 'Porticoccus hydrocarbonoclasticus MCTG13d', 'Armillaria solidipes', 'Pantoea rwandensis', 'Thiolapillus brandeum', 'Acetobacter okinawensis JCM 25146', 'Staphylococcus sp. HGB0015', 'Paenisporosarcina sp. HGH0030', 'Streptomyces sp. HGB0020', 'Parabacteroides sp. HGS0025', 'Bacteroides sp. HPS0048', 'Coprococcus sp. HPP0074', 'Coprococcus sp. HPP0048', 'Serinicoccus profundi MCCC 1A05965', 'Haemophilus sputorum CCUG 13788', 'Paenibacillus sp. HGH0039', 'Corynebacterium sp. HFH0082', 'Rhizobium mesoamericanum STM3625', 'Leucobacter chromiiresistens JG 31', 'Citrobacter sp. S-77', 'Saccharomyces eubayanus', 'Candidatus Aquiluna sp. IMCC13023', 'Hepatospora eriocheir', 'Enterospora canceri', 'Aquimarina agarilytica ZC1', 'Bartonella sp. DB5-6', 'Streptococcus sp. SK140', 'Streptococcus sp. SK643', 'Methylobacterium sp. GXF4', 'Arthrobacter sp. PAO19', 'Burkholderia sp. YI23', 'Coprobacter fastidiosus NSB1', 'Limnohabitans sp. Rim28', 'Limnohabitans sp. Rim47', 'Arthrobacter sp. MA-N2', 'Paracoccus sp. N5', 'Methylopila sp. M107', 'Methylobacterium sp. 10', 'Methylobacterium sp. 77', 'Methylophilaceae bacterium 11', 'Pyrobaculum ferrireducens', 'Actinomyces sp. ICM39', 'Clostridium sp. MSTE9', 'Rickettsia philipii str. 364D', 'Paenirhodobacter enshiensis', 'Penicillium rubens', 'Thermus sp. CCB_US3_UF1', 'Metallosphaera yellowstonensis MK1', 'Atopobium sp. BV3Ac4', 'Propionimicrobium sp. BV2F7', 'Peptoniphilus sp. BV3C26', 'Coriobacteriaceae bacterium BV3Ac1', 'Megasphaera sp. BV3C16-1', 'Psychrobacter sp. PAMC 21119', 'Sphingomonas sp. PAMC 26605', 'Sphingomonas sp. PAMC 26617', 'Methylophilus sp. 5', 'Arthrobacter sp. 31Y', 'Hoeflea sp. 108', 'Vibrio sp. EJY3', 'Elizabethkingia anophelis NUHP1', 'Brevibacillus massiliensis', 'Actinomyces sp. ph3', 'Halomonas sp. GFAJ-1', 'Arthrobacter sp. Rue61a', 'Rhizobium grahamii CCGE 502', 'Sphingopyxis sp. LC363', 'Methylopila sp. 73B', 'Mycobacterium sp. 141', 'Actinomadura flavalba DSM 45200', 'Corynebacterium doosanense CAU 212 = DSM 45436', 'Gordonia kroppenstedtii DSM 45133', 'Fodinicurvata fenggangensis DSM 21160', 'Fodinicurvata sediminis DSM 21159', 'Halomonas zhanjiangensis DSM 21076', 'Hirschia maritima DSM 19733', 'Pedobacter oryzae DSM 19973', 'Ponticaulis koreensis DSM 19734', 'Rubellimicrobium mesophilum DSM 19309', 'Thiomicrorhabdus sp. Kp2', 'Gonapodya prolifera JEL478', 'SAR86 cluster bacterium SAR86A', 'SAR86 cluster bacterium SAR86B', 'Magnetococcus marinus MC-1', 'Treponema sp. JC4', 'Pseudomonas sp. P179', 'Limimaricola cinnabarinus LL-001', 'Bosea sp. 117', 'Bradyrhizobium sp. DOA9', 'Paenibacillus beijingensis', 'Bacillus sp. JS', 'Paraglaciecola arctica BSs20135', 'Weissella oryzae SG25', 'Marine Group I thaumarchaeote SCGC AB-629-I23', 'Nitrospina sp. AB-629-B18', 'Dehalobacter sp. CF', 'Sphaerochaeta globosa str. Buddy', 'Sphaerochaeta pleomorpha str. Grapes', 'Flavobacterium sp. 83', 'Methylobacterium sp. 88A', 'Xanthobacter sp. 126', 'Arthrobacter sp. 35W', 'Bacillus sp. 37MA', 'Rhizobium sp. CCGE 510', 'Melioribacter roseus P3M-2', 'Alkalihalobacillus ligniniphilus', 'Cellvibrio sp. BR', 'Klebsiella michiganensis E718', 'Nocardiopsis sp. CNT312', 'Streptomyces sp. CNH099', 'Saccharomonospora sp. CNQ490', 'Xanthomarina gelatinilytica', 'Endozoicomonas numazuensis', 'Clostridium arbusti SL206', 'Mycobacterium paraintracellulare', 'Lactobacillus curieae', 'Pseudomassariella vexata', 'Homolaphlyctis polyrhiza', 'Novosphingobium sp. AP12', 'Sphingobium sp. AP49', 'Rhizobium sp. CF080', 'Rhizobium sp. CF122', 'Flavobacterium sp. CF136', 'Herbaspirillum sp. CF444', 'Pseudomonas sp. GM21', 'Herbaspirillum sp. YR522', 'Phyllobacterium sp. YR531', 'Tritrichomonas foetus', 'Acinetobacter sp. CIP 101934', 'Acinetobacter sp. CIP 101966', 'Acinetobacter sp. CIP 102082', 'Acinetobacter sp. CIP 102129', 'Acinetobacter sp. CIP 102136', 'Acinetobacter sp. CIP 102143', 'Acinetobacter sp. CIP 102159', 'Acinetobacter sp. CIP 102529', 'Acinetobacter sp. CIP 102637', 'Acinetobacter sp. CIP 51.11', 'Acinetobacter sp. CIP 53.82', 'Acinetobacter sp. CIP 56.2', 'Acinetobacter sp. CIP 64.7', 'Acinetobacter sp. CIP A162', 'Lysinibacillus varians', 'Dehalobacter sp. DCA', 'Ornithinibacillus scapharcae TW25', 'Achromobacter arsenitoxydans SY8', 'Acinetobacter oleivorans DR1', 'Geminisphaera colitermitum TAV2', 'Pseudomonas furukawaii', 'Arthrobacter sp. 9MFCol3.1', 'Leifsonia sp. 109', 'Tsukamurella sp. 1534', 'Arthrobacter sp. 161MFSha2.1', 'Arthrobacter sp. 162MFSha1.1', 'Microbacterium sp. 292MF', 'Nematocida sp. 1 ERTm2', 'Streptomyces sp. LaPpAH-108', 'Streptomyces sp. MspMP-M5', 'Moorea producens 3L', 'Streptococcus sp. I-G2', 'Streptococcus sp. I-P16', 'Streptomyces sp. HmicA12', 'Tumebacillus flagellatus', 'Streptomyces sp. LaPpAH-95', 'Streptomyces sp. Amel2xE9', 'Streptomyces sp. ATexAB-D23', 'Streptomyces sp. BoleA5', 'Streptomyces sp. PsTaAH-124', 'Streptomyces sp. FxanaC1', 'Mycobacterium sp. 155', 'Thermotoga sp. Cell2', 'Thermotoga sp. 2812B', 'Arthrobacter sp. 135MFCol5.1', 'Thioalkalivibrio sp. ALJT', 'Thioalkalivibrio sp. ALD1', 'Thioalkalivibrio sp. ALMg11', 'Thioalkalivibrio sp. ALE31', 'Thiomonas sp. FB-Cd', 'Prevotella sp. 10(H)', 'Desulfurobacterium sp. TC5-1', 'Persephonella sp. IF05-L8', 'Persephonella sp. KM09-Lau-8', 'Kosakonia sacchari SP1', 'Thioalkalivibrio sp. ALJ7', 'Thioalkalivibrio sp. ALJ11', 'Thioalkalivibrio sp. ALJ16', "Leptospirillum sp. Group II 'C75'", 'Ustilaginoidea virens', 'Bordetella sp. FB-8', 'Nocardia sp. BMG111209', 'Brucella sp. 63/311', 'Ruminococcus bicirculans', 'Candidatus Nasuia deltocephalinicola str. NAS-ALF', 'Euryhalocaulis caribicus', 'Streptococcus sp. ACC21', 'Ruminococcus champanellensis 18P13 = JCM 17042', 'Pseudomonas donghuensis', 'Clostridium sp. 12(A)', 'Cronobacter condimenti 1330', 'Richelia intracellularis HH01', 'Imtechella halotolerans K1', 'Methylotenera sp. 73s', 'Sulfurovum sp. AR', 'Enterobacter sp. R4-368', 'Halomonas xinjiangensis', 'Draconibacterium orientale', 'Xanthobacteraceae bacterium 501b', 'Mycobacterium sp. MOTT36Y', 'Mycobacterium sp. H4Y', 'Streptomyces pratensis ATCC 33331', 'Bacillus sp. 123MFChir2', 'Nocardia sp. CNY236', 'Streptomyces sp. CNT372', 'Streptomyces sp. CNY243', 'Brucella sp. F5/06', 'Brucella sp. 56/94', 'Citrobacter sp. KTE30', 'Escherichia sp. KTE114', 'Citrobacter sp. KTE151', 'Escherichia sp. KTE11', 'Escherichia sp. KTE31', 'Citrobacter sp. KTE32', 'Vitrella brassicaformis CCMP3155', 'Rhodobacteraceae bacterium PD-2', 'Streptomyces sp. 142MFCol3.1', 'Streptomyces sp. 351MFTsu5.1', 'Streptomyces sp. 303MFCol5.2', 'Nocardia sp. 348MFTsu5.1', 'Mycobacterium sp. 360MFTsu5.1', 'Terracoccus sp. 273MFTsu3.1', 'Oxytricha trifallax', 'Sulfurimonas hongkongensis', 'Catenovulum agarivorans DS-2', 'Fischerella sp. PCC 9431', 'Fischerella sp. PCC 9605', 'Geitlerinema sp. PCC 7407', 'Gloeocapsa sp. PCC 7428', 'Microcoleus sp. PCC 7113', 'Oscillatoria sp. PCC 10802', 'Chamaesiphon minutus PCC 6605', 'Synechococcus sp. PCC 7502', 'Leptolyngbya sp. PCC 6406', 'Colletotrichum sublineola', 'Fischerella sp. PCC 9339', 'Sphingopyxis sp. MC1', 'Herbaspirillum sp. GW103', 'Methanocella conradii HZ254', 'Methanocella arvoryzae MRE50', 'Peptoniphilus rhinitidis 1-13', 'Sulfurimonas gotlandica GD1', 'Agrobacterium fabrum str. C58', 'Alcanivorax nanhaiticus', 'Microbacterium sp. C448', 'Komagataeibacter medellinensis NBRC 3288', 'Halomonas huangheensis', 'Bacillus xiamenensis', 'Bacillus zhangzhouensis', 'Arenitalea lutea', 'Candidatus Photodesmus blepharus', 'Mycoplasma feriruminatoris', 'Pseudomonas sp. M47T1', 'Cladophialophora psammophila', 'Deinococcus swuensis', 'Escherichia sp. KTE52', 'Klebsiella sp. KTE92', 'Escherichia sp. KTE96', 'Escherichia sp. KTE159', 'Myroides injenensis M09-0166', 'Pyrococcus sp. ST04', 'Mesotoga prima MesG1.Ag.4.2', 'Thioclava dalianensis', 'Blattabacterium sp. (Blaberus giganteus)', 'Rhodovulum sp. PH10', 'Flavobacterium sp. ACAM 123', 'Burkholderia sp. lig30', 'Lactobacillus hokkaidonensis JCM 18461', 'Snodgrassella alvi', 'Gilliamella apicola', 'Corvus moneduloides', 'Clostridium sp. Maddingley MBC34-26', 'Paenibacillus sp. OSY-SE', 'Mangrovimonas yunxiaonensis', 'Arthrobacter sp. M2012083', 'Janthinobacterium sp. HH01', 'Thermogladius calderae 1633', 'Anaerovibrio sp. RM50', 'Ruminobacter sp. RM87', 'Bacteriovorax sp. Seq25_V', 'Bacteriovorax sp. BAL6_X', 'Flavobacterium sp. F52', 'Lactobacillus oryzae JCM 18671', 'Halopiger salifodinae', 'Achlya hypogyna', 'Lactobacillus hominis DSM 23910 = CRBIP 24.179', 'Geobacter daltonii FRC-32', 'Acidaminococcus sp. HPA0509', 'Actinomyces sp. HPA0247', 'Corynebacterium sp. KPL1814', 'Corynebacterium sp. KPL1817', 'Corynebacterium sp. KPL1818', 'Corynebacterium sp. KPL1821', 'Corynebacterium sp. KPL1824', 'Corynebacterium sp. KPL1855', 'Corynebacterium sp. KPL1856', 'Corynebacterium sp. KPL1857', 'Corynebacterium sp. KPL1859', 'Corynebacterium sp. KPL1860', 'Dermabacter sp. HFH0086', 'Propionibacterium sp. HGH0353', 'Propionibacterium sp. KPL1838', 'Propionibacterium sp. KPL1844', 'Propionibacterium sp. KPL1852', 'Pseudomonas sp. HPB0071', 'Streptococcus sp. HPH0090', 'Streptomyces sp. HPH0547', 'Veillonella sp. HPA0037', 'Corynebacterium sp. KPL1986', 'Corynebacterium sp. KPL1989', 'Corynebacterium sp. KPL1995', 'Corynebacterium sp. KPL1996', 'Corynebacterium sp. KPL1998', 'Corynebacterium sp. KPL2004', 'Propionibacterium sp. KPL2005', 'Propionibacterium sp. KPL2009', 'Streptomyces sp. CNR698', 'Novosphingobium sp. MBES04', 'Pseudomonas sp. Lz4W', 'Gallaecimonas xiamenensis 3-C-1', 'Idiomarina xiamenensis 10-D-4', 'Sphingobium sp. C100', 'Hyphomonas sp. L-53-1-40', 'Pseudomonas sp. UW4', 'Marinomonas profundimaris', 'Celeribacter indicus', 'Commensalibacter sp. MX01', 'Colletotrichum orchidophilum', 'Streptomyces sp. AA0539', 'Gemmata massiliana', 'Pseudoxanthomonas sp. GW2', 'Chelatococcus sp. GW1', 'Dyadobacter tibetensis Y620-1', 'Enterobacteriaceae bacterium B14', 'Acidocella sp. MX-AZ02', 'Diaporthe ampelina', 'Thermus tengchongensis YIM 77401', 'Amphibacillus jilinensis Y1', 'Clostridium bornimense', 'Acinetobacter sp. NIPH 542', 'Acinetobacter sp. NIPH 298', 'Acinetobacter sp. CIP 64.2', 'Acinetobacter sp. NIPH 1847', 'Acinetobacter sp. NIPH 3623', 'Acinetobacter sp. CIP 110321', 'Acinetobacter sp. CIP 70.18', 'Acinetobacter sp. ANC 3880', 'Acinetobacter sp. NIPH 1867', 'Acinetobacter sp. ANC 4105', 'Acinetobacter sp. NIPH 284', 'Acinetobacter sp. ANC 3862', 'Acinetobacter sp. NIPH 2168', 'Acinetobacter sp. ANC 3929', 'Acinetobacter sp. NIPH 2100', 'Acinetobacter sp. NIPH 713', 'Acinetobacter sp. NIPH 899', 'Acinetobacter sp. NIPH 236', 'Acinetobacter sp. NIPH 758', 'Acinetobacter sp. ANC 3789', 'Cupriavidus sp. BIS7', 'Roseomonas sp. B5', 'Xylona heveae TC161', 'Octadecabacter antarcticus 307', 'Streptomyces sp. GBA 94-10', 'Brucella inopinata BO1', 'Lactobacillus mellifer', 'Lactobacillus kullabergensis', 'Lactobacillus helsingborgensis', 'Lactobacillus kimbladii', 'Lactobacillus melliventris', 'Lactobacillus mellis', 'Acinetobacter nectaris CIP 110549', 'Actinomyces sp. S4-C9', 'Arcanobacterium sp. S3PF19', 'Peptostreptococcus sp. MV1', 'Methanobacterium sp. Maddingley MBC34', 'Altibacter lentus', 'Corynebacterium humireducens NBRC 106098 = DSM 45392', 'Enterobacteriaceae bacterium LSJC7', 'Mangrovibacter sp. MFB070', 'Pantoea sp. A4', 'Dickeya sp. DW 0440', 'Oscillibacter sp. KLE 1728', 'Oscillibacter sp. KLE 1745', 'Blautia sp. KLE 1732', 'Clostridium sp. KLE 1755', 'Streptomyces rapamycinicus NRRL 5491', 'Actinomyces sp. oral taxon 877 str. F0543', 'Capnocytophaga sp. oral taxon 863 str. F0517', 'Leptotrichia sp. oral taxon 879 str. F0557', 'Prevotella sp. F0091', 'Paenibacillus sp. FSL H7-689', 'Paenibacillus sp. FSL R7-277', 'Leptolyngbya sp. KIOST-1', 'Sphingobacterium deserti', 'Flavobacterium sp. WG21', 'Cupriavidus sp. GA3-3', 'Alkalibacterium sp. AK22', 'Candidatus Nitrosopumilus sediminis', 'Salimicrobium jeotgali', 'Bradyrhizobium sp. DFCI-1', 'Flaviramulus ichthyoenteri Th78', 'Lachancea sp. CBS 6924', 'Lachancea mirantina', 'Paenisporosarcina sp. TG-14', 'Nitratireductor pacificus pht-3B', 'Thermotoga sp. Mc24', 'Lactobacillus shenzhenensis LY-73', 'Clohesyomyces aquaticus', 'Desulfuromonas sp. TF', 'Corynebacterium ihumii', 'Megasphaera massiliensis', 'Nesterenkonia massiliensis', 'Nosocomiicoccus massiliensis', 'Enorma timonensis', 'Desulfobacula sp. TS', 'Clostridiales bacterium VE202-13', 'Clostridiales bacterium VE202-18', 'Clostridiales bacterium VE202-09', 'Clostridiales bacterium VE202-08', 'Clostridiales bacterium VE202-14', 'Clostridiales bacterium VE202-21', 'Marinobacterium sp. AK27', 'Geobacillus sp. GHH01', 'Chryseobacterium sp. JM1', 'Chryseobacterium sp. FH1', 'Staphylococcus sp. E463', 'Pacificimonas flava', 'Gayadomonas joobiniege G7', 'Ralstonia sp. AU12-08', 'Eubacterium sp. 14-2', 'Lachnospiraceae bacterium M18-1', 'Lachnospiraceae bacterium MD335', 'Firmicutes bacterium M10-2', 'Oscillibacter sp. 1-3', 'Dorea sp. 5-2', 'Lachnospiraceae bacterium MD308', 'Lachnospiraceae bacterium 10-1', 'Parabacteroides sp. ASF519', 'Anaerotruncus sp. G3(2012)', 'Candidatus Pantoea carbekii', 'Haloquadratum sp. J07HQX50', 'Halonotius sp. J07HN6', 'Halorubrum sp. J07HR59', 'Sodalis praecaptivus', 'Dokdonia sp. PRO95', 'Bacillus massiliogorillae', 'Luteimonas huabeiensis HB2', 'Campylobacter iguaniorum', 'Magnetospirillum caucaseum', 'Mariniradius saccharolyticus AK6', 'Lachancea lanzarotensis', 'Borreliella chilensis', 'Nocardiopsis potens DSM 45234', 'Rhizobium sp. 2MFCol3.1', 'Halobacillus sp. BAB-2008', 'Paramicrosporidium saccamoebae', 'Arsenophonus endosymbiont str. Hangzhou of Nilaparvata lugens', 'Microbacterium sp. UCD-TDU', 'Parvularcula oceani', 'Blastomonas sp. AAP53', 'Sandarakinorhabdus sp. AAP62', 'Porphyrobacter sp. AAP82', 'Candidatus Sulfuricurvum sp. RIFRC-1', 'Imhoffiella purpurea', 'Gillisia sp. Hel_I_29', 'Maribacter sp. Hel_I_7', 'Polaribacter sp. Hel1_85', 'Polaribacter sp. Hel_I_88', 'Muricauda sp. MAR_2010_75', 'Salegentibacter sp. Hel_I_6', 'Pseudomonas sp. FGI182', "Leptospirillum sp. Group IV 'UBA BS'", 'Streptomyces sp. 769', 'Phascolarctobacterium sp. CAG:207', 'Phascolarctobacterium sp. CAG:266', 'Oscillibacter ruminantium GH1', 'Edwardsiella piscicida C07-087', 'Candidatus Endolissoclinum faulkneri L2', 'Pseudomonas sp. URMO17WK12:I8', 'Streptomyces sp. PAMC 26508', 'Nafulsella turpanensis ZLM-10', 'Lysinibacillus manganicus DSM 26584', 'Thioalkalivibrio sp. ALE6', 'Thioalkalivibrio sp. ALE19', 'Thioalkalivibrio sp. AKL19', 'Frischella perrara', 'Sediminibacterium sp. C3', 'Acidobacteriaceae bacterium KBS 83', 'Acidobacteriaceae bacterium KBS 89', 'Pantoea sp. IMH', 'Pseudomonas sp. G5(2012)', 'Peptoniphilus timonensis JC401', 'Rhodococcus sp. AW25M09', 'Acidovorax sp. MR-S7', 'Thioalkalivibrio sp. ALR17-21', 'Flavobacterium sp. KJJ', 'Pedobacter sp. R20-19', 'Megasphaera sp. NM10', 'Liberibacter crescens BT-1', 'Mycobacterium sp. VKM Ac-1817D', 'Paenibacillus antibioticophila', 'Candidatus Hepatobacter penaei', 'Acidovorax sp. JHL-9', 'Escherichia sp. KTE172', 'Hippea alviniae EP5-r', 'Synechococcus sp. KORDI-100', 'Gorillibacterium massiliense', 'Butyrivibrio sp. AE2015', 'Butyrivibrio sp. VCD2006', 'Butyrivibrio sp. AE3009', 'Butyrivibrio sp. XPD2006', 'Butyrivibrio sp. FC2001', 'Butyrivibrio sp. AE3006', 'Prevotella sp. AGR2160', 'Butyrivibrio sp. WCD3002', 'Butyrivibrio sp. VCB2006', 'Butyrivibrio sp. LC3010', 'Butyrivibrio sp. WCD2001', 'Butyrivibrio sp. XBB1001', 'Butyrivibrio sp. NC3005', 'Butyrivibrio sp. MC2013', 'Meira miltonrushii', 'Hyphomonas pacifica', 'Hyphomonas sp. CY54-11-8', 'Hyphomonas beringensis', 'Hyphomonas chukchiensis', 'Hyphomonas atlantica', 'Asticcacaulis sp. AC460', 'Asticcacaulis sp. AC402', 'Asticcacaulis sp. AC466', 'Frankia sp. Iso899', 'Tolumonas lignilytica', 'Nocardioides sp. Iso805N', 'Paenibacillus sp. A9', 'Planktomarina temperata RCA23', 'Actinomyces sp. S6-Spd3', 'Tissierellia bacterium S7-1-4', 'Prevotella sp. S7-1-8', 'Pandoraea sp. SD6-2', 'Brachyspira hampsonii 30446', 'Mesorhizobium sp. L2C084A000', 'Mesorhizobium sp. LNJC398B00', 'Prevotella sp. S7 MS 2', 'Bacillus massiliosenegalensis JC6', 'Achromobacter insuavis AXX-A', 'Arcticibacter svalbardensis MN12-7', 'Streptomyces sp. CNT318', 'Streptomyces sp. TAA040', 'Anaerococcus senegalensis JC48', 'Alistipes senegalensis JC50', 'Actinomyces timonensis DSM 23838', 'Nitrosospira lacus', 'Magnetospira sp. QH-2', 'Streptomyces sp. TAA204', 'Candidatus Methanomethylophilus alvus Mx1201', 'Dietzia sp. UCD-THP', 'Kocuria sp. UCD-OTCP', 'Leucobacter sp. UCD-THU', 'Halopiger djelfimassiliensis', 'Halopiger goleimassiliensis', 'Pseudomonas sp. ATCC 13867', 'Photobacterium gaetbulicola Gung47', 'Thermodesulfobacterium geofontis OPF15', 'Parageobacillus genomosp. 1', 'Aquimarina pacifica', 'Mesorhizobium sp. STM 4661', 'Intestinimonas butyriciproducens', 'Myxococcus hansupus', 'Afipia sp. OHSU_I-C4', 'Bradyrhizobium sp. OHSU_III', 'Psychrobacter sp. JCM 18900', 'Mesorhizobium sp. URHA0056', 'Microbacterium sp. URHA0036', 'Marmoricola sp. URHB0036', 'Mycobacterium sp. URHD0025', 'Alteromonas sp. ALT199', 'Bradyrhizobium sp. URHA0002', 'Streptomyces sp. TAA486', 'Methanocaldococcus bathoardescens', 'Caldisalinibacter kiritimatiensis', 'Cellulomonas sp. KRMCY2', 'Clostridium sp. ASBs410', 'Geovibrio sp. L21-Ace-BES', 'Microbacterium sp. KROCY2', 'Oceanicola sp. HL-35', 'Marinobacter nanhaiticus D15-8W', 'Sporosarcina sp. EUR3 2.2.2', 'Alcanivorax pacificus W11-5', 'Termitomyces sp. J132', 'Streptomyces hokutonensis', 'Desulfohalovibrio reitneri', 'Salinispira pacifica', 'Arthrobacter sp. Br18', 'Arthrobacter sp. H14', 'Thermocrinis sp. GBS', 'Aureispira sp. CCB-QB1', 'Peniophora sp. CONT', 'Perkinsela sp. CCAP 1560/4', 'Streptococcus sp. HSISM1', 'Streptococcus sp. HSISB1', 'Streptococcus sp. HSISS1', 'Streptococcus sp. HSISS2', 'Streptococcus sp. HSISS3', 'Enterococcus sp. HSIEG1', 'Blattabacterium sp. (Nauphoeta cinerea)', 'Archaeoglobus sulfaticallidus PM70-1', 'Aquimarina atlantica', 'Thioclava atlantica', 'Candidatus Mycoplasma girerdii', 'Mesorhizobium sp. NBIMC_P2-C3', 'Clostridiales bacterium oral taxon 876 str. F0540', 'Mitsuokella sp. oral taxon 131 str. W9106', 'Peptostreptococcaceae bacterium oral taxon 113 str. W5053', 'Selenomonas sp. oral taxon 892 str. F0426', 'Rhodococcus defluvii', 'Mycobacterium sp. TKK-01-0059', 'Serratia sp. FS14', 'Prolemur simus', 'Thermoactinomyces daqus', 'Enterobacter sp. MGH 1', 'Enterobacter sp. MGH 3', 'Enterobacter sp. MGH 6', 'Enterobacter sp. MGH 7', 'Enterobacter sp. MGH 10', 'Enterobacter sp. MGH 15', 'Enterobacter sp. MGH 22', 'Enterobacter sp. MGH 23', 'Enterobacter sp. MGH 24', 'Enterobacter sp. MGH 25', 'Enterobacter sp. MGH 33', 'Enterobacter sp. MGH 37', 'Enterobacter sp. MGH 38', 'Enterobacter sp. BWH 37', 'Enterobacter sp. BIDMC 26', 'Enterobacter sp. BIDMC 27', 'Enterobacter sp. BIDMC 28', 'Enterobacter sp. BIDMC 29', 'Enterobacter sp. BIDMC 30', 'Novosphingobium lindaniclasticum LE124', 'Cycloclasticus zancles 78-ME', 'Thermus caliditerrae', 'Auricularia subglabra TFB-10046 SS5', 'Sphingobium baderi LL03', 'Candidatus Saccharimonas aalborgensis', 'Salinarchaeum sp. Harcht-Bsk1', 'Bifidobacterium moukalabense DSM 27321', 'Tepidicaulis marinus', 'Spiribacter salinus M19-40', 'Spiribacter curvatus', 'Sphingobium bisphenolivorans', 'Polaribacter sp. Hel1_33_49', 'Calothrix sp. 336/3', 'Bacillus sp. UNC438CL73TsuS30', 'Luminiphilus syltensis NOR5-1B', 'Flavobacterium enshiense DK69', 'Brucella sp. 04-5288', 'Sulfitobacter geojensis', 'Sulfitobacter noctilucicola', 'Sulfitobacter noctilucae', 'Saccharibacter sp. AM169', 'Epichloe mollis', 'Winogradskyella psychrotolerans RS-3', 'Halomonas sp. A3H3', 'Bacillus sp. EB01', 'Paucisalibacillus sp. EB02', 'Bacillus ndiopicus', 'Bacillus dielmoensis', 'Anaerosalibacter massiliensis', 'Bacteroides neonati', 'Pseudoalteromonas piratica', 'Arthrobacter sp. AK-YN10', 'Cyclobacterium qasimii M12-11B', 'Synechococcus sp. UTEX 2973', 'Thioclava indica', 'Bacteriovorax sp. BSW11_IV', 'Peptoniphilus mikwangii', 'Roseovarius sp. MCTG156(2b)', 'Arcobacter sp. AF1028', 'Arcobacter lanthieri', 'Bradyrhizobium diazoefficiens USDA 110', 'Rhodococcus sp. PML026', 'Hymenobacter sp. APR13', 'Batrachochytrium salamandrivorans', 'Lutibaculum baratangense AMV1', 'Thermofilum adornatum', 'Zygosaccharomyces parabailii', 'Rhodobacteraceae bacterium HIMB11', 'Fonsecaea erecta', 'Mycobacterium sp. UM_WGJ', 'Mycobacterium sp. UM_WWY', 'Firmicutes bacterium ASF500', 'Dyella jiangningensis', 'Gemmatimonas phototrophica', 'Desulfonauticus sp. A7A', 'Sphingomonas sp. FUKUSWIS1', 'Methanobacterium sp. MB1', 'Spirosoma radiotolerans', 'Streptomyces sp. URHA0041', 'Geodermatophilaceae bacterium URHB0048', 'Mesorhizobium sp. URHC0008', 'Cellulomonas sp. URHE0023', 'Bradyrhizobium sp. URHD0069', 'Blastococcus sp. URHD0036', 'Halomonas sp. 23_GOM-1509m', 'Sulfitobacter sp. 20_GPM-1509m', 'Intrasporangiaceae bacterium URHB0013', 'Ahrensia sp. 13_GOM-1096m', 'Tenacibaculum sp. 47A_GOM-205m', 'Mycobacterium sp. URHB0044', 'Alcanivorax sp. 43B_GOM-46m', 'Solirubrobacterales bacterium URHD0059', 'Dongia sp. URHE0060', 'Geodermatophilaceae bacterium URHA0031', 'Rhodospirillales bacterium URHD0088', 'Paenibacillus darwinianus', 'Streptomycetaceae bacterium MP113-05', 'Aliihoeflea sp. 2WW', 'Brevibacterium sp. VCM10', 'Caulobacteraceae bacterium PMMR1', 'Sporosarcina sp. D27', 'Thermogemmatispora carboxidivorans', 'Thermorudis peleae', 'Acidobacterium ailaaui', 'Methyloceanibacter caenitepidi', 'Francisella sp. W12-1067', 'Lysobacter arseniciresistens ZS79', 'Hymenobacter sp. DG25B', 'Leptolyngbya sp. Heron Island J', 'Exiguobacterium chiriqhucha RW-2', 'Sphingobacterium paucimobilis HER1398', 'Methylophilus sp. OH31', 'Staphylococcus sp. M0480', 'Clostridium sp. Ade.TY', 'Pseudogymnoascus sp. VKM F-3808', 'Kalmanozyma brasiliensis', 'Prevotella sp. HUN102', 'Eubacterium sp. AB3007', 'Flavimarina sp. Hel_I_48', 'Leeuwenhoekiella sp. MAR_2009_132', 'Sediminibacter sp. Hel_I_10', 'Ruminococcaceae bacterium AE2021', 'Lachnospiraceae bacterium AC2031', 'Bifidobacterium sp. 7101', 'Bifidobacterium sp. A11', 'Candidatus Saccharibacteria bacterium RAAC3_TM7_1', 'Thermosynechococcus sp. NK55a', 'Paenibacillus sp. MAEPY2', 'Haloferula sp. BvORR071', 'Verrucomicrobium sp. BvORR034', 'Marinobacter sp. ES-1', 'Leucobacter sp. PH1c', 'Serratia sp. H1n', 'Alcanivorax sp. P2S70', 'Halomonas sp. PBN3', 'Candidatus Micropelagos thuwalensis', 'Exiguobacterium sp. MH3', 'Ophiocordyceps australis', 'Bacteroidales bacterium CF', 'Flavobacterium limnosediminis JC2902', 'Sulfitobacter pseudonitzschiae', 'Streptomyces sp. A02', 'Verrucomicrobium sp. BvORR106', 'Corynebacterium glyciniphilum AJ 3170', 'Candidatus Methanomassiliicoccus intestinalis Issoire-Mx1', 'Synechococcus sp. NKBG15041c', 'Betaproteobacteria bacterium MOLA814', 'Bacillus sp. MB2021', 'Butyrivibrio sp. FCS014', 'Butyrivibrio sp. MC2021', 'Prevotella sp. MA2016', 'Oribacterium sp. FC2011', 'Pseudobutyrivibrio sp. LB2011', 'Lachnospiraceae bacterium AC2028', 'Lachnospiraceae bacterium AC3007', 'Lachnospiraceae bacterium MA2020', 'Lachnospiraceae bacterium MC2017', 'Youngiibacter fragilis 232.1', 'Candidatus Tachikawaea gelatinosa', 'Candidatus Nitrosopelagicus brevis', 'Bacteroides sp. Ga6A2', 'Treponema sp. C6A8', 'Oribacterium sp. P6A1', 'Prevotella sp. P6B1', 'Pseudobutyrivibrio sp. MD2005', 'Ruminococcus sp. FC2018', 'Selenomonas sp. ND2010', 'Serratia sp. DD3', 'Shinella sp. DD12', 'Lachnospiraceae bacterium C6A11', 'Lachnospiraceae bacterium FE2018', 'Lachnospiraceae bacterium MD2004', 'Lachnospiraceae bacterium NC2004', 'Lachnospiraceae bacterium ND2006', 'Lachnospiraceae bacterium P6A3', 'Lachnospiraceae bacterium P6B14', 'Lachnospiraceae bacterium V9D3004', 'Lachnospiraceae bacterium YSB2008', 'Propionibacteriaceae bacterium P6A17', 'Ruminococcaceae bacterium AB4001', 'Methyloglobulus morosus KoM1', 'Rhizobiales bacterium YIM 77505', 'Gammaproteobacteria bacterium MOLA455', 'Corynebacterium jeddahense', 'Clostridium saudiense', 'Pseudomonas sp. TKP', 'Candidatus Walczuchella monophlebidarum', 'Marinobacter sp. MCTG268', 'Halomonas sp. TG39a', 'Oceanicola sp. MCTG156(1a)', 'Gloeobacter kilaueensis JS1', 'Defluviimonas sp. 20V17', 'Streptococcus sp. VT 162', 'Pseudogymnoascus sp. VKM F-3775', 'Pseudogymnoascus sp. VKM F-4246', 'Pseudogymnoascus sp. VKM F-4281 (FW-2241)', 'Pseudogymnoascus sp. VKM F-4513 (FW-928)', 'Pseudogymnoascus sp. VKM F-4514 (FW-929)', 'Pseudogymnoascus sp. VKM F-4515 (FW-2607)', 'Pseudogymnoascus sp. VKM F-4516 (FW-969)', 'Pseudogymnoascus sp. VKM F-4517 (FW-2822)', 'Pseudogymnoascus sp. VKM F-103', 'Pseudogymnoascus sp. VKM F-4518 (FW-2643)', 'Pseudogymnoascus sp. VKM F-4519 (FW-2642)', 'Pseudogymnoascus sp. VKM F-4520 (FW-2644)', 'Marinobacter similis', 'Marinobacter salarius', 'Kurthia huakuii LAM0618', 'Bacillus sp. SJS', 'Hyphomicrobium nitrativorans NL23', 'Candidatus Entotheonella factor', 'Candidatus Entotheonella gemina', 'Afipia sp. P52-10', 'Geobacillus icigianus', 'Candidatus Halobonum tyrrellensis G22', 'Mannheimia sp. USDA-ARS-USMARC-1261', 'Mucinivorans hirudinis', 'Methanosarcina sp. Kolksee', 'Methanosarcina sp. MTP4', 'Methanosarcina sp. WH1', 'Methanosarcina sp. WWM596', 'Acinetobacter bohemicus ANC 3994', 'Alcanivorax sp. 97CO-5', 'Candidatus Symbiobacter mobilis CR', 'Pseudogymnoascus sp. VKM F-3557', 'Citrobacter sp. MGH 55', 'Pseudomonas sp. BAY1663', 'Talaromyces atroroseus', 'Clostridium sp. K25', 'Aquimarina megaterium XH134', 'Candidatus Protochlamydia massiliensis', 'Candidatus Rubidus massiliensis', 'Xylella taiwanensis', 'Gynuella sunshinyii YC6258', 'Sciscionella sp. SE31', 'Hymenobacter swuensis DY53', 'Bacillus sp. Pc3', 'Campylobacter corcagiensis', 'Halobellus rufus', 'Arthrobacter sp. UNC362MFTsu5.1', 'Mycobacterium sp. UNC280MFTsu5.1', 'Caulobacter sp. UNC358MFTsu5.1', 'Clostridium sp. KNHs205', 'Microbacterium sp. UNCCL10', 'Paenibacillus sp. UNC451MF', 'Phyllobacterium sp. UNC302MFCol5.2', 'Rhodococcus sp. UNC23MFCrub1.1', 'Rhodococcus sp. UNC363MFTsu5.1', 'Sphingomonas sp. UNC305MFCol5.2', 'Thermus amyloliquefaciens', 'Bacillus sp. TS-2', 'Microbacterium sp. MRS-1', 'Microbacterium sp. Cr-K32', 'Microbacterium sp. Cr-K20', 'Pseudomonas sp. RL', 'Chryseobacterium hispalense DSM 25574', 'Microbulbifer sp. HZ11', 'Candidatus Accumulibacter sp. BA-93', 'Cellulomonas sp. HZM', 'Chlamydia avium 10DC88', 'Chlamydia gallinacea 08-1274/3', 'Halapricum salinum', 'Caballeronia jiangsuensis', 'Serpentinomonas raichei', 'Serpentinomonas mccroryi', 'Candidatus Phaeomarinobacter ectocarpi', 'Lachnospiraceae bacterium AC2029', 'Candidatus Nitrososphaera evergladensis SR1', 'Geomicrobium sp. JCM 19037', 'Geomicrobium sp. JCM 19038', 'Bacillus sp. JCM 19046', 'Paraphaeosphaeria sporulosa', 'Weeksella massiliensis', 'Haemophilus massiliensis', 'Neobacillus jeddahensis', 'Jeotgalicoccus saudimassiliensis', 'Metalysinibacillus saudimassiliensis', 'Actibacterium atlanticum', 'Pseudooceanicola atlanticus', 'Pseudoalteromonas sp. SCSIO_11900', 'Virgibacillus massiliensis', 'Oceanobacillus jeddahense', 'Brucella papionis', 'Klebsiella quasipneumoniae subsp. quasipneumoniae UCICRE 14', 'Actinosporangium sp. NRRL B-3428', 'Glycomyces sp. NRRL B-16210', 'Saccharothrix sp. NRRL B-16314', 'Streptomyces sp. NRRL F-2580', 'Streptomyces sp. NRRL F-2890', 'Streptomyces sp. NRRL F-5008', 'Streptomyces sp. NRRL F-5053', 'Streptomyces sp. NRRL F-5065', 'Streptomyces sp. NRRL F-5123', 'Streptomyces sp. NRRL F-5126', 'Streptomyces sp. NRRL F-5135', 'Streptomyces sp. NRRL F-525', 'Streptomyces sp. NRRL F-5630', 'Streptomyces sp. NRRL F-6677', 'Streptomyces sp. NRRL S-118', 'Streptomyces sp. NRRL S-149', 'Streptomyces sp. NRRL S-1777', 'Streptomyces sp. NRRL S-237', 'Streptomyces sp. NRRL S-337', 'Streptomyces sp. NRRL S-340', 'Streptomyces sp. NRRL S-37', 'Streptomyces sp. NRRL S-474', 'Streptomyces sp. NRRL S-646', 'Streptomyces sp. NRRL S-87', 'Streptomyces sp. NRRL S-920', 'Streptomyces sp. NRRL WC-3626', 'Streptomyces sp. NRRL WC-3742', 'Streptomyces sp. NRRL WC-3773', 'Micromonospora parva', 'Aeromicrobium massiliense JC14', 'Peptoniphilus grossensis ph5', 'Peptoniphilus senegalensis JC140', "Oceanobacillus massiliensis str. N'diop", 'Paenibacillus senegalensis JC66', 'Clostridium senegalense JC122', 'Cellulomonas massiliensis JC225', 'Noviherbaspirillum massiliense JC206', 'Timonella senegalensis JC301', 'Burkholderia sp. 2002721687', 'Bacillus massilioanorexius AP8', 'Bartonella senegalensis OS02', 'Holdemania massiliensis AP2', 'Thioalkalivibrio sp. HK1', 'Burkholderiales bacterium GJ-E10', 'Lacinutrix jangbogonensis', 'Rhodovulum sp. NI22', 'Kineothrix alysoides', 'Alistipes ihumii AP11', 'Candidatus Stoquefichus massiliensis AP9', 'Clostridium ihumii AP5', 'Candidatus Blastococcus massiliensis AP3', 'Streptomyces sp. Tu 6176', 'Sphingomonas sp. RIT328', 'Pseudomonas sp. RIT357', 'Prochlorococcus sp. scB241_528O2', 'Prochlorococcus sp. scB245a_520K10', 'Talaromyces cellulolyticus', 'Basilea psittacipulmonis DSM 24701', 'Falsirhodobacter sp. alg1', 'Burkholderia sp. K24', 'Enorma massiliensis phI', 'Kallipyga massiliensis ph2', 'Senegalimassilia anaerobia JC110', 'Lysinibacillus sp. BF-4', 'Mizugakiibacter sediminis', 'Deinococcus phoenicis', 'Streptomyces sp. NRRL B-24720', 'Peptostreptococcaceae bacterium VA2', 'Halomonas sp. HL-48', 'Marinobacter sp. HL-58', 'Oceanicaulis sp. HL-87', 'Porphyrobacter sp. HL-46', 'Curtobacterium sp. S6', 'Spirochaeta lutea', 'Pantoea sp. PSNIH2', 'Pantoea sp. PSNIH1', 'Psychroserpens jangbogonensis', 'Exiguobacterium sp. AB2', 'Rhodoferax saidenbachensis ED16', 'Cadophora sp. DSE1049', 'Selenomonas sp. AE3005', 'Ferriphaselus sp. R-1', 'Ghiorsea bivora', 'Mitosporidium daphniae', 'Martelella endophytica', 'Candidatus Sodalis pierantonius str. SOPE', 'Clostridium sp. HMP27', 'Desulfosporosinus sp. HMP52', 'Corynebacterium sp. ATCC 6931', 'Pseudomonas sp. Ant30-3', 'Deinococcus sp. RL', 'Trichoderma guizhouense', 'Flavobacterium gilvum', 'Flavobacterium seoulense', 'Gammaproteobacteria bacterium MFB021', 'Arthrobacter sp. PAMC 25486', 'Mesoaciditoga lauensis cd-1655R = DSM 25116', 'Pseudomonas sp. WCS374', 'Penicillium cf. griseofulvum UFMGCB 6741', 'Candidatus Evansia muelleri', 'Cyanobium sp. CACIAM 14', 'Listeriaceae bacterium FSL A5-0209', 'Prochlorococcus sp. MIT 0601', 'Prochlorococcus sp. MIT 0602', 'Prochlorococcus sp. MIT 0701', 'Bacillus rubiinfantis', 'Clostridium sp. CL-6', 'Clostridium sp. CL-2', 'Bacillus andreraoultii', 'Pseudomonas saudiphocaensis', 'Clostridium amazonitimonense', 'Candidatus Moduliflexus flocculans', 'Candidatus Vecturithrix granuli', 'Paenibacillus sp. TCA20', 'Rhizobium sp. YR295', 'Rhizobium sp. YR519', 'Chryseobacterium sp. CF284', 'Rhizobium sp. CF097', 'Rhizobium sp. CF394', 'Rhizobium sp. OK494', 'Luteibacter sp. 9143', 'Luteibacter sp. 9135', 'Massilia sp. 9096', 'Burkholderia sp. 9120', 'Campylobacter sp. RM16704', 'Paenibacillus tyrfis', 'Prochlorococcus sp. MIT 0604', 'Prochlorococcus sp. MIT 0801', 'Oribacterium parvum ACB8', 'Oribacterium asaccharolyticum ACB7', 'Alistipes inops', 'Devosia sp. LC5', 'Methylotenera sp. L2L1', 'Pseudomonas sp. AAC', 'Sphingopyxis sp. LC81', 'Bosea sp. LC85', 'Massilia sp. LC238', 'Veillonella seminalis ACS-216-V-Col6b', 'Polaromonas sp. CG9_12', 'Halomonas sp. KO116', 'Chitinivibrio alkaliphilus ACht1', 'Blochmannia endosymbiont of Polyrhachis (Hedomyrma) turneri', 'Blochmannia endosymbiont of Camponotus (Colobopsis) obliquus', 'Candidatus Schmidhempelia bombi str. Bimp', 'Thermococcus eurythermalis', 'Flavobacterium sp. Fl', 'Butyrivibrio sp. AE3004', 'Rachicladosporium antarcticum', 'Jeotgalibacillus malaysiensis', 'Candidatus Arthromitus sp. SFB-mouse-NL', 'Acinetobacter sp. HR7', 'Pseudorhizobium pelagicum', 'Candidatus Nitrosopumilus koreensis AR1', 'Bosea sp. UNC402CLCol', 'Ruminococcus sp. HUN007', 'Sphingopyxis fribergensis', 'Porphyromonas sp. COT-239 OH1446', 'Porphyromonas sp. COT-290 OH860', 'Shewanella mangrovi', 'Idiomarina atlantica', 'Vibrio sp. ER1A', 'Porphyromonadaceae bacterium COT-184 OH4590', 'Anopheles coluzzii', 'Oscillibacter sp. ER4', 'Candidatus Thermochlorobacteriaceae bacterium GBChlB', 'Chloroflexus sp. MS-G', 'Sphingobium sp. ba1', 'Ceraceosorus guamensis', 'Pseudomonas sp. ML96', 'Serratia sp. Ag1', 'Planococcus sp. PAMC 21323', 'Rickettsiales bacterium Ac37b', 'Thalassospira australica', 'Acinetobacter seifertii', 'Palleronia rufa', 'Coriobacteriaceae bacterium 68-1-3', 'Torrubiella hemipterigena', 'Achromobacter sp. RTa', 'Rhizobium sp. YS-1r', 'Devosia sp. 17-2-E-8', 'Thalassotalea sp. ND16A', 'Paenibacillus sp. FSL P4-0081', 'Paenibacillus sp. FSL R5-0345', 'Paenibacillus sp. FSL R5-0912', 'Paenibacillus sp. FSL R7-0273', 'Paenibacillus sp. FSL R7-0331', 'Paenibacillus sp. FSL H7-0357', 'Paenibacillus sp. FSL H7-0737', 'Sphingopyxis sp. MWB1', 'Sulfurospirillum sp. SCADC', 'Sulfuricurvum sp. MLSB', 'Alteromonas sp. LOR', 'Micromonospora sp. HK10', 'Aquabacterium sp. NJ1', 'Sphingobacterium sp. ML3W', 'Treponema sp. OMZ 838', 'Deinococcus sp. YIM 77859', 'Clostridium sp. KNHs214', 'Myxosarcina sp. GI1', 'Candidatus Izimaplasma sp. HR1', 'Candidatus Izimaplasma sp. HR2', 'Oleiagrimonas soli', 'Lactobacillus sp. wkB10', 'Lactobacillus sp. wkB8', 'Sphingomonas sp. 35-24ZXX', 'Hoeflea sp. BAL378', 'Francisella sp. FSC1006', 'Helicobacter sp. MIT 11-5569', 'Campylobacter sp. MIT 97-5078', 'Sphingomonas taxi', 'Sphingomonas sp. 37zxx', 'Sphingobacteriaceae bacterium DW12', 'Thermofilum uzonense', 'Listeria booriae', 'Caenorhabditis tropicalis', 'Fermentimonas caenicola', 'Rhodococcus sp. B7740', 'Shewanella sp. ECSMB14101', 'Sulfurospirillum sp. MES', 'Rugosibacter aromaticivorans', 'Bacillus sp. X1(2014)', 'Paenibacillus sp. IHBB 10380', 'Paracoccus sp. PAMC 22219', 'Phaeobacter sp. S60', 'Jaminaea rosea', 'Bacillus sp. BH072', 'Bacillus sp. YP1', 'Candidatus Methanoplasma termitum', 'Dickeya undicola', 'Nitrosopumilus adriaticus', 'Pseudomonas sp. HMSC05H02', 'Neisseria sp. HMSC06F02', 'Candidatus Methylopumilus planktonicus', 'Nitrosopumilus piranensis', 'Fusobacterium hwasookii ChDC F128', 'Myroides sp. A21', 'Agrobacterium arsenijevicii', 'Pseudomonas sp. 10B238', 'Haloarcula sp. CBA1115', 'Enterobacteriaceae bacterium ATCC 29904', 'Candidatus Nitrosotenuis cloacae', 'Halanaeroarchaeum sulfurireducens', 'Sinocyclocheilus anshuiensis', 'Candidatus Filomicrobium marinum', 'Sphingomonas hengshuiensis', 'Pseudomonas sp. MRSN12121', 'Vibrio sp. S234-5', 'Psychromicrobium lacuslunae', 'Bacillus sp. LM 4-2', 'Sulfuricella sp. T08', 'Verrucomicrobia bacterium IMCC26134', 'Chania multitudinisentens RB-25', 'Bacillus paralicheniformis ATCC 9945a', 'Metarhizium rileyi RCEF 4871', 'Metarhizium majus ARSEF 297', 'Blattabacterium cuenoti BPAA', 'Lachancea quebecensis', 'Emmonsia sp. CAC-2015a', 'Blastomyces percursus', 'Phialophora attinorum', 'Violaceomyces palustris', 'Paramormyrops kingsleyae', 'Blastomyces gilchristii SLH14081', 'Pseudomicrostroma glucosiphilum', 'Wallemia mellicola CBS 633.66', 'Baudoinia panamericana UAMH 10762', 'Leucoagaricus sp. SymC.cos', 'Pezoloma ericae', 'Neocallimastix californiae', 'Piromyces finnis', 'Anaeromyces robustus', 'Mesorhizobium erdmanii USDA 3471', 'Nematocida displodere', 'Enterobacter roggenkampii EC_38VIM1', 'Edwardsiella anguillarum ET080813', 'Gopherus evgoodei', 'Dacryopinax primogenitus', 'Cryptococcus gattii VGII LA55', 'Cryptococcus gattii VGIV IND107', 'Amphiamblys sp. WSBS2006', 'Carlito syrichta', 'Pseudocercospora fijiensis CIRAD86', 'Testicularia cyperi', 'Xanthomonas cannabis pv. phaseoli', 'Planoprotostelium fungivorum', 'Fortiea contorta PCC 7126', 'Pectobacterium parmentieri WPP163', 'Geobacillus genomosp. 3', 'Bifiguratus adelaidae', 'Emergomyces pasteurianus Ep9510', 'Dinothrombium tinctorium', 'Rachicladosporium sp. CCFEE 5018', 'Xanthomonas phaseoli pv. phaseoli', 'Cordyceps sp. RAO-2017', 'Ophiocordyceps camponoti-rufipedis', 'Ooceraea biroi', 'Malassezia vespertilionis', 'Coniella lustricola', 'Globisporangium ultimum DAOM BR144', 'Blastomyces silverae', 'Mesorhizobium japonicum MAFF 303099', 'Rutstroemia sp. NJR-2017a WRK4', 'Rutstroemia sp. NJR-2017a BVV2', 'Rutstroemia sp. NJR-2017a BBW', 'Cervus hanglu yarkandensis', 'Lactobacillus paragasseri JV-V03', 'Photorhabdus laumondii subsp. laumondii TTO1', 'Pyrrhoderma noxium', 'Hondaea fermentalgiana', 'Yamadazyma tenuis ATCC 10573', 'Hyaloscypha bicolor E', 'Hyaloscypha variabilis F', 'Nothophytophthora sp. Chile5', 'Strigops habroptila', 'Fusarium odoratissimum NRRL 54006', 'Gloeothece citriformis PCC 7424', 'Gloeothece verrucosa PCC 7822', 'Crocosphaera subtropica ATCC 51142', 'Crocosphaera chwakensis CCY0110', 'Rippkaea orientalis PCC 8802', 'Thermothielavioides terrestris NRRL 8126', 'Podospora anserina S mat+', 'Dacryopinax sp. DJM 731 SSP-1', 'Akanthomyces lecanii RCEF 1005', 'Fusarium vanettenii 77-13-4']], map_from_organism: Union[Literal['auto'], str, int, Literal['Azorhizobium caulinodans ORS 571', 'Buchnera aphidicola str. G002 (Myzus persicae)', 'Cellulomonas gilvus ATCC 13127', 'Dictyoglomus thermophilum H-6-12', 'Methylophilus methylotrophus DSM 46235 = ATCC 53528', 'Pelobacter carbinolicus DSM 2380', 'Shewanella putrefaciens CN-32', 'Myxococcus fulvus HW-1', 'Myxococcus xanthus DK 1622', 'Stigmatella aurantiaca DW4/3-1', 'Cystobacter fuscus DSM 2262', 'Chondromyces apiculatus DSM 436', 'Sorangium cellulosum So0157-2', 'Vitreoscilla stercoraria DSM 513', 'Herpetosiphon aurantiacus DSM 785', 'Simonsiella muelleri ATCC 29453', 'Hyphomonas jannaschiana VP2', 'Flectobacillus major DSM 103', 'Cyclobacterium marinum DSM 745', 'Runella slithyformis DSM 19594', 'Spirosoma linguale DSM 74', 'Rubinisphaera brasiliensis DSM 5305', 'Planctopirus limnophila DSM 3776', 'Gimesia maris DSM 8797', 'Blastopirellula marina DSM 3645', 'Pirellula staleyi DSM 6068', 'Isosphaera pallida ATCC 43644', 'Methylocystis parvus OBBP', 'Borreliella burgdorferi B31', 'Borrelia hermsii DAH', 'Borrelia parkeri SLO', 'Borrelia turicatae 91E135', 'Borrelia anserina BA2', 'Sediminispirochaeta bajacaliforniensis DSM 16054', 'Spirochaeta thermophila DSM 6192', 'Treponema denticola ATCC 35405', 'Brachyspira hyodysenteriae WA1', 'Treponema pallidum subsp. pallidum str. Nichols', 'Treponema phagedenis F0421', 'Treponema bryantii NK4A124', 'Treponema saccharophilum DSM 2985', 'Treponema succinifaciens DSM 2489', "Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'", 'Leptospira interrogans serovar Lai str. 56601', 'Leptospira borgpetersenii serovar Hardjo-bovis str. L550', 'Leptospirillum ferrooxidans C2-3', 'Leptonema illini DSM 21528', 'Novispirillum itersonii subsp. itersonii ATCC 12639', 'Aquaspirillum serpens DSM 68', 'Azospirillum sp. B510', 'Campylobacter coli 76339', 'Campylobacter fetus subsp. venerealis NCTC 10354', 'Campylobacter jejuni subsp. jejuni 414', 'Campylobacter concisus 13826', 'Campylobacter curvus 525.92', 'Campylobacter lari RM2100', 'Campylobacter rectus RM3267', 'Campylobacter showae CSUNSWCD', 'Campylobacter sputorum biovar sputorum', 'Helicobacter pylori 26695', 'Helicobacter acinonychis str. Sheeba', 'Helicobacter cinaedi CCUG 18818 = ATCC BAA-847', 'Helicobacter felis ATCC 49179', 'Helicobacter fennelliae MRY12-0050', 'Helicobacter mustelae 12198', 'Pseudoalteromonas haloplanktis ATCC 14393', 'Brucella abortus 2308', 'Brucella ovis ATCC 25840', 'Elizabethkingia meningoseptica ATCC 13253 = NBRC 12535', 'Flavobacterium aquatile LMG 4008 = ATCC 11947', 'Empedobacter brevis NBRC 14943 = ATCC 43319', 'Chryseobacterium gleum ATCC 35910', 'Psychroflexus gondwanensis ACAM 44', 'Chryseobacterium indologenes NBRC 14944', 'Myroides odoratus DSM 2801', 'Sphingobacterium spiritivorum ATCC 33861', 'Francisella cf. tularensis subsp. novicida 3523', 'Paracoccus denitrificans PD1222', 'Thermus aquaticus Y51MC23', 'Thermus thermophilus HB8', 'Meiothermus ruber DSM 1279', 'Xanthobacter autotrophicus Py2', 'Comamonas testosteroni KF-1', 'Pseudomonas aeruginosa PAO1', 'Pseudoalteromonas atlantica T6c', 'Burkholderia cepacia', 'Brevundimonas diminuta 470-4', 'Pseudomonas fluorescens NCIMB 11764', 'Pseudomonas fragi B25', 'Pseudomonas mendocina NK-01', 'Pseudomonas pseudoalcaligenes AD6', 'Pseudomonas putida KT2440', 'Ralstonia solanacearum GMI1000', 'Pseudomonas stutzeri MF28', 'Pseudomonas syringae pv. syringae B728a', 'Ralstonia pickettii DTP0602', 'Burkholderia glumae BGR1', 'Xanthomonas campestris pv. campestris', 'Xanthomonas translucens DAR61454', 'Xanthomonas citri pv. citri str. 306', 'Xanthomonas oryzae pv. oryzae PXO99A', 'Azotobacter chroococcum NCIMB 8003', 'Azotobacter vinelandii DJ', 'Agrobacterium radiobacter K84', 'Agrobacterium rhizogenes', 'Agrobacterium vitis S4', 'Bradyrhizobium japonicum', 'Sinorhizobium fredii USDA 257', 'Mesorhizobium loti CJ3sym', 'Sinorhizobium meliloti 1021', 'Rhizobium leguminosarum bv. viciae GB30', 'Rhizobium tropici CIAT 899', 'Neorhizobium galegae bv. orientalis str. HAMBI 540', 'Methylobacillus flagellatus KT', 'Methylobacillus glycogenes JCM 2850', 'Methylorubrum extorquens AM1', 'Methylococcus capsulatus str. Bath', 'Methylomonas methanica MC09', 'Methylosinus trichosporium OB3b', 'Acetobacter aceti ATCC 23746', 'Komagataeibacter hansenii ATCC 23769', 'Acetobacter pasteurianus 3P3', 'Gluconobacter oxydans H24', 'Legionella pneumophila str. Paris', 'Legionella hackeliae', 'Legionella longbeachae NSW150', 'Tatlockia micdadei', 'Fluoribacter dumoffii NY 23', 'Acinetobacter baumannii', 'Acinetobacter calcoaceticus ANC 3680', 'Moraxella catarrhalis O35E', 'Neisseria cinerea ATCC 14685', 'Neisseria flavescens NRL30031/H210', 'Neisseria gonorrhoeae NCCP11945', 'Neisseria lactamica 020-06', 'Neisseria meningitidis MC58', 'Neisseria mucosa ATCC 25996', 'Neisseria polysaccharea ATCC 43768', 'Neisseria sicca ATCC 29256', 'Neisseria elongata subsp. glycolytica ATCC 29315', 'Neisseria macacae ATCC 33926', 'Thermomicrobium roseum DSM 5159', 'Kingella denitrificans ATCC 33394', 'Kingella kingae ATCC 23330', 'Kingella oralis ATCC 51147', 'Alcaligenes faecalis', 'Bordetella bronchiseptica RB50', 'Bordetella parapertussis Bpp5', 'Bordetella pertussis Tohama I', 'Bordetella avium 197N', 'Acidiphilium angustum ATCC 35903', 'Acidiphilium cryptum JF-5', 'Acidocella facilis ATCC 35904', 'Ochrobactrum anthropi ATCC 49188', 'Polaribacter irgensii 23-P', 'Beijerinckia indica subsp. indica ATCC 9039', 'Chromobacterium violaceum ATCC 12472', 'Eikenella corrodens ATCC 23834', 'Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821', 'Citrobacter koseri ATCC BAA-895', 'Citrobacter freundii MGH 56', 'Klebsiella aerogenes KCTC 2190', 'Pantoea agglomerans', 'Enterobacter cloacae subsp. cloacae ATCC 13047', 'Erwinia amylovora CFBP1430', 'Pantoea ananatis LMG 20103', 'Pectobacterium carotovorum subsp. carotovorum PC1', 'Dickeya chrysanthemi Ech1591', 'Escherichia coli K-12', 'Shimwellia blattae DSM 4481 = NBRC 105725', 'Escherichia fergusonii B253', 'Atlantibacter hermannii NBRC 105704', 'Pseudescherichia vulneris NBRC 102420', 'Hafnia alvei FB1', 'Klebsiella oxytoca', 'Klebsiella pneumoniae', 'Morganella morganii subsp. morganii KT', 'Proteus mirabilis HI4320', 'Proteus vulgaris', 'Providencia rettgeri DSM 1131', 'Providencia stuartii ATCC 25827', 'Serratia liquefaciens ATCC 27592', 'Serratia marcescens subsp. marcescens Db11', 'Serratia odorifera DSM 4582', 'Shigella boydii CDC 3083-94', 'Shigella dysenteriae 1617', 'Shigella flexneri 2a str. 301', 'Shigella sonnei Ss046', 'Xenorhabdus nematophila ATCC 19061', 'Yersinia enterocolitica LC20', 'Yersinia intermedia ATCC 29909', 'Yersinia pestis CO92', 'Yersinia pseudotuberculosis', 'Edwardsiella tarda ATCC 15947 = NBRC 105688', 'Aeromonas hydrophila subsp. hydrophila ATCC 7966', 'Aeromonas salmonicida subsp. salmonicida A449', 'Aeromonas media WS', 'Aeromonas veronii B565', 'Photobacterium phosphoreum ANT-2200', 'Photobacterium angustum S14', 'Vibrio alginolyticus NBRC 15630 = ATCC 17749', 'Vibrio cholerae O395', 'Aliivibrio fischeri ES114', 'Vibrio parahaemolyticus RIMD 2210633', 'Vibrio proteolyticus NBRC 13287', 'Vibrio vulnificus', 'Grimontia hollisae CIP 101886', 'Vibrio mimicus MB451', 'Vibrio campbellii ATCC BAA-1116', 'Vibrio diazotrophicus NBRC 103148', 'Plesiomonas shigelloides 302-73', 'Aggregatibacter actinomycetemcomitans HK1651', 'Actinobacillus pleuropneumoniae serovar 1 str. 4074', 'Actinobacillus suis H91-0380', 'Actinobacillus capsulatus DSM 19761', 'Actinobacillus equuli subsp. equuli', 'Actinobacillus ureae ATCC 25976', 'Haemophilus haemolyticus M21639', 'Haemophilus influenzae Rd KW20', 'Avibacterium paragallinarum 221', 'Haemophilus parainfluenzae T3T1', 'Histophilus somni 129PT', 'Aggregatibacter aphrophilus NJ8700', 'Haemophilus paraphrohaemolyticus HK411', 'Glaesserella parasuis ZJ0906', 'Aggregatibacter segnis ATCC 33393', 'Pasteurella multocida', 'Gallibacterium anatis UMN179', 'Pasteurella bettyae CCUG 2042', 'Pasteurella dagmatis ATCC 43325', 'Rodentibacter pneumotropicus', 'Anaplasma centrale str. Israel', 'Anaplasma marginale str. St. Maries', 'Bartonella bacilliformis KC583', 'Coxiella burnetii RSA 493', 'Ehrlichia ruminantium str. Welgevonden', 'Rickettsia conorii str. Malish 7', 'Rickettsia prowazekii str. Madrid E', 'Rickettsia rickettsii str. Iowa', 'Orientia tsutsugamushi str. Boryong', 'Rickettsia typhi str. Wilmington', 'Rickettsia akari str. Hartford', 'Rickettsia australis str. Cutlack', 'Rickettsia canadensis str. McKiel', 'Bartonella quintana str. Toulouse', 'Bartonella elizabethae F9251 = ATCC 49927', 'Chlamydia trachomatis D/UW-3/CX', 'Bacteroides fragilis 3_1_12', 'Bacteroides thetaiotaomicron VPI-5482', 'Bacteroides uniformis ATCC 8492', 'Bacteroides vulgatus ATCC 8482', 'Parabacteroides distasonis ATCC 8503', 'Campylobacter gracilis RM3268', 'Sebaldella termitidis ATCC 33386', 'Campylobacter ureolyticus', 'Butyrivibrio fibrisolvens ND3005', 'Fibrobacter succinogenes subsp. succinogenes S85', 'Porphyromonas gingivalis ATCC 33277', 'Prevotella ruminicola 23', 'Prevotella loescheii DSM 19665 = JCM 12249 = ATCC 15930', 'Wolinella succinogenes DSM 1740', 'Oxalobacter formigenes HOxBLS', 'Fusobacterium gonidiaformans ATCC 25563', 'Fusobacterium mortiferum ATCC 9817', 'Fusobacterium nucleatum subsp. nucleatum ATCC 25586', 'Fusobacterium perfoetens ATCC 29250', 'Faecalibacterium prausnitzii A2-165', 'Fusobacterium russii ATCC 25533', 'Fusobacterium varium ATCC 27725', 'Fusobacterium necrophorum subsp. funduliforme ATCC 51357', 'Fusobacterium periodonticum ATCC 33693', 'Fusobacterium ulcerans ATCC 49185', 'Syntrophomonas wolfei subsp. wolfei str. Goettingen G311', 'Dichelobacter nodosus VCS1703A', 'Desulfocurvibacter africanus subsp. africanus str. Walvis Bay', 'Desulfovibrio desulfuricans ND132', 'Desulfovibrio fructosivorans JJ', 'Desulfovibrio gigas DSM 1382 = ATCC 19364', 'Desulfovibrio salexigens DSM 2638', 'Desulfovibrio vulgaris str. Hildenborough', 'Thermodesulfobacterium thermophilum DSM 1276', 'Desulfovibrio longus DSM 6739', 'Desulfobulbus propionicus DSM 2032', 'Desulfococcus multivorans DSM 2059', 'Desulfomicrobium baculatum DSM 4028', 'Desulfovibrio piger ATCC 29098', 'Acidaminococcus fermentans DSM 20731', 'Megasphaera elsdenii DSM 20460', 'Nitrobacter hamburgensis X14', 'Nitrobacter winogradskyi Nb-255', 'Nitrosomonas europaea ATCC 19718', 'Nitrosomonas eutropha C91', 'Acidithiobacillus ferrooxidans ATCC 23270', 'Starkeya novella DSM 506', 'Thiomonas intermedia K12', 'Halothiobacillus neapolitanus c2', 'Thermithiobacillus tepidarius DSM 3134', 'Acidithiobacillus thiooxidans ATCC 19377', 'Thiobacillus thioparus DSM 505', 'Thiomicrospira pelophila DSM 1534', 'Hydrogenobacter thermophilus TK-6', 'Ehrlichia canis str. Jake', 'Ehrlichia chaffeensis str. Arkansas', 'Anaplasma phagocytophilum str. HZ', 'Neorickettsia risticii str. Illinois', 'Neorickettsia sennetsu str. Miyayama', 'Bdellovibrio bacteriovorus HD100', 'Herbaspirillum seropedicae SmR1', 'Selenomonas ruminantium AB3002', 'Cellulophaga lytica DSM 7489', 'Saccharicrinis fermentans DSM 9555 = JCM 21142', 'Pedobacter heparinus DSM 2366', 'Cytophaga hutchinsonii ATCC 33406', 'Flavobacterium johnsoniae UW101', 'Marinilabilia salmonicolor JCM 21150', 'Flavobacterium hydatis', 'Solitalea canadensis DSM 3403', 'Flavobacterium columnare ATCC 49512', 'Bernardetia litoralis DSM 6794', 'Marivirga tractuosa DSM 4126', 'Saprospira grandis str. Lewin', 'Weeksella virosa DSM 16922', 'Bergeyella zoohelcum ATCC 43767', 'Capnocytophaga gingivalis ATCC 33624', 'Capnocytophaga ochracea F0287', 'Capnocytophaga sputigena ATCC 33612', 'Beggiatoa alba B18LD', 'Microscilla marina ATCC 23134', 'Thiothrix nivea DSM 5205', 'Afipia clevelandensis ATCC 49720', 'Afipia felis ATCC 53690', 'Erythrobacter longus', 'Allochromatium vinosum DSM 180', 'Halorhodospira halochloris str. A', 'Halorhodospira halophila SL1', 'Rhodobacter capsulatus SB 1003', 'Rhodobacter sphaeroides 2.4.1', 'Rhodomicrobium vannielii ATCC 17100', 'Rhodopseudomonas palustris CGA009', 'Phaeospirillum fulvum MGU-K5', 'Phaeospirillum molischianum DSM 120', 'Pararhodospirillum photometricum DSM 122', 'Rhodospirillum rubrum ATCC 11170', 'Rhodovibrio salinarum DSM 9154', 'Chlorobium limicola DSM 245', 'Chlorobium phaeovibrioides DSM 265', 'Chlorobium phaeobacteroides DSM 266', 'Chlorobaculum tepidum TLS', 'Pelodictyon luteolum DSM 273', 'Prosthecochloris aestuarii DSM 271', 'Chloroflexus aurantiacus J-10-fl', 'Chlorogloeopsis fritschii PCC 6912', 'Microcystis aeruginosa NIES-843', 'Synechocystis sp. PCC 6714', 'Synechocystis sp. PCC 6803 substr. Kazusa', 'Planktothrix agardhii NIVA-CYA 126/8', 'Anabaena cylindrica PCC 7122', 'Leptolyngbya boryana PCC 6306', 'Tolypothrix sp. PCC 7601', 'Trichodesmium erythraeum IMS101', 'Prochlorococcus marinus str. AS9601', 'Prochlorothrix hollandica PCC 9006 = CALU 1027', 'Nitrosococcus oceani ATCC 19707', 'Nitrosospira multiformis ATCC 25196', 'Leuconostoc gelidum subsp. gasicomitatum LMG 18811', 'Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293', 'Leuconostoc lactis', 'Oenococcus oeni PSU-1', 'Weissella paramesenteroides ATCC 33313', 'Leuconostoc fallax KCTC 3537', 'Leuconostoc carnosum JB16', 'Pediococcus acidilactici DSM 20284', 'Pediococcus pentosaceus ATCC 25745', 'Finegoldia magna ATCC 53516', 'Peptostreptococcus anaerobius VPI 4330 = DSM 2949', 'Ruminococcus albus 8', 'Ruminococcus flavefaciens FD-1', 'Micrococcus luteus NCTC 2665', 'Dermacoccus nishinomiyaensis', 'Kytococcus sedentarius DSM 20547', 'Staphylococcus aureus subsp. aureus Mu50', 'Staphylococcus carnosus subsp. carnosus TM300', 'Staphylococcus epidermidis RP62A', 'Staphylococcus haemolyticus JCSC1435', 'Staphylococcus hyicus', 'Staphylococcus intermedius NCTC 11048', 'Staphylococcus simulans UMC-CNS-990', 'Staphylococcus xylosus', 'Staphylococcus hominis SK119', 'Staphylococcus warneri L37603', 'Staphylococcus sciuri subsp. sciuri Z8', 'Deinococcus radiodurans R1', 'Streptococcus gordonii str. Challis substr. CH1', 'Streptococcus oralis subsp. tigurinus AZ_3a', 'Streptococcus salivarius 57.I', 'Streptococcus sanguinis SK1057', 'Streptococcus suis R61', 'Streptococcus thermophilus LMG 18311', 'Streptococcus mutans UA159', 'Streptococcus sobrinus W1703', 'Streptococcus agalactiae LMG 14747', 'Streptococcus pneumoniae R6', 'Streptococcus pyogenes', 'Streptococcus downei F0415', 'Streptococcus parasanguinis ATCC 903', 'Blautia hansenii DSM 20583', 'Faecalicoccus pleomorphus DSM 20574', 'Streptococcus anginosus DORA_7', 'Streptococcus canis FSL Z3-227', 'Streptococcus criceti HS-6', 'Streptococcus dysgalactiae subsp. equisimilis AC-2713', 'Streptococcus equinus ATCC 9812', 'Streptococcus equi subsp. zooepidemicus', 'Streptococcus intermedius B196', 'Streptococcus macacae NCTC 11558', 'Streptococcus porcinus str. Jelinkova 176', 'Streptococcus ratti FA-1 = DSM 20564', 'Streptococcus vestibularis F0396', 'Streptococcus ferus DSM 20646', 'Streptococcus iniae', 'Streptococcus parauberis NCFD 2020', 'Streptococcus uberis 0140J', 'Enterococcus faecalis V583', 'Enterococcus faecium C68', 'Enterococcus gallinarum EG2', 'Enterococcus hirae ATCC 9790', 'Enterococcus columbae DSM 7374 = ATCC 51263', 'Enterococcus sulfureus ATCC 49903', 'Lactococcus lactis subsp. cremoris SK11', 'Lactococcus garvieae DCC43', 'Lactococcus piscium MKFS47', 'Lactococcus raffinolactis 4877', 'Aerococcus urinae ACS-120-V-Col10a', 'Aerococcus viridans ATCC 11563 = CCUG 4311', 'Gemella haemolysans M341', 'Atopobium minutum 10063974', 'Atopobium parvulum DSM 20469', 'Atopobium rimae ATCC 49626', 'Bacillus amyloliquefaciens Y2', 'Aneurinibacillus aneurinilyticus ATCC 12856', 'Bacillus anthracis str. Ames', 'Brevibacillus brevis X23', 'Bacillus cereus', 'Bacillus coagulans 36D1', 'Bacillus firmus DS1', 'Bacillus licheniformis DSM 13 = ATCC 14580', 'Bacillus megaterium QM B1551', 'Bacillus mycoides KBAB4', 'Paenibacillus polymyxa SC2', 'Bacillus psychrosaccharolyticus ATCC 23296', 'Bacillus pumilus SAFR-032', 'Bacillus sp. (in: Bacteria)', 'Bacillus akibai JCM 9157', 'Bacillus cellulosilyticus DSM 2522', 'Lysinibacillus sphaericus OT4b.31', 'Bacillus subtilis subsp. subtilis str. 168', 'Parageobacillus thermoglucosidasius C56-YS93', 'Bacillus thuringiensis serovar kurstaki', 'Bacillus alcalophilus ATCC 27647 = CGMCC 1.3604', 'Amphibacillus xylanus NBRC 15112', 'Alicyclobacillus acidoterrestris ATCC 49025', 'Bacillus atrophaeus 1942', 'Geobacillus kaustophilus HTA426', 'Paenibacillus larvae subsp. larvae DSM 25430', 'Brevibacillus laterosporus DSM 25', 'Bacillus methanolicus PB1', 'Peribacillus simplex BA2H3', 'Bacillus smithii 7_3_47FAA', 'Virgibacillus halodenitrificans 1806', 'Clostridium acetobutylicum ATCC 824', 'Paraclostridium bifermentans WYM', 'Clostridium botulinum A2 str. Kyoto', 'Clostridium butyricum E4 str. BoNT E BL5262', 'Clostridium cellulovorans 743B', 'Clostridioides difficile', 'Ruminiclostridium josui JCM 17888', 'Clostridium pasteurianum BC1', 'Clostridium perfringens ATCC 13124', 'Paeniclostridium sordellii VPI 9048', 'Clostridium sp. ATCC 29733', 'Clostridium sporogenes PA 3679', 'Thermoclostridium stercorarium subsp. stercorarium DSM 8532', 'Acetoanaerobium sticklandii', 'Clostridium tetani 12124569', 'Hungateiclostridium thermocellum ATCC 27405', 'Thermoanaerobacter thermohydrosulfuricus WC1', 'Thermoanaerobacterium thermosaccharolyticum DSM 571', 'Clostridium tyrobutyricum DSM 2637 = ATCC 25755 = JCM 11008', 'Clostridium beijerinckii NCIMB 8052', 'Ruminiclostridium cellulolyticum H10', 'Moorella thermoacetica ATCC 39073', 'Clostridium cadaveris AGR2141', 'Clostridium kluyveri DSM 555', 'Clostridium ljungdahlii DSM 13528', 'Clostridioides mangenotii TR', 'Clostridium novyi B str. NCTC 9691', 'Erysipelatoclostridium ramosum DSM 1402', 'Clostridium scatologenes', 'Clostridium tetanomorphum DSM 665', 'Gottschalkia acidurici 9a', 'Peptoclostridium litorale DSM 5388', 'Clostridium baratii str. Sullivan', 'Desulfosporosinus orientis DSM 765', 'Desulfotomaculum ruminis DSM 2154', 'Desulfotomaculum nigrificans DSM 574', 'Halobacillus halophilus DSM 2266', 'Sporosarcina ureae DSM 2281', 'Leifsonia xyli subsp. cynodontis DSM 46306', 'Lactobacillus acidophilus 30SC', 'Lactobacillus brevis ATCC 367', 'Lactobacillus buchneri ATCC 11577', 'Lactobacillus casei BL23', 'Weissella confusa LBAE C39-2', 'Lactobacillus delbrueckii subsp. bulgaricus 2038', 'Lactobacillus helveticus CNRZ32', 'Lactobacillus hilgardii DSM 20176 = ATCC 8290', 'Lactobacillus pentosus KCA1', 'Lactobacillus plantarum WCFS1', 'Lactobacillus gasseri ATCC 33323 = JCM 1131', 'Lactobacillus paracasei subsp. paracasei ATCC 25302', 'Lactobacillus reuteri 100-23', 'Lactobacillus sakei subsp. sakei 23K', 'Lactobacillus amylovorus GRL 1112', 'Lactobacillus animalis', 'Lactobacillus coryniformis subsp. coryniformis KCTC 3167 = DSM 20001', 'Lactobacillus farciminis KCTC 3681 = DSM 20184', 'Lactobacillus fermentum IFO 3956', 'Lactobacillus fructivorans KCTC 3543 = DSM 20203', 'Weissella halotolerans DSM 20190', 'Lactobacillus murinus ASF361', 'Lactobacillus ruminis ATCC 27782', 'Lactobacillus salivarius UCC118', 'Lactobacillus sanfranciscensis TMW 1.1304', 'Kandleria vitulina MC3001', 'Fructobacillus fructosus KCTC 3544', 'Lactobacillus oris F0423', 'Lactobacillus vaginalis DSM 5837 = ATCC 49540', 'Listeria ivanovii subsp. londoniensis', 'Listeria monocytogenes EGD-e', 'Listeria seeligeri serovar 1/2b str. SLCC3954', 'Listeria grayi DSM 20601', 'Listeria innocua Clip11262', 'Listeria welshimeri serovar 6b str. SLCC5334', 'Renibacterium salmoninarum ATCC 33209', 'Erysipelothrix rhusiopathiae str. Fujisawa', 'Alloiococcus otitis ATCC 51267', 'Actinomyces naeslundii str. Howell 279', 'Actinomyces viscosus C505', 'Actinomyces israelii DSM 43320', 'Schaalia odontolytica ATCC 17982', 'Trueperella pyogenes TP8', 'Arthrobacter globiformis NBRC 12137', 'Bifidobacterium adolescentis', 'Bifidobacterium bifidum NCIMB 41171', 'Bifidobacterium angulatum DSM 20098 = JCM 7096', 'Bifidobacterium asteroides PRL2011', 'Bifidobacterium breve UCC2003', 'Bifidobacterium catenulatum DSM 16992 = JCM 1194 = LMG 11043', 'Bifidobacterium coryneforme', 'Bifidobacterium cuniculi', 'Bifidobacterium dentium Bd1', 'Bifidobacterium indicum LMG 11587 = DSM 20214', 'Bifidobacterium magnum', 'Bifidobacterium minimum', 'Bifidobacterium pseudolongum subsp. globosum', 'Corynebacterium ammoniagenes DSM 20306', 'Brevibacterium linens BL2', 'Cellulomonas fimi ATCC 484', 'Cellulosimicrobium cellulans J36', 'Cellulomonas flavigena DSM 20109', 'Oerskovia turbata', 'Corynebacterium diphtheriae PW8', 'Corynebacterium glutamicum', 'Corynebacterium pseudotuberculosis', 'Corynebacterium callunae DSM 20147', 'Corynebacterium variabile DSM 44702', 'Peptoclostridium acidaminophilum DSM 3953', 'Holdemanella biformis DSM 3989', 'Eubacterium limosum KIST612', 'Thermodesulfobacterium commune DSM 2178', 'Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1', 'Cutibacterium acnes KPA171202', 'Acidipropionibacterium acidipropionici ATCC 4875', 'Acidipropionibacterium jensenii DSM 20535', 'Pseudopropionibacterium propionicum F0230a', 'Acidipropionibacterium thoenii DSM 20276', 'Mycobacterium avium subsp. avium', 'Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841', 'Mycobacterium intracellulare ATCC 13950', 'Mycobacterium kansasii 732', 'Mycobacterium leprae TN', 'Mycolicibacterium phlei RIVM601174', 'Mycolicibacterium smegmatis MC2 155', 'Mycobacterium tuberculosis H37Rv', 'Mycobacteroides chelonae', 'Mycobacterium marinum M', 'Mycobacterium asiaticum DSM 44297', 'Mycolicibacterium neoaurum VKM Ac-1815D', 'Mycolicibacterium thermoresistibile ATCC 19527', 'Mycolicibacterium chubuense NBB4', 'Mycolicibacterium farcinogenes', 'Mycolicibacterium gilvum PYR-GCK', 'Mycobacterium ulcerans Agy99', 'Mycolicibacterium vaccae ATCC 25954', 'Amycolatopsis methanolica 239', 'Nocardia otitidiscaviarum NBRC 14405', 'Nocardia asteroides NBRC 15531', 'Rhodococcus fascians', 'Rhodococcus rhodochrous ATCC 21198', 'Rhodococcus ruber Chol-4', 'Rhodococcus erythropolis PR4', 'Saccharopolyspora erythraea NRRL 2338', 'Actinopolyspora halophila DSM 43834', 'Saccharomonospora viridis DSM 43017', 'Frankia alni ACN14a', 'Geodermatophilus obscurus DSM 43160', 'Actinoplanes missouriensis 431', 'Actinoplanes utahensis', 'Streptomyces albus subsp. albus', 'Kitasatospora aureofaciens', 'Streptomyces bikiniensis', 'Streptomyces coelicolor A3(2)', 'Streptomyces fradiae', 'Streptomyces glaucescens', 'Streptomyces griseus subsp. griseus NBRC 13350', 'Streptomyces hygroscopicus subsp. jinggangensis 5008', 'Streptomyces lividans 1326', 'Streptomyces scabiei 87.22', 'Streptomyces viridochromogenes DSM 40736', 'Streptomyces halstedii', 'Streptomyces purpureus KA281', 'Streptomyces sclerotialus', 'Streptomyces virginiae', 'Streptomyces cellulosae', 'Streptomyces chartreusis NRRL 12338', 'Actinomadura atramentaria DSM 43919', 'Actinomadura madurae LIID-AJ290', 'Microtetraspora glauca', 'Streptosporangium roseum DSM 43021', 'Streptosporangium amethystogenes', 'Thermobispora bispora DSM 43833', 'Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111', 'Nocardiopsis prasina DSM 43845', 'Thermomonospora curvata DSM 43183', 'Thermobifida fusca YX', 'Microbacterium testaceum StLB037', 'Curtobacterium flaccumfaciens UCD-AKU', 'Tropheryma whipplei str. Twist', 'Pimelobacter simplex', 'Rothia dentocariosa ATCC 17931', 'Mobiluncus curtisii ATCC 43063', 'Mobiluncus mulieris 28-1', 'Gordonia bronchialis DSM 43247', 'Gordonia terrae', 'Sphaerobacter thermophilus DSM 20745', 'Tsukamurella paurometabola DSM 20162', 'Kitasatospora setae KM-6054', 'Pseudonocardia autotrophica', 'Mycoplasma arginini 7264', 'Mycoplasma capricolum subsp. capricolum ATCC 27343', 'Mycoplasma gallisepticum', 'Mycoplasma genitalium G37', 'Mycoplasma hominis', 'Mycoplasma hyopneumoniae J', 'Mycoplasma hyorhinis SK76', 'Mycoplasma mycoides subsp. mycoides SC str. PG1', 'Mycoplasma pneumoniae', 'Mycoplasma leachii PG50', 'Mycoplasma pulmonis', 'Mycoplasma synoviae 53', 'Mycoplasma agalactiae PG2', 'Mycoplasma arthritidis 158L3-1', 'Mycoplasma bovigenitalium 51080', 'Mycoplasmopsis californica', 'Mycoplasma fermentans PG18', 'Mycoplasma iowae 695', 'Mycoplasma mobile', 'Mycoplasma putrefaciens Mput9231', 'Mycoplasma flocculare ATCC 27399', 'Ureaplasma urealyticum serovar 7 str. ATCC 27819', 'Spiroplasma melliferum IPMB4A', 'Spiroplasma apis B31', 'Spiroplasma mirum ATCC 29335', 'Spiroplasma taiwanense CT-1', 'Acholeplasma laidlawii PG-8A', 'Acholeplasma modicum ATCC 29102', 'Mesoplasma florum L1', 'Methanobrevibacter smithii ATCC 35061', 'Methanohalophilus mahii DSM 5219', 'Methanothermus fervidus DSM 2088', 'Methanothermococcus thermolithotrophicus DSM 2095', 'Methanococcus vannielii SB', 'Methanococcus voltae A3', 'Methanotorris igneus Kol 5', 'Methanocaldococcus jannaschii DSM 2661', 'Methanoculleus marisnigri JR1', 'Methanofollis liminatans DSM 4140', 'Methanospirillum hungatei JF-1', 'Methanomicrobium mobile BP', 'Methanosarcina barkeri str. Fusaro', 'Methanosarcina mazei Go1', 'Methanosarcina thermophila TM-1', 'Methanosarcina acetivorans C2A', 'Methanosarcina vacuolata Z-761', 'Methanothrix soehngenii GP6', 'Methanothrix thermoacetophila PT', 'Methanococcoides methylutens MM1', 'Archaeoglobus fulgidus DSM 4304', 'Haloarcula marismortui ATCC 43049', 'Halobacterium salinarum NRC-1', 'Haloferax volcanii DS2', 'Halorubrum lacusprofundi ATCC 49239', 'Halorubrum saccharovorum DSM 1137', 'Halococcus morrhuae DSM 1307', 'Haloferax mediterranei ATCC 33500', 'Natronomonas pharaonis DSM 2160', 'Pyrococcus furiosus DSM 3638', 'Thermococcus litoralis DSM 5473', 'Thermofilum pendens Hrk 5', 'Thermoproteus tenax Kra 1', 'Desulfurococcus mucosus DSM 2162', 'Pyrobaculum islandicum DSM 4184', 'Staphylothermus marinus F1', 'Sulfolobus acidocaldarius DSM 639', 'Saccharolobus solfataricus P2', 'Desulfobacter curvatus DSM 3379', 'Desulfobacter postgatei 2ac9', 'Desulfobacterium autotrophicum HRM2', 'Thermoplasma acidophilum DSM 1728', 'Methanoplanus limicola DSM 2279', 'Methanosphaera stadtmanae DSM 3091', 'Methanopyrus kandleri AV19', 'Methanohalobium evestigatum Z-7303', 'Thermoanaerobacter kivui', 'Halanaerobium praevalens DSM 2228', 'Thermotoga maritima MSB8', 'Thermotoga neapolitana DSM 4359', 'Solemya velum gill symbiont', 'Haliscomenobacter hydrossis DSM 1100', 'Flexistipes sinusarabici DSM 4947', 'Desulfomonile tiedjei DSM 6799', 'Xylella fastidiosa 9a5c', 'Acetonema longum DSM 6540', 'Sporomusa ovata DSM 2662', 'Thermosipho africanus TCF52B', 'Fervidobacterium islandicum', 'Fervidobacterium nodosum Rt17-B1', 'Teredinibacter turnerae T7901', 'Roseobacter denitrificans OCh 114', 'Gardnerella vaginalis 6119V5', 'Citrus sinensis', 'Cardiobacterium hominis ATCC 15826', 'Hirschia baltica ATCC 49814', 'Symbiobacterium thermophilum IAM 14863', 'Verrucomicrobium spinosum DSM 4136 = JCM 18804', 'Marinobacter hydrocarbonoclasticus VT8', 'Halomonas elongata DSM 2581', 'Carnobacterium divergens DSM 20623', 'Carnobacterium gallinarum DSM 4847', 'Carnobacterium mobile DSM 4848', 'Carnobacterium maltaromaticum LMA28', 'Carnobacterium funditum DSM 5970', 'Synergistes jonesii', 'Chondrus crispus', 'Phaeodactylum tricornutum', 'Ectocarpus siliculosus', 'Cryptomonas paramecium', 'Emiliania huxleyi', 'Symbiodinium microadriaticum', 'Chlamydomonas reinhardtii', 'Volvox carteri', 'Auxenochlorella protothecoides', 'Marchantia polymorpha', 'Physcomitrium patens', 'Cannabis sativa', 'Actinidia chinensis var. chinensis', 'Theobroma cacao', 'Carica papaya', 'Citrullus lanatus', 'Cucumis melo', 'Cucumis sativus', 'Populus trichocarpa', 'Arabidopsis thaliana', 'Brassica napus', 'Brassica rapa', 'Brassica oleracea', 'Malus domestica', 'Prunus dulcis', 'Prunus persica', 'Cajanus cajan', 'Cicer arietinum', 'Glycine max', 'Glycine soja', 'Lupinus angustifolius', 'Medicago truncatula', 'Phaseolus vulgaris', 'Vigna angularis', 'Manihot esculenta', 'Ricinus communis', 'Linum usitatissimum', 'Daucus carota subsp. sativus', 'Capsicum annuum', 'Solanum lycopersicum', 'Nicotiana sylvestris', 'Nicotiana tabacum', 'Nicotiana tomentosiformis', 'Nicotiana benthamiana', 'Solanum commersonii', 'Solanum tuberosum', 'Olea europaea', 'Erythranthe guttata', 'Sesamum indicum', 'Helianthus annuus', 'Cynara cardunculus var. scolymus', 'Nelumbo nucifera', 'Hordeum vulgare', 'Oryza longistaminata', 'Oryza rufipogon', 'Oryza sativa Japonica Group', 'Oryza brachyantha', 'Oryza nivara', 'Oryza punctata', 'Oryza glaberrima', 'Setaria italica', 'Setaria viridis', 'Sorghum bicolor', 'Triticum aestivum', 'Triticum turgidum subsp. durum', 'Triticum urartu', 'Zea mays', 'Ananas comosus', 'Musa acuminata', 'Pneumocystis carinii', 'Plasmopara halstedii', 'Phytophthora infestans', 'Phytophthora nicotianae', 'Phytophthora parasitica', 'Phytophthora megakarya', 'Phytophthora palmivora var. palmivora', 'Phycomyces blakesleeanus', 'Schizosaccharomyces pombe 972h-', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces octosporus', 'Cyberlindnera jadinii', 'Pichia kudriavzevii', 'Kluyveromyces marxianus DMKU3-1042', 'Lachancea waltii', 'Pachysolen tannophilus NRRL Y-2460', 'Millerozyma farinosa', 'Komagataella pastoris', 'Scheffersomyces stipitis', 'Pichia membranifaciens NRRL Y-2026', 'Wickerhamomyces anomalus', 'Meyerozyma guilliermondii', 'Saccharomyces bayanus', 'Saccharomyces cerevisiae S288C', 'Lachancea kluyveri', 'Torulaspora delbrueckii CBS 1146', 'Yarrowia lipolytica CLIB122', 'Zygosaccharomyces bailii CLIB 213', 'Lachancea fermentati', 'Zygosaccharomyces rouxii', 'Debaryomyces hansenii', 'Kockovaella imperatae', 'Brettanomyces bruxellensis', 'Taphrina deformans PYCC 5710', 'Bipolaris maydis', 'Bipolaris zeicola', 'Leptosphaeria maculans', 'Histoplasma capsulatum', 'Blastomyces dermatitidis', 'Acremonium chrysogenum ATCC 11550', 'Aspergillus aculeatus', 'Aspergillus clavatus', 'Aspergillus flavus', 'Aspergillus niger', 'Aspergillus oryzae', 'Penicillium camemberti', 'Penicillium chrysogenum', 'Penicillium roqueforti', 'Amorphotheca resinae ATCC 22711', 'Ascosphaera apis ARSEF 7405', 'Claviceps purpurea 20.1', 'Epichloe typhina E8', 'Cryphonectria parasitica', 'Fusarium fujikuroi', 'Neurospora crassa OR74A', 'Sordaria macrospora k-hell', 'Ophiostoma ulmi', 'Sclerotinia sclerotiorum 1980 UF-70', 'Cryptococcus neoformans var. neoformans JEC21', 'Cryptococcus depauperatus CBS 7841', 'Tremella mesenterica', 'Exidia glandulosa HHB12029', 'Ustilago maydis 521', 'Microbotryum violaceum', 'Tilletiaria anomala UBC 951', 'Rhodotorula toruloides', 'Puccinia graminis f. sp. tritici CRL 75-36-700-3', 'Phanerochaete chrysosporium', 'Pleurotus ostreatus var. ostreatus', 'Trametes versicolor FP-101664 SS1', 'Schizophyllum commune', 'Agaricus bisporus', 'Coprinopsis cinerea', 'Lentinula edodes', 'Suillus luteus UH-Slu-Lm8-n1', 'Ascochyta rabiei', 'Colletotrichum orbiculare', 'Candida albicans SC5314', 'Candida maltosa', 'Candida parapsilosis', 'Diutina rugosa', 'Candida tropicalis', 'Coccidioides immitis', 'Fusarium oxysporum', 'Fusarium culmorum CS7071', 'Fusarium graminearum', 'Metarhizium anisopliae ARSEF 549', 'Rhodotorula glutinis', 'Trichoderma harzianum', 'Trichoderma longibrachiatum ATCC 18648', 'Trichophyton rubrum', 'Aureobasidium pullulans EXF-150', 'Alternaria alternata', 'Phialophora americana', 'Saitoella complicata NRRL Y-17804', 'Cryptococcus wingfieldii CBS 7118', 'Grifola frondosa', 'Laetiporus sulphureus 93-53', 'Trametes cinnabarina', 'Leishmania braziliensis MHOM/BR/75/M2904', 'Leishmania donovani BPK282A1', 'Leishmania major', 'Leishmania mexicana MHOM/GT/2001/U1103', 'Leishmania infantum JPCM5', 'Leishmania panamensis', 'Leptomonas seymouri', 'Leishmania tarentolae', 'Trypanosoma brucei brucei', 'Trypanosoma cruzi', 'Trypanosoma equiperdum', 'Trypanosoma rangeli SC58', 'Trichomonas vaginalis', 'Giardia lamblia ATCC 50803', 'Acanthamoeba castellanii str. Neff', 'Entamoeba histolytica', 'Naegleria gruberi', 'Dictyostelium purpureum', 'Eimeria acervulina', 'Eimeria tenella', 'Eimeria maxima', 'Cryptosporidium parvum Iowa II', 'Cryptosporidium muris', 'Toxoplasma gondii ME49', 'Plasmodium berghei', 'Plasmodium chabaudi', 'Plasmodium cynomolgi strain B', 'Plasmodium falciparum 3D7', 'Plasmodium gallinaceum', 'Plasmodium knowlesi strain H', 'Plasmodium reichenowi', 'Plasmodium vivax Sal-1', 'Plasmodium fragile', 'Plasmodium malariae', 'Plasmodium vinckei', 'Plasmodium yoelii yoelii', 'Babesia bovis T2Bo', 'Babesia bigemina', 'Theileria equi', 'Theileria annulata', 'Theileria parva', 'Paramecium tetraurelia', 'Tetrahymena thermophila', 'Ichthyophthirius multifiliis', 'Stylonychia lemnae', 'Stentor coeruleus', 'Exophiala dermatitidis', 'Encephalitozoon cuniculi', 'Hydra vulgaris', 'Schistosoma japonicum', 'Schistosoma mansoni', 'Schistosoma haematobium', 'Echinococcus multilocularis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Ascaris suum', 'Brugia malayi', 'Onchocerca volvulus', 'Meloidogyne hapla', 'Bursaphelenchus xylophilus', 'Trichinella spiralis', 'Helobdella robusta', 'Aplysia californica', 'Biomphalaria glabrata', 'Crassostrea virginica', 'Mizuhopecten yessoensis', 'Daphnia pulex', 'Tigriopus californicus', 'Ixodes scapularis', 'Blattella germanica', 'Acyrthosiphon pisum', 'Bemisia tabaci', 'Tribolium castaneum', 'Bombyx mori', 'Aedes aegypti', 'Aedes albopictus', 'Anopheles gambiae', 'Anopheles albimanus', 'Anopheles dirus', 'Anopheles arabiensis', 'Culex pipiens', 'Culex quinquefasciatus', 'Lutzomyia longipalpis', 'Loa loa', 'Ceratitis capitata', 'Drosophila ananassae', 'Drosophila erecta', 'Drosophila grimshawi', 'Drosophila melanogaster', 'Drosophila mojavensis', 'Drosophila persimilis', 'Drosophila pseudoobscura pseudoobscura', 'Drosophila sechellia', 'Drosophila simulans', 'Drosophila virilis', 'Drosophila yakuba', 'Drosophila willistoni', 'Drosophila saltans', 'Musca domestica', 'Lucilia cuprina', 'Glossina morsitans morsitans', 'Glossina austeni', 'Glossina fuscipes fuscipes', 'Glossina palpalis gambiensis', 'Glossina pallidipes', 'Nasonia vitripennis', 'Apis mellifera', 'Lingula anatina', 'Strongylocentrotus purpuratus', 'Ciona intestinalis', 'Branchiostoma floridae', 'Branchiostoma lanceolatum', 'Petromyzon marinus', 'Eptatretus burgeri', 'Callorhinchus milii', 'Latimeria chalumnae', 'Lepisosteus oculatus', 'Clupea harengus', 'Danio rerio', 'Carassius auratus', 'Cyprinus carpio', 'Astyanax mexicanus', 'Ictalurus punctatus', 'Electrophorus electricus', 'Esox lucius', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Salmo salar', 'Salmo trutta', 'Gadus morhua', 'Fundulus heteroclitus', 'Poecilia reticulata', 'Xiphophorus maculatus', 'Oryzias latipes', 'Cyclopterus lumpus', 'Oreochromis niloticus', 'Haplochromis burtoni', 'Astatotilapia calliptera', 'Sparus aurata', 'Lates calcarifer', 'Xenopus tropicalis', 'Chelonia mydas', 'Chelydra serpentina', 'Chrysemys picta', 'Alligator mississippiensis', 'Crocodylus porosus', 'Sphenodon punctatus', 'Laticauda laticaudata', 'Notechis scutatus', 'Pseudonaja textilis', 'Dromaius novaehollandiae', 'Struthio camelus', 'Apteryx haastii', 'Apteryx owenii', 'Anas platyrhynchos', 'Anser cygnoides', 'Cairina moschata domestica', 'Chaetura pelagica', 'Columba livia', 'Falco peregrinus', 'Aquila chrysaetos chrysaetos', 'Haliaeetus albicilla', 'Numida meleagris', 'Gallus gallus', 'Pavo cristatus', 'Phasianus colchicus', 'Chrysolophus pictus', 'Meleagris gallopavo', 'Serinus canaria', 'Parus major', 'Phalacrocorax carbo', 'Phoenicopterus ruber ruber', 'Aptenodytes forsteri', 'Pygoscelis adeliae', 'Calypte anna', 'Ornithorhynchus anatinus', 'Sarcophilus harrisii', 'Notamacropus eugenii', 'Choloepus hoffmanni', 'Dasypus novemcinctus', 'Erinaceus europaeus', 'Echinops telfairi', 'Pteropus alecto', 'Callithrix jacchus', 'Cercocebus atys', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Papio anubis', 'Theropithecus gelada', 'Mandrillus leucophaeus', 'Gorilla gorilla gorilla', 'Pan paniscus', 'Pan troglodytes', 'Pongo abelii', 'Homo sapiens', 'Canis lupus familiaris', 'Vulpes vulpes', 'Ursus thibetanus thibetanus', 'Ursus americanus', 'Ailuropoda melanoleuca', 'Mustela putorius', 'Felis catus', 'Panthera leo', 'Panthera onca', 'Panthera pardus', 'Panthera tigris', 'Zalophus californianus', 'Odobenus rosmarus', 'Leptonychotes weddellii', 'Orcinus orca', 'Tursiops truncatus', 'Delphinapterus leucas', 'Physeter catodon', 'Balaenoptera acutorostrata', 'Balaenoptera musculus', 'Trichechus manatus', 'Loxodonta africana', 'Equus asinus asinus', 'Equus caballus', 'Procavia capensis', 'Orycteropus afer', 'Sus scrofa', 'Camelus dromedarius', 'Bison bison bison', 'Bos taurus', 'Capra hircus', 'Ovis aries', 'Ochotona princeps', 'Oryctolagus cuniculus', 'Marmota marmota marmota', 'Urocitellus parryii', 'Dipodomys ordii', 'Cricetulus griseus', 'Mesocricetus auratus', 'Peromyscus maniculatus', 'Meriones unguiculatus', 'Mus caroli', 'Mus musculus', 'Mus pahari', 'Mus spretus', 'Mus spicilegus', 'Rattus norvegicus', 'Cavia porcellus', 'Octodon degus', 'Heterocephalus glaber', 'Saccoglossus kowalevskii', 'Trichoplax adhaerens', 'Sagitta elegans', 'Atta cephalotes', 'Blastocystis hominis', 'Danaus plexippus', 'Lynx lynx', 'Melopsittacus undulatus', 'Myzus persicae', 'Rhodnius prolixus', 'Tilletia caries', 'Tilletia controversa', 'Amborella trichopoda', 'Anaerobiospirillum succiniciproducens DSM 6400', 'Arthrobotrys oligospora ATCC 24927', 'Burkholderia mallei ATCC 23344', 'Dicentrarchus labrax', 'Monodelphis domestica', 'Parastagonospora nodorum SN15', 'Solenopsis invicta', 'Sphingomonas paucimobilis', 'Sphingobium yanoikuyae', 'Syncephalastrum racemosum', 'Pelodiscus sinensis', 'Utricularia gibba', 'Natrialba magadii ATCC 43099', 'Pyrobaculum aerophilum str. IM2', 'Brachypodium distachyon', 'Naumovozyma castellii', 'Naumovozyma dairenensis CBS 421', 'Saccharomyces paradoxus', 'Saccharomyces pastorianus Weihenstephan 34/70', 'Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993', 'Penicillium expansum', 'Verticillium dahliae VdLs.17', 'Schizopora paradoxa', 'Puccinia coronata var. avenae f. sp. avenae', 'Puccinia sorghi', 'Puccinia striiformis', 'Saimiri boliviensis', 'Erpetoichthys calabaricus', 'Mnemiopsis leidyi', 'Encephalitozoon hellem ATCC 50504', 'Nosema bombycis CQ1', 'Strigomonas culicis', 'Bifidobacterium animalis subsp. lactis BB-12', 'Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505', 'Lysinibacillus fusiformis ZC1', 'Staphylococcus lugdunensis HKU09-01', 'Streptococcus mitis B6', 'Lactobacillus curvatus CRL 705', 'Saccharopolyspora rectivirgula', 'Acidothermus cellulolyticus 11B', 'Lachnospira multipara ATCC 19207', 'Rubrivivax gelatinosus IL144', 'Nostoc sp. PCC 7524', 'Campylobacter upsaliensis RM3195', 'Legionella anisa str. Linanisette', 'Legionella sainthelensi ATCC 35248 = DSM 19231', 'Acinetobacter lwoffii SH145', 'Neisseria weaveri LMG 5135', 'Burkholderia gladioli BSR3', 'Mesorhizobium huakuii 7653R', "Alteromonas macleodii str. 'Black Sea 11'", 'Francisella philomiragia subsp. philomiragia ATCC 25017', 'Bacteroides eggerthii DSM 20697', 'Tannerella forsythia 92A2', 'Porphyromonas levii DSM 23370', 'Porphyromonas macacae', 'Bacteroides ovatus ATCC 8483', 'Alistipes putredinis DSM 17216', 'Odoribacter splanchnicus DSM 20712', 'Porphyromonas asaccharolytica DSM 20707', 'Porphyromonas endodontalis ATCC 35406', 'Prevotella bivia DNF00188', 'Prevotella buccae ATCC 33574', 'Prevotella buccalis ATCC 35310', 'Prevotella corporis DSM 18810 = JCM 8529', 'Prevotella denticola F0289', 'Prevotella disiens JCM 6334 = ATCC 29426', 'Prevotella intermedia 17', 'Prevotella melaninogenica ATCC 25845', 'Prevotella nigrescens ATCC 33563', 'Prevotella oralis ATCC 33269', 'Prevotella oris C735', 'Prevotella oulorum JCM 14966', 'Prevotella veroralis F0319', 'Rikenella microfusus DSM 15922', 'Cronobacter sakazakii ATCC BAA-894', 'Serratia proteamaculans 568', 'Yersinia kristensenii', 'Vibrio metschnikovii CIP 69.14', 'Vibrio nigripulchritudo SOn1', 'Vibrio orientalis CIP 102891 = ATCC 33934', 'Candidatus Photodesmus katoptron', 'Acetohalobium arabaticum DSM 5501', 'Capnocytophaga canimorsus Cc5', 'Capnocytophaga cynodegmi DSM 19736', 'Arcobacter butzleri RM4018', 'Arcobacter nitrofigilis DSM 7299', 'Sphingomonas parapaucimobilis NBRC 15100', 'Desulfobacula toluolica Tol2', 'Mycoplasma penetrans', 'Colwellia psychrerythraea', 'Carnobacterium alterfunditum DSM 5972', 'Geobacter metallireducens GS-15', 'Ornithobacterium rhinotracheale DSM 15997', 'Cobetia marina', 'Thermodesulfovibrio yellowstonii DSM 11347', 'Arcanobacterium haemolyticum DSM 20595', 'Anolis carolinensis', 'Herbidospora cretacea', 'Clavibacter michiganensis subsp. sepedonicus', 'Komagataeibacter xylinus E25', 'Neisseria subflava NJ9703', 'Burkholderia pseudomallei K96243', 'Tarenaya hassleriana', 'Talaromyces stipitatus ATCC 10500', 'Talaromyces islandicus', 'Allomyces macrogynus', 'Elephantulus edwardii', 'Cyprinodon variegatus', 'Thermoanaerobacterium saccharolyticum JW/SL-YS485', 'Salmonella enterica subsp. enterica serovar Typhimurium str. LT2', 'Mycoplasma bovis PG45', 'Kluyveromyces lactis', 'Alternaria brassicicola', 'Drosophila eugracilis', 'Drosophila takahashii', 'Phlebotomus papatasi', 'Panthera uncia', 'Ursus maritimus', 'Eptesicus fuscus', 'Vombatus ursinus', 'Mytilus galloprovincialis', 'Crassostrea gigas', 'Neospora caninum', 'Haloarcula japonica DSM 6131', 'Natronococcus occultus SP4', 'Methanococcoides burtonii DSM 6242', 'Pyrococcus abyssi GE5', 'Streptomyces cattleya NRRL 8057 = DSM 46488', 'Streptomyces griseoluteus', 'Paenarthrobacter nicotinovorans 231Sha2.1M6', 'Corynebacterium otitidis ATCC 51513', 'Thermoanaerobacter brockii subsp. finnii Ako-1', 'Thermoanaerobacterium xylanolyticum LX-11', 'Ruminiclostridium cellobioparum subsp. termitidis CT1112', 'Cellulosilyticum lentocellum DSM 5427', 'Tyzzerella nexilis DSM 1787', 'Ruminiclostridium papyrosolvens DSM 2782', 'Clostridium paraputrificum AGR2156', 'Staphylococcus caprae M23864:W1', 'Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292', 'Staphylococcus capitis C87', 'Gemella morbillorum M424', 'Dolosigranulum pigrum ATCC 51524', 'Microlunatus phosphovorus NM-1', 'Helicobacter canis NCTC 12740', 'Legionella oakridgensis ATCC 33761 = DSM 21215', 'Acinetobacter haemolyticus MTCC 9819', 'Psychrobacter phenylpyruvicus DSM 7000 = NBRC 102152', 'Pseudomonas savastanoi pv. phaseolicola 1448A', 'Xanthomonas albilineans GPE PC73', 'Bradyrhizobium elkanii WSM2783', 'Rhizobium etli CIAT 652', 'Rhizobium leucaenae USDA 9039', 'Brucella melitensis bv. 1 str. 16M', 'Brucella neotomae 5K33', 'Brucella suis 1330', 'Veillonella parvula DSM 2008', 'Pectobacterium atrosepticum SCRI1043', 'Yersinia aldovae ATCC 35236', 'Yersinia frederiksenii ATCC 33641', 'Yersinia rohdei', 'Yersinia ruckeri', 'Vibrio furnissii NCTC 11218', 'Vibrio navarrensis', 'Vibrio splendidus ZS-139', 'Vibrio tubiashii ATCC 19109', 'Mycoplasma haemofelis Ohio2', 'Turneriella parva DSM 21527', 'Borreliella afzelii PKo', 'Borreliella garinii BgVir', 'Borrelia crocidurae DOU', 'Cytophaga aurantiaca DSM 3654', 'Flavobacterium succinicans LMG 10402', 'Pelobacter propionicus DSM 2379', 'Lawsonia intracellularis PHE/MN1-00', 'Rhodothermus marinus DSM 4252', 'Acholeplasma axanthum ATCC 25176', 'Mycoplasma canadense', 'Mycoplasma canis PG 14', 'Mycoplasma meleagridis', 'Mycoplasma ovipneumoniae 14811', 'Taylorella equigenitalis MCE9', 'Janthinobacterium lividum', 'Dioscorea cayenensis subsp. rotundata', 'Gossypium raimondii', 'Vitis vinifera', 'Lipomyces starkeyi NRRL Y-11557', 'Lachancea cidri', 'Hanseniaspora uvarum DSM 2768', 'Penicillium vulpinum', 'Gaeumannomyces graminis', 'Trichoderma virens', 'Neurospora discreta FGSC 8579', 'Laccaria bicolor', 'Calocera cornea HHB12733', 'Rhodotorula graminis WP1', 'Sporothrix schenckii', 'Tolypocladium inflatum', 'Phytophthora cactorum', 'Drosophila elegans', 'Drosophila emarginata', 'Drosophila ficusphila', 'Drosophila kikkawai', 'Drosophila neocordata', 'Drosophila prosaltans', 'Drosophila sturtevanti', 'Anopheles merus', 'Anopheles stephensi', 'Bombus terrestris', 'Opisthocomus hoazin', 'Fulmarus glacialis', 'Bubo bubo', 'Nothoprocta perdicaria', 'Tinamus major', 'Bos grunniens', 'Bos indicus x Bos taurus', 'Vicugna pacos', 'Microcebus murinus', 'Otolemur garnettii', 'Oryzias melastigma', 'Takifugu rubripes', 'Caenorhabditis remanei', 'Perkinsus marinus ATCC 50983', 'Enterocytozoon bieneusi H348', 'Colletotrichum graminicola M1.001', 'Caldicellulosiruptor bescii DSM 6725', 'Halothermothrix orenii H 168', 'Amycolatopsis orientalis DSM 40040 = KCTC 9412', 'Amycolatopsis lurida NRRL 2430', 'Absiella dolichum DSM 3991', 'Eggerthia catenaformis OT 569 = DSM 20559', 'Methylobacterium radiotolerans JCM 2831', 'Helicobacter hepaticus ATCC 51449', 'Synechococcus elongatus', 'Synechococcus sp. PCC 7002', 'Synechococcus sp. WH 7803', 'Calothrix sp. PCC 6303', 'Calothrix sp. PCC 7103', 'Tetranychus urticae', 'Xiphophorus couchianus', 'Neolamprologus brichardi', 'Desulfurella acetivorans A63', 'Winkia neuii subsp. neuii DSM 8576', 'Cutibacterium avidum 44067', 'Cutibacterium granulosum TM11', 'Propionimicrobium lymphophilum ACS-093-V-SCH5', 'Sporolactobacillus laevolacticus DSM 442', 'Anaerococcus hydrogenalis DSM 7454', 'Peptoniphilus indolicus ATCC 29427', 'Peptoniphilus lacrimalis 315-B', 'Anaerococcus lactolyticus ATCC 51172', 'Parvimonas micra ATCC 33270', 'Anaerococcus prevotii DSM 20548', 'Blautia producta', 'Anaerococcus tetradius ATCC 35098', 'Anaerococcus vaginalis ATCC 51170', 'Coprococcus eutactus ATCC 27759', 'Bartonella doshiae NCTC 12862 = ATCC 700133', 'Bartonella grahamii as4aup', 'Bartonella taylorii 8TBB', 'Bartonella vinsonii subsp. arupensis Pm136co', 'Candidatus Kinetoplastibacterium crithidii TCC036E', 'Acidithiobacillus caldus ATCC 51756', 'Gloeobacter violaceus PCC 7421', 'Acidobacterium capsulatum ATCC 51196', 'Entamoeba invadens IP1', 'Eremothecium gossypii ATCC 10895', 'Aspergillus terreus', 'Uncinocarpus reesii 1704', 'Purpureocillium lilacinum', 'Gambusia affinis', 'Coriobacterium glomerans PW2', 'Catenuloplanes japonicus', 'Brevibacterium casei S18', 'Streptomyces galbus', 'Streptomyces avermitilis MA-4680 = NBRC 14893', 'Bifidobacterium thermophilum', 'Actinopolyspora mortivallis DSM 44261', 'Amycolatopsis mediterranei U32', 'Anoxybacillus flavithermus subsp. yunnanensis str. E13', 'Geobacillus thermodenitrificans NG80-2', 'Geobacillus thermoleovorans CCB_US3_UF5', 'Kyrpidia tusciae DSM 2912', 'Enterococcus avium ATCC 14025', 'Acetobacterium woodii DSM 1030', 'Lactobacillus johnsonii NCC 533', 'Leuconostoc citreum KM20', 'Leuconostoc pseudomesenteroides 4882', 'Melissococcus plutonius ATCC 35311', 'Rickettsia amblyommatis str. GAT-30V', 'Rickettsia bellii OSU 85-389', 'Rickettsia montanensis str. OSU 85-930', 'Rickettsia rhipicephali str. 3-7-female6-CWPP', 'Neorickettsia helminthoeca str. Oregon', 'Gluconacetobacter diazotrophicus PA1 5', 'Paracoccus aminophilus JCM 7686', 'Paracoccus versutus', 'Azospirillum halopraeferens DSM 3675', 'Rhodospirillum centenum SW', 'Candidatus Liberibacter asiaticus str. gxpsy', 'Leptothrix cholodnii SP-6', 'Rahnella aquatilis CIP 78.65 = ATCC 33071', 'Variovorax paradoxus 110B', 'Riemerella anatipestifer RA-GD', 'Pedobacter antarcticus 4BY', 'Pelodictyon phaeoclathratiforme BU-1', 'Sphaerotilus natans subsp. natans DSM 6575', 'Streptobacillus moniliformis DSM 12112', 'Lotus japonicus', 'Mixia osmundae', 'Blumeria graminis', 'Trichophyton tonsurans', 'Trichophyton violaceum', 'Conidiobolus coronatus NRRL 28638', 'Strongyloides ratti', 'Anopheles melas', 'Anopheles quadriannulatus', 'Heliconius melpomene plesseni', 'Chinchilla lanigera', 'Thalassiosira pseudonana', 'Nosema apis BRL 01', 'Eubacterium brachy ATCC 33089', 'Eubacterium nodatum ATCC 33099', 'Daphnia magna', 'Geobacter sulfurreducens PCA', 'Stomoxys calcitrans', 'Streptomyces griseoflavus Tu4000', 'Streptomyces mobaraensis NBRC 13819 = DSM 40847', 'Acholeplasma oculi', 'Naja naja', 'Heliobacterium modesticaldum Ice1', 'Citrobacter amalonaticus', 'Epichloe festucae', 'Macrophomina phaseolina MS6', 'Sporichthya polymorpha DSM 43042', 'Dactylosporangium aurantiacum', 'Corynebacterium kutscheri', 'Corynebacterium pilosum DSM 20521', 'Bifidobacterium choerinum', "Peanut witches'-broom phytoplasma NTU2011", 'Coprothermobacter proteolyticus DSM 5265', 'Rickettsia africae ESF-5', 'Rickettsia helvetica C9P9', 'Rickettsia japonica YH', 'Rickettsia massiliae str. AZT80', 'Rickettsia parkeri str. Portsmouth', 'Rickettsia sibirica 246', 'Rickettsia slovaca str. D-CWPP', 'Ehrlichia muris AS145', 'Nitrococcus mobilis Nb-231', 'Nitrosospira briensis C-128', 'Nitrospina gracilis 3/211', 'Rhodovulum sulfidophilum DSM 1374', 'Bordetella holmesii ATCC 51541', 'Helicobacter heilmannii ASB1.4', 'Helicobacter pullorum MIT 98-5489', 'Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933', 'Hungateiclostridium cellulolyticum CD2', 'Bilophila wadsworthia ATCC 49260', 'Holophaga foetida DSM 6591', 'Bacillus thermoamylovorans', 'Ipomoea triloba', 'Cyberlindnera fabianii', 'Vanderwaltozyma polyspora DSM 70294', 'Fusarium poae', 'Cantharellus cibarius var. cibarius', 'Ganoderma sinense ZZ0214-1', 'Mucor circinelloides', 'Megaselia scalaris', 'Pelecanus crispus', 'Plasmodium ovale curtisi', 'Globisporangium irregulare', 'Aspergillus fischeri NRRL 181', 'Penicillium coprophilum', 'Penicillium digitatum', 'Dermabacter hominis 1368', 'Clostridium saccharoperbutylacetonicum N1-4(HMT)', 'Pseudomonas cichorii JBC1', 'Gaeumannomyces tritici', 'Mycobacteroides abscessus', 'Mycobacterium genavense ATCC 51234', 'Mycolicibacterium rhodesiae JS60', 'Gordonia aichiensis NBRC 108223', 'Gordonia amarae NBRC 15530', 'Gordonia sputi NBRC 100414', 'Clostridium celatum DSM 1785', 'Clostridium intestinale URNW', 'Desulfitobacterium dehalogenans ATCC 51507', 'Brucella canis ATCC 23365', 'Thiobacillus denitrificans DSM 12475', 'Paraburkholderia xenovorans LB400', 'Porphyromonas cangingivalis', 'Porphyromonas canoris', 'Clavispora lusitaniae', 'Lodderomyces elongisporus', 'Glossina brevipalpis', 'Kryptolebias marmoratus', 'Suricata suricatta', 'Gavia stellata', 'Aotus nancymaae', 'Nocardia brasiliensis ATCC 700358', 'Nocardia brevicatena NBRC 12119', 'Nocardia carnea NBRC 14403', 'Nocardia farcinica IFM 10152', 'Nocardia nova SH22a', 'Nocardia transvalensis NBRC 15921', 'Tupaia belangeri', 'Plasmodiophora brassicae', 'Helicobacter bilis ATCC 43879', 'Pisolithus tinctorius Marx 270', 'Laceyella sacchari 1-1', 'Marichromatium purpuratum 984', 'Cavia aperea', 'Thermus scotoductus SA-01', 'Octopus bimaculoides', 'Clostridium algidicarnis', 'Aegilops tauschii', 'Candidatus Phytoplasma mali AT', 'Talaromyces marneffei ATCC 18224', 'Enterococcus casseliflavus EC20', 'Cryptococcus gattii EJB2', 'Heterorhabditis bacteriophora', 'Rhytidhysteron rufulum', 'Rhodococcus opacus', 'Methanosarcina siciliae C2J', 'Chaetomium globosum', 'Rhynchosporium secalis', 'Corynebacterium accolens ATCC 49725', 'Corynebacterium genitalium ATCC 33030', 'Corynebacterium jeikeium K411', 'Photobacterium damselae subsp. damselae CIP 102761', 'Streptomyces pristinaespiralis ATCC 25486', 'Corynebacterium pseudogenitalium ATCC 33035', 'Corynebacterium vitaeruminis DSM 20294', 'Gluconobacter frateurii NBRC 103465', 'Rhodococcus rhodnii LMG 5362', 'Shewanella algae JCM 14758', 'Bartonella henselae str. Houston-1', 'Erysipelothrix tonsillarum DSM 14972', 'Eragrostis curvula', 'Phascolarctos cinereus', 'Alligator sinensis', 'Panicum virgatum', 'Gopherus agassizii', 'Neolentinus lepideus HHB14362 ss-1', 'Micromonas pusilla', 'Fraxinus excelsior', 'Acholeplasma palmae J233', 'Methanococcus maripaludis C6', 'Tuber melanosporum Mel28', 'Faecalitalea cylindroides ATCC 27803', 'Agathobaculum desmolans ATCC 43058', 'Dorea formicigenerans 4_6_53AFAA', 'Anaerobutyricum hallii DSM 3353', 'Eubacterium ramulus ATCC 29099', 'Eubacterium ventriosum ATCC 27560', 'Eubacterium xylanophilum ATCC 35991', 'Mesorhizobium ciceri biovar biserrulae WSM1271', 'Cellvibrio mixtus subsp. mixtus J3-8', 'Methanosalsum zhilinae DSM 4017', 'Mayetiola destructor', 'Hydrogenovibrio crunogenus XCL-2', 'Sulfurimonas denitrificans DSM 1251', 'Blattabacterium sp. (Mastotermes darwiniensis) str. MADAR', 'Methylomicrobium album BG8', 'Veillonella atypica KON', 'Veillonella dispar ATCC 17748', 'Corynebacterium glucuronolyticum ATCC 51867', 'Erythrobacter litoralis HTCC2594', 'Legionella moravica DSM 19234', 'Hypsizygus marmoreus', 'Helcococcus kunzii ATCC 51366', 'Bipolaris victoriae FI3', 'Neurospora tetrasperma', 'Oligotropha carboxidovorans OM5', 'Oryza glumipatula', 'Oryza meridionalis', 'Monodon monoceros', 'Lonchura striata domestica', 'Fusarium avenaceum', 'Acinetobacter johnsonii SH046', 'Acinetobacter junii', 'Acinetobacter radioresistens SH164', 'Junco hyemalis', 'Aliivibrio salmonicida LFI1238', 'Penicillium italicum', 'Nosema ceranae BRL01', 'Streptomyces nodosus', 'Stenotrophomonas maltophilia K279a', 'Fonsecaea pedrosoi CBS 271.37', 'Acinetobacter sp. CIP-A165', 'Daedalea quercina L-15889', 'Fistulina hepatica ATCC 64428', 'Fomitopsis pinicola', 'Stereum hirsutum', 'Ruminococcus bromii L2-63', 'Ruminococcus callidus ATCC 27760', 'Blautia obeum ATCC 29174', 'Leptotrichia buccalis C-1013-b', 'Sutterella wadsworthensis HGA0223', 'Botrytis cinerea', 'Sporobolomyces roseus IAM 13481', 'Actinosynnema mirum DSM 43827', 'Lentzea albidocapillata', 'Xenorhabdus bovienii SS-2004', 'Xenorhabdus poinarii G6', 'Claviceps paspali', 'Claviceps fusiformis', 'Balansia obtecta', 'Thioploca ingrica', 'Borrelia duttonii Ly', 'Rhopalosiphum padi', 'Saccharomonospora azurea SZMC 14600', 'Saccharomonospora cyanea NA-134', 'Saccharomonospora glauca K62', 'Aspergillus carbonarius ITEM 5010', 'Elsinoe australis', 'Penicilliopsis zonata CBS 506.65', 'Ewingella americana ATCC 33852', 'Anopheles atroparvus', 'Seriola dumerili', 'Lomentospora prolificans', 'Bathycoccus prasinos', 'Candidatus Microthrix parvicella RN1', 'Amanita muscaria Koide BX008', 'Porphyromonas catoniae F0037', 'Enterococcus saccharolyticus subsp. saccharolyticus ATCC 43076', 'Drosophila bipectinata', 'Pneumocystis jirovecii SE8', 'Ureaplasma diversum NCTC 246', 'Phocoena sinus', 'Prunus avium', 'Streptomyces acidiscabies 84-104', 'Tuber magnatum', 'Tuber borchii', 'Desulfovibrio termitidis HI1', 'Sorex araneus', 'Rubrobacter radiotolerans', 'Phoenix dactylifera', 'Aciculosporium take MAFF-241224', 'Candida dubliniensis', 'Vittaforma corneae ATCC 50505', 'Halobacteroides halobius DSM 5150', 'Roseobacter litoralis Och 149', 'Lichtheimia corymbifera', 'Desulfofundulus thermocisternus DSM 10259', 'Pygocentrus nattereri', 'Halomonas salina', 'Streptomyces collinus Tu 365', 'Gelatoporia subvermispora B', 'Epichloe amarillans E57', 'Corynebacterium argentoratense DSM 44202', 'Ammonifex degensii KC4', 'Staphylococcus lentus F1142', 'Rickettsia felis URRWXCal2', 'Methanococcus aeolicus Nankai-3', 'Anopheles christyi', 'Tilletia indica', 'Sulfolobus islandicus REY15A', 'Rhopalosiphum maidis', 'Anopheles darlingi', 'Ictidomys tridecemlineatus', 'Capronia epimyces', 'Capronia coronata', 'Pseudomonas alcaligenes NBRC 14159', 'Butyrivibrio proteoclasticus P6B7', 'Prauserella rugosa', 'Kutzneria albida DSM 43870', 'Cathartes aura', 'Zosterops lateralis melanops', 'Halanaerobium saccharolyticum subsp. saccharolyticum DSM 6643', 'Pseudoalteromonas citrea DSM 8771', 'Pseudoalteromonas luteoviolacea B = ATCC 29581', 'Pseudoalteromonas rubra DSM 6842', 'Paenarthrobacter aurescens TC1', 'Brachybacterium faecium DSM 4810', 'Jonesia denitrificans DSM 20603', 'Rothia mucilaginosa DY-18', 'Metallosphaera sedula DSM 5348', 'Monopterus albus', 'Streptomyces wedmorensis', 'Corynebacterium amycolatum SK46', 'Rhodococcus hoagii 103S', 'Corynebacterium matruchotii ATCC 14266', 'Corynebacterium propinquum DSM 44285', 'Corynebacterium striatum ATCC 6940', 'Corynebacterium urealyticum DSM 7109', 'Tolumonas auensis DSM 9187', 'Johnsonella ignava ATCC 51276', 'Catonella morbi ATCC 51271', 'Caldicellulosiruptor saccharolyticus DSM 8903', 'Enterococcus cecorum DSM 20682 = ATCC 43198', 'Enterococcus dispar ATCC 51266', 'Ferrimonas balearica DSM 9799', 'Aureococcus anophagefferens', 'Streptomyces megasporus', 'Trichomonascus ciferrii', 'Paenibacillus alvei TS-15', 'Paenibacillus durus', 'Paenibacillus macerans', 'Bradyrhizobium oligotrophicum S58', 'Caldanaerobius polysaccharolyticus DSM 13641', 'Erythrura gouldiae', 'Zonotrichia albicollis', 'Eimeria mitis', 'Borrelia persica No12', 'Borrelia recurrentis A1', 'Natronococcus amylolyticus DSM 10524', 'Nitrosomonas cryotolerans ATCC 49181', 'Sulfurospirillum barnesii SES-3', 'Geothrix fermentans DSM 14018', 'Dictyostelium discoideum', 'Natronobacterium gregoryi SP2', 'Legionella fairfieldensis ATCC 49588', 'Legionella lansingensis DSM 19556 = ATCC 49751', 'Legionella shakespearei DSM 23087', 'Bipolaris sorokiniana', 'Pyrenophora tritici-repentis Pt-1C-BFP', 'Cyanidioschyzon merolae', 'Tolypocladium capitatum', 'Capnocytophaga granulosa ATCC 51502', 'Leucothrix mucor DSM 2157', 'Eremothecium cymbalariae', 'Eremothecium sinecaudum', 'Nematostella vectensis', 'Mycoplasma conjunctivae HRC/581', 'Mycoplasma bovoculi M165/69', 'Mycoplasma alkalescens 14918', 'Brevibacillus borstelensis 3096-7', 'Wickerhamiella sorbophila', 'Babjeviella inositovora NRRL Y-12698', 'Streptococcus cristatus AS 1.3089', 'Vibrio scophthalmi LMG 19158', 'Desulfohalobium retbaense DSM 5692', 'Nadsonia fulvescens', 'Butyrivibrio crossotus DSM 2876', 'Staphylococcus pasteuri SP1', 'Granulicatella adiacens ATCC 49175', 'Abiotrophia defectiva ATCC 49176', 'Staphylococcus chromogenes MU 970', 'Pseudobutyrivibrio ruminis CF1b', 'Anabaena sp. 90', 'Weissella hellenica', 'Pseudomonas avellanae BPIC 631', 'Mycolicibacterium hassiacum DSM 44199', 'Thermoanaerobacter wiegelii Rt8.B1', 'Spirochaeta africana DSM 8902', 'Sphingobium chlorophenolicum', 'Reticulomyxa filosa', 'Orenia marismortui DSM 5156', 'Parabacteroides merdae ATCC 43184', 'Bacteroides stercoris ATCC 43183', 'Thermosipho melanesiensis BI429', 'Suhomyces tanzawaensis', 'Aureobasidium melanogenum', 'Pseudomonas nitroreducens HBP1', 'Entamoeba dispar', 'Cenarchaeum symbiosum A', 'Dethiosulfovibrio peptidovorans DSM 11002', 'Desulfovibrio bastinii DSM 16055', 'Massilia timonae CCUG 45783', 'Neogobius melanostomus', 'Armillaria gallica', 'Armillaria ostoyae', 'Borrelia miyamotoi LB-2001', 'Rickettsia peacockii str. Rustic', 'Lautropia mirabilis ATCC 51599', 'Bacteroides caccae ATCC 43185', 'Mycoplasma alligatoris A21JP2', 'Lactobacillus rhamnosus GG', 'Streptomyces olivaceus', 'Bibersteinia trehalosi USDA-ARS-USMARC-189', 'Atkinsonella hypoxylon', 'Streptomyces sulphureus DSM 40104', 'Streptomyces lydicus', 'Lactobacillus crispatus ST1', 'Epichloe baconii ATCC 200745', 'Mycobacterium triplex', 'Micromonospora aurantiaca ATCC 27029', 'Pseudomonas amygdali pv. mori str. 301020', 'Pseudomonas corrugata CFBP 5454', 'Pseudomonas fulva 12-X', 'Pseudomonas synxantha BG33R', 'Pseudomonas luteola XLDN4-9', 'Serratia fonticola AU-AP2C', 'Vibrio cyclitrophicus FF75', 'Oreochromis aureus', 'Hyphomicrobium zavarzinii ATCC 27496', 'Acinetobacter pittii PHEA-2', 'Xanthomonas fragariae LMG 25863', 'Neolecta irregularis DAH-3', 'Penicillium freii', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Orchesella cincta', 'Geospiza fortis', 'Novosphingobium aromaticivorans DSM 12444', 'Sporisorium scitamineum', 'Candidatus Arthromitus sp. SFB-mouse-Japan', 'Kineosporia aurantiaca JCM 3230', 'Marinobacterium stanieri S30', 'Psychroserpens burtonensis DSM 12212', 'Rubrobacter xylanophilus DSM 9941', 'Desulfitobacterium hafniense Y51', 'Coffea canephora', 'Nicotiana attenuata', 'Holospora obtusa F1', 'Mycoplasma crocodyli MP145', 'Rhizobium sullae WSM1592', 'Thermoplasma volcanium GSS1', 'Charadrius vociferus', 'Pinctada fucata', 'Arabis alpina', 'Helicobacter trogontum', 'Actinobacillus minor NM305', 'Eubacterium saphenum ATCC 49989', 'Catagonus wagneri', 'Treponema maltophilum ATCC 51939', 'Ureibacillus thermosphaericus str. Thermo-BF', 'Syntrophobotulus glycolicus DSM 8271', 'Wigglesworthia glossinidia endosymbiont of Glossina morsitans morsitans (Yale colony)', 'Kluyvera ascorbata ATCC 33433', 'Eimeria brunetti', 'Eimeria praecox', 'Jaculus jaculus', 'Castor canadensis', 'Mycoplasma auris 15026', 'Mycoplasma yeatsii 13926', 'Trichoderma reesei', 'Ciona savignyi', 'Spraguea lophii 42_110', 'Haloarcula hispanica ATCC 33960', 'Kluyveromyces dobzhanskii CBS 2104', 'Nakaseomyces delphensis', 'Nakaseomyces bacillisporus', 'Tetragenococcus halophilus NBRC 12172', 'Tortispora caseinolytica', 'Meiothermus silvanus DSM 9946', 'Calidithermus chliarophilus DSM 9957', 'Acinetobacter venetianus RAG-1 = CIP 110063', 'Mitsuokella multacida DSM 20544', 'Prevotella dentalis DSM 3688', 'Lactobacillus gallinarum DSM 10532 = JCM 2011', 'Sarcoptes scabiei', 'Plasmodium inui San Antonio 1', 'Brachyspira pilosicoli 95/1000', 'Erysiphe necator', 'Sulfitobacter sp. EE-36', 'Sagittula stellata E-37', 'Haliaeetus leucocephalus', 'Bartonella alsatica IBS 382', 'Caldicellulosiruptor kristjanssonii I77R1B', 'Caldicellulosiruptor lactoaceticus 6A', 'Schaalia georgiae DSM 6843', 'Scophthalmus maximus', 'Desulfonatronovibrio hydrogenovorans DSM 9292', 'Desulfospira joergensenii DSM 10085', 'Enterococcus durans ATCC 6056', 'Enterococcus mundtii QU 25', 'Intrasporangium calvum DSM 43043', 'Brevibacterium mcbrellneri ATCC 49030', 'Hamadaea tsunoensis DSM 44101', 'Hyphomicrobium denitrificans 1NES1', 'Pseudomonas coronafaciens pv. oryzae str. 1_6', 'Pseudomonas resinovorans NBRC 106553', 'Xanthomonas axonopodis pv. vasculorum', 'Treponema lecithinolyticum ATCC 700332', 'Treponema socranskii subsp. socranskii VPI DR56BR1116 = ATCC 35536', 'Thermobrachium celere DSM 8682', 'Thermodesulfobacterium hveragerdense DSM 12571', 'Gordonia hirsuta DSM 44140 = NBRC 16056', 'Treponema paraluiscuniculi Cuniculi A', 'Nocardiopsis alba ATCC BAA-2165', 'Blautia hydrogenotrophica DSM 10507', 'Nakamurella multipartita DSM 44233', 'Mycolicibacterium mageritense DSM 44476 = CIP 104973', 'Pyrenophora teres', 'Sulfobacillus acidophilus TPY', 'Acidimicrobium ferrooxidans DSM 10331', 'Hanseniaspora valbyensis NRRL Y-1626', 'Octadecabacter arcticus 238', 'Pyrococcus horikoshii OT3', 'Peptoniphilus harei ACS-146-V-Sch2b', 'Pseudonocardia asaccharolytica DSM 44247 = NBRC 16224', 'Thermococcus zilligii AN1', 'Methanolacinia petrolearia DSM 11571', 'Pristionchus pacificus', 'Colobus angolensis palliatus', 'Ascoidea rubescens DSM 1968', 'Hyperthermus butylicus DSM 5456', 'Pyrolobus fumarii 1A', 'Thermosphaera aggregans DSM 11486', 'Ferroglobus placidus DSM 10642', 'Raoultella ornithinolytica B6', 'Chroococcidiopsis thermalis PCC 7203', 'Pleurocapsa sp. PCC 7327', 'Spirulina subsalsa PCC 9445', 'Mesitornis unicolor', 'Cariama cristata', 'Eurypyga helias', 'Streptomyces venezuelae ATCC 10712', 'Salmonella bongori N268-08', 'Streptococcus thoraltensis DSM 12221', 'Deinococcus proteolyticus MRP', 'Sciurus vulgaris', 'Flavobacterium branchiophilum FL-15', 'Epichloe elymi E56', 'Caldicellulosiruptor owensensis OL', 'Sediminispirochaeta smaragdinae DSM 11293', 'Pectobacterium betavasculorum', 'Ruegeria lacuscaerulensis ITI-1157', 'Thermonema rossianum DSM 10300', 'Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628', 'Pistacia vera', 'Magnetospirillum gryphiswaldense MSR-1 v2', 'Guillardia theta', 'Actinomyces graevenitzii C83', 'Dehalobacter restrictus DSM 9455', 'Vibrio anguillarum', 'Cuculus canorus', 'Thermococcus barophilus MP', 'Malurus cyaneus samueli', 'Streptomyces toyocaensis', 'Tyto alba', 'Hanseniaspora guilliermondii', 'Hanseniaspora osmophila', 'Bartonella clarridgeiae 73', 'Xanthomonas arboricola pv. celebensis', 'Xanthomonas cassavae CFBP 4642', 'Xanthomonas hortorum pv. carotae str. M081', 'Xanthomonas sacchari', 'Xanthomonas campestris pv. musacearum NCPPB 4379', 'Xanthomonas vesicatoria ATCC 35937', 'Protomyces lactucaedebilis', 'Aeropyrum pernix K1', 'Cottoperca gobio', 'Labrus bergylta', 'Rhizobium gallicum bv. gallicum R602sp', 'Rhizobium giardinii bv. giardinii H152', 'Eubacterium infirmum F0142', 'Glaciecola punicea ACAM 611', 'Shewanella frigidimarina NCIMB 400', 'Helicobacter bizzozeronii CIII-1', 'Afipia broomeae ATCC 49717', 'Thermus oshimai JL-2', 'Psychroflexus torquis ATCC 700755', 'Lactobacillus zeae DSM 20178 = KCTC 3804', 'Acanthisitta chloris', 'Mycoplasma suis str. Illinois', 'Apaloderma vittatum', 'Colius striatus', 'Merops nubicus', 'Trifolium pratense', 'Sulfurospirillum arcachonense DSM 9755', 'Rhizobium mongolense USDA 1844', 'Halomicrobium mukohataei DSM 12286', 'Enterococcus asini ATCC 700915', 'Fragaria vesca subsp. vesca', 'Burkholderia thailandensis MSMB43', 'Daktulosphaira vitifoliae', 'Spirillospora albida', 'Desulfofundulus kuznetsovii DSM 6115', 'Desulfofarcimen acetoxidans DSM 771', 'Desulfovibrio alaskensis G20', 'Treponema medium ATCC 700293', 'Archaeoglobus veneficus SNP6', 'Rhizopus microsporus', 'Streptomyces celluloflavus', 'Kitasatospora azatica KCTC 9699', 'Kitasatospora mediocidica KCTC 9733', 'Debaryomyces fabryi', 'Encephalitozoon intestinalis ATCC 50506', 'Trichoderma citrinoviride', 'Tilletiopsis washingtonensis', 'Rickettsiella grylli', 'Streptococcus macedonicus ACA-DC 198', 'Myotis lucifugus', 'Rhinolophus ferrumequinum', 'Actinotignum schaalii FB123-CNA-2', 'Pantholops hodgsonii', 'Corynespora cassiicola Philippines', 'Cellulophaga algicola DSM 14237', 'Desulfotomaculum reducens MI-1', 'Helicobacter rodentium ATCC 700285', 'Arabidopsis lyrata', 'Taeniopygia guttata', 'Candidatus Phytoplasma australiense', 'Alcanivorax borkumensis SK2', 'Angomonas deanei', 'Sphingomonas echinoides ATCC 14820', 'Paenibacillus alginolyticus DSM 5050 = NBRC 15375', 'Paenibacillus curdlanolyticus YK9', 'Paenibacillus peoriae KCTC 3763', 'Ficedula albicollis', 'Cyanobium gracile PCC 6307', 'Synechococcus sp. WH 7805', 'Prevotella pallens ATCC 700821', 'Penicillium polonicum', 'Penicillium solitum', 'Penicillium nalgiovense', 'Shewanella violacea DSS12', 'Shewanella amazonensis SB2B', 'Shewanella sp. MR-4', 'Shewanella sp. MR-7', 'Lactobacillus paraplantarum', 'Burkholderia vietnamiensis G4', 'Chlorocebus sabaeus', 'Halogeometricum borinquense DSM 11551', 'Phaeobacter gallaeciensis DSM 26640', 'Desulfobacca acetoxidans DSM 11109', 'Saccharopolyspora spinosa NRRL 18395', 'Sanguibacter keddieii DSM 10542', 'Shewanella woodyi ATCC 51908', 'Holdemania filiformis DSM 12042', 'Monilinia laxa', 'Varanus komodoensis', 'Ophiostoma piceae', 'Lynx canadensis', 'Dehalococcoides mccartyi 195', 'Coniosporium apollinis', 'Corynebacterium durum F0235', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Paenibacillus mucilaginosus KNP414', 'Acholeplasma brassicae', 'Enterobacter asburiae LF7a', 'Lelliottia amnigena CHS 78', 'Pluralibacter gergoviae', 'Amphilophus citrinellus', 'Nomascus leucogenys', 'Natronorubrum bangense JCM 10635', 'Hucho hucho', 'Borreliella valaisiana Tom4006', 'Acidiphilium multivorum AIU301', 'Haloterrigena turkmenica DSM 5511', 'Shewanella baltica OS117', 'Anopheles funestus', 'Saccharum spontaneum', 'Natronorubrum tibetense GA33', 'Calocera viscosa TUFC12733', 'Zobellia galactanivorans', 'Aquifex aeolicus VF5', 'Melanopsichium pennsylvanicum 4', 'Trichophyton benhamiae', 'Nannizzia gypsea CBS 118893', 'Microsporum canis CBS 113480', 'Trichophyton verrucosum', 'Trichophyton equinum', 'Desulfovibrio oxyclinae DSM 11498', 'Trichoderma atroviride', "Sodalis glossinidius str. 'morsitans'", 'Hydrogenovibrio kuenenii DSM 12350', 'Sideroxydans lithotrophicus ES-1', 'Demetria terragena DSM 11295', 'Nevskia ramosa DSM 11499', 'Bacillus pseudomycoides DSM 12442', 'Anabas testudineus', 'Desulfurobacterium thermolithotrophum DSM 11699', 'Podarcis muralis', 'Coleofasciculus chthonoplastes PCC 7420', 'Carnimonas nigrificans ATCC BAA-78', 'Dothistroma septosporum', 'Synechococcus sp. CC9311', 'Rhizopus oryzae', 'Mortierella alpina ATCC 32222', 'Lobosporangium transversale', 'Natrialba asiatica DSM 12278', 'Tetragenococcus muriaticus DSM 15685', 'Borreliella bissettii DN127', 'Terasakiella pusilla DSM 6293', 'Marinospirillum minutulum DSM 6287', 'Alcanivorax jadensis T9', 'Corynebacterium ulcerans BR-AD22', 'Pythium aphanidermatum DAOM BR444', 'Halothece sp. PCC 7418', 'Mycoplasma wenyonii str. Massachusetts', 'Oryza barthii', 'Actinoalloteichus cyanogriseus', 'Meiothermus cerbereus DSM 11376', 'Sulfurospirillum deleyianum DSM 6946', 'Desulfocapsa sulfexigens DSM 10523', 'Serendipita indica', 'Erwinia tracheiphila PSU-1', 'Pseudomonas knackmussii B13', 'Wolbachia sp. wRi', 'Lachnoclostridium phytofermentans ISDg', 'Gleimia europaea ACS-120-V-Col10b', 'Komagataeibacter intermedius AF2', 'Pantoea stewartii', 'Streptomyces niger', 'Streptomyces violens', 'Papilio xuthus', 'Streptomyces roseoverticillatus', 'Sulfurospirillum multivorans DSM 12446', 'Streptomyces afghaniensis 772', 'Streptomyces atroolivaceus', 'Streptomyces bicolor', 'Streptomyces catenulae', 'Streptomyces griseorubens', 'Trypanosoma theileri', 'Streptomyces alboflavus', 'Streptomyces aureocirculatus', 'Streptomyces filamentosus NRRL 15998', 'Streptomyces flavidovirens DSM 40150', 'Streptomyces lavenduligriseus', 'Streptomyces mutabilis', 'Kitasatospora purpeofusca', 'Streptomyces resistomycificus', 'Streptomyces varsoviensis', 'Rheinheimera baltica DSM 14885', 'Streptomyces viridosporus ATCC 14672', 'Phytophthora sojae', 'Methanocaldococcus infernus ME', 'Edwardsiella ictaluri 93-146', 'Citrobacter farmeri GTC 1319', 'Citrobacter rodentium ICC168', 'Citrobacter sedlakii NBRC 105722', 'Actinobacillus succinogenes 130Z', 'Lentzea aerocolonigenes', 'Streptomyces cyaneogriseus subsp. noncyanogenus', 'Streptomyces durhamensis', 'Streptomyces flavochromogenes', 'Streptomyces fulvissimus DSM 40593', 'Streptomyces griseoaurantiacus M045', 'Streptomyces iakyrus', 'Streptomyces katrae', 'Streptomyces pyridomyceticus', 'Streptomyces violaceusniger Tu 4113', 'Moschus moschiferus', 'Streptomyces albulus', 'Sphaerobolus stellatus SS14', 'Scleroderma citrinum Foug A', 'Rasamsonia emersonii CBS 393.64', 'Theileria orientalis', 'Streptococcus peroris ATCC 700780', 'Streptococcus infantis SK970', 'Deinococcus geothermalis DSM 11300', 'Anopheles farauti', 'Synechococcus sp. WH 5701', 'Enterobacter cancerogenus ATCC 35316', 'Dickeya paradisiaca Ech703', 'Aquamicrobium defluvii', 'Gasterosteus aculeatus', 'Microplitis demolitor', 'Pseudomonas sp. VLB120', 'Chara braunii', 'Caulobacter henricii', 'Petrotoga mobilis SJ95', 'Natrinema pellirubrum DSM 15624', 'Natrinema pallidum DSM 3751', 'Treponema vincentii ATCC 35580', 'Penicillium oxalicum 114-2', 'Selenomonas sputigena ATCC 35185', 'Trichophyton soudanense CBS 452.61', 'Macrococcus caseolyticus JCSC5402', 'Ostreococcus tauri', 'Edhazardia aedis USNM 41457', 'Pyrobaculum neutrophilum V24Sta', 'Pseudomonas plecoglossicida NB2011', 'Nodularia spumigena CCY9414', 'Shewanella oneidensis MR-1', 'Shewanella pealeana ATCC 700345', 'Flexithrix dorotheae DSM 6795', 'Lewinella cohaerens DSM 23179', 'Lewinella persica DSM 23188', 'Eucalyptus grandis', 'Paxillus involutus ATCC 200175', 'Staphylococcus vitulinus F1028', 'Vibrio halioticoli NBRC 102217', 'Mesorhizobium amorphae CCNWGS0123', 'Enterococcus malodoratus ATCC 43197', 'Enterococcus raffinosus ATCC 49464', 'Tolypocladium ophioglossoides CBS 100239', 'Lonsdalea quercina subsp. quercina', 'Waddlia chondrophila WSU 86-1044', 'Naematelia encephala', 'Hypholoma sublateritium FD-334 SS-4', 'Kocuria rhizophila P7-4', 'Bos mutus', 'Sphaeroforma arctica JP610', 'Thielaviopsis punctulata', 'Lepeophtheirus salmonis', 'Citromicrobium bathyomarinum JL354', 'Ophiocordyceps sinensis', 'Trachipleistophora hominis', 'Bacillus mojavensis RO-H-1 = KCTC 3706', 'Drosophila austrosaltans', 'Drosophila lusaltans', 'Drosophila milleri', 'Nannochloropsis gaditana CCMP526', 'Achromobacter piechaudii HLE', 'Sporisorium reilianum', 'Boechera stricta', 'Eutrema salsugineum', 'Dechloromonas agitata is5', 'Streptomyces seoulensis', 'Thiocystis violascens DSM 198', 'Emmonsia crescens UAMH 3008', 'Cordyceps militaris', 'Piromyces sp. E2', 'Methanocaldococcus vulcanius M7', 'Thermaerobacter marianensis DSM 12885', 'Photobacterium profundum SS9', 'Brevundimonas bacteroides DSM 4726', 'Brevundimonas subvibrioides ATCC 15264', 'Maricaulis maris MCS10', 'Hyphomonas polymorpha PS728', 'Sulfitobacter guttiformis KCTC 32187', 'Thraustotheca clavata', 'Rosa chinensis', 'Stachybotrys chartarum IBT 7711', 'Pseudomonas balearica DSM 6083', 'Anopheles maculatus', 'Anopheles sinensis', 'Oncorhynchus tshawytscha', 'Paraburkholderia caribensis MBA4', 'Saccharomonospora xinjiangensis XJ-54', 'Sinocyclocheilus grahami', 'Pseudomonas mandelii PD30', 'Castellaniella defragrans 65Phen', 'Anas zonorhyncha', 'Thermocrinis ruber DSM 12173', 'Mycolicibacterium tusciae JS617', 'Mannheimia haemolytica M42548', 'Thauera linaloolentis 47Lol = DSM 12138', 'Thauera terpenica 58Eu', 'Alloprevotella tannerae ATCC 51259', 'Prevotella enoeca JCM 12259', 'Vibrio rumoiensis 1S-45', 'Campylobacter hominis ATCC BAA-381', 'Cellulophaga baltica 13', 'Mycetocola saprophilus', 'Streptomyces vitaminophilus DSM 41686', 'Sinorhizobium arboris LMG 14919', 'Pseudomonas monteilii SB3078', 'Malassezia globosa CBS 7966', 'Malassezia sympodialis ATCC 42132', 'Myroides odoratimimus H1bi', 'Solibacillus silvestris StLB046', 'Streptococcus constellatus subsp. pharyngis SK1060 = CCUG 46377', 'Hebeloma cylindrosporum h7', 'Caldivirga maquilingensis IC-167', 'Asticcacaulis biprosthecum C19', 'Sphingobium herbicidovorans NBRC 16415', 'Malassezia pachydermatis', 'Cylindrospermopsis raciborskii CS-505', 'Wolbachia endosymbiont of Drosophila simulans wNo', 'Rosellinia necatrix', 'Sclerotinia borealis F-4128', 'Dendroctonus ponderosae', 'Plasmodium gonderi', 'Leersia perrieri', 'Bifidobacterium subtile', 'Prevotella albensis DSM 11370 = JCM 12258', 'Succinispira mobilis DSM 6222', 'Oidiodendron maius', 'Parascardovia denticolens DSM 10105 = JCM 12538', 'Scardovia inopinata F0304', 'Pseudomonas mosselii SJ10', 'Mycobacterium canettii CIPT 140070017', 'Bifidobacterium gallicum DSM 20093 = LMG 11596', 'Bifidobacterium gallinarum', 'Bifidobacterium merycicum', 'Bifidobacterium ruminantium', 'Streptomyces somaliensis DSM 40738', 'Pectobacterium odoriferum', 'Neonectria ditissima', 'Bifidobacterium pullorum DSM 20433', 'Rhizobium undicola ORS 992 = ATCC 700741', 'Thermothelomyces thermophilus', 'Asticcacaulis excentricus CB 48', 'Podila verticillata', 'Desulfosporosinus meridiei DSM 13257', 'Chitinophaga pinensis DSM 2588', 'Epichloe brachyelytri', 'Microtus ochrogaster', 'Cimex lectularius', 'Bacillus clausii KSM-K16', 'Bacillus pseudofirmus OF4', 'Erwinia pyrifoliae Ep1/96', 'Coniophora puteana', 'Piloderma croceum F 1598', 'Thioflavicoccus mobilis 8321', 'Aphis gossypii', 'Haliangium ochraceum DSM 14365', 'Wolbachia endosymbiont strain TRS of Brugia malayi', 'Aliivibrio wodanis', 'Moritella viscosa', 'Delftia acidovorans SPH-1', 'Acidovorax avenae subsp. avenae ATCC 19860', 'Acidovorax citrulli AAC00-1', 'Cryptosporangium arvum DSM 44712', 'Hylemonella gracilis str. Niagara R', 'Simplicispira psychrophila DSM 11588', 'Colletotrichum higginsianum', 'Acanthochromis polyacanthus', 'Amphiprion ocellaris', 'Treponema brennaborense DSM 12168', 'Hyphomonas adhaerens MHS-3', 'Hyphomonas johnsonii MHS-2', 'Hyphomonas neptunium ATCC 15444', 'Hyphomonas oceanitis SCH89', 'Wolfiporia cocos MD-104 SS10', 'Desulfovibrio alcoholivorans DSM 5433', 'Parageobacillus caldoxylosilyticus CIC9', 'Aminomonas paucivorans DSM 12260', 'Desulfovibrio aminophilus DSM 12254', 'Thermanaerovibrio acidaminovorans DSM 6589', 'Aminobacterium mobile DSM 12262', 'Aminobacterium colombiense DSM 12261', 'Frateuria aurantia DSM 6220', 'Monosiga brevicollis', 'Kitasatospora cheerisanensis KCTC 2395', 'Vagococcus lutrae LBD1', 'Arabidopsis halleri subsp. gemmifera', 'Capsella rubella', 'Picrophilus torridus DSM 9790', 'Atopobium vaginae DSM 15829', 'Centipeda periodontii DSM 2778', 'Phlebiopsis gigantea 11061_1 CR5-6', 'Facklamia languida CCUG 37842', 'Paracoccus pantotrophus J46', 'Anaerovibrio lipolyticus LB2005', 'Anaeroarcus burkinensis DSM 6283', 'Trichosporon asahii', 'Pseudanabaena sp. PCC 7367', 'Streptococcus ovis DSM 16829', 'Pythium arrhenomanes ATCC 12531', 'Buttiauxella agrestis ATCC 33320', 'Budvicia aquatica DSM 5075 = ATCC 35567', 'Leminorella grimontii ATCC 33999 = DSM 5078', 'Tatumella ptyseos ATCC 33301', 'Serratia grimesii', 'Serratia plymuthica', 'Methanocaldococcus fervens AG86', 'Sulfitobacter mediterraneus', 'Prevotella brevis P6B11', 'Gordonia rhizosphera NBRC 16068', 'Myxococcus stipitatus DSM 14675', 'Linepithema humile', 'Parachlamydia acanthamoebae UV-7', 'Chlamydia psittaci 10_1398_11', 'Chlamydia abortus S26/3', 'Chlamydia felis Fe/C-56', 'Chlamydia caviae GPIC', 'Chlamydia pneumoniae TW-183', 'Chlamydia suis MD56', 'Chlamydia muridarum str. Nigg', 'Simkania negevensis Z', 'Leclercia adecarboxylata ATCC 23216 = NBRC 102595', 'Lactobacillus amylolyticus DSM 11664', 'Succinimonas amylolytica DSM 2873', 'Succinivibrio dextrinosolvens H5', 'Methanobrevibacter ruminantium M1', 'Trypanosoma conorhini', 'Methanocorpusculum labreanum Z', 'Methanoculleus bourgensis MS2', 'Clostridium autoethanogenum DSM 10061', 'Clostridium haemolyticum NCTC 9693', 'Gordonia alkanivorans NBRC 16433', 'Slackia exigua ATCC 700122', 'Slackia heliotrinireducens DSM 20476', 'Eggerthella lenta DSM 2243', 'Gemella sanguinis M325', 'Gemella bergeri ATCC 700627', 'Archaeoglobus profundus DSM 5631', 'Magnetospirillum magneticum AMB-1', 'Cryptobacterium curtum DSM 15641', 'Brachyspira intermedia PWS/A', 'Brachyspira murdochii DSM 12563', 'Hippea maritima DSM 10411', 'Lysobacter antibioticus', 'Synechococcus sp. WH 8102', 'Taylorella asinigenitalis MCE3', 'Gordonia polyisoprenivorans VH2', 'Staphylothermus hellenicus DSM 12710', 'Candidatus Odyssella thessalonicensis L13', 'Anthracocystis flocculosa', 'Moesziomyces antarcticus', 'Moesziomyces aphidis DSM 70725', 'Beutenbergia cavernae DSM 12333', 'Desulfotalea psychrophila LSv54', 'Corvus brachyrhynchos', 'Pseudarthrobacter chlorophenolicus A6', 'Clogmia albipunctata', 'Mannheimia varigena USDA-ARS-USMARC-1296', 'Plasmodium relictum', 'Thauera sp. MZ1T', 'Citrus clementina', 'Triticum dicoccoides', 'Achromobacter xylosoxidans A8', 'Bartonella tribocorum CIP 105476', 'Thermacetogenium phaeum DSM 12270', 'Sphaerulina musiva', 'Serpula lacrymans', 'Chlamydia pecorum E58', 'Cladophialophora carrionii', 'Rhinocladiella mackenziei CBS 650.93', 'Arenibacter latericius DSM 15913', 'Syntrophothermus lipocalidus DSM 12680', 'Phaseolibacter flectens ATCC 12775', 'Saccharophagus degradans 2-40', 'Mycoplasma dispar', 'Bacillus flexus T6186-2', 'Bacillus halodurans C-125', 'Propionispira raffinosivorans DSM 20765', 'Camarhynchus parvulus', 'Facklamia sourekii ATCC 700629', 'Burkholderia multivorans ATCC 17616', 'Selaginella moellendorffii', 'Treponema primitia ZAS-2', 'Eremococcus coleocola DSM 15696', 'Thermus igniterrae ATCC 700962', 'Thermus antranikianii DSM 12462', 'Dorea longicatena AGR2136', 'Cyclospora cayetanensis', 'Megaselia abdita', 'Caulobacter segnis ATCC 21756', 'Ceratocystis platani', 'Borreliella spielmanii A14S', 'Streptomyces yeochonensis CN732', 'Gordonia amicalis CCMA-559', 'Corynebacterium terpenotabidum Y-11', 'Ruegeria pomeroyi DSS-3', 'Laccaria amethystina LaAM-08-1', 'Bubalus bubalis', 'Cladophialophora bantiana CBS 173.52', 'Moraxella caprae DSM 19149', 'Oligella ureolytica DSM 18253', 'Oligella urethralis DNF00040', 'Absidia repens', 'Camelina sativa', 'Moritella marina ATCC 15381', 'Hydrogenovibrio sp. Milos-T1', 'Thiomicrorhabdus sp. Milos-T2', 'Enterovibrio calviensis 1F-211', 'Polistes canadensis', 'Synechococcus sp. PCC 7335', 'Aspergillus udagawae', 'Candidatus Paracaedibacter acanthamoebae', 'Mucor ambiguus', 'Candidatus Portiera aleyrodidarum BT-QVLC', 'Exophiala spinifera', 'Hortaea werneckii', 'Catharus ustulatus', 'Bartonella koehlerae C-29', 'Thiomicrospira aerophila AL3', 'Metarhizium album ARSEF 1941', 'Metarhizium acridum CQMa 102', 'Herbaspirillum frisingense GSF30', 'Fischerella muscicola PCC 7414', 'Ketogulonicigenium vulgare WSH-001', 'Pandoraea apista', 'Pandoraea pnomenusa', 'Pandoraea pulmonicola', 'Pandoraea sputorum', 'Pseudaminobacter salicylatoxidans KCT001', 'Edwardsiella hoshinae NBRC 105699 = ATCC 33379', 'Fervidobacterium pennivorans DSM 9078', 'Exserohilum turcicum', 'Roseivivax halodurans JCM 10272', 'Myzus cerasi', 'Thermotoga petrophila RKU-1', 'Thermotoga naphthophila RKU-10', 'Coturnix japonica', 'Cryptosporidium meleagridis', 'Thermicanus aegyptius DSM 12793', 'Shewanella sp. ANA-3', 'Rhizophagus clarus', 'Ramlibacter tataouinensis TTB310', 'Tolypocladium paradoxum', 'Mola mola', 'Dyadobacter fermentans DSM 18053', 'Bordetella petrii', 'Ochrobactrum intermedium LMG 3301', 'Besnoitia besnoiti', 'Desulfurococcus amylolyticus 1221n', 'Gavialis gangeticus', 'Helicobacter pametensis ATCC 51478', 'Burkholderia cenocepacia J2315', 'Pseudomonas sp. M1', 'Legionella fallonii LLAP-10', 'Flavobacterium psychrophilum JIP02/86', 'Salvator merianae', 'Lactobacillus hamsteri DSM 5661 = JCM 6256', 'Halobacteriovorax marinus SJ', 'Eutypa lata', 'Phaethon lepturus', 'Lactobacillus sp. ASF360', 'Clostridium sp. MD294', 'Eubacterium plexicaudatum ASF492', 'Ferroplasma acidarmanus fer1', 'Acetomicrobium mobile DSM 13181', 'Lactobacillus mucosae LM1', 'Periconia macrospinosa', 'Bacillus sp. OxB-1', 'Drechmeria coniospora', 'Mycolicibacterium septicum DSM 44393', 'Phlebia centrifuga', 'Pyrobaculum oguniense TE7', 'Hammondia hammondi', 'Flavobacterium frigidarium DSM 17623', 'Calothrix sp. PCC 7507', 'Spermophilus dauricus', 'Tetraodon nigroviridis', 'Austwickia chelonae NBRC 105200', 'Onion yellows phytoplasma', 'Chloroherpeton thalassium ATCC 35110', 'Verticillium longisporum', 'Madurella mycetomatis', 'Falco tinnunculus', 'Wolbachia endosymbiont of Onchocerca ochengi', 'Fusarium pseudograminearum CS3096', 'Choanephora cucurbitarum', 'Hesseltinella vesiculosa', 'Bipolaris oryzae', 'Methanomethylovorans hollandica DSM 15978', 'Trichoderma asperellum CBS 433.97', 'Saprolegnia parasitica CBS 223.65', 'Aequorivita sublithincola DSM 14238', 'Trichophyton interdigitale H6', 'Candidatus Blochmannia pennsylvanicus str. BPEN', 'Burkholderia ubonensis MSMB22', 'Tetrasphaera elongata Lp2', 'Glarea lozoyensis ATCC 20868', 'Prunus mume', 'Stanieria cyanosphaera PCC 7437', 'Xenococcus sp. PCC 7305', 'Leptolyngbya sp. PCC 7375', 'Desulfallas gibsoniae DSM 7213', 'Solobacterium moorei DSM 22971', 'Gloeocapsa sp. PCC 73106', 'Cyanobacterium stanieri PCC 7202', 'Streptococcus infantarius subsp. infantarius CJ18', 'Proteus penneri ATCC 35198', 'Streptococcus didelphis DSM 15616', 'Acromyrmex echinatior', 'Vavraia culicis subsp. floridensis', 'Gleimia coleocanis DSM 15436', 'Actinomyces urogenitalis DSM 15434', 'Nostoc sp. PCC 7120 = FACHB-418', 'Pogona vitticeps', 'Saccharothrix espanaensis DSM 44229', 'Saccharothrix syringae', 'Riemerella columbina DSM 16469', 'Rhodococcus pyridinivorans SB3094', 'Bordetella hinzii ATCC 51730', 'Oscillochloris trichoides DG-6', 'Penicillium brasilianum', 'Postia placenta Mad-698-R', 'Gloeophyllum trabeum', 'Camponotus floridanus', 'Serratia sp. ATCC 39006', 'Helicobacter suis HS1', 'Cryptococcus amylolentus', 'Adineta vaga', 'Nothobranchius furzeri', 'Ralstonia mannitolilytica', 'Streptacidiphilus neutrinimicus', 'Streptacidiphilus carbonis', 'Streptacidiphilus albus', 'Desulfohalotomaculum alkaliphilum DSM 12257', 'Valsa mali var. pyri', 'Methylibium petroleiphilum PM1', 'Epicoccum nigrum', 'Cryptotermes secundus', 'Anaerostipes caccae DSM 14662', 'Leucosporidium creatinivorum', 'Frankia casuarinae', 'Thermoanaerobacter siderophilus SR4', 'Maylandia zebra', 'Pseudoflavonifractor capillosus ATCC 29799', 'Cupriavidus necator H16', 'Ensifer adhaerens OV14', 'Acinetobacter bereziniae', 'Acinetobacter guillouiae NIPH 991', 'Acinetobacter sp. RUH2624', 'Chelonoidis abingdonii', 'Tenacibaculum maritimum NCIMB 2154', 'Methylosinus sp. LW3', 'Methylosinus sp. PW1', 'Opitutus terrae PB90-1', 'Thermanaerovibrio velox DSM 12556', 'Thermoanaerobacter italicus Ab9', 'Corynebacterium falsenii DSM 44353', 'Coprothermobacter platensis DSM 11748', 'Acinetobacter ursingii DSM 16037 = CIP 107286', 'Acinetobacter schindleri NIPH 900', 'Rickettsia monacensis', 'Hippocampus comes', 'Anaerovorax odorimutans DSM 5092', 'Leptotrichia trevisanii DSM 22070', 'Varroa destructor', 'Myotis brandtii', 'Galerina marginata CBS 339.88', 'Spizellomyces punctatus', 'Lactobacillus jensenii 115-3-CHN', 'Batrachochytrium dendrobatidis JAM81', 'Catenaria anguillulae PL171', 'Serendipita vermifera MAFF 305830', 'Nocardioides sp. CF8', 'Sinorhizobium medicae WSM419', 'Gregarina niphandrodes', 'Pelotomaculum thermopropionicum SI', 'Mycolicibacterium vanbaalenii PYR-1', 'Synechococcus sp. CC9605', 'Synechococcus sp. CC9616', 'Eragrostis tef', 'Porphyromonas gulae', 'Muricauda ruestringensis DSM 13258', 'Bartonella birtlesii E11', 'Kineosphaera limosa NBRC 100340', 'Leptolyngbya sp. PCC 7376', 'Sulfurisphaera tokodaii str. 7', 'Ignatzschineria larvae DSM 13226', 'Aphanomyces astaci', 'Saprolegnia diclina', 'Anopheles minimus', 'Ramularia collo-cygni', 'Enterococcus villorum ATCC 700913', 'Streptococcus australis ATCC 700641', 'Pseudocercospora musae', 'Pseudoramibacter alactolyticus ATCC 23263', 'Melitaea cinxia', 'Bradyrhizobium sp. Tv2a-2', 'Scleropages formosus', 'Actinoplanes globisporus DSM 43857', 'Tetrapisispora phaffii CBS 4417', 'Geoglobus ahangari', 'Dichomitus squalens LYAD-421 SS1', 'Candidatus Carsonella ruddii DC', 'Cordyceps fumosorosea ARSEF 2679', 'Saccharomyces kudriavzevii', 'Saccharomyces mikatae', 'Bradyrhizobium sp. ORS 278', 'Methylobacterium nodulans ORS 2060', 'Alkaliphilus transvaalensis ATCC 700919', 'Streptococcus orisratti DSM 15617', 'Streptomyces auratus AGR0001', 'Mycoplasmopsis columbinum SF7', 'Phoronis australis', 'Globisporangium iwayamae', 'Coprococcus catus GD/7', 'Lactobacillus psittaci DSM 15354', 'Cryptosporidium andersoni', 'Tilletia walkeri', 'Fusarium verticillioides', 'Sphingopyxis alaskensis RB2256', 'Denitrovibrio acetiphilus DSM 12809', 'Pleurocapsa sp. PCC 7319', 'Pseudanabaena sp. PCC 6802', 'Picoides pubescens', 'Beauveria brongniartii RCEF 3172', 'Oscillatoria acuminata PCC 6304', 'Arthrospira platensis NIES-39', 'Nicotiana noctiflora var. noctiflora', 'Bulleidia extructa W1219', 'Lipotes vexillifer', 'Cupriavidus metallidurans CH34', 'Pseudothermotoga thermarum DSM 5069', 'Syntrophobacter fumaroxidans MPOB', 'Microcoleus vaginatus FGP-2', 'Bacillus sonorensis L12', 'Marinomonas mediterranea MMB-1', 'Ustilago hordei Uh4857-4', 'Brucella pinnipedialis B2/94', 'Brucella ceti M644/93/1', 'Roseiflexus castenholzii DSM 13941', 'Ferrimicrobium acidiphilum DSM 19497', 'Helicocarpus griseus UAMH5409', 'Schaalia suimastitidis DSM 15538', 'Pediculus humanus corporis', 'Pyrobaculum arsenaticum DSM 13514', 'Sphingobium xenophagum QYY', 'Tauraco erythrolophus', 'Pannonibacter phragmitetus DSM 14782', 'Photobacterium sp. SKA34', 'Paracoccidioides brasiliensis', 'Diaphorina citri', 'Pseudomonas psychrophila HA-4', 'Cercospora beticola', 'Alicyclobacillus herbarius DSM 13609', 'Oryzias javanicus', 'Helicobacter canadensis MIT 98-5491', 'Bordetella trematum', 'Nocardiopsis xinjiangensis YIM 90004', 'Thiolinea disciformis DSM 14473', 'Thiofilum flexile DSM 14609', 'Drosophila biarmipes', 'Halodesulfovibrio aestuarii DSM 10141', 'Providencia alcalifaciens DSM 30120', 'Thermotoga sp. RQ7', 'Thermotoga sp. RQ2', 'Strigamia maritima', 'Nipponia nippon', 'Catelliglobosispora koreensis DSM 44566', 'Drosophila santomea', 'Phytophthora lateralis MPF4', 'Arthrospira maxima CS-328', 'Carboxydothermus hydrogenoformans Z-2901', 'Halobiforma nitratireducens JCM 10879', 'Galdieria sulphuraria', 'Corynebacterium capitovis DSM 44611', 'Schaalia turicensis ACS-279-V-Col4', 'Thiomicrorhabdus arctica DSM 13458', 'Kineococcus radiotolerans SRS30216 = ATCC BAA-149', 'Bombus impatiens', 'Candidatus Glomeribacter gigasporarum BEG34', 'Nocardia veterana NBRC 100344', 'Anser brachyrhynchus', 'Pteropus vampyrus', 'Rhodococcus jostii RHA1', 'Exiguobacterium antarcticum B7', 'Citrobacter youngae ATCC 29220', 'Caldilinea aerophila DSM 14535 = NBRC 104270', 'Nitrosococcus halophilus Nc 4', 'Methylocapsa acidiphila B2', 'Frankliniella occidentalis', 'Leisingera methylohalidivorans DSM 14336', 'Olsenella uli DSM 7084', 'Phytomonas sp. isolate EM1', 'Phytomonas sp. isolate Hart1', 'Corynebacterium freneyi DNF00450', 'Acinetobacter parvus NIPH 1103', 'Acinetobacter gyllenbergii NIPH 230', 'Paraburkholderia fungorum', 'Ministeria vibrans', 'Actinoplanes sp. SE50/110', 'Ureaplasma parvum serovar 3 str. ATCC 27815', 'Selenomonas flueggei ATCC 43531', 'Selenomonas infelix ATCC 43532', 'Selenomonas noxia ATCC 43541', 'Paenibacillus daejeonensis DSM 15491', 'Nocardia cyriacigeorgica GUH-2', 'Geobacillus vulcani PSS1', 'Idiomarina loihiensis L2TR', 'Caenorhabditis brenneri', 'Bacillus endophyticus 2102', 'Zootermopsis nevadensis', 'Thermocrinis albus DSM 14484', 'Knoellia sinensis KCTC 19936', 'Mycoplasma haemocanis str. Illinois', 'Kocuria polaris', 'Atopobacter phocae ATCC BAA-285', 'Leuconostoc kimchii IMSNU 11154', 'Methylosinus sp. LW4', 'Weissella cibaria KACC 11862', 'Facklamia ignava CCUG 37419', 'Granulicatella elegans ATCC 700633', 'Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)', 'Candidatus Regiella insecticola LSR1', "Serratia symbiotica str. 'Cinara cedri'", 'Blastococcus saxobsidens DD2', 'Helicobacter cetorum MIT 00-7128', 'Olsenella profusa F0195', 'Sistotremastrum niveocremeum HHB9708', 'Isoptericola variabilis 225', 'Plicaturopsis crispa FD-325 SS-3', 'Teleopsis dalmanni', 'Anopheles culicifacies', 'Shimazuella kribbensis DSM 45090', 'Lachnobacterium bovis', 'Nicotiana cordifolia', 'Candidatus Mycoplasma haemolamae str. Purdue', 'Nocardiopsis kunsanensis DSM 44524', 'Cylindrospermum stagnale PCC 7417', 'Desulfitobacterium metallireducens DSM 15288', 'Zobellia uliginosa', 'Filifactor alocis ATCC 35896', 'Eubacterium sulci ATCC 35585', 'Diuraphis noxia', 'Sipha flava', 'Pogonomyrmex barbatus', 'Mobiluncus holmesii ATCC 35242', 'Leifsonia aquatica H1aii', 'Stegastes partitus', 'Methanothermobacter thermautotrophicus str. Delta H', 'Methanothermobacter marburgensis str. Marburg', 'Rathayibacter toxicus DSM 7488', 'Thermosynechococcus elongatus BP-1', 'Halorhabdus utahensis DSM 12940', 'Pseudoloma neurophilia', 'Salinibacter ruber DSM 13855', 'Streptomyces griseofuscus', 'Azovibrio restrictus DSM 23866', 'Azospira oryzae PS', 'Collinsella stercoris DSM 13279', 'Collinsella intestinalis DSM 13280', 'Agrobacterium albertimagni AOL15', 'Thiomicrospira cyclica ALM1', 'Limnospira indica PCC 8005', 'Paracoccus yeei ATCC BAA-599', 'Carnobacterium inhibens subsp. gilichinskyi', 'Lactobacillus iners AB-1', 'Magnaporthiopsis poae', 'Pyricularia grisea', 'Paraburkholderia phymatum STM815', 'Lactobacillus ingluviei str. Autruche 4', 'Sulfuricurvum kujiense DSM 16994', 'Lactobacillus kunkeei', 'Wallemia sebi', 'Streptococcus urinalis 2285-97', 'Phialocephala scopiformis', 'Marinitoga piezophila KA3', 'Streptococcus lutetiensis 033', 'Halonatronum saccharophilum DSM 13868', 'Gemella cuniculi DSM 15828', 'Sporothrix insectorum RCEF 264', 'Escovopsis weberi', 'Pseudomonas sp. MT-1', 'Treponema azotonutricium ZAS-9', 'Pseudoalteromonas ruthenica CP76', 'Bacteroides coprosuis DSM 18011', 'Afipia birgiae 34632', 'Xenophilus azovorans DSM 13620', 'Pseudopedobacter saltans DSM 12145', 'Chloroflexus aggregans DSM 9485', 'Lactobacillus suebicus DSM 5007 = KCTC 3549', 'Thioalkalivibrio thiocyanoxidans ARh 4', 'Burkholderia ambifaria AMMD', 'Burkholderia dolosa PC543', 'Sphingomonas melonis DAPP-PG 224', 'Corynebacterium efficiens YS-314', 'Desulforegula conservatrix Mb1Pa', 'Oceanicaulis alexandrii DSM 11625', 'Alysiella crassa DSM 2578', 'Conchiformibius steedae DSM 2580', 'Kozakia baliensis', 'Moniliophthora perniciosa FA553', 'Sporocytophaga myxococcoides', 'Nitrosomonas sp. AL212', 'Hungatella hathewayi DSM 13479', 'Turicibacter sanguinis PC909', 'Thiorhodospira sibirica ATCC 700588', 'Trametes pubescens', 'Enterococcus phoeniculicola ATCC BAA-412', 'Cellvibrio japonicus Ueda107', 'Bartonella bovis 91-4', 'Bacillus toyonensis BCT-7112', 'Gallibacterium genomosp. 1', 'Enterococcus moraviensis ATCC BAA-383', 'Enterococcus haemoperoxidus ATCC BAA-382', 'Streptococcus entericus DSM 14446', 'Methanothermococcus okinawensis IH1', 'Caulobacter vibrioides NA1000', 'Actinokineospora enzanensis DSM 44649', 'Acaryochloris marina MBIC11017', 'Anaeroglobus geminatus F0357', 'Tulasnella calospora MUT 4182', 'Cyanistes caeruleus', 'Alteromonadales bacterium TW-7', 'Flavobacteria bacterium BBFL7', 'Dysgonomonas gadei ATCC BAA-286', 'Corynebacterium imitans', 'Aphanomyces invadans', 'Jeotgalicoccus psychrophilus DSM 19085', 'Helicobacter winghamensis ATCC BAA-430', 'Leptomonas pyrrhocoris', 'Leptotrichia wadei F0279', 'Leptotrichia hofstadii F0254', 'Leptotrichia shahii DSM 19757', 'Leptotrichia goodfellowii F0264', 'Pseudomonas parafulva NBRC 16636 = DSM 17004', 'Pseudomonas cremoricolorata', 'Vigna radiata var. radiata', 'Phaeomoniella chlamydospora', 'Chromohalobacter salexigens DSM 3043', 'Hahella chejuensis KCTC 2396', 'Folsomia candida', 'Betta splendens', 'Cedecea davisae DSM 4568', 'Novosphingobium resinovorum', 'Trametes coccinea BRFM310', 'Diaporthe helianthi', 'Bifidobacterium scardovii', 'Terrapene carolina triunguis', 'Cedecea neteri', 'Enterobacter sp. MGH 2', 'Megamonas hypermegale DSM 1672', 'Providencia rustigianii DSM 4541', 'Trabulsiella guamensis ATCC 49490', 'Yokenella regensburgei ATCC 43003', 'Collimonas fungivorans Ter331', 'Roseibacterium elongatum DSM 19469', 'Embleya scabrispora DSM 41855', 'Paraburkholderia sacchari', 'Paenibacillus terrae HPL-003', 'Thalassiosira oceanica', 'Microbacterium gubbeenense DSM 15944', 'Nanoarchaeum equitans Kin4-M', 'Ignicoccus hospitalis KIN4/I', 'Corynebacterium casei LMG S-19264', 'Enterococcus gilvus ATCC BAA-350', 'Enterococcus pallens ATCC BAA-351', 'Sphingomonas wittichii RW1', 'Paenibacillus borealis', 'Acidithiobacillus ferrivorans SS3', 'Auricularia delicata', 'Thermodesulfobacterium hydrogeniphilum', 'Planococcus antarcticus DSM 14505', 'Anaeromyxobacter dehalogenans 2CP-C', 'Erythrobacter sp. SD-21', 'Amphiprion percula', 'Corynebacterium kroppenstedtii DSM 44385', 'Corynebacterium lipophiloflavum DSM 44291', 'Corynebacterium mastitidis DSM 44356', 'Corynebacterium camporealensis', 'Corynebacterium singulare', 'Beta vulgaris', 'Aspergillus nidulans FGSC A4', 'Thermococcus cleftensis', 'Wolbachia endosymbiont of Drosophila melanogaster', 'Dysgonomonas mossii DSM 22836', 'Algicola sagamiensis DSM 14643', 'Anabaena sp. PCC 7108', 'Phytophthora ramorum', 'Lactobacillus fuchuensis DSM 14340 = JCM 11249', 'Vulcanisaeta distributa DSM 14429', 'Blattabacterium sp. (Cryptocercus punctulatus) str. Cpu', 'Cupriavidus taiwanensis LMG 19424', 'Mycobacterium sp. MCS', 'Mycobacterium sp. JLS', 'Weissella koreensis KACC 15510', 'Prevotella copri DSM 18205', 'Bartonella schoenbuchensis m07a', 'Synechococcus sp. WH 8109', 'Synechococcus sp. WH 8016', 'Roseburia intestinalis L1-82', 'Thermobaculum terrenum ATCC BAA-798', 'Pseudoalteromonas translucida TAC125', 'Allofustis seminis DSM 15817', 'Ilyobacter polytropus DSM 2926', 'Anaerolinea thermophila UNI-1', 'Candidatus Ishikawaella capsulata Mpkobe', 'Marvinbryantia formatexigens DSM 14469', 'Laribacter hongkongensis HLHK9', 'Salinispora tropica CNB-440', 'Salinispora arenicola CNS-205', 'Legionella drancourtii LLAP12', 'Metarhizium guizhouense ARSEF 977', 'Gelidibacter mesophilus DSM 14095', 'Novosphingobium tardaugens NBRC 16725', 'Exiguobacterium undae DSM 14481', 'Corynebacterium aurimucosum ATCC 700975', 'Anaerotruncus colihominis DSM 17241', 'Saccharospirillum impatiens DSM 12546', 'Clostridium saccharobutylicum DSM 13864', 'Paenibacillus stellifer', 'Epichloe aotearoae', 'Staphylococcus pettenkoferi VCU012', 'Vibrio brasiliensis LMG 20546', 'Vibrio kanaloae 5S-149', 'Methanosarcina lacustris Z-7289', 'Sulfurihydrogenibium subterraneum DSM 15120', 'Halosimplex carlsbadense 2-9-1', 'Mycoplasma anatis 1340', 'Mycoplasma cynos C142', 'Tistrella mobilis KA081020-065', 'Mycoplasma ovis str. Michigan', 'Oceanobacillus picturae', 'Thermodesulfatator indicus DSM 15286', 'Rothia aeria F0184', 'Elizabethkingia miricola', 'Thermococcus sibiricus MM 739', 'Bradyrhizobium sp. th.b2', 'Meiothermus taiwanensis DSM 14542', 'Echeneis naucrates', 'Brachybacterium paraconglomeratum LC44', 'Methylobacter tundripaludum SV96', 'Gemmatimonas aurantiaca T-27', 'Gordonia sihwensis NBRC 108236', 'Ordospora colligata OC4', 'Allobaculum stercoricanis DSM 13633', 'Gordonia paraffinivorans NBRC 108238', 'Thermaerobacter subterraneus DSM 13965', 'Buceros rhinoceros', 'Nestor notabilis', 'Streptococcus sinensis', 'Pseudoalteromonas agarivorans S816', 'Beauveria bassiana', 'Halomonas halocynthiae DSM 14573', 'Lactobacillus malefermentans DSM 5705 = KCTC 3548', 'Python bivittatus', 'Coniochaeta ligniaria NRRL 30616', 'Anaerophaga thermohalophila DSM 12881', 'Pseudothermotoga lettingae TMO', 'Shuttleworthia satelles DSM 14600', 'Facklamia hominis ACS-120-V-Sch10', 'Leptospirillum ferriphilum ML-04', 'Pisolithus microcarpus 441', 'Acetobacter malorum', 'Clostridium colicanis 209318', 'Alicycliphilus denitrificans K601', 'Culicoides sonorensis', 'Sphingomonas elodea ATCC 31461', 'Rhizopogon vesiculosus', 'Cyanobium sp. PCC 7001', 'Robinsoniella peoriensis', 'Salinisphaera shabanensis E1L3A', 'Proteocatella sphenisci DSM 23131', 'Carnobacterium pleistocenium FTR1', 'Pseudopodoces humilis', 'Salarias fasciatus', 'Pyrobaculum calidifontis JCM 11548', 'Schaalia cardiffensis F0333', 'Cyanoderma ruficeps', 'Desulfococcus oleovorans Hxd3', 'Lactobacillus coleohominis 101-4-CHN', 'Pseudodesulfovibrio aespoeensis Aspo-2', 'Erwinia billingiae Eb661', 'Rubritepida flocculans DSM 14296', 'Kribbella flavida DSM 17836', 'Oceanobacillus iheyensis HTE831', 'Oryzias sinensis', 'Stemphylium lycopersici', 'Pseudo-nitzschia multistriata', 'Pseudomonas mediterranea CFBP 5447', 'Schaalia vaccimaxillae DSM 15804', 'Thermodesulfobium narugense DSM 14796', 'Thermoproteus uzoniensis 768-20', 'Crocinitomix catalasitica ATCC 23190', 'Varibaculum cambriense DORA_20', 'Knoellia subterranea KCTC 19937', 'Corallococcus coralloides DSM 2259', 'Desulfovibrio magneticus RS-1', 'Prevotella oryzae DSM 17970', 'Prevotella paludivivens DSM 17968 = JCM 13650', 'Paludibacter propionicigenes WB4', 'Chrysochloris asiatica', 'Fragilariopsis cylindrus CCMP1102', 'Xylanimonas cellulosilytica DSM 15894', 'Marinithermus hydrothermalis DSM 14884', 'Candidatus Baumannia cicadellinicola', 'Bartonella washoeensis Sb944nv', 'Thioalkalivibrio nitratireducens DSM 14787', 'Sneathia amnii', 'Oceanithermus profundus DSM 14977', 'Caldithrix abyssi DSM 13497', 'Methylocystis sp. SC2', 'Labrenzia aggregata IAM 12614', 'Megasphaera micronuciformis F0359', 'Acidaminococcus intestini RyC-MR95', 'Veillonella montpellierensis DNF00314', 'Chlamydotis macqueenii', 'Paracoccus zeaxanthinifaciens ATCC 21588', 'Pediococcus claussenii ATCC BAA-344', 'Thalassolituus oleivorans MIL-1', 'Thermococcus gammatolerans EJ3', 'Mitsuokella jalaludinii DSM 13811', 'Enterovibrio norvegicus FF-33', 'Leptosomus discolor', 'Egretta garzetta', 'Dermacoccus sp. Ellin185', 'Oleispira antarctica RB-8', 'Cetobacterium somerae ATCC BAA-474', 'Candidatus Tremblaya princeps PCIT', 'Paenibacillus graminis', 'Paenibacillus odorifer', 'Babesia ovata', 'Paenibacillus elgii B69', 'Prevotella marshii DSM 16973 = JCM 13450', 'Prevotella micans F0438', 'Bradyrhizobium sp. Ec3.3', 'Mycobacterium sp. KMS', 'Actinotignum urinale DSM 15805', 'Idiomarina baltica OS145', 'Vibrio coralliilyticus ATCC BAA-450', 'Desulfovibrio hydrothermalis AM13 = DSM 14728', 'Rhodococcus aetherivorans', 'Leifsonia rubra CMS 76R', 'Conexibacter woesei DSM 14684', 'Epilithonimonas tenax DSM 16811', 'Fluviicola taffensis DSM 16823', 'Corynebacterium atypicum', 'Plesiocystis pacifica SIR-1', 'Lynx pardinus', 'Chthoniobacter flavus Ellin428', 'Shewanella denitrificans OS217', 'Rhodoferax ferrireducens T118', 'Capsaspora owczarzaki ATCC 30864', 'Streptomyces niveus NCIMB 11891', 'Lactobacillus versmoldensis DSM 14857 = KCTC 3814', 'Athene cunicularia', 'Cardiobacterium valvarum F0432', 'Sphingomonas sp. ATCC 31555', 'Sinorhizobium americanum CCGM7', 'Chroomonas mesostigmatica CCMP1168', 'Haematobacter massiliensis', 'Synechococcus sp. PCC 7336', 'Synechococcus sp. PCC 6312', 'Thermococcus nautili', 'Gillisia limnaea DSM 15749', 'Caldimonas manganoxidans ATCC BAA-369', 'Microdochium bolleyi', 'Nocardioides sp. JS614', 'Caballeronia sordidicola', 'Bradyrhizobium sp. Ai1a-2', 'Porphyrobacter cryptus DSM 12079', 'Actinoplanes friuliensis DSM 7358', 'Deferribacter desulfuricans SSM1', 'Alkanindiges illinoisensis DSM 15370', 'Paraglaciecola mesophila KMM 241', 'Psychroflexus tropicus DSM 15496', 'Haemophilus aegyptius ATCC 11116', 'Streptococcus pasteurianus ATCC 43144', 'Candidatus Pelagibacter ubique HTCC7217', 'Anoxybacillus gonensis', 'Talaromyces verruculosus', 'Calidris pugnax', 'Candidatus Paraburkholderia kirkii UZHbot1', 'Coccidioides posadasii RMSCC 3488', 'Microbacterium paraoxydans 77MFTsu3.2', 'Methylocella silvestris BL2', 'Anopheles epiroticus', 'Nicotiana obtusifolia', 'Caldisphaera lagunensis DSM 15908', 'Pseudomonas poae RE*1-1-14', 'Strix occidentalis caurina', 'Lysinibacillus odysseyi 34hs-1 = NBRC 100172', 'Jaapia argillacea MUCL 33604', 'Punctularia strigosozonata', 'Sulfurimonas autotrophica DSM 16294', 'Actinobaculum massiliense ACS-171-V-Col2', 'Acinetobacter baylyi ADP1', 'Acinetobacter bouvetii DSM 14964 = CIP 107468', 'Acinetobacter gerneri', 'Acinetobacter tandoii', 'Acinetobacter tjernbergiae', 'Acinetobacter towneri', 'Tepidiphilus margaritifer DSM 15129', 'Longispora albida DSM 44784', 'Candidatus Blochmannia floridanus', 'Melampsora larici-populina 98AG31', 'Dickeya dadantii 3937', 'Dickeya zeae Ech586', 'Alicyclobacillus pomorum DSM 14955', 'Bacteroides massiliensis B84634 = Timone 84634 = DSM 17679 = JCM 13223', 'Roseomonas cervicalis ATCC 49957', 'Herminiimonas arsenicoxydans', 'Nitratireductor aquibiodomus NL21 = JCM 21793', 'Mastacembelus armatus', 'Novosphingobium pentaromativorans US6-1', 'Panicum hallii', 'Gymnopus luxurians FD-317 M1', 'Sulfurovum lithotrophicum', 'Bermanella marisrubri', 'Neptuniibacter caesariensis', 'Parvularcula bermudensis HTCC2503', 'Alkaliphilus metalliredigens QYMF', 'Puccinia triticina 1-1 BBBD Race 1', 'Amycolatopsis japonica', 'Amycolatopsis balhimycina FH 1894', 'Amycolatopsis vancoresmycina', 'Plasmodium coatneyi', 'Carnobacterium sp. 17-4', 'Fomitiporia mediterranea', 'Escherichia albertii KF1', 'Nocardia niigatensis NBRC 100131', 'Chaetomium thermophilum', "Candidatus Mycoplasma haemominutum 'Birmingham 1'", 'Marinobacter lipolyticus SM19', 'Afifella pfennigii DSM 17143', 'Corchorus capsularis', 'Nymphaea colorata', 'Thiorhodococcus drewsii AZ1', 'Sandarakinorhabdus limnophila DSM 17366', 'Parambassis ranga', 'Hanseniaspora opuntiae', 'Allokutzneria albata', 'Conchiformibius kuhniae DSM 17694', 'Accipiter nisus', 'Colwellia piezophila ATCC BAA-637', 'Mycobacterium sp. JS623', 'Exophiala mesophila', 'Halomonas campaniensis', 'Shewanella waksmanii ATCC BAA-643', 'Subdoligranulum variabile DSM 15176', 'Anaerofustis stercorihominis DSM 17244', 'Alistipes finegoldii DSM 17242', 'Komagataeibacter rhaeticus AF1', 'Exophiala oligosperma', 'Acaromyces ingoldii', 'Larimichthys crocea', 'Treponema caldarium DSM 7334', 'Erwinia sp. Ejp617', 'Thermomonas fusca DSM 15424', 'Roseovarius mucosus DSM 17069', 'Enhygromyxa salina', 'Dinoroseobacter shibae DFL 12 = DSM 16493', 'Pseudomonas rhizosphaerae', 'Polaromonas naphthalenivorans CJ2', 'Stenotrophomonas rhizophila', 'Bifidobacterium longum NCC2705', 'Spiroplasma chrysopicola DF-1', 'Spiroplasma culicicola AES-1', 'Spiroplasma diminutum CUAS-1', 'Spiroplasma sabaudiense Ar-1343', 'Spiroplasma syrphidicola EA-1', 'Clostridium carboxidivorans P7', 'Microvirga flocculans ATCC BAA-817', 'Marinospirillum insulare DSM 21763', 'Neomegalonema perideroedes DSM 15528', 'Fulvimarina pelagi HTCC2506', 'Anoplophora glabripennis', 'Bifidobacterium psychraerophilum', 'Bacillus vietnamensis', 'Dialister invisus DSM 15470', 'Aquilegia coerulea', 'Brachybacterium muris UCD-AY4', 'Micromonospora sp. ATCC 39149', 'Aeromicrobium marinum DSM 15272', 'Rhodanobacter fulvus Jip2', 'Gemmobacter nectariphilus DSM 15620', 'Bathymodiolus platifrons', 'Bacillus bataviensis LMG 21833', 'Bacillus vireti LMG 21834', 'Thalassospira xiamenensis M-5 = DSM 17429', 'Treponema putidum', 'Kordia algicida OT-1', 'Moniliophthora roreri', 'Mastigocladopsis repens PCC 10914', 'Synechococcus sp. RS9916', 'Synechococcus sp. RS9917', 'Polytolypa hystricis UAMH7299', 'Phaeobacter inhibens DSM 17395', 'Frankia elaeagni', 'Natrinema altunense', 'Kocuria marina', 'Phaeoacremonium minimum', 'Halomonas boliviensis LC1', 'Hymenobacter norwichensis DSM 15439', 'Exiguobacterium oxidotolerans JCM 12280', 'Methylorubrum populi BJ001', 'Buteo japonicus', 'Methanobrevibacter sp. AbM4', 'Pyrus x bretschneideri', 'Lottia gigantea', 'Geobacter bemidjiensis Bem', 'Geopsychrobacter electrodiphilus DSM 16401', 'Enhydrobacter aerosaccus SK60', 'Corynebacterium halotolerans YIM 70093 = DSM 44683', 'Erysiphe pulchra', 'Myotis davidii', 'Sulfitobacter indolifex HEL-45', 'Yaniella halotolerans DSM 15476', 'Paenibacillus sanguinis 2301083 = DSM 16941', 'Paenibacillus massiliensis 2301065 = DSM 16942', 'Fictibacillus gelatini DSM 15865', 'Comamonas aquatica NBRC 14918', 'Aestuariibacter salexigens DSM 15300', 'Salvia miltiorrhiza', 'Algoriphagus mannitolivorans DSM 15301', 'Rickettsia heilongjiangensis 054', 'Grosmannia clavigera kw1407', 'Bigelowiella natans', 'Corynebacterium ciconiae DSM 44920', 'Lactobacillus antri DSM 16041', 'Lactobacillus ultunensis DSM 16047', 'Paenibacillus lactis 154', 'Nocardia higoensis NBRC 100133', 'Nocardia pneumoniae NBRC 100136', 'Prevotella shahii DSM 15611 = JCM 12083', 'Prevotella salivae DSM 15606', 'Thermovibrio ammonificans HB-1', 'Arenibacter certesii DSM 19833', 'Flavobacterium frigoris PS1', 'Arsenicicoccus bolidensis DSM 15745', "Aster yellows witches'-broom phytoplasma AYWB", 'Streptococcus minor DSM 17118', 'Halobiforma lacisalsi AJ5', 'Aeropyrum camini SY1 = JCM 12091', 'Methylophaga aminisulfidivorans MP', 'Scardovia wiggsiae F0424', 'Lactobacillus rossiae DSM 15814', 'Saccharibacter floricola DSM 15669', 'Streptococcus devriesei DSM 19639', 'Beijerinckia mobilis', 'Desulfobulbus japonicus DSM 18378', 'Dyella japonica A8', 'Phanerochaete carnosa HHB-10118-sp', 'Belliella baltica DSM 15883', 'Effusibacillus pohliae DSM 22757', 'Halomonas alkaliantarctica', 'Synechococcus sp. CB0101', 'Acidovorax sp. JS42', 'Desulfitobacterium dichloroeliminans LMG P-21439', 'Candidatus Kinetoplastibacterium blastocrithidii (ex Strigomonas culicis)', 'Candidatus Midichloria mitochondrii IricVA', 'Corynebacterium caspium DSM 44850', 'Pseudoalteromonas sp. SM9913', 'Amanita thiersii Skay4041', 'Streptacidiphilus jiangxiensis', 'Alcanivorax sp. DG881', 'Marinobacter algicola DG893', 'Diplodia corticola', 'Chryseobacterium formosense', 'Candidatus Scalindua brodae', 'Lactobacillus kitasatonis DSM 16761 = JCM 1039', 'Oribacterium sinus F0268', 'Pseudomonas alkylphenolica', 'Pseudomonas psychrotolerans L19', 'Erythrobacter sp. NAP1', 'Lactobacillus vini DSM 20605', 'Akkermansia muciniphila ATCC BAA-835', 'Nocardiopsis valliformis DSM 45023', 'Nocardiopsis ganjiahuensis DSM 45031', 'Mycobacterium parascrofulaceum ATCC BAA-614', 'Pterocles gutturalis', 'Woodsholea maritima DSM 17123', 'Halobacillus dabanensis', 'Pseudonocardia dioxanivorans CB1190', 'Crinalium epipsammum PCC 9333', 'Helcococcus sueciensis DSM 17243', 'Amazona collaria', 'Ostreococcus lucimarinus CCE9901', 'Xenoturbella bocki', 'Acidilobus saccharovorans 345-15', 'Prevotella bergensis DSM 17361', 'Thioalkalivibrio thiocyanodenitrificans ARhD 1', 'Burkholderia sp. Ch1-1', 'Pseudomonas lutea', 'Methylohalobius crimeensis 10Ki', 'Klebsiella variicola UCI 18', 'Cynoglossus semilaevis', 'Thiocapsa marina 5811', 'Candidatus Paracaedimonas acanthamoebae', 'Candidatus Paracaedibacter symbiosus', 'Hoeflea phototrophica DFL-43', 'Nautilia profundicola AmH', 'Fictibacillus macauensis ZFHKF-1', 'Wallemia ichthyophaga', 'Yoonia vestfoldensis SKA53', "Acidomyces sp. 'richmondensis'", 'Enterococcus italicus DSM 15952', 'Bacillus bogoriensis ATCC BAA-922', 'Wolbachia endosymbiont of Cimex lectularius', 'Staphylococcus equorum subsp. equorum Mu2', 'Tupaia chinensis', 'Bacteroides cellulosilyticus WH2', 'Thermococcus sp. AM4', 'Serinicoccus marinus DSM 15273', 'Candidatus Jettenia caeni', 'Cupriavidus pinatubonensis JMP134', 'Mucispirillum schaedleri ASF457', 'Psychrobacter aquaticus CMS 56', 'Nocardia testacea NBRC 100365', 'Coccomyxa subellipsoidea', 'Cardinium endosymbiont cEper1 of Encarsia pergandiella', 'Deinococcus frigens DSM 12807', 'Deinococcus marmoris DSM 12784', 'Candidatus Blochmannia vafer str. BVAF', 'Candidatus Blochmannia chromaiodes str. 640', 'Pseudomonas syringae pv. tomato str. DC3000', 'Oceanicola granulosus HTCC2516', 'Robiginitalea biformata HTCC2501', 'Vibrio ezurae NBRC 102218', 'Saccharomyces boulardii (nom. inval.)', 'Clytia hemisphaerica', 'Mahella australiensis 50-1 BON', 'Paraburkholderia phenoliruptrix BR3459a', 'Natronolimnohabitans innermongolicus JCM 12255', 'Ethanoligenens harbinense YUAN-3', 'Owenweeksia hongkongensis DSM 17368', 'Verruconis gallopava', 'Streptomyces sp. C', 'Fonsecaea monophora', 'Solimonas variicoloris DSM 15731', 'Bacillus fordii DSM 16014 = CIP 108821', 'Streptococcus castoreus DSM 17536', 'Paeniglutamicibacter gangotriensis Lz1y', 'Arcobacter cibarius LMG 21996', 'Glycomyces arizonensis DSM 44726', 'Parvibaculum lavamentivorans DS-1', 'Glutamicibacter arilaitensis Re117', 'Gulosibacter molinativorax DSM 13485', 'Lentisphaera araneosa HTCC2155', 'Sphingomonas phyllosphaerae 5.2', 'Nocardia aobensis NBRC 100429', 'Nocardia concava NBRC 100430', 'Pleomorphomonas koreensis DSM 23070', 'Roseomonas gilardii subsp. rosea ATCC BAA-691', 'Streptococcus pseudopneumoniae IS7493', 'Otus sunia', 'Kitasatospora arboriphila', 'Corynebacterium resistens DSM 45100', 'Mycolicibacterium cosmeticum', 'Halomonas anticariensis FP35 = DSM 16096', 'Desulfatibacillum alkenivorans AK-01', 'Nocardia takedensis NBRC 100417', 'Dechloromonas aromatica RCB', 'Microbulbifer agarilyticus S89', 'Campylobacter insulaenigrae NCTC 12927', 'Nitrosomonas sp. Is79A3', 'Intestinibacter bartlettii DSM 16795', 'Paraburkholderia phytofirmans PsJN', 'Mycobacterium liflandii 128FXT', 'Cavenderia fasciculata', 'Thermosinus carboxydivorans Nor1', 'Pleomorphomonas oryzae DSM 16300', 'Kangiella koreensis DSM 16069', 'Kangiella aquimarina DSM 16071', 'Marinobacter daepoensis DSM 16072', 'Lysobacter concretionis Ko07 = DSM 16239', 'Acinetobacter beijerinckii CIP 110307', 'Jonesia quinghaiensis DSM 15701', 'Salipiger mucosus DSM 16094', 'Wolbachia endosymbiont of Culex quinquefasciatus Pel', 'Viridibacillus arenosi FSL R5-213', 'Crocosphaera watsonii WH 8501', 'Pneumocystis murina', 'Marinomonas ushuaiensis DSM 15871', 'Gordonia effusa NBRC 100432', 'Algoriphagus marincola DSM 16067', 'Botryobasidium botryosum', 'Capsella grandiflora', 'Oceanimonas smirnovii ATCC BAA-899', 'Acholeplasma equifetale ATCC 29724', 'Acholeplasma granularum ATCC 19168', 'Acholeplasma hippikon ATCC 29725', 'Trichormus variabilis ATCC 29413', 'Byssochlamys spectabilis No. 5', 'Salinimonas chungwhensis DSM 16280', 'Pontibacillus chungwhensis BH030062', 'Silanimonas lenta DSM 16282', 'Desulfurispora thermophila DSM 16022', 'Desulfallas alcoholivorax DSM 16058', 'Rhodopirellula baltica SH 1', 'Anoxybacillus tepidamans PS2', 'Methylovorus glucosetrophus SIP3-4', 'Pseudocohnilembus persalinus', 'Chryseobacterium antarcticum', 'Porphyromonas gingivicanis', 'Chelativorans sp. BNC1', 'Microbulbifer variabilis ATCC 700307', 'Thalassobacter stenotrophicus', 'Granulicoccus phenolivorans DSM 17626 = NBRC 107789 = JCM 15570', 'Neisseria bacilliformis ATCC BAA-1200', 'Lactobacillus kefiranofaciens ZW3', 'Paenibacillus wynnii', 'Nitratifractor salsuginis DSM 16511', 'Microbotryum intermedium', 'Streptococcus marimammalium DSM 18627', 'Sporolactobacillus terrae DSM 11697', 'Atopococcus tabaci DSM 17538', 'Bartonella rattimassiliensis 15908', 'Marinobacter sp. ELB17', 'Fangia hongkongensis FSC776 = DSM 21703', 'Methylomicrobium alcaliphilum 20Z', 'Shewanella sediminis HAW-EB3', 'Shewanella halifaxensis HAW-EB4', 'Flavobacterium antarcticum DSM 19726', 'Arthrobacter castelli DSM 16402', 'Nostoc punctiforme PCC 73102', 'Olleya marilimosa CAM030', 'Actinomyces dentalis DSM 19115', 'Hyaloperonospora arabidopsidis', 'Pontibacillus marinus BH030004 = DSM 16465', 'Candida orthopsilosis Co 90-125', 'Candida metapsilosis', 'Sphaerochaeta coccoides DSM 17374', 'Exiguobacterium marinum DSM 16307', 'Microbacterium oleivorans', 'Chlorobaculum parvum NCIB 8327', 'Limimaricola hongkongensis DSM 17492', 'Opitutaceae bacterium TAV1', 'Acidobacteriaceae bacterium TAA 166', 'Collimonas arenae', 'Aquimarina muelleri DSM 19832', 'Gramella echinicola DSM 19838', 'Novosphingopyxis baekryungensis DSM 16222', 'Agromyces italicus DSM 16388', 'Antrostomus carolinensis', 'Nocardiopsis baichengensis YIM 90130', 'Pochonia chlamydosporia 170', 'Azorhizobium doebereinerae UFLA1-100', 'Candidatus Amoebophilus asiaticus 5a2', 'Caenorhabditis japonica', 'Rozella allomycis CSF55', 'Porphyromonas uenonis 60-3', 'Prevotella multiformis DSM 16608', 'Nocardia jiangxiensis NBRC 101359', 'Sander lucioperca', 'Kosakonia radicincitans DSM 16656', 'Pseudoalteromonas sp. Bsw20308', 'Staphylococcus pseudintermedius ED99', 'Stackebrandtia nassauensis DSM 44728', 'Capitella teleta', 'Phenylobacterium zucineum HLK1', 'Streptomyces flavovariabilis', 'Alcanivorax dieselolei B5', 'Thioclava pacifica DSM 10166', 'Acetobacter nitrogenifigens DSM 23921 = LMG 23498', 'Streptomyces roseochromogenus subsp. oscitans DS 12.976', 'Streptomyces xylophagus', 'Streptomyces sviceus ATCC 29083', 'Streptomyces fulvoviolaceus', 'Streptomyces thermolilacinus SPC6', 'Micromonospora lupini str. Lupac 08', 'Hahella ganghwensis DSM 17046', 'Episyrphus balteatus', 'Alkaliflexus imshenetskii DSM 15055', 'Segniliparus rotundus DSM 44985', 'Segniliparus rugosus ATCC BAA-974', 'Hellea balneolensis DSM 19091', 'Haliea salexigens DSM 19537', 'Balneola vulgaris DSM 17893', 'Amycolatopsis rifamycinica', 'Bradyrhizobium sp. BTAi1', 'Kordiimonas gwangyangensis DSM 19435 = JCM 12864', 'Microbotryum lychnidis-dioicae p1A1 Lamole', 'Hungateiclostridium clariflavum DSM 19732', 'Microbotryum aff. violaceum TUB 011817', 'Bacteroides helcogenes P 36-108', 'Nocardia exalbida NBRC 100660', "Penicillium sp. 'occitanis'", 'Comamonas granuli NBRC 101663', 'Arthrobacter sp. FB24', 'Jannaschia sp. CCS1', 'Aminiphilus circumscriptus DSM 16581', 'Photorhabdus asymbiotica', 'Bartonella melophagi K-2C', 'Bacteroides salyersiae WAL 10018 = DSM 18765 = JCM 12988', 'Bacteroides nordii CL02T12C05', 'Acaricomes phytoseiuli DSM 14247', 'Erythrobacter vulgaris', 'Thermosediminibacter oceani DSM 16646', 'Ruegeria sp. TM1040', 'Dactylococcopsis salina PCC 8305', 'Flavonifractor plautii 1_3_50AFAA', 'Lysinibacillus massiliensis 4400831 = CIP 108448 = CCUG 49529', 'Martelella mediterranea DSM 17316', 'Haloquadratum walsbyi J07HQW2', 'Cyphellophora europaea', 'Desulfovibrio alkalitolerans DSM 16529', 'Agromyces subbeticus DSM 16689', 'Proteiniphilum acetatigenes DSM 18083', 'Rubellimicrobium thermophilum DSM 16684', 'Candidatus Hepatoplasma crinochetorum Av', 'Micromonas commoda', 'Polaromonas sp. JS666', 'Caldalkalibacillus thermarum TA2.A1', 'Patulibacter minatonensis DSM 18081', 'Frankia sp. EAN1pec', 'Frankia inefficax', 'Frankia saprophytica', 'Pseudoalteromonas spongiae UST010723-006', 'Denticeps clupeoides', 'Leptotrombidium deliense', 'Adhaeribacter aquaticus DSM 16391', 'Francisella orientalis str. Toba 04', 'Rhodococcus triatomae BKS 15-14', 'Glaciecola nitratireducens FR1064', 'Lachancea meyersii CBS 8951', 'Catellicoccus marimammalium M35/04/3', 'Bacillus lehensis G1', 'Roseburia hominis A2-183', 'Methanosaeta harundinacea 6Ac', 'Seriola lalandi dorsalis', 'Advenella mimigardefordensis DPN7', 'Corynebacterium tuscaniense DNF00037', 'Halobacillus kuroshimensis DSM 18393', 'Pundamilia nyererei', 'Lactobacillus apis', 'Lactobacillus harbinensis DSM 16991', 'Catenulispora acidiphila DSM 44928', 'Actinospica robiniae DSM 44927', 'Thauera sp. 27', 'Endozoicomonas elysicola', 'Pusillimonas noertemannii BS8', 'Marinimicrobium agarilyticum DSM 16975', 'Calidithermus timidus DSM 17022', 'Lactobacillus apodemi DSM 16634 = JCM 16172', 'Chryseobacterium vrystaatense', 'Aphis glycines', 'Gracilibacillus boraciitolerans JCM 21714', 'Sinocyclocheilus rhinocerous', 'Apteryx rowi', 'Bacillus boroniphilus JCM 21738', 'Dialister microaerophilus UPII 345-E', 'Chrysiogenes arsenatis DSM 11915', 'Persephonella marina EX-H1', 'Sulfurihydrogenibium azorense Az-Fu1', 'Candidatus Liberibacter americanus str. Sao Paulo', 'Deinococcus apachensis DSM 19763', 'Deinococcus maricopensis DSM 21211', 'Deinococcus pimensis DSM 21231', 'Bacteroides plebeius DSM 17135', 'Bacteroides coprocola DSM 17136', 'Bacteroides pyogenes JCM 10003', 'Neofusicoccum parvum', 'Prevotella multisaccharivorax DSM 17128', 'Advenella kashmirensis W13003', 'Deinococcus deserti VCD115', 'Modiolus philippinarum', 'Linnemannia elongata AG-77', 'Paraburkholderia terrae NBRC 100964', 'Thermococcus kodakarensis KOD1', 'Paraburkholderia mimosarum LMG 23256 = NBRC 106338', 'Flavobacterium indicum GPTSA100-9 = DSM 17447', 'Emticicia oligotrophica DSM 17448', 'Pseudomonas entomophila L48', 'Streptococcus massiliensis DSM 18628', 'Croceibacter atlanticus HTCC2559', 'Janibacter sp. HTCC2649', 'Dokdonia sp. MED134', 'Polaribacter sp. MED152', 'Maribacter sp. HTCC2170', 'Lyngbya sp. PCC 8106', 'Synechococcus sp. BL107', 'Bacillus sp. NRRL B-14911', 'Geobacter lovleyi SZ', 'Drechslerella stenobrocha 248', 'Nitrobacter sp. Nb-311A', 'Oceanicaulis sp. HTCC2633', 'Pseudooceanicola batsensis HTCC2597', 'Roseobacter sp. MED193', 'Roseovarius nubinhibens ISM', 'Roseovarius sp. 217', 'Sphingomonas sp. SKA58', 'Sulfitobacter sp. NAS-14.1', 'Rhodobacteraceae bacterium HTCC2083', 'Alteromonas mediterranea', 'Marinomonas sp. MED121', 'Pseudoalteromonas tunicata D2', 'Psychromonas sp. CNPT3', 'Vibrio sp. MED222', 'Prolixibacter bellariivorans ATCC BAA-1284', 'Mariprofundus ferrooxydans PV-1', 'Pseudoxanthomonas suwonensis 11-1', 'Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069', 'Belgica antarctica', 'Leadbetterella byssophila DSM 17132', 'Syntrophus aciditrophicus SB', 'Synechococcus sp. RCC307', 'Synechococcus sp. CC9902', 'Microbispora sp. ATCC PTA-5024', 'Rubrivivax benzoatilyticus JA2 = ATCC BAA-35', 'Kuraishia capsulata', 'Enterococcus caccae ATCC BAA-1240', 'Nostoc sp. PCC 7107', 'Mycolicibacterium rufum', 'Mycolicibacterium aromaticivorans JS19b1 = JCM 16368', 'Clostridium sulfidigenes', 'Pyricularia oryzae 70-15', 'Bradyrhizobium sp. WSM1743', 'Bradyrhizobium sp. WSM1253', 'Bradyrhizobium sp. WSM471', 'Nonlabens sediminis', 'Clostridium lundense DSM 17049', 'Formosa agariphila KMM 3901', 'Gordonia soli NBRC 108243', 'Pseudocercospora eumusae', 'Synechococcus sp. JA-3-3Ab', "Synechococcus sp. JA-2-3B'a(2-13)", 'Lepidothrix coronata', 'Pseudomonas moraviensis R28-S', 'Pseudomonas simiae', 'Wheat blue dwarf phytoplasma', 'Porphyromonas somerae DSM 23386', 'Sharpea azabuensis DSM 18934', 'Sphingomonas sp. BHC-A', 'Leptolyngbya valderiana BDU 20041', 'Paenibacillus sp. JDR-2', 'Bacillus infantis NRRL B-14911', 'Kwoniella bestiolae CBS 10118', 'Kwoniella dejecticola CBS 10117', 'Moelleriella libera RCEF 2490', 'Phytophthora kernoviae', 'Coxiella endosymbiont of Amblyomma americanum', 'Paraglaciecola psychrophila 170', 'Pseudozyma hubeiensis', 'Candidatus Accumulibacter phosphatis clade IIA str. UW-1', 'Bifidobacterium crudilactis', 'Syntrophorhabdus aromaticivorans UI', 'Nonlabens dokdonensis DSW-6', 'Parabacteroides goldsteinii dnLKV18', 'Alistipes onderdonkii WAL 8169 = DSM 19147', 'Alistipes shahii WAL 8301', 'Manacus vitellinus', 'Rhizoclosmatium globosum', 'Flavobacterium saliperosum S13', 'Bacteroides intestinalis DSM 17393', 'Amycolatopsis jejuensis', 'Nitrospira defluvii', 'Psychrobacter cryohalolentis K5', 'Kamptonema formosum PCC 6407', 'Sphingobium japonicum UT26S', 'Clostridium drakei', 'Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7', 'Candidatus Solibacter usitatus Ellin6076', 'Halococcus hamelinensis 100A6', 'Truepera radiovictrix DSM 17093', 'Exiguobacterium sibiricum 255-15', 'Hirsutella minnesotensis 3608', 'Alkalihalobacillus okhensis', 'Psychrobacter arcticus 273-4', 'Rickettsia tamurae', 'Ignisphaera aggregans DSM 17230', 'Methylobacterium oryzae CBMB20', 'Halococcus thailandensis JCM 13552', 'Thermovirga lienii DSM 17291', 'Candidatus Sulcia muelleri PSPU', 'Rhodonellum psychrophilum GCM71 = DSM 17998', 'Oenococcus kitaharae DSM 17330', 'Pyronema omphalodes', 'Chlorobium chlorochromatii CaD3', 'Gordonia sp. KTR9', 'Halorubrum ezzemoulense DSM 17463', 'Pseudodonghicola xiamenensis DSM 18339', 'Bacteroides finegoldii DSM 17565', 'Nitrosopumilus maritimus SCM1', 'Erwinia tasmaniensis Et1/99', 'Mycobacterium colombiense CECT 3035', 'Desulfosporosinus youngiae DSM 17734', 'Criblamydia sequanensis CRIB-18', 'Thermodesulfovibrio thiophilus DSM 17215', 'Tuberibacillus calidus DSM 17572', 'Spathaspora passalidarum NRRL Y-27907', 'Amorphus coralli DSM 19760', 'Desulfovibrio frigidus DSM 17176', 'Ascodesmis nigricans', 'Peptostreptococcus stomatis DSM 17678', 'Agrococcus lahaulensis DSM 17612', 'Methylophilaceae bacterium B1', 'Burkholderia oklahomensis', 'Thermococcus onnurineus NA1', 'Pyrococcus sp. NA2', 'Paenibacillus barengoltzii G22', 'Salipiger bermudensis HTCC2601', 'Flavobacterium soli DSM 19725', 'Kutzneria sp. 744', 'Podiceps cristatus', 'Geobacter pickeringii', 'Amycolatopsis benzoatilytica AK 16/65', 'Lysobacter daejeonensis GH1-9', 'Echinicola pacifica DSM 19836', 'Moraxella boevrei DSM 14165', 'Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896', 'Rhodanobacter spathiphylli B39', 'Streptomyces davaonensis JCM 4913', 'Exophiala xenobiotica', 'Streptacidiphilus oryzae TH49', 'Rhizobium favelukesii', 'Spironucleus salmonicida', 'Desulfovirgula thermocuniculi DSM 16036', 'Cercospora zeina', 'Psychrobacter sp. PRwf-1', 'Micavibrio aeruginosavorus ARL-13', 'Corynebacterium marinum DSM 44953', 'Flavobacterium daejeonense DSM 17708', 'Flavobacterium suncheonense GH29-5 = DSM 17707', 'Roseobacter sp. AzwK-3b', 'Alkalilimnicola ehrlichii MLHE-1', 'Oscillibacter valericigenes Sjm18-20', 'Salinispora pacifica CNT003', 'Geobacter uraniireducens Rf4', 'Xenorhabdus doucetiae', 'Shewanella sp. W3-18-1', 'Halostagnicola larsenii XH-48', 'Arenimonas malthae CC-JY-1', 'Niastella koreensis GR20-10', 'Streptomyces sp. Tu6071', 'Limnoperna fortunei', 'Alloscardovia criceti DSM 17774', 'Bifidobacterium tsurumiense', 'Micromonospora chokoriensis', 'Phocaeicola dorei', 'Lactobacillus parabrevis ATCC 53295', 'Cercospora berteroae', 'Psychromonas ingrahamii 37', 'Roseiflexus sp. RS-1', 'Microbacterium indicum DSM 19969', 'Acidovorax sp. KKS102', 'Methanoregula boonei 6A8', 'Streptomyces olindensis', 'Pseudomonas extremaustralis 14-3 substr. 14-3b', 'Shewanella loihica PV-4', 'Smaragdicoccus niigatensis DSM 44881 = NBRC 103563', 'Methylotenera mobilis 13', 'Bryobacter aggregatus MPL3', 'Zavarzinella formosa DSM 19928', 'Schlesneria paludicola DSM 18645', 'Leeuwenhoekiella blandensis MED217', 'Roseburia inulinivorans DSM 16841', 'Exiguobacterium sp. AT1b', 'Rubritalea marina DSM 17716', 'Tieghemostelium lacteum', 'Streptococcus pseudoporcinus SPIN 20026', 'Pseudarthrobacter phenanthrenivorans Sphe3', 'Streptomyces vietnamensis', 'Flavobacterium reichenbachii', 'Candidatus Protochlamydia amoebophila UWE25', 'Kaistia granuli DSM 23481', 'Prevotella stercorea DSM 18206', 'Ktedonobacter racemifer DSM 44963', 'Dyella ginsengisoli LA-4', 'Janibacter hoylei PVAS-1', 'Verminephrobacter eiseniae EF01-2', 'Granulibacter bethesdensis CGDNIH1', 'Endocarpon pusillum Z07020', 'Ferrimonas futtsuensis DSM 18154', 'Chryseobacterium caeni DSM 17710', 'Pelosinus fermentans DSM 17108', 'Frankia discariae', 'Belnapia moabensis DSM 16746', 'Paenibacillus sabinae T27', 'Ruania albidiflava DSM 18029', 'Caulobacter sp. K31', 'Haladaptatus paucihalophilus DX253', 'Yersinia similis', 'Phycicoccus jejuensis', 'Rhodobacterales bacterium HTCC2255', 'Pelusios castaneus', 'Blattabacterium sp. (Periplaneta americana) str. BPLAN', 'Blattabacterium sp. (Blatta orientalis) str. Tarazona', 'Rheinheimera perlucida DSM 18276', 'Paenibacillus terrigena DSM 21567', 'Mesonia mobilis DSM 19841', 'Haloterrigena limicola JCM 13563', 'Gallionella capsiferriformans ES-2', 'Arenimonas composti TR7-09 = DSM 18010', 'Flavobacterium filum DSM 17961', 'Brevundimonas aveniformis DSM 17977', 'Erwinia typographi', 'Bacteroides xylanisolvens XB1A', 'Rhodobacter sp. SW2', 'Fischerella thermalis PCC 7521', 'Bartonella tamiae Th239', 'Rivularia sp. PCC 7116', 'Campylobacter cuniculorum DSM 23162 = LMG 24588', 'Reinekea blandensis MED297', 'Janthinobacterium sp. Marseille', 'Pseudooceanicola nanhaiensis DSM 18065', 'Sphaeramia orbicularis', 'Natranaerobius thermophilus JW/NM-WN-LF', 'Haloplanus natans DSM 17983', 'Gordonia shandongensis DSM 45094', 'Olivibacter sitiensis DSM 17696', 'Zhouia amylolytica AD3', 'Paracoccus halophilus', 'Bacteroides barnesiae DSM 18169 = JCM 13652', 'Phocaeicola salanitronis DSM 18170', 'Thermobacillus composti KWC4', 'Methyloversatilis universalis FAM5', 'Novosphingobium nitrogenifigens DSM 19370', 'Cyanobacterium aponinum PCC 10605', 'Streptomyces bingchenggensis BCW-1', 'Vibrio sinaloensis DSM 21326', 'Propithecus coquereli', 'Aciduliprofundum boonei T469', 'Paenibacillus fonticola DSM 21315', 'Niabella aurantiaca DSM 17617', 'Pseudomonas protegens CHA0', 'Cohnella laeviribosi DSM 21336', 'Lactobacillus namurensis str. Chizuka 01', 'Streptococcus ictaluri 707-05', 'Hydrogenobaculum sp. Y04AAS1', 'Lachancea thermotolerans', 'Amycolatopsis nigrescens CSC17Ta-90', 'Algiphilus aromaticivorans DG1253', 'Verrucomicrobiae bacterium DG1235', 'Erythrobacter sp. JL475', 'Ornithinimicrobium pekingense DSM 21552', 'Bacillus aidingensis DSM 18341', 'Cycloclasticus sp. P1', 'Pseudophaeobacter arcticus DSM 23566', 'Thermophagus xiamenensis', 'Paraburkholderia ferrariae NBRC 106233', 'Prevotella timonensis 4401737 = DSM 22865 = JCM 15640', 'Methanobacterium arcticum', 'Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)', 'Moraxella bovoculi 237', 'Bacteroides coprophilus DSM 18228 = JCM 13818', 'Nitratiruptor sp. SB155-2', 'Sulfurovum sp. NBC37-1', 'Halovivax ruber XH-70', 'Halopiger xanaduensis SH-6', 'Parabacteroides johnsonii CL02T12C29', 'Cupriavidus sp. amp6', 'Natronorubrum sulfidifaciens JCM 14089', 'Rhodobacteraceae bacterium HTCC2150', 'Labrenzia alexandrii DFL-11', 'Algoriphagus machipongonensis', 'Bartonella australis Aust/NH1', 'Roseobacter sp. SK209-2-6', 'Hydnomerulius pinastri MD-312', 'Stachybotrys chlorohalonata IBT 40285', 'Wenxinia marina DSM 24838', 'Lactobacillus farraginis DSM 18382 = JCM 14108', 'Lactobacillus parafarraginis F0439', 'Echinicola vietnamensis DSM 17526', 'Actinocatenispora sera', 'Ehrlichia sp. HF', 'Vibrio sp. 16', 'Roseobacter sp. GAI101', 'Roseobacter sp. CCS2', 'Pedobacter sp. BAL39', 'Flavobacteria bacterium BAL38', 'Brevundimonas sp. BAL3', 'Stenotrophomonas sp. SKA14', 'Flavobacteriales bacterium ALC-1', 'Roseovarius sp. TM1035', 'Lysobacter defluvii IMMIB APB-9 = DSM 18482', 'Alicyclobacillus macrosporangiidus CPP55', 'Alicyclobacillus contaminans DSM 17975', 'Paraburkholderia nodosa DSM 21604', 'Sphingomonas jaspsi DSM 18422', 'Deinococcus misasensis DSM 22328', 'Methylophaga thiooxydans DMS010', 'Perlucidibaca piscinae DSM 21586', 'Terriglobus roseus DSM 18391', 'Uliginosibacterium gangwonense DSM 18521', 'Halalkalibacillus halophilus DSM 18494', 'Mesoflavibacter zeaxanthinifaciens S86', 'Gracilibacillus lacisalsi DSM 19029', 'Pestalotiopsis fici', 'Congregibacter litoralis KT71', 'Porphyromonas crevioricanis', 'Bhargavaea cecembensis DSE10', 'Cylindrobasidium torrendii FP15055 ss-10', 'Lactobacillus ceti DSM 22408', 'Coraliomargarita akajimensis DSM 45221', 'Bartonella rochalimae ATCC BAA-1498', 'Cyanothece sp. PCC 7425', 'Gilvimarinus chinensis DSM 19667', 'Brachybacterium phenoliresistens', 'Aspergillus ruber CBS 135680', 'Acinetobacter brisouii ANC 4119', 'Aestuariimicrobium kwangyangense DSM 21549', 'Thioalkalivibrio sp. K90mix', 'Lactobacillus hayakitensis DSM 18933 = JCM 14209', 'Andreprevotia chitinilytica DSM 18519', 'Sphingomonas sanxanigenens DSM 19645 = NX02', 'Marmoricola aequoreus', 'Lachnospiraceae bacterium 28-4', 'Lachnospiraceae bacterium 3-1', 'Lachnospiraceae bacterium A2', 'Lachnospiraceae bacterium A4', 'Barnesiella viscericola DSM 18177', 'Segetibacter koreensis DSM 18137', 'Proteiniclasticum ruminis DSM 24773', 'Agrilactobacillus composti DSM 18527 = JCM 14202', 'Helicobacter macacae MIT 99-5501', 'Trichoderma gamsii', 'Zunongwangia profunda SM-A87', 'Desulfocurvus vexinensis DSM 17965', 'Thermoanaerobacter sp. X514', 'Enterobacter sp. 638', 'Streptococcus merionis DSM 19192', 'Pontibacter korlensis', 'Marinomonas sp. MWYL1', 'Amphimedon queenslandica', 'Wohlfahrtiimonas chitiniclastica DSM 18708', 'Corynebacterium ureicelerivorans', 'Aureimonas ureilytica DSM 18598 = NBRC 106430', 'Candidatus Riesia pediculicola USDA', 'Actinomycetospora chiangmaiensis DSM 45062', 'Haloferax mucosum ATCC BAA-1512', 'Sphingobacterium sp. PM2-P1-29', 'Virgibacillus sp. SK37', 'Shewanella piezotolerans WP3', 'Maritimibacter alkaliphilus HTCC2654', 'Nonomuraea coxensis DSM 45129', 'Anaeromyxobacter sp. Fw109-5', 'Marinobacterium litorale DSM 23545', 'Geminicoccus roseus DSM 18922', 'Alicyclobacillus acidocaldarius subsp. acidocaldarius Tc-4-1', 'Leisingera daeponensis DSM 23529', 'Streptacidiphilus rugosus AM-16', 'Bacillus sp. m3-13', 'Natrinema sp. J7-2', 'Sphingomonas astaxanthinifaciens DSM 22298', 'Stegodyphus mimosarum', 'Prevotella pleuritidis JCM 14110', 'Streptomyces xiamenensis', 'Bacillus coahuilensis m4-4', 'Nocardioidaceae bacterium Broad-1', 'Clostridiisalibacter paucivorans DSM 22131', 'Treponema pedis str. T A4', 'Blastobotrys adeninivorans', 'Periophthalmus magnuspinnatus', 'Coprococcus comes ATCC 27758', 'Gordonia malaquae NBRC 108250', 'Gramella forsetii KT0803', 'Halogeometricum pallidum JCM 14848', 'Clostridium sp. SS2/1', 'Clostridium sp. M62/1', 'Clostridium sp. L2-50', 'Chryseobacterium daeguense DSM 19388', 'Entamoeba nuttalli P19', 'Paracoccus sp. TRP', 'Intrasporangium oryzae NRRL B-24470', 'Desulfotomaculum hydrothermale Lam5 = DSM 18033', 'Mycetohabitans rhizoxinica HKI 454', 'Candidatus Vesicomyosocius okutanii', 'Solimonas soli DSM 21787', 'Cronobacter turicensis z3032', 'Halalkalicoccus jeotgali B3', 'Halorubrum halophilum', 'Caldicellulosiruptor hydrothermalis 108', 'Caldicellulosiruptor kronotskyensis 2002', 'Lysobacter dokdonensis DS-58', 'Planococcus donghaensis MPA1U2', 'Actinopolyspora erythraea', 'Pseudoxanthomonas spadix BD-a59', 'Solimonas flava DSM 18980', 'Nodosilinea nodulosa PCC 7104', 'Rhodanobacter thiooxydans LCS2', 'Natronomonas moolapensis 8.8.11', 'Burkholderia sp. KJ006', 'Penicillium antarcticum', 'Selenomonas bovis DSM 23594', 'Notospermus geniculatus', 'Neptunomonas japonica DSM 18939', 'Methanosarcina horonobensis HB-1 = JCM 15518', 'Blautia wexlerae DSM 19850', 'Salinicoccus albus DSM 19776', 'Nevskia soli DSM 19509', 'Prevotella amnii CRIS 21A-A', 'Alloscardovia omnicolens DSM 21503', 'Yersinia massiliensis CCUG 53443', 'Microvirga lupini', 'Lactobacillus equicursoris DSM 19284 = JCM 14600 = CIP 110162', 'Diplodia seriata', 'Methanolobus psychrophilus R15', 'Paraburkholderia bryophila 376MFSha3.1', 'Sphingobium ummariense RL-3', 'Sulfitobacter donghicola DSW-25 = KCTC 12864 = JCM 14565', 'Chryseobacterium oranimense G311', 'Chryseobacterium halperniae', 'Chryseobacterium luteum', 'Stenoxybacter acetivorans DSM 19021', 'Mucilaginibacter paludis DSM 18603', 'Basidiobolus meristosporus CBS 931.73', 'Elusimicrobium minutum Pei191', 'Rhizobium sp. IRBG74', 'Helicobacter japonicus', 'Calidris pygmaea', 'Thiomonas arsenitoxydans', 'Methylobacterium sp. 4-46', 'Flavobacterium subsaxonicum WB 4.1-42 = DSM 21790', 'Algoriphagus vanfongensis DSM 17529', 'Nocardia rhamnosiphila', 'Bacillus chagannorensis DSM 18086', 'Salsuginibacillus kocurii DSM 18087', 'Humibacter albus DSM 18994', 'Desulfurivibrio alkaliphilus AHT 2', 'Dethiobacter alkaliphilus AHT 1', 'Moritella dasanensis ArB 0140', 'Candidatus Riesia pediculischaeffi PTSU', 'Jonquetella anthropi E3_33 E1', 'Dactylellina haptotyla', 'Halorhabdus tiamatea SARL4B', 'Baudoinia compniacensis', 'Spirosoma luteum DSM 19990', 'Spirosoma spitsbergense DSM 19989', 'Paenibacillus ginsengihumi DSM 21568', 'Kazachstania africana CBS 2517', 'Deinococcus peraridilitoris DSM 19664', 'Nocardioides halotolerans DSM 19273', 'Streptococcus sp. C150', 'Idiomarina salinarum', 'Fibularhizoctonia sp. CBS 109695', 'Sulfurihydrogenibium sp. YO3AOP1', 'Streptacidiphilus jeojiense', 'Robiginitomaculum antarcticum DSM 21748', 'Brucella sp. UK1/97', 'Brucella sp. F23/97', 'Brucella sp. F96/2', 'Brucella sp. UK40/99', 'Brucella sp. F8/99', 'Brucella sp. F5/99', 'Megamonas funiformis YIT 11815', 'Sutterella parvirubra YIT 11816', 'Ruminococcus gauvreauii DSM 19829', 'Streptococcus henryi DSM 19005', 'Streptococcus caballi DSM 19004', 'Candidatus Pelagibacter sp. HTCC7211', 'Pseudovibrio sp. JE062', 'Rhodobacterales bacterium Y4I', 'Ruegeria sp. R11', 'Prevotella maculosa DSM 19339 = JCM 15638', 'Promicromonospora kroppenstedtii DSM 19349', 'Pseudomonas sp. Chol1', 'Gouania willdenowi', 'Corynebacterium timonense 5401744', 'Corynebacterium massiliense DSM 45435', 'Hofstenia miamia', 'Knoellia aerolata DSM 18566', 'Geobacter sp. M18', 'Geobacter sp. M21', 'Bradyrhizobium sp. Cp5.3', 'Brucella microti CCM 4915', 'Sporolactobacillus vineae DSM 21990 = SL153', 'Maribacter forsetii DSM 18668', 'Gryllotalpicola ginsengisoli DSM 22003', 'Rickettsia endosymbiont of Ixodes scapularis', 'Psychromonas ossibalaenae ATCC BAA-1528', 'Reyranella massiliensis 521', 'Leptobrachium leishanense', 'Chryseobacterium soli', 'Adlercreutzia equolifaciens DSM 19450', 'Eudoraea adriatica DSM 19308', 'Niabella soli DSM 19437', 'Anaeromyxobacter sp. K', 'Epichloe gansuensis', 'Simiduia agarivorans SA1 = DSM 21679', 'Rhizobium selenitireducens ATCC BAA-1503', 'Microbacterium profundi', 'Propionibacterium sp. 5_U_42AFAA', 'Veillonella sp. 6_1_27', 'Rudanella lutea DSM 19387', 'Microbacterium luticocti DSM 19459', 'Streptomyces scopuliridis RB72', 'Pseudoclavibacter soli DSM 23366', 'Amphritea japonica ATCC BAA-1530', 'Neovison vison', 'Roseomonas aerilata DSM 19363', 'Desulfarculus baarsii DSM 2075', 'Kwoniella pini CBS 10737', 'Bdellovibrio exovorus JSS', 'Haladaptatus cibarius D43', 'Henriciella marina DSM 19595', 'Joostella marina DSM 19592', 'Halomonas lutea DSM 23508', 'Paraprevotella clara YIT 11840', 'Paraprevotella xylaniphila YIT 11841', 'Kiloniella laminariae DSM 19542', 'Chthonomonas calidirosea T49', 'Gracilimonas tropica DSM 19535', 'Spongiibacter tropicus DSM 19543', 'Glaciecola sp. HTCC2999', 'Chryseobacterium gregarium DSM 19109', 'Xanthomonas campestris pv. vesicatoria str. 85-10', 'Bizionia argentinensis JUB59', 'Saccharibacillus sacchari DSM 19268', 'Candidatus Cloacimonas acidaminovorans str. Evry', 'Streptococcus plurextorum DSM 22810', 'Rhizoctonia solani AG-8 WAC10335', 'Bacteroides sp. 1_1_30', 'Bacteroides sp. 3_1_23', 'Bacteroides sp. 3_1_33FAA', 'Bacteroides sp. 3_2_5', 'Bacteroides sp. 4_1_36', 'Bacteroides sp. 4_3_47FAA', 'Bacteroides sp. 9_1_42FAA', 'Clostridium sp. 7_2_43FAA', 'Desulfovibrio sp. 3_1_syn3', 'Escherichia sp. 1_1_43', 'Escherichia sp. 4_1_40B', 'Eubacterium sp. 3_1_31', 'Micromonospora sp. M42', 'Ruminococcus sp. 5_1_39BFAA', 'Synergistes sp. 3_1_syn1', 'Veillonella sp. 3_1_44', 'Clostridiales bacterium 1_7_47FAA', 'Erysipelotrichaceae bacterium 2_2_44A', 'Elioraea tepidiphila DSM 17972', 'Chloracidobacterium thermophilum B', 'Planomicrobium glaciei CHR43', 'Saccharibacillus kuerlensis DSM 22868', 'Kribbella catacumbae DSM 19601', 'Komagataella phaffii GS115', 'Ogataea polymorpha NCYC 495 leu1.1', 'Lactobacillus nodensis DSM 19682 = JCM 14932 = NBRC 107160', 'Actinomyces massiliensis F0489', 'Alkaliphilus oremlandii OhILAs', 'Babesia sp. Xinjiang', 'Pontibacillus yanchengensis Y32', 'Paxillus rubicundulus Ve08.2h10', 'Veillonella magna DSM 19857', 'Hemiselmis andersenii', 'Streptomyces sp. Mg1', 'Streptomyces sp. SPB074', 'Acinetobacter sp. Ver3', 'Singulisphaera acidiphila DSM 18658', 'Ilumatobacter coccineus YM16-304', 'Lachnoanaerobaculum saburreum F0468', 'Rhodobacteraceae bacterium KLH11', 'Sistotremastrum suecicum HHB10207 ss-3', 'Bacteroides sp. 1_1_14', 'Bacteroides sp. 2_1_22', 'Bacteroides sp. 2_1_33B', 'Bacteroides sp. 2_2_4', 'Parabacteroides sp. 20_3', 'Bacteroides sp. 3_1_19', 'Bacteroides sp. 3_1_40A', 'Coprobacillus sp. 8_2_54BFAA', 'Streptococcus sp. 2_1_36FAA', 'Burkholderiales bacterium 1_1_47', 'Erysipelotrichaceae bacterium 6_1_45', 'Prevotella histicola JCM 15637 = DNF00424', 'Cladophialophora yegresii', 'Gracilibacillus halophilus YIM-C55.5', 'Salinimicrobium terrae DSM 17865', 'Pantoea vagans C9-1', 'Gordonibacter pamelaeae 7-10-1-b', 'Geobacillus sp. WCH70', 'Dasania marina DSM 21967', 'Bifidobacterium bombi DSM 19703', 'Haloplasma contractile SSD-17B', 'Candidatus Desulforudis audaxviator MP104C', 'Nitratireductor basaltis', 'Nitrosococcus watsonii C-113', 'Colletotrichum gloeosporioides', 'Methanosphaerula palustris E1-9c', 'Pedobacter borealis DSM 19626', 'Pseudohaliea rubra DSM 19751', 'Leisingera aquimarina DSM 24565', 'Modestobacter marinus', 'Bacteroides graminisolvens DSM 19988 = JCM 15093', 'Aliiglaciecola lipolytica E3', 'Calditerrivibrio nitroreducens DSM 19672', 'Verrucomicrobia bacterium LP2A', 'Haematomicrobium sanguinis DSM 21259', 'Brevibacterium ravenspurgense 5401308 = CCUG 53855', 'Gluconobacter morbifer G707', 'Commensalibacter intestini A911', 'Myroides profundi', 'Bartonella rattaustraliani AUST/NH4', 'Lactobacillus otakiensis DSM 19908 = JCM 15040', 'Lactobacillus kisonensis F0435', 'Paenibacillus sp. Y412MC10', 'Galeopterus variegatus', 'Oscillatoria nigro-viridis PCC 7112', 'Burkholderia lata', 'Lactobacillus fabifermentans T30PCM01', 'Cystoisospora suis', 'Geoalkalibacter subterraneus', 'Paenibacillus riograndensis SBR5', 'Sphingobium sp. YBL2', 'Pelosinus sp. UFO1', 'Dialister succinatiphilus YIT 11850', 'Barnesiella intestinihominis YIT 11860', 'Parasutterella excrementihominis YIT 11859', 'Acinetobacter soli', 'Aequorivita capsosiphonis DSM 23843', 'Shewanella marina JCM 15074', 'Corynebacterium ulceribovis DSM 45146', 'Flavobacteria bacterium MS024-2A', 'Serratia sp. SCBI', 'Campylobacter peloridis LMG 23910', 'Desulfonatronospira thiodismutans ASO3-1', 'Halarchaeum acidiphilum MH1-52-1', 'Mesorhizobium metallidurans STM 2683', 'Corynebacterium sputi DSM 45148', 'Marinobacter sp. BSs20148', 'Litoreibacter arenae DSM 19593', 'Leucobacter chironomi DSM 19883', 'Brachymonas chironomi DSM 19884', 'Megamonas rupellensis DSM 19944', 'Bacillus velezensis FZB42', 'Dyadobacter alkalitolerans DSM 23607', 'Rhizobium alamii', 'Chryseobacterium palustre DSM 21579', 'Psychrobacter sp. TB15', 'Arthrobacter sp. TB 23', 'Spirosoma panaciterrae DSM 21099', 'Thermoanaerobacter pseudethanolicus ATCC 33223', 'Thauera sp. 63', 'Campylobacter subantarcticus LMG 24377', 'Candidatus Nitrososphaera gargensis Ga9.2', 'Brevibacillus panacihumi W25', 'Arenimonas oryziterrae DSM 21050 = YC6267', 'Flavobacterium rivuli WB 3.3-2 = DSM 21788', 'Borreliella finlandensis', 'Candidatus Korarchaeum cryptofilum OPF8', 'Tepidanaerobacter acetatoxydans Re1', 'Metarhizium brunneum ARSEF 3297', 'Streptomyces avicenniae', 'Glaciibacter superstes DSM 21135', 'Citreicella sp. SE45', 'Porphyromonas bennonis DSM 23058 = JCM 16335', 'Thermodesulfatator atlanticus DSM 21156', 'Butyricicoccus pullicaecorum 1.2', 'Thalassospira profundimaris WP0211', 'Deinococcus gobiensis I-0', 'Eggerthella sp. YY7918', 'Streptococcus porci DSM 23759', 'Aeromonas diversa CDC 2478-85', 'Salisaeta longa DSM 21114', 'Flavobacterium sasangense DSM 21067', 'Kushneria aurantia DSM 21353', 'Jejuia pallidilutea', 'Haloterrigena salina JCM 13891', 'Novosphingobium acidiphilum DSM 19966', 'Chromera velia CCMP2878', 'Rheinheimera sp. A13L', 'Leisingera caerulea DSM 24564', 'Cinara cedri', 'Peptoniphilus duerdenii ATCC BAA-1640', 'Cloacibacillus evryensis DSM 19522', 'Bradyrhizobium genosp. SA-4 str. CB756', 'Pedobacter sp. V48', 'Oceanimonas sp. GK1', 'Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2', 'Methylacidiphilum infernorum V4', 'Vibrio azureus NBRC 104587', 'Dictyoglomus turgidum DSM 6724', 'Caloramator australicus RC3', 'Lacticigenium naphtae DSM 19658', 'Prevotella falsenii DSM 22864 = JCM 15124', 'Nesterenkonia alba DSM 19423', 'Muricauda lutaonensis', 'Providencia burhodogranariea DSM 19968', 'Providencia sneebia DSM 19967', 'Jeotgalicoccus marinus DSM 19772', 'Pontibacillus litoralis JSM 072002', 'Pontibacillus halophilus JSM 076056 = DSM 19796', 'Pantoea sp. aB', 'Citromicrobium sp. JLT1363', 'Bifidobacterium mongoliense DSM 21395', 'Lactobacillus sucicola DSM 21376 = JCM 15457', 'Alcanivorax hongdengensis A-11-3', 'Deinococcus aquatilis DSM 23025', 'Elaphomyces granulatus', 'Ectothiorhodospira sp. PHS-1', 'Brucella sp. NVSL 07-0026', 'Brucella sp. 83/13', 'Acinetobacter sp. NIPH 817', 'Pseudomonas caeni DSM 24390', 'Sphingobium lactosutens DS20', 'Trichophyton mentagrophytes', 'Marinobacter santoriniensis NKSG1', 'Acinetobacter sp. ATCC 27244', 'Thiothrix lacustris DSM 21227', 'Haloglycomyces albus DSM 45210', 'Oceanibaculum indicum P24', 'Listeria marthii FSL S4-120', 'Thecamonas trahens', 'Rhodoluna lacicola', 'Pelagibacterium halotolerans B2', 'Flavobacteriaceae bacterium 3519-10', 'Actinopolymorpha alba DSM 45243', 'Mesorhizobium australicum WSM2073', 'Psychrobacter lutiphocae DSM 21542', 'Rudaea cellulosilytica DSM 22992', 'Thermus islandicus DSM 21543', 'Corynebacterium lubricantis DSM 45231', 'Peronospora effusa', 'Actinoplanes subtropicus', 'Geobacillus sp. Y412MC61', 'Actinomyces johnsonii F0510', 'Butyricimonas synergistica DSM 23225', 'Thioalkalivibrio sp. AKL11', 'Thioalkalivibrio sp. ALJ24', 'Alishewanella jeotgali KCTC 22429', 'Paraoerskovia marina DSM 21750', 'Sporothrix brasiliensis 5110', 'Hydrogenobaculum sp. 3684', 'Hydrogenobaculum sp. HO', 'Hydrogenobaculum sp. SN', 'Mycobacterium vulneris', 'Phycisphaera mikurensis NBRC 102666', 'Pseudogulbenkiania ferrooxidans 2002', 'Geobacillus sp. Y412MC52', 'Pseudonocardia acaciae DSM 45401', 'Aromatoleum aromaticum EbN1', 'Caldicoprobacter oshimai DSM 21659', 'Sediminimonas qiaohouensis DSM 21189', 'Salinarimonas rosea DSM 21201', 'Erysipelotrichaceae bacterium 5_2_54FAA', 'Ruminococcaceae bacterium D16', 'Cryptococcus gattii VGIII', 'Dehalogenimonas lykanthroporepellens BL-DC-9', 'Pseudomonas pelagia CL-AP6', 'Vibrio breoganii 1C10', 'Alishewanella agri BL06', 'Cobetia crustatorum', 'Halomonas jeotgali Hwa', 'Photobacterium leiognathi lrivu.4.1', 'Chlorella variabilis', 'Thiomonas sp. CB2', 'Flavobacterium chungangense LMG 26729', 'Galbibacter marinus', 'Staphylococcus massiliensis S46', 'Novosphingobium sp. Rr 2-17', 'Bacteroides sp. D1', 'Bacteroides sp. D2', 'Clostridium sp. D5', 'Coprobacillus sp. D7', 'Candidatus Liberibacter solanacearum CLso-ZC1', 'Propionibacterium acidifaciens DSM 21887', 'Corynebacterium freiburgense DSM 45254', 'Chryseobacterium piperi', 'Lentibacillus jeotgali', 'Salinicoccus carnicancri Crm', 'Aeromonas lacus', 'Aureobasidium namibiae CBS 147.97', 'Lysinibacillus sinduriensis BLB-1 = JCM 15800', 'Aliagarivorans taiwanensis DSM 22990', 'Prevotella sp. C561', 'Streptococcus sp. C300', 'Streptococcus sp. M143', 'Streptococcus sp. M334', 'Acidianus hospitalis W1', 'Salinisphaera hydrothermalis C41B8', 'Parabacteroides sp. D13', 'Scedosporium apiospermum', 'Geoglobus acetivorans', "Saccharomycetaceae sp. 'Ashbya aceri'", 'Metarhizium robertsii ARSEF 23', 'Dickeya poaceiphila', 'Cladophialophora immunda', 'Pseudoalteromonas lipolytica SCSIO 04301', 'Methanocella paludicola SANAE', 'Ochrobactrum rhizosphaerae SJY1', 'Psychrobacter sp. G', 'Encephalitozoon romaleae SJ-2008', 'Absidia idahoensis var. thermophila', 'Thermoanaerobacter sp. X513', 'Francisella salina', 'Candidatus Hodgkinia cicadicola Dsem', 'Pandoraea oxalativorans', 'Bacillus gaemokensis', 'Bacillus manliponensis', 'Parabacteroides gordonii MS-1 = DSM 23371', 'Pseudomonas taeanensis MS-3', 'Corynebacterium maris DSM 45190', 'Phialocephala subalpina', 'Polynucleobacter necessarius STIR1', 'Polynucleobacter asymbioticus QLW-P1DMWA-1', 'Streptomyces iranensis', 'Indibacter alkaliphilus LW1', 'Enterorhabdus mucosicola DSM 19490', 'Bacillus cytotoxicus NVH 391-98', 'Geobacillus sp. Y4.1MC1', 'Thermococcus paralvinellae', 'Rubidibacter lacunae KORDI 51-2', 'Thermoanaerobacter mathranii subsp. mathranii str. A3', 'Synechococcus sp. KORDI-49', 'Synechococcus sp. KORDI-52', 'Bacteroides sp. D20', 'Bacteroides sp. D22', 'Nematocida parisii', 'Oceanobacillus manasiensis', 'Terribacillus aidingensis', 'Myripristis murdjan', 'Pseudomonas chlororaphis', 'Rhizophagus irregularis', 'Patulibacter americanus DSM 16676', 'Kazachstania naganishii', 'Brevundimonas naejangsanensis', 'Prevotella fusca JCM 17724', 'Prevotella scopos JCM 17725', 'Alteromonas australica', 'Methylacidiphilum fumariolicum SolV', 'Streptomyces sp. SPB78', 'Streptomyces sp. AA4', 'Ignavibacterium album JCM 16511', 'Roseivivax isoporae LMG 25204', 'Piliocolobus tephrosceles', 'Pantoea sp. At-9b', 'Pantoea sp. Sc1', 'Mesorhizobium opportunistum WSM2075', 'Allofrancisella guangzhouensis', 'Rhodopirellula sp. SWK7', 'Prevotella aurantiaca JCM 15754', 'Desulfovibrio sp. U5L', 'Brenneria sp. EniD312', 'Corynebacterium pyruviciproducens ATCC BAA-1742', 'Fibroporia radiculosa', 'Meiothermus rufus DSM 22234', 'Neisseria wadsworthii 9715', 'Neisseria shayeganii 871', 'Dinoponera quadriceps', 'Asaia platycodi SF2.1', 'Harpegnathos saltator', 'Arenibacter algicola', 'Polycyclovorans algicola TG408', 'Methylocystis sp. ATCC 49242', 'Blattabacterium sp. (Blattella germanica) str. Bge', 'Bacteroides clarus YIT 12056', 'Bacteroides fluxus YIT 12057', 'Bacteroides oleiciplenus YIT 12058', 'Alistipes indistinctus YIT 12060', 'Odoribacter laneus YIT 12061', 'Slackia piriformis YIT 12062', 'Collinsella tanakaei YIT 12063', 'Succinatimonas hippei YIT 12066', 'Phascolarctobacterium succinatutens YIT 12067', 'Sphingobium sp. SYK-6', 'Sphingomonas sp. Mn802worker', 'Tomitella biformata AHU 1821', 'Thiorhodovibrio sp. 970', 'Saccharomonospora marina XMU15', 'Acinetobacter rudis CIP 110305', 'Thalassobium sp. R2A62', 'Prevotella saccharolytica F0055', 'Bifidobacterium bohemicum DSM 22767', 'Bifidobacterium actinocoloniiforme DSM 22766', 'Pyramidobacter piscolens W5455', 'Acidobacteriaceae bacterium KBS 146', 'Hoyosella subflava DQS3-9A1', 'Lactobacillus florum 2F', 'Burkholderia sp. CCGE1001', 'Burkholderia sp. CCGE1003', 'Clostridium sp. DL-VIII', 'Neisseria sp. oral taxon 014 str. F0314', 'Tatumella morbirosei', 'Silicibacter sp. TrichCH4B', 'Methanocaldococcus sp. FS406-22', 'Streptomyces sp. e14', 'Enterocytozoon hepatopenaei', 'Plasmodium gaboni', 'Methylobacterium sp. MB200', 'Micromonospora sp. L5', 'Cesiribacter andamanensis AMV16', 'Clostridium sp. ATCC BAA-442', 'Actinomyces sp. oral taxon 848 str. F0332', 'Acetomicrobium hydrogeniformans ATCC BAA-1850', 'Anaerostipes hadrus DSM 3319', 'Actinoplanes sp. N902-109', 'Sulfuricella denitrificans skB26', 'Fibrella aestuarina BUZ 2', 'Aurantimonas manganoxydans SI85-9A1', 'Kosmotoga olearia TBF 19.5.1', 'Actinomyces sp. oral taxon 180 str. F0310', 'Fretibacterium fastidiosum', 'Oribacterium sp. oral taxon 078 str. F0262', 'Bacteroidetes oral taxon 274 str. F0058', 'Peptoniphilus sp. oral taxon 386 str. F0131', 'Paenibacillus sp. oral taxon 786 str. D14', 'Prevotella sp. oral taxon 299 str. F0039', 'Prevotella sp. oral taxon 317 str. F0108', 'Actinomyces sp. oral taxon 849 str. F0330', 'Albugo laibachii', 'Prevotella sp. oral taxon 472 str. F0295', 'Pseudogymnoascus destructans 20631-21', 'Pandoraea vervacti', 'Halanaerobium hydrogeniformans', 'Ruminococcus sp. SR1/5', 'Flavobacterium beibuense F44-8', 'Candidatus Koribacter versatilis Ellin345', 'Ralstonia sp. 5_2_56FAA', 'Lachnospiraceae bacterium 1_1_57FAA', 'Lachnospiraceae bacterium 2_1_58FAA', 'Lachnospiraceae bacterium 6_1_63FAA', 'Lachnospiraceae bacterium 5_1_57FAA', 'Lachnospiraceae bacterium 3_1_57FAA_CT1', 'Lachnospiraceae bacterium 7_1_58FAA', 'Lachnospiraceae bacterium 9_1_43BFAA', 'Lachnospiraceae bacterium 5_1_63FAA', 'Pseudomonas sp. H2', 'Lachnospiraceae bacterium 1_4_56FAA', 'Lachnospiraceae bacterium 6_1_37FAA', 'Erysipelotrichaceae bacterium 21_3', 'Erysipelotrichaceae bacterium 3_1_53', 'Parabacteroides sp. D25', 'Porphyromonas sp. 31_2', 'Paraburkholderia acidipaludis NBRC 101816', 'Olsenella sp. oral taxon 809 str. F0356', 'Brachybacterium squillarum M-6-3', "Candidatus Parvarchaeum acidiphilum ARMAN-4_'5-way FS'", "Candidatus Parvarchaeum acidophilus ARMAN-5_'5-way FS'", 'Fibrisoma limi BUZ 3', 'Methylocapsa aurea', 'Leucobacter salsicius M1-8', 'Borreliella bavariensis PBi', 'Bacillus oceanisediminis 2691', 'Dietzia alimentaria 72', 'Campylobacter sp. 10_1_50', 'Clostridium sp. 7_3_54FAA', 'Coprobacillus sp. 3_3_56FAA', 'Desulfovibrio sp. 6_1_46AFAA', 'Eggerthella sp. 1_3_56FAA', 'Klebsiella sp. 4_1_44FAA', 'Neisseria sp. GT4A_CT1', 'Tannerella sp. 6_1_58FAA_CT1', 'Lachnospiraceae bacterium 3_1_46FAA', 'Lachnospiraceae bacterium 8_1_57FAA', 'Subdoligranulum sp. 4_3_54A2FAA', 'Bacillus sp. 7_6_55CFAA_CT2', 'Bacillus sp. BT1B_CT2', 'Bacillus sp. 2_A_57_CT2', 'Aquimarina macrocephali JAMB N27', 'Afipia sp. 1NLS2', 'Rhodanobacter denitrificans', 'Bacillus sp. 1NLA3E', 'Raphidiopsis brookii D9', 'Thelohanellus kitauei', 'Geminocystis herdmanii PCC 6308', 'Paenibacillus pini JCM 16418', 'Candidatus Profftella armatura', 'Microvirga aerilata', 'Candidatus Uzinura diaspidicola str. ASNER', 'Candidatus Methylomirabilis oxyfera', 'Leptotrichia sp. oral taxon 225 str. F0581', 'Alloprevotella rava F0323', 'Propionibacterium sp. oral taxon 192 str. F0372', 'Selenomonas artemidis F0399', 'Veillonella sp. oral taxon 158 str. F0412', 'Veillonella sp. oral taxon 780 str. F0422', 'Enterorhabdus caecimuris B7', 'Bacteroides sartorii dnLKV3', 'Microbacterium yannicii PS01', 'Cardinium endosymbiont cBtQ1 of Bemisia tabaci', 'Aciduliprofundum sp. MAR08-339', 'Candidatus Babela massiliensis', 'Bacteroides faecis MAJ27', 'Vibrio sp. RC586', 'Lachancea nothofagi', 'Fervidicoccus fontis Kam940', 'Sphingomonas sp. PR090111-T3T-6A', 'Pseudomonas sp. S9', 'Lichtheimia ramosa', 'Oribacterium sp. NK2B42', 'Colletotrichum fructicola Nara gc5', 'Rhizobium vignae', 'Geobacillus sp. C56-T3', 'Fonticula alba', 'Caldisericum exile AZM16c01', 'Vibrio atlanticus LGP32', 'Enterobacteriaceae bacterium strain FGI 57', 'Halogranum salarium B-1', 'Bilophila sp. 4_1_30', "Marssonina brunnea f. sp. 'multigermtubi' MB_m1", 'Virgibacillus alimentarius', 'Megasphaera genomosp. type_1 str. 28L', 'Vibrio caribbeanicus ATCC BAA-2122', 'Vibrio sp. N418', 'Novosphingobium sp. PP1Y', 'Saccharomyces arboricola H-6', 'Capnocytophaga sp. oral taxon 329 str. F0087', 'Actinomyces sp. oral taxon 171 str. F0337', 'Colletotrichum chlorophyti', 'Colletotrichum tofieldiae', 'Bradyrhizobiaceae bacterium SG-6C', 'Frankia sp. QA3', 'Actinomyces sp. oral taxon 178 str. F0338', 'Capnocytophaga sp. oral taxon 338 str. F0234', 'Colletotrichum fioriniae', 'Streptomyces sp. GXT6', 'Actinomyces sp. oral taxon 170 str. F0386', 'Actinomyces sp. oral taxon 172 str. F0311', 'Actinomyces sp. oral taxon 175 str. F0384', 'Actinomyces sp. oral taxon 181 str. F0379', 'Actinomyces sp. oral taxon 448 str. F0400', 'Aggregatibacter sp. oral taxon 458 str. W10330', 'Atopobium sp. oral taxon 199 str. F0494', 'Atopobium sp. oral taxon 810 str. F0209', 'Capnocytophaga sp. oral taxon 324 str. F0483', 'Capnocytophaga sp. oral taxon 326 str. F0382', 'Capnocytophaga sp. oral taxon 332 str. F0381', 'Capnocytophaga sp. oral taxon 336 str. F0502', 'Capnocytophaga sp. oral taxon 380 str. F0488', 'Fusobacterium sp. oral taxon 370 str. F0437', 'Leptotrichia sp. oral taxon 215 str. W9775', 'Microbacterium sp. oral taxon 186 str. F0373', 'Neisseria sp. oral taxon 020 str. F0370', 'Oribacterium sp. oral taxon 108 str. F0425', 'Peptoniphilus sp. oral taxon 375 str. F0436', 'Porphyromonas sp. oral taxon 278 str. W7784', 'Prevotella sp. oral taxon 306 str. F0472', 'Prevotella sp. oral taxon 473 str. F0040', 'Selenomonas sp. oral taxon 137 str. F0430', 'Selenomonas sp. oral taxon 138 str. F0429', 'Selenomonas sp. oral taxon 149 str. 67H29BP', 'Streptococcus sp. oral taxon 056 str. F0418', 'Streptococcus sp. oral taxon 058 str. F0407', 'Streptococcus sp. oral taxon 071 str. 73H25AP', 'Actinobaculum sp. oral taxon 183 str. F0552', 'Lachnospiraceae bacterium oral taxon 082 str. F0431', 'Lachnospiraceae oral taxon 107 str. F0167', 'Parvimonas sp. oral taxon 393 str. F0440', 'Candidatus Atelocyanobacterium thalassa isolate SIO64986', 'Alteromonas naphthalenivorans', 'Ensifer sojae CCBAU 05684', 'Caldicellulosiruptor obsidiansis OB47', 'Hyphopichia burtonii NRRL Y-1933', 'Hyphomicrobium sp. MC1', 'Plasmodium sp. DRC-Itaito', 'Nitratireductor indicus C115', 'Acidovorax ebreus TPSY', 'Vibrio genomosp. F10 str. ZF-129', 'Anncaliia algerae PRA109', 'Leptothrix ochracea L12', 'Rahnella sp. Y9602', 'Delftia sp. Cs1-4', 'Melanaphis sacchari', 'Collinsella sp. 4_8_47FAA', 'Lachnospiraceae bacterium 2_1_46FAA', 'Sphingobacterium sp. 21', 'Methylocystis sp. SB2', 'Ahrensia sp. R2A130', 'Roseibium sp. TrichSKD4', 'Sphingomonas sp. MM-1', 'Olleya sp. VCSM12', 'Mobilicoccus pelagius NBRC 104925', 'Aspergillus fumigatus Af293', 'Oceanobacillus kimchii X50', 'Azoarcus sp. KH32C', 'Pseudogulbenkiania sp. NH8B', 'Thioalkalivibrio sp. ALSr1', 'Sulfuritalea hydrogenivorans sk43H', 'Klebsiella sp. MS 92-3', 'Coprococcus sp. ART55/1', 'Halobacterium sp. DL1', 'Escherichia sp. TW09308', 'Winogradskyella sp. PG-2', 'Photobacterium aphoticum', 'Methylophaga nitratireducenticrescens', 'Methylophaga frappieri', 'Clostridium sp. BNL1100', 'Bacillus sp. WP8', 'Acinetobacter indicus CIP 110367', 'Burkholderia insecticola', 'Burkholderia sp. RPE67', 'Sporosarcina newyorkensis 2681', 'Massilia consociata', 'Bifidobacterium callitrichos DSM 23973', 'Bifidobacterium stellenboschense', 'Bifidobacterium biavatii DSM 23969', 'Siansivirga zeaxanthinifaciens CC-SAMT-1', 'Haemophilus sp. oral taxon 851 str. F0397', 'Paraburkholderia bannensis NBRC 103871', 'Moraxella macacae 0408225', 'Pyrenochaeta sp. DS3sAY3a', 'Stagonospora sp. SRC1lsM3a', 'Vibrio jasicida MWB 21', 'Citreicella sp. 357', 'Candidatus Puniceispirillum marinum IMCC1322', 'Serratia sp. AS12', 'Serratia sp. AS13', 'Sinorhizobium sp. CCBAU 05631', 'Opitutaceae bacterium TAV5', 'Burkholderiaceae bacterium PBA', 'Nesterenkonia sp. F', 'Sugiyamaella lignohabitans', 'Peptoanaerobacter stomatis', 'Stomatobaculum longum', 'Kipferlia bialata', 'Fonsecaea nubica', 'Cryptosporidium ubiquitum', 'Trichoderma parareesei', 'Caenispirillum salinarum AK4', 'Agrobacterium sp. H13-3', 'Gemmatirosa kalamazoonesis', 'Streptomyces sp. SirexAA-E', 'Thermincola potens JR', 'Burkholderiales bacterium JOSHI_001', 'Microvirga lotononidis', 'Oscillatoriales cyanobacterium C42_A2020_001', 'Schizosaccharomyces cryophilus', 'Methanothermobacter sp. CaT2', 'Chloroflexus sp. Y-396-1', 'Methanobacterium paludis', 'Ogataea angusta', 'Terriglobus saanensis SP1PR4', 'Bacteroides stercorirosoris JCM 17103', 'Lactobacillus pasteurii DSM 23907 = CRBIP 24.76', 'Celeribacter baekdonensis B30', 'Mycolicibacter sinensis', 'Peptoniphilus sp. 1-1', 'Methyloferula stellata AR4', 'Ruminococcus sp. NK3A76', 'Clostridiales bacterium NK3B98', 'Erysipelotrichaceae bacterium NK3D112', 'Lachnospiraceae bacterium NK4A136', 'Lachnospiraceae bacterium NK4A144', 'Lachnospiraceae bacterium NK4A179', 'Methanobacterium lacus', 'Chryseobacterium sp. StRB126', 'Pseudodesulfovibrio piezophilus C1TLV30', 'Cutaneotrichosporon oleaginosum', 'Plasmodium sp. gorilla clade G2', 'Fulvivirga imtechensis AK7', 'Methanoregula formicica SMSP', 'Schleiferia thermophila str. Yellowstone', 'Candidatus Zinderia insecticola CARI', 'Mageeibacillus indolicus UPII9-5', 'Fukomys damarensis', 'Desulfosporosinus acidiphilus SJ4', 'Methylovorus sp. MP688', 'Candidatus Nanosalina sp. J07AB43', 'Candidatus Nanosalinarum sp. J07AB56', 'Plautia stali symbiont', 'Nonlabens ulvanivorans', 'Phytopythium vexans DAOM BR484', 'Clostridium sp. HGF2', 'Alistipes sp. HGB5', 'Fusarium sp. FOSC 3-a', 'Actinokineospora spheciospongiae', 'SAR116 cluster alpha proteobacterium HIMB100', 'Pseudovibrio sp. FO-BEG1', 'Caldanaerobacter subterraneus subsp. tengcongensis MB4', 'Mycolicibacterium iranicum UM_TJL', 'Desulfosporosinus sp. OT', 'Knoellia flava TL1', 'Kangiella geojedonensis', 'Rhynchosporium commune', 'Rhynchosporium agropyri', 'Asinibacterium sp. OR53', 'Balearica regulorum', 'Synechocystis sp. PCC 7509', 'Bartonella florencae', 'Pseudomonas brassicacearum', 'Nonlabens marinus S1-08', 'Serratia sp. M24T3', 'Desulfosarcina sp. BuS5', 'Aminobacter sp. J41', 'Bacillus sp. J33', 'Bacillus sp. J37', 'Chelativorans sp. J32', 'Paenibacillus sp. J14', 'Paracoccus sp. J39', 'Luteimonas sp. J29', 'Nocardioides sp. J54', 'Rhizopus delemar', 'Mogibacterium sp. CM50', 'Desulfurispirillum indicum S5', 'Marinomonas posidonica IVIA-Po-181', 'Actinomyces sp. ICM47', 'Atopobium sp. BS2', 'Selenomonas sp. FOBRC6', 'Selenomonas sp. FOBRC9', 'Shuttleworthia sp. MSX8B', 'Streptococcus sp. CM6', 'Veillonella sp. AS16', 'Lachnoanaerobaculum sp. OBRC5-5', 'Lachnoanaerobaculum sp. MSX33', 'Casaltella massiliensis', 'Fenollaria massiliensis', 'Levyella massiliensis', 'Anaerococcus provencensis', 'Bacteroidetes bacterium SCGC AAA027-N21', 'Granulicella mallensis MP5ACTX8', 'Granulicella tundricola MP5ACTX9', 'Desulfovibrio sp. X2', 'Burkholderia sp. WSM2230', 'Hippea jasoniae', 'Hippea sp. KM1', 'Arcobacter sp. L', 'Gordonia neofelifaecis NRRL B-59395', 'Diplocarpon rosae', 'Salpingoeca rosetta', 'Arenimonas metalli CF5-1', 'Paraburkholderia dilworthii', 'Fusarium proliferatum', 'Palaeococcus pacificus DY20341', 'Bacillus sp. 17376', 'Fonsecaea multimorphosa CBS 102226', 'Leuconostoc sp. C2', 'Deinococcus wulumuqiensis R12', 'Aquimarina agarivorans', 'Morus notabilis', 'Ruegeria conchae', 'Lacinutrix sp. 5H-3-7-4', 'Glaciecola sp. 4H-3-7+YE-5', 'Dokdonia sp. 4H-3-7-5', 'Bifidobacterium reuteri DSM 23975', 'Heterobasidion irregulare', 'Mycoplasma parvum str. Indiana', 'Staphylococcus argenteus M21126', 'Vulcanisaeta moutnovskia 768-28', 'Ruegeria halocynthiae', 'Gillisia sp. CAL575', 'Staphylococcus agnetis', 'Lebetimonas sp. JS170', 'Polymorphum gilvum SL003B-26A1', 'Vibrio sp. HENC-03', 'Erosia sp. biolep03', 'Candidatus Kinetoplastibacterium desouzaii TCC079E', 'Candidatus Kinetoplastibacterium galatii TCC219', 'Candidatus Kinetoplastibacterium oncopeltii TCC290E', 'Desmospora sp. 8437', 'Porphyromonas sp. KLE 1280', 'Streptomyces himastatinicus ATCC 53653', 'Halomonas sp. TD01', 'Methylophaga lonarensis MPL', 'Selenomonas sp. F0473', 'Streptococcus sp. F0441', 'Streptococcus sp. F0442', 'Sedimentitalea nanhaiensis DSM 24252', 'Megasphaera sp. UPII 135-E', 'Cryobacterium roopkundense', 'Daldinia sp. EC12', 'Hypoxylon sp. CI-4A', 'Psychrobacter sp. 1501(2011)', 'Leisingera sp. ANG1', 'Candidatus Pelagibacter sp. IMCC9063', 'Verrucosispora maris AB-18-032', 'Fimbriimonas ginsengisoli Gsoil 348', 'Ogataea parapolymorpha DL-1', 'Metallosphaera cuprina Ar-4', 'Listeria weihenstephanensis FSL R9-0317', 'Defluviitoga tunisiensis', 'Candidatus Nitrosarchaeum limnium SFB1', 'Sphingomonas sp. S17', 'Pusillimonas sp. T7-7', 'Pyrococcus yayanosii CH1', 'Candidatus Tremblaya phenacola PAVE', 'Exophiala sideris', 'Nannospalax galili', 'Endozoicomonas montiporae', 'Pseudomonas sp. StFLB209', 'Acinetobacter sp. P8-3-8', 'Sphingomonas sp. KC8', 'Caloramator sp. ALD01', 'Campylobacter volucris LMG 24379', 'Corynebacterium nuruki S6-4', 'Bacillus timonensis', 'Brevibacterium senegalense', 'Kurthia sp. Dielmo', 'Kurthia massiliensis', 'Kurthia senegalensis', 'Exophiala aquamarina CBS 119918', 'Marinobacter adhaerens HP15', 'Thioalkalivibrio sulfidiphilus HL-EbGr7', 'Nitrososphaera viennensis EN76', 'Paenibacillus sp. HW567', 'Legionella massiliensis', 'Deferrisoma camini S3R1', 'Dehalobacter sp. FTH1', 'Idiomarina sp. A28L', 'Bradyrhizobium sp. WSM2793', 'Bradyrhizobium sp. WSM3983', 'Mesorhizobium sp. WSM3224', 'Mesorhizobium sp. WSM3626', 'Bradyrhizobium sp. ARR65', 'Drosophila rhopaloa', 'Ensifer sp. WSM1721', 'Candidatus Arthromitus sp. SFB-rat-Yit', 'Wickerhamomyces ciferrii', 'Aureobasidium subglaciale EXF-2481', 'Clostridium sp. SY8519', 'Rhizobium sp. IBUN', 'Ochrovirga pacifica', 'Thermococcus sp. 4557', 'Acidiphilium sp. PM', 'Demequina mangrovi', 'Citricoccus sp. CH26A', 'Oceaniovalibus guishaninsula JLT2003', 'Aminicenantes bacterium SCGC AAA252-A02', 'Zymoseptoria brevis', 'Zymoseptoria tritici', 'Candidatus Moranella endobia PCIT', 'Paracoccidioides lutzii', 'Anditalea andensis', 'Paenibacillus sp. Aloe-11', 'Verticillium alfalfae VaMs.102', 'Acetobacteraceae bacterium AT-5844', 'Thermoplasmatales archaeon BRNA1', 'Methylotenera versatilis 301', 'Psychrobacter sp. TB67', 'Grimontia indica', 'Nocardia sp. BMG51109', 'Ensifer sp. BR816', 'Azospirillum baldaniorum', 'Amycolatopsis halophila YIM 93223', 'Aspergillus luchuensis IFO 4308', 'Halonotius sp. J07HN4', 'Bacillus sp. NSP22.2', 'Tetrapisispora blattae', 'Caballeronia grimmiae', 'Lachancea dasiensis CBS 10888', 'Porticoccus hydrocarbonoclasticus MCTG13d', 'Armillaria solidipes', 'Pantoea rwandensis', 'Thiolapillus brandeum', 'Acetobacter okinawensis JCM 25146', 'Staphylococcus sp. HGB0015', 'Paenisporosarcina sp. HGH0030', 'Streptomyces sp. HGB0020', 'Parabacteroides sp. HGS0025', 'Bacteroides sp. HPS0048', 'Coprococcus sp. HPP0074', 'Coprococcus sp. HPP0048', 'Serinicoccus profundi MCCC 1A05965', 'Haemophilus sputorum CCUG 13788', 'Paenibacillus sp. HGH0039', 'Corynebacterium sp. HFH0082', 'Rhizobium mesoamericanum STM3625', 'Leucobacter chromiiresistens JG 31', 'Citrobacter sp. S-77', 'Saccharomyces eubayanus', 'Candidatus Aquiluna sp. IMCC13023', 'Hepatospora eriocheir', 'Enterospora canceri', 'Aquimarina agarilytica ZC1', 'Bartonella sp. DB5-6', 'Streptococcus sp. SK140', 'Streptococcus sp. SK643', 'Methylobacterium sp. GXF4', 'Arthrobacter sp. PAO19', 'Burkholderia sp. YI23', 'Coprobacter fastidiosus NSB1', 'Limnohabitans sp. Rim28', 'Limnohabitans sp. Rim47', 'Arthrobacter sp. MA-N2', 'Paracoccus sp. N5', 'Methylopila sp. M107', 'Methylobacterium sp. 10', 'Methylobacterium sp. 77', 'Methylophilaceae bacterium 11', 'Pyrobaculum ferrireducens', 'Actinomyces sp. ICM39', 'Clostridium sp. MSTE9', 'Rickettsia philipii str. 364D', 'Paenirhodobacter enshiensis', 'Penicillium rubens', 'Thermus sp. CCB_US3_UF1', 'Metallosphaera yellowstonensis MK1', 'Atopobium sp. BV3Ac4', 'Propionimicrobium sp. BV2F7', 'Peptoniphilus sp. BV3C26', 'Coriobacteriaceae bacterium BV3Ac1', 'Megasphaera sp. BV3C16-1', 'Psychrobacter sp. PAMC 21119', 'Sphingomonas sp. PAMC 26605', 'Sphingomonas sp. PAMC 26617', 'Methylophilus sp. 5', 'Arthrobacter sp. 31Y', 'Hoeflea sp. 108', 'Vibrio sp. EJY3', 'Elizabethkingia anophelis NUHP1', 'Brevibacillus massiliensis', 'Actinomyces sp. ph3', 'Halomonas sp. GFAJ-1', 'Arthrobacter sp. Rue61a', 'Rhizobium grahamii CCGE 502', 'Sphingopyxis sp. LC363', 'Methylopila sp. 73B', 'Mycobacterium sp. 141', 'Actinomadura flavalba DSM 45200', 'Corynebacterium doosanense CAU 212 = DSM 45436', 'Gordonia kroppenstedtii DSM 45133', 'Fodinicurvata fenggangensis DSM 21160', 'Fodinicurvata sediminis DSM 21159', 'Halomonas zhanjiangensis DSM 21076', 'Hirschia maritima DSM 19733', 'Pedobacter oryzae DSM 19973', 'Ponticaulis koreensis DSM 19734', 'Rubellimicrobium mesophilum DSM 19309', 'Thiomicrorhabdus sp. Kp2', 'Gonapodya prolifera JEL478', 'SAR86 cluster bacterium SAR86A', 'SAR86 cluster bacterium SAR86B', 'Magnetococcus marinus MC-1', 'Treponema sp. JC4', 'Pseudomonas sp. P179', 'Limimaricola cinnabarinus LL-001', 'Bosea sp. 117', 'Bradyrhizobium sp. DOA9', 'Paenibacillus beijingensis', 'Bacillus sp. JS', 'Paraglaciecola arctica BSs20135', 'Weissella oryzae SG25', 'Marine Group I thaumarchaeote SCGC AB-629-I23', 'Nitrospina sp. AB-629-B18', 'Dehalobacter sp. CF', 'Sphaerochaeta globosa str. Buddy', 'Sphaerochaeta pleomorpha str. Grapes', 'Flavobacterium sp. 83', 'Methylobacterium sp. 88A', 'Xanthobacter sp. 126', 'Arthrobacter sp. 35W', 'Bacillus sp. 37MA', 'Rhizobium sp. CCGE 510', 'Melioribacter roseus P3M-2', 'Alkalihalobacillus ligniniphilus', 'Cellvibrio sp. BR', 'Klebsiella michiganensis E718', 'Nocardiopsis sp. CNT312', 'Streptomyces sp. CNH099', 'Saccharomonospora sp. CNQ490', 'Xanthomarina gelatinilytica', 'Endozoicomonas numazuensis', 'Clostridium arbusti SL206', 'Mycobacterium paraintracellulare', 'Lactobacillus curieae', 'Pseudomassariella vexata', 'Homolaphlyctis polyrhiza', 'Novosphingobium sp. AP12', 'Sphingobium sp. AP49', 'Rhizobium sp. CF080', 'Rhizobium sp. CF122', 'Flavobacterium sp. CF136', 'Herbaspirillum sp. CF444', 'Pseudomonas sp. GM21', 'Herbaspirillum sp. YR522', 'Phyllobacterium sp. YR531', 'Tritrichomonas foetus', 'Acinetobacter sp. CIP 101934', 'Acinetobacter sp. CIP 101966', 'Acinetobacter sp. CIP 102082', 'Acinetobacter sp. CIP 102129', 'Acinetobacter sp. CIP 102136', 'Acinetobacter sp. CIP 102143', 'Acinetobacter sp. CIP 102159', 'Acinetobacter sp. CIP 102529', 'Acinetobacter sp. CIP 102637', 'Acinetobacter sp. CIP 51.11', 'Acinetobacter sp. CIP 53.82', 'Acinetobacter sp. CIP 56.2', 'Acinetobacter sp. CIP 64.7', 'Acinetobacter sp. CIP A162', 'Lysinibacillus varians', 'Dehalobacter sp. DCA', 'Ornithinibacillus scapharcae TW25', 'Achromobacter arsenitoxydans SY8', 'Acinetobacter oleivorans DR1', 'Geminisphaera colitermitum TAV2', 'Pseudomonas furukawaii', 'Arthrobacter sp. 9MFCol3.1', 'Leifsonia sp. 109', 'Tsukamurella sp. 1534', 'Arthrobacter sp. 161MFSha2.1', 'Arthrobacter sp. 162MFSha1.1', 'Microbacterium sp. 292MF', 'Nematocida sp. 1 ERTm2', 'Streptomyces sp. LaPpAH-108', 'Streptomyces sp. MspMP-M5', 'Moorea producens 3L', 'Streptococcus sp. I-G2', 'Streptococcus sp. I-P16', 'Streptomyces sp. HmicA12', 'Tumebacillus flagellatus', 'Streptomyces sp. LaPpAH-95', 'Streptomyces sp. Amel2xE9', 'Streptomyces sp. ATexAB-D23', 'Streptomyces sp. BoleA5', 'Streptomyces sp. PsTaAH-124', 'Streptomyces sp. FxanaC1', 'Mycobacterium sp. 155', 'Thermotoga sp. Cell2', 'Thermotoga sp. 2812B', 'Arthrobacter sp. 135MFCol5.1', 'Thioalkalivibrio sp. ALJT', 'Thioalkalivibrio sp. ALD1', 'Thioalkalivibrio sp. ALMg11', 'Thioalkalivibrio sp. ALE31', 'Thiomonas sp. FB-Cd', 'Prevotella sp. 10(H)', 'Desulfurobacterium sp. TC5-1', 'Persephonella sp. IF05-L8', 'Persephonella sp. KM09-Lau-8', 'Kosakonia sacchari SP1', 'Thioalkalivibrio sp. ALJ7', 'Thioalkalivibrio sp. ALJ11', 'Thioalkalivibrio sp. ALJ16', "Leptospirillum sp. Group II 'C75'", 'Ustilaginoidea virens', 'Bordetella sp. FB-8', 'Nocardia sp. BMG111209', 'Brucella sp. 63/311', 'Ruminococcus bicirculans', 'Candidatus Nasuia deltocephalinicola str. NAS-ALF', 'Euryhalocaulis caribicus', 'Streptococcus sp. ACC21', 'Ruminococcus champanellensis 18P13 = JCM 17042', 'Pseudomonas donghuensis', 'Clostridium sp. 12(A)', 'Cronobacter condimenti 1330', 'Richelia intracellularis HH01', 'Imtechella halotolerans K1', 'Methylotenera sp. 73s', 'Sulfurovum sp. AR', 'Enterobacter sp. R4-368', 'Halomonas xinjiangensis', 'Draconibacterium orientale', 'Xanthobacteraceae bacterium 501b', 'Mycobacterium sp. MOTT36Y', 'Mycobacterium sp. H4Y', 'Streptomyces pratensis ATCC 33331', 'Bacillus sp. 123MFChir2', 'Nocardia sp. CNY236', 'Streptomyces sp. CNT372', 'Streptomyces sp. CNY243', 'Brucella sp. F5/06', 'Brucella sp. 56/94', 'Citrobacter sp. KTE30', 'Escherichia sp. KTE114', 'Citrobacter sp. KTE151', 'Escherichia sp. KTE11', 'Escherichia sp. KTE31', 'Citrobacter sp. KTE32', 'Vitrella brassicaformis CCMP3155', 'Rhodobacteraceae bacterium PD-2', 'Streptomyces sp. 142MFCol3.1', 'Streptomyces sp. 351MFTsu5.1', 'Streptomyces sp. 303MFCol5.2', 'Nocardia sp. 348MFTsu5.1', 'Mycobacterium sp. 360MFTsu5.1', 'Terracoccus sp. 273MFTsu3.1', 'Oxytricha trifallax', 'Sulfurimonas hongkongensis', 'Catenovulum agarivorans DS-2', 'Fischerella sp. PCC 9431', 'Fischerella sp. PCC 9605', 'Geitlerinema sp. PCC 7407', 'Gloeocapsa sp. PCC 7428', 'Microcoleus sp. PCC 7113', 'Oscillatoria sp. PCC 10802', 'Chamaesiphon minutus PCC 6605', 'Synechococcus sp. PCC 7502', 'Leptolyngbya sp. PCC 6406', 'Colletotrichum sublineola', 'Fischerella sp. PCC 9339', 'Sphingopyxis sp. MC1', 'Herbaspirillum sp. GW103', 'Methanocella conradii HZ254', 'Methanocella arvoryzae MRE50', 'Peptoniphilus rhinitidis 1-13', 'Sulfurimonas gotlandica GD1', 'Agrobacterium fabrum str. C58', 'Alcanivorax nanhaiticus', 'Microbacterium sp. C448', 'Komagataeibacter medellinensis NBRC 3288', 'Halomonas huangheensis', 'Bacillus xiamenensis', 'Bacillus zhangzhouensis', 'Arenitalea lutea', 'Candidatus Photodesmus blepharus', 'Mycoplasma feriruminatoris', 'Pseudomonas sp. M47T1', 'Cladophialophora psammophila', 'Deinococcus swuensis', 'Escherichia sp. KTE52', 'Klebsiella sp. KTE92', 'Escherichia sp. KTE96', 'Escherichia sp. KTE159', 'Myroides injenensis M09-0166', 'Pyrococcus sp. ST04', 'Mesotoga prima MesG1.Ag.4.2', 'Thioclava dalianensis', 'Blattabacterium sp. (Blaberus giganteus)', 'Rhodovulum sp. PH10', 'Flavobacterium sp. ACAM 123', 'Burkholderia sp. lig30', 'Lactobacillus hokkaidonensis JCM 18461', 'Snodgrassella alvi', 'Gilliamella apicola', 'Corvus moneduloides', 'Clostridium sp. Maddingley MBC34-26', 'Paenibacillus sp. OSY-SE', 'Mangrovimonas yunxiaonensis', 'Arthrobacter sp. M2012083', 'Janthinobacterium sp. HH01', 'Thermogladius calderae 1633', 'Anaerovibrio sp. RM50', 'Ruminobacter sp. RM87', 'Bacteriovorax sp. Seq25_V', 'Bacteriovorax sp. BAL6_X', 'Flavobacterium sp. F52', 'Lactobacillus oryzae JCM 18671', 'Halopiger salifodinae', 'Achlya hypogyna', 'Lactobacillus hominis DSM 23910 = CRBIP 24.179', 'Geobacter daltonii FRC-32', 'Acidaminococcus sp. HPA0509', 'Actinomyces sp. HPA0247', 'Corynebacterium sp. KPL1814', 'Corynebacterium sp. KPL1817', 'Corynebacterium sp. KPL1818', 'Corynebacterium sp. KPL1821', 'Corynebacterium sp. KPL1824', 'Corynebacterium sp. KPL1855', 'Corynebacterium sp. KPL1856', 'Corynebacterium sp. KPL1857', 'Corynebacterium sp. KPL1859', 'Corynebacterium sp. KPL1860', 'Dermabacter sp. HFH0086', 'Propionibacterium sp. HGH0353', 'Propionibacterium sp. KPL1838', 'Propionibacterium sp. KPL1844', 'Propionibacterium sp. KPL1852', 'Pseudomonas sp. HPB0071', 'Streptococcus sp. HPH0090', 'Streptomyces sp. HPH0547', 'Veillonella sp. HPA0037', 'Corynebacterium sp. KPL1986', 'Corynebacterium sp. KPL1989', 'Corynebacterium sp. KPL1995', 'Corynebacterium sp. KPL1996', 'Corynebacterium sp. KPL1998', 'Corynebacterium sp. KPL2004', 'Propionibacterium sp. KPL2005', 'Propionibacterium sp. KPL2009', 'Streptomyces sp. CNR698', 'Novosphingobium sp. MBES04', 'Pseudomonas sp. Lz4W', 'Gallaecimonas xiamenensis 3-C-1', 'Idiomarina xiamenensis 10-D-4', 'Sphingobium sp. C100', 'Hyphomonas sp. L-53-1-40', 'Pseudomonas sp. UW4', 'Marinomonas profundimaris', 'Celeribacter indicus', 'Commensalibacter sp. MX01', 'Colletotrichum orchidophilum', 'Streptomyces sp. AA0539', 'Gemmata massiliana', 'Pseudoxanthomonas sp. GW2', 'Chelatococcus sp. GW1', 'Dyadobacter tibetensis Y620-1', 'Enterobacteriaceae bacterium B14', 'Acidocella sp. MX-AZ02', 'Diaporthe ampelina', 'Thermus tengchongensis YIM 77401', 'Amphibacillus jilinensis Y1', 'Clostridium bornimense', 'Acinetobacter sp. NIPH 542', 'Acinetobacter sp. NIPH 298', 'Acinetobacter sp. CIP 64.2', 'Acinetobacter sp. NIPH 1847', 'Acinetobacter sp. NIPH 3623', 'Acinetobacter sp. CIP 110321', 'Acinetobacter sp. CIP 70.18', 'Acinetobacter sp. ANC 3880', 'Acinetobacter sp. NIPH 1867', 'Acinetobacter sp. ANC 4105', 'Acinetobacter sp. NIPH 284', 'Acinetobacter sp. ANC 3862', 'Acinetobacter sp. NIPH 2168', 'Acinetobacter sp. ANC 3929', 'Acinetobacter sp. NIPH 2100', 'Acinetobacter sp. NIPH 713', 'Acinetobacter sp. NIPH 899', 'Acinetobacter sp. NIPH 236', 'Acinetobacter sp. NIPH 758', 'Acinetobacter sp. ANC 3789', 'Cupriavidus sp. BIS7', 'Roseomonas sp. B5', 'Xylona heveae TC161', 'Octadecabacter antarcticus 307', 'Streptomyces sp. GBA 94-10', 'Brucella inopinata BO1', 'Lactobacillus mellifer', 'Lactobacillus kullabergensis', 'Lactobacillus helsingborgensis', 'Lactobacillus kimbladii', 'Lactobacillus melliventris', 'Lactobacillus mellis', 'Acinetobacter nectaris CIP 110549', 'Actinomyces sp. S4-C9', 'Arcanobacterium sp. S3PF19', 'Peptostreptococcus sp. MV1', 'Methanobacterium sp. Maddingley MBC34', 'Altibacter lentus', 'Corynebacterium humireducens NBRC 106098 = DSM 45392', 'Enterobacteriaceae bacterium LSJC7', 'Mangrovibacter sp. MFB070', 'Pantoea sp. A4', 'Dickeya sp. DW 0440', 'Oscillibacter sp. KLE 1728', 'Oscillibacter sp. KLE 1745', 'Blautia sp. KLE 1732', 'Clostridium sp. KLE 1755', 'Streptomyces rapamycinicus NRRL 5491', 'Actinomyces sp. oral taxon 877 str. F0543', 'Capnocytophaga sp. oral taxon 863 str. F0517', 'Leptotrichia sp. oral taxon 879 str. F0557', 'Prevotella sp. F0091', 'Paenibacillus sp. FSL H7-689', 'Paenibacillus sp. FSL R7-277', 'Leptolyngbya sp. KIOST-1', 'Sphingobacterium deserti', 'Flavobacterium sp. WG21', 'Cupriavidus sp. GA3-3', 'Alkalibacterium sp. AK22', 'Candidatus Nitrosopumilus sediminis', 'Salimicrobium jeotgali', 'Bradyrhizobium sp. DFCI-1', 'Flaviramulus ichthyoenteri Th78', 'Lachancea sp. CBS 6924', 'Lachancea mirantina', 'Paenisporosarcina sp. TG-14', 'Nitratireductor pacificus pht-3B', 'Thermotoga sp. Mc24', 'Lactobacillus shenzhenensis LY-73', 'Clohesyomyces aquaticus', 'Desulfuromonas sp. TF', 'Corynebacterium ihumii', 'Megasphaera massiliensis', 'Nesterenkonia massiliensis', 'Nosocomiicoccus massiliensis', 'Enorma timonensis', 'Desulfobacula sp. TS', 'Clostridiales bacterium VE202-13', 'Clostridiales bacterium VE202-18', 'Clostridiales bacterium VE202-09', 'Clostridiales bacterium VE202-08', 'Clostridiales bacterium VE202-14', 'Clostridiales bacterium VE202-21', 'Marinobacterium sp. AK27', 'Geobacillus sp. GHH01', 'Chryseobacterium sp. JM1', 'Chryseobacterium sp. FH1', 'Staphylococcus sp. E463', 'Pacificimonas flava', 'Gayadomonas joobiniege G7', 'Ralstonia sp. AU12-08', 'Eubacterium sp. 14-2', 'Lachnospiraceae bacterium M18-1', 'Lachnospiraceae bacterium MD335', 'Firmicutes bacterium M10-2', 'Oscillibacter sp. 1-3', 'Dorea sp. 5-2', 'Lachnospiraceae bacterium MD308', 'Lachnospiraceae bacterium 10-1', 'Parabacteroides sp. ASF519', 'Anaerotruncus sp. G3(2012)', 'Candidatus Pantoea carbekii', 'Haloquadratum sp. J07HQX50', 'Halonotius sp. J07HN6', 'Halorubrum sp. J07HR59', 'Sodalis praecaptivus', 'Dokdonia sp. PRO95', 'Bacillus massiliogorillae', 'Luteimonas huabeiensis HB2', 'Campylobacter iguaniorum', 'Magnetospirillum caucaseum', 'Mariniradius saccharolyticus AK6', 'Lachancea lanzarotensis', 'Borreliella chilensis', 'Nocardiopsis potens DSM 45234', 'Rhizobium sp. 2MFCol3.1', 'Halobacillus sp. BAB-2008', 'Paramicrosporidium saccamoebae', 'Arsenophonus endosymbiont str. Hangzhou of Nilaparvata lugens', 'Microbacterium sp. UCD-TDU', 'Parvularcula oceani', 'Blastomonas sp. AAP53', 'Sandarakinorhabdus sp. AAP62', 'Porphyrobacter sp. AAP82', 'Candidatus Sulfuricurvum sp. RIFRC-1', 'Imhoffiella purpurea', 'Gillisia sp. Hel_I_29', 'Maribacter sp. Hel_I_7', 'Polaribacter sp. Hel1_85', 'Polaribacter sp. Hel_I_88', 'Muricauda sp. MAR_2010_75', 'Salegentibacter sp. Hel_I_6', 'Pseudomonas sp. FGI182', "Leptospirillum sp. Group IV 'UBA BS'", 'Streptomyces sp. 769', 'Phascolarctobacterium sp. CAG:207', 'Phascolarctobacterium sp. CAG:266', 'Oscillibacter ruminantium GH1', 'Edwardsiella piscicida C07-087', 'Candidatus Endolissoclinum faulkneri L2', 'Pseudomonas sp. URMO17WK12:I8', 'Streptomyces sp. PAMC 26508', 'Nafulsella turpanensis ZLM-10', 'Lysinibacillus manganicus DSM 26584', 'Thioalkalivibrio sp. ALE6', 'Thioalkalivibrio sp. ALE19', 'Thioalkalivibrio sp. AKL19', 'Frischella perrara', 'Sediminibacterium sp. C3', 'Acidobacteriaceae bacterium KBS 83', 'Acidobacteriaceae bacterium KBS 89', 'Pantoea sp. IMH', 'Pseudomonas sp. G5(2012)', 'Peptoniphilus timonensis JC401', 'Rhodococcus sp. AW25M09', 'Acidovorax sp. MR-S7', 'Thioalkalivibrio sp. ALR17-21', 'Flavobacterium sp. KJJ', 'Pedobacter sp. R20-19', 'Megasphaera sp. NM10', 'Liberibacter crescens BT-1', 'Mycobacterium sp. VKM Ac-1817D', 'Paenibacillus antibioticophila', 'Candidatus Hepatobacter penaei', 'Acidovorax sp. JHL-9', 'Escherichia sp. KTE172', 'Hippea alviniae EP5-r', 'Synechococcus sp. KORDI-100', 'Gorillibacterium massiliense', 'Butyrivibrio sp. AE2015', 'Butyrivibrio sp. VCD2006', 'Butyrivibrio sp. AE3009', 'Butyrivibrio sp. XPD2006', 'Butyrivibrio sp. FC2001', 'Butyrivibrio sp. AE3006', 'Prevotella sp. AGR2160', 'Butyrivibrio sp. WCD3002', 'Butyrivibrio sp. VCB2006', 'Butyrivibrio sp. LC3010', 'Butyrivibrio sp. WCD2001', 'Butyrivibrio sp. XBB1001', 'Butyrivibrio sp. NC3005', 'Butyrivibrio sp. MC2013', 'Meira miltonrushii', 'Hyphomonas pacifica', 'Hyphomonas sp. CY54-11-8', 'Hyphomonas beringensis', 'Hyphomonas chukchiensis', 'Hyphomonas atlantica', 'Asticcacaulis sp. AC460', 'Asticcacaulis sp. AC402', 'Asticcacaulis sp. AC466', 'Frankia sp. Iso899', 'Tolumonas lignilytica', 'Nocardioides sp. Iso805N', 'Paenibacillus sp. A9', 'Planktomarina temperata RCA23', 'Actinomyces sp. S6-Spd3', 'Tissierellia bacterium S7-1-4', 'Prevotella sp. S7-1-8', 'Pandoraea sp. SD6-2', 'Brachyspira hampsonii 30446', 'Mesorhizobium sp. L2C084A000', 'Mesorhizobium sp. LNJC398B00', 'Prevotella sp. S7 MS 2', 'Bacillus massiliosenegalensis JC6', 'Achromobacter insuavis AXX-A', 'Arcticibacter svalbardensis MN12-7', 'Streptomyces sp. CNT318', 'Streptomyces sp. TAA040', 'Anaerococcus senegalensis JC48', 'Alistipes senegalensis JC50', 'Actinomyces timonensis DSM 23838', 'Nitrosospira lacus', 'Magnetospira sp. QH-2', 'Streptomyces sp. TAA204', 'Candidatus Methanomethylophilus alvus Mx1201', 'Dietzia sp. UCD-THP', 'Kocuria sp. UCD-OTCP', 'Leucobacter sp. UCD-THU', 'Halopiger djelfimassiliensis', 'Halopiger goleimassiliensis', 'Pseudomonas sp. ATCC 13867', 'Photobacterium gaetbulicola Gung47', 'Thermodesulfobacterium geofontis OPF15', 'Parageobacillus genomosp. 1', 'Aquimarina pacifica', 'Mesorhizobium sp. STM 4661', 'Intestinimonas butyriciproducens', 'Myxococcus hansupus', 'Afipia sp. OHSU_I-C4', 'Bradyrhizobium sp. OHSU_III', 'Psychrobacter sp. JCM 18900', 'Mesorhizobium sp. URHA0056', 'Microbacterium sp. URHA0036', 'Marmoricola sp. URHB0036', 'Mycobacterium sp. URHD0025', 'Alteromonas sp. ALT199', 'Bradyrhizobium sp. URHA0002', 'Streptomyces sp. TAA486', 'Methanocaldococcus bathoardescens', 'Caldisalinibacter kiritimatiensis', 'Cellulomonas sp. KRMCY2', 'Clostridium sp. ASBs410', 'Geovibrio sp. L21-Ace-BES', 'Microbacterium sp. KROCY2', 'Oceanicola sp. HL-35', 'Marinobacter nanhaiticus D15-8W', 'Sporosarcina sp. EUR3 2.2.2', 'Alcanivorax pacificus W11-5', 'Termitomyces sp. J132', 'Streptomyces hokutonensis', 'Desulfohalovibrio reitneri', 'Salinispira pacifica', 'Arthrobacter sp. Br18', 'Arthrobacter sp. H14', 'Thermocrinis sp. GBS', 'Aureispira sp. CCB-QB1', 'Peniophora sp. CONT', 'Perkinsela sp. CCAP 1560/4', 'Streptococcus sp. HSISM1', 'Streptococcus sp. HSISB1', 'Streptococcus sp. HSISS1', 'Streptococcus sp. HSISS2', 'Streptococcus sp. HSISS3', 'Enterococcus sp. HSIEG1', 'Blattabacterium sp. (Nauphoeta cinerea)', 'Archaeoglobus sulfaticallidus PM70-1', 'Aquimarina atlantica', 'Thioclava atlantica', 'Candidatus Mycoplasma girerdii', 'Mesorhizobium sp. NBIMC_P2-C3', 'Clostridiales bacterium oral taxon 876 str. F0540', 'Mitsuokella sp. oral taxon 131 str. W9106', 'Peptostreptococcaceae bacterium oral taxon 113 str. W5053', 'Selenomonas sp. oral taxon 892 str. F0426', 'Rhodococcus defluvii', 'Mycobacterium sp. TKK-01-0059', 'Serratia sp. FS14', 'Prolemur simus', 'Thermoactinomyces daqus', 'Enterobacter sp. MGH 1', 'Enterobacter sp. MGH 3', 'Enterobacter sp. MGH 6', 'Enterobacter sp. MGH 7', 'Enterobacter sp. MGH 10', 'Enterobacter sp. MGH 15', 'Enterobacter sp. MGH 22', 'Enterobacter sp. MGH 23', 'Enterobacter sp. MGH 24', 'Enterobacter sp. MGH 25', 'Enterobacter sp. MGH 33', 'Enterobacter sp. MGH 37', 'Enterobacter sp. MGH 38', 'Enterobacter sp. BWH 37', 'Enterobacter sp. BIDMC 26', 'Enterobacter sp. BIDMC 27', 'Enterobacter sp. BIDMC 28', 'Enterobacter sp. BIDMC 29', 'Enterobacter sp. BIDMC 30', 'Novosphingobium lindaniclasticum LE124', 'Cycloclasticus zancles 78-ME', 'Thermus caliditerrae', 'Auricularia subglabra TFB-10046 SS5', 'Sphingobium baderi LL03', 'Candidatus Saccharimonas aalborgensis', 'Salinarchaeum sp. Harcht-Bsk1', 'Bifidobacterium moukalabense DSM 27321', 'Tepidicaulis marinus', 'Spiribacter salinus M19-40', 'Spiribacter curvatus', 'Sphingobium bisphenolivorans', 'Polaribacter sp. Hel1_33_49', 'Calothrix sp. 336/3', 'Bacillus sp. UNC438CL73TsuS30', 'Luminiphilus syltensis NOR5-1B', 'Flavobacterium enshiense DK69', 'Brucella sp. 04-5288', 'Sulfitobacter geojensis', 'Sulfitobacter noctilucicola', 'Sulfitobacter noctilucae', 'Saccharibacter sp. AM169', 'Epichloe mollis', 'Winogradskyella psychrotolerans RS-3', 'Halomonas sp. A3H3', 'Bacillus sp. EB01', 'Paucisalibacillus sp. EB02', 'Bacillus ndiopicus', 'Bacillus dielmoensis', 'Anaerosalibacter massiliensis', 'Bacteroides neonati', 'Pseudoalteromonas piratica', 'Arthrobacter sp. AK-YN10', 'Cyclobacterium qasimii M12-11B', 'Synechococcus sp. UTEX 2973', 'Thioclava indica', 'Bacteriovorax sp. BSW11_IV', 'Peptoniphilus mikwangii', 'Roseovarius sp. MCTG156(2b)', 'Arcobacter sp. AF1028', 'Arcobacter lanthieri', 'Bradyrhizobium diazoefficiens USDA 110', 'Rhodococcus sp. PML026', 'Hymenobacter sp. APR13', 'Batrachochytrium salamandrivorans', 'Lutibaculum baratangense AMV1', 'Thermofilum adornatum', 'Zygosaccharomyces parabailii', 'Rhodobacteraceae bacterium HIMB11', 'Fonsecaea erecta', 'Mycobacterium sp. UM_WGJ', 'Mycobacterium sp. UM_WWY', 'Firmicutes bacterium ASF500', 'Dyella jiangningensis', 'Gemmatimonas phototrophica', 'Desulfonauticus sp. A7A', 'Sphingomonas sp. FUKUSWIS1', 'Methanobacterium sp. MB1', 'Spirosoma radiotolerans', 'Streptomyces sp. URHA0041', 'Geodermatophilaceae bacterium URHB0048', 'Mesorhizobium sp. URHC0008', 'Cellulomonas sp. URHE0023', 'Bradyrhizobium sp. URHD0069', 'Blastococcus sp. URHD0036', 'Halomonas sp. 23_GOM-1509m', 'Sulfitobacter sp. 20_GPM-1509m', 'Intrasporangiaceae bacterium URHB0013', 'Ahrensia sp. 13_GOM-1096m', 'Tenacibaculum sp. 47A_GOM-205m', 'Mycobacterium sp. URHB0044', 'Alcanivorax sp. 43B_GOM-46m', 'Solirubrobacterales bacterium URHD0059', 'Dongia sp. URHE0060', 'Geodermatophilaceae bacterium URHA0031', 'Rhodospirillales bacterium URHD0088', 'Paenibacillus darwinianus', 'Streptomycetaceae bacterium MP113-05', 'Aliihoeflea sp. 2WW', 'Brevibacterium sp. VCM10', 'Caulobacteraceae bacterium PMMR1', 'Sporosarcina sp. D27', 'Thermogemmatispora carboxidivorans', 'Thermorudis peleae', 'Acidobacterium ailaaui', 'Methyloceanibacter caenitepidi', 'Francisella sp. W12-1067', 'Lysobacter arseniciresistens ZS79', 'Hymenobacter sp. DG25B', 'Leptolyngbya sp. Heron Island J', 'Exiguobacterium chiriqhucha RW-2', 'Sphingobacterium paucimobilis HER1398', 'Methylophilus sp. OH31', 'Staphylococcus sp. M0480', 'Clostridium sp. Ade.TY', 'Pseudogymnoascus sp. VKM F-3808', 'Kalmanozyma brasiliensis', 'Prevotella sp. HUN102', 'Eubacterium sp. AB3007', 'Flavimarina sp. Hel_I_48', 'Leeuwenhoekiella sp. MAR_2009_132', 'Sediminibacter sp. Hel_I_10', 'Ruminococcaceae bacterium AE2021', 'Lachnospiraceae bacterium AC2031', 'Bifidobacterium sp. 7101', 'Bifidobacterium sp. A11', 'Candidatus Saccharibacteria bacterium RAAC3_TM7_1', 'Thermosynechococcus sp. NK55a', 'Paenibacillus sp. MAEPY2', 'Haloferula sp. BvORR071', 'Verrucomicrobium sp. BvORR034', 'Marinobacter sp. ES-1', 'Leucobacter sp. PH1c', 'Serratia sp. H1n', 'Alcanivorax sp. P2S70', 'Halomonas sp. PBN3', 'Candidatus Micropelagos thuwalensis', 'Exiguobacterium sp. MH3', 'Ophiocordyceps australis', 'Bacteroidales bacterium CF', 'Flavobacterium limnosediminis JC2902', 'Sulfitobacter pseudonitzschiae', 'Streptomyces sp. A02', 'Verrucomicrobium sp. BvORR106', 'Corynebacterium glyciniphilum AJ 3170', 'Candidatus Methanomassiliicoccus intestinalis Issoire-Mx1', 'Synechococcus sp. NKBG15041c', 'Betaproteobacteria bacterium MOLA814', 'Bacillus sp. MB2021', 'Butyrivibrio sp. FCS014', 'Butyrivibrio sp. MC2021', 'Prevotella sp. MA2016', 'Oribacterium sp. FC2011', 'Pseudobutyrivibrio sp. LB2011', 'Lachnospiraceae bacterium AC2028', 'Lachnospiraceae bacterium AC3007', 'Lachnospiraceae bacterium MA2020', 'Lachnospiraceae bacterium MC2017', 'Youngiibacter fragilis 232.1', 'Candidatus Tachikawaea gelatinosa', 'Candidatus Nitrosopelagicus brevis', 'Bacteroides sp. Ga6A2', 'Treponema sp. C6A8', 'Oribacterium sp. P6A1', 'Prevotella sp. P6B1', 'Pseudobutyrivibrio sp. MD2005', 'Ruminococcus sp. FC2018', 'Selenomonas sp. ND2010', 'Serratia sp. DD3', 'Shinella sp. DD12', 'Lachnospiraceae bacterium C6A11', 'Lachnospiraceae bacterium FE2018', 'Lachnospiraceae bacterium MD2004', 'Lachnospiraceae bacterium NC2004', 'Lachnospiraceae bacterium ND2006', 'Lachnospiraceae bacterium P6A3', 'Lachnospiraceae bacterium P6B14', 'Lachnospiraceae bacterium V9D3004', 'Lachnospiraceae bacterium YSB2008', 'Propionibacteriaceae bacterium P6A17', 'Ruminococcaceae bacterium AB4001', 'Methyloglobulus morosus KoM1', 'Rhizobiales bacterium YIM 77505', 'Gammaproteobacteria bacterium MOLA455', 'Corynebacterium jeddahense', 'Clostridium saudiense', 'Pseudomonas sp. TKP', 'Candidatus Walczuchella monophlebidarum', 'Marinobacter sp. MCTG268', 'Halomonas sp. TG39a', 'Oceanicola sp. MCTG156(1a)', 'Gloeobacter kilaueensis JS1', 'Defluviimonas sp. 20V17', 'Streptococcus sp. VT 162', 'Pseudogymnoascus sp. VKM F-3775', 'Pseudogymnoascus sp. VKM F-4246', 'Pseudogymnoascus sp. VKM F-4281 (FW-2241)', 'Pseudogymnoascus sp. VKM F-4513 (FW-928)', 'Pseudogymnoascus sp. VKM F-4514 (FW-929)', 'Pseudogymnoascus sp. VKM F-4515 (FW-2607)', 'Pseudogymnoascus sp. VKM F-4516 (FW-969)', 'Pseudogymnoascus sp. VKM F-4517 (FW-2822)', 'Pseudogymnoascus sp. VKM F-103', 'Pseudogymnoascus sp. VKM F-4518 (FW-2643)', 'Pseudogymnoascus sp. VKM F-4519 (FW-2642)', 'Pseudogymnoascus sp. VKM F-4520 (FW-2644)', 'Marinobacter similis', 'Marinobacter salarius', 'Kurthia huakuii LAM0618', 'Bacillus sp. SJS', 'Hyphomicrobium nitrativorans NL23', 'Candidatus Entotheonella factor', 'Candidatus Entotheonella gemina', 'Afipia sp. P52-10', 'Geobacillus icigianus', 'Candidatus Halobonum tyrrellensis G22', 'Mannheimia sp. USDA-ARS-USMARC-1261', 'Mucinivorans hirudinis', 'Methanosarcina sp. Kolksee', 'Methanosarcina sp. MTP4', 'Methanosarcina sp. WH1', 'Methanosarcina sp. WWM596', 'Acinetobacter bohemicus ANC 3994', 'Alcanivorax sp. 97CO-5', 'Candidatus Symbiobacter mobilis CR', 'Pseudogymnoascus sp. VKM F-3557', 'Citrobacter sp. MGH 55', 'Pseudomonas sp. BAY1663', 'Talaromyces atroroseus', 'Clostridium sp. K25', 'Aquimarina megaterium XH134', 'Candidatus Protochlamydia massiliensis', 'Candidatus Rubidus massiliensis', 'Xylella taiwanensis', 'Gynuella sunshinyii YC6258', 'Sciscionella sp. SE31', 'Hymenobacter swuensis DY53', 'Bacillus sp. Pc3', 'Campylobacter corcagiensis', 'Halobellus rufus', 'Arthrobacter sp. UNC362MFTsu5.1', 'Mycobacterium sp. UNC280MFTsu5.1', 'Caulobacter sp. UNC358MFTsu5.1', 'Clostridium sp. KNHs205', 'Microbacterium sp. UNCCL10', 'Paenibacillus sp. UNC451MF', 'Phyllobacterium sp. UNC302MFCol5.2', 'Rhodococcus sp. UNC23MFCrub1.1', 'Rhodococcus sp. UNC363MFTsu5.1', 'Sphingomonas sp. UNC305MFCol5.2', 'Thermus amyloliquefaciens', 'Bacillus sp. TS-2', 'Microbacterium sp. MRS-1', 'Microbacterium sp. Cr-K32', 'Microbacterium sp. Cr-K20', 'Pseudomonas sp. RL', 'Chryseobacterium hispalense DSM 25574', 'Microbulbifer sp. HZ11', 'Candidatus Accumulibacter sp. BA-93', 'Cellulomonas sp. HZM', 'Chlamydia avium 10DC88', 'Chlamydia gallinacea 08-1274/3', 'Halapricum salinum', 'Caballeronia jiangsuensis', 'Serpentinomonas raichei', 'Serpentinomonas mccroryi', 'Candidatus Phaeomarinobacter ectocarpi', 'Lachnospiraceae bacterium AC2029', 'Candidatus Nitrososphaera evergladensis SR1', 'Geomicrobium sp. JCM 19037', 'Geomicrobium sp. JCM 19038', 'Bacillus sp. JCM 19046', 'Paraphaeosphaeria sporulosa', 'Weeksella massiliensis', 'Haemophilus massiliensis', 'Neobacillus jeddahensis', 'Jeotgalicoccus saudimassiliensis', 'Metalysinibacillus saudimassiliensis', 'Actibacterium atlanticum', 'Pseudooceanicola atlanticus', 'Pseudoalteromonas sp. SCSIO_11900', 'Virgibacillus massiliensis', 'Oceanobacillus jeddahense', 'Brucella papionis', 'Klebsiella quasipneumoniae subsp. quasipneumoniae UCICRE 14', 'Actinosporangium sp. NRRL B-3428', 'Glycomyces sp. NRRL B-16210', 'Saccharothrix sp. NRRL B-16314', 'Streptomyces sp. NRRL F-2580', 'Streptomyces sp. NRRL F-2890', 'Streptomyces sp. NRRL F-5008', 'Streptomyces sp. NRRL F-5053', 'Streptomyces sp. NRRL F-5065', 'Streptomyces sp. NRRL F-5123', 'Streptomyces sp. NRRL F-5126', 'Streptomyces sp. NRRL F-5135', 'Streptomyces sp. NRRL F-525', 'Streptomyces sp. NRRL F-5630', 'Streptomyces sp. NRRL F-6677', 'Streptomyces sp. NRRL S-118', 'Streptomyces sp. NRRL S-149', 'Streptomyces sp. NRRL S-1777', 'Streptomyces sp. NRRL S-237', 'Streptomyces sp. NRRL S-337', 'Streptomyces sp. NRRL S-340', 'Streptomyces sp. NRRL S-37', 'Streptomyces sp. NRRL S-474', 'Streptomyces sp. NRRL S-646', 'Streptomyces sp. NRRL S-87', 'Streptomyces sp. NRRL S-920', 'Streptomyces sp. NRRL WC-3626', 'Streptomyces sp. NRRL WC-3742', 'Streptomyces sp. NRRL WC-3773', 'Micromonospora parva', 'Aeromicrobium massiliense JC14', 'Peptoniphilus grossensis ph5', 'Peptoniphilus senegalensis JC140', "Oceanobacillus massiliensis str. N'diop", 'Paenibacillus senegalensis JC66', 'Clostridium senegalense JC122', 'Cellulomonas massiliensis JC225', 'Noviherbaspirillum massiliense JC206', 'Timonella senegalensis JC301', 'Burkholderia sp. 2002721687', 'Bacillus massilioanorexius AP8', 'Bartonella senegalensis OS02', 'Holdemania massiliensis AP2', 'Thioalkalivibrio sp. HK1', 'Burkholderiales bacterium GJ-E10', 'Lacinutrix jangbogonensis', 'Rhodovulum sp. NI22', 'Kineothrix alysoides', 'Alistipes ihumii AP11', 'Candidatus Stoquefichus massiliensis AP9', 'Clostridium ihumii AP5', 'Candidatus Blastococcus massiliensis AP3', 'Streptomyces sp. Tu 6176', 'Sphingomonas sp. RIT328', 'Pseudomonas sp. RIT357', 'Prochlorococcus sp. scB241_528O2', 'Prochlorococcus sp. scB245a_520K10', 'Talaromyces cellulolyticus', 'Basilea psittacipulmonis DSM 24701', 'Falsirhodobacter sp. alg1', 'Burkholderia sp. K24', 'Enorma massiliensis phI', 'Kallipyga massiliensis ph2', 'Senegalimassilia anaerobia JC110', 'Lysinibacillus sp. BF-4', 'Mizugakiibacter sediminis', 'Deinococcus phoenicis', 'Streptomyces sp. NRRL B-24720', 'Peptostreptococcaceae bacterium VA2', 'Halomonas sp. HL-48', 'Marinobacter sp. HL-58', 'Oceanicaulis sp. HL-87', 'Porphyrobacter sp. HL-46', 'Curtobacterium sp. S6', 'Spirochaeta lutea', 'Pantoea sp. PSNIH2', 'Pantoea sp. PSNIH1', 'Psychroserpens jangbogonensis', 'Exiguobacterium sp. AB2', 'Rhodoferax saidenbachensis ED16', 'Cadophora sp. DSE1049', 'Selenomonas sp. AE3005', 'Ferriphaselus sp. R-1', 'Ghiorsea bivora', 'Mitosporidium daphniae', 'Martelella endophytica', 'Candidatus Sodalis pierantonius str. SOPE', 'Clostridium sp. HMP27', 'Desulfosporosinus sp. HMP52', 'Corynebacterium sp. ATCC 6931', 'Pseudomonas sp. Ant30-3', 'Deinococcus sp. RL', 'Trichoderma guizhouense', 'Flavobacterium gilvum', 'Flavobacterium seoulense', 'Gammaproteobacteria bacterium MFB021', 'Arthrobacter sp. PAMC 25486', 'Mesoaciditoga lauensis cd-1655R = DSM 25116', 'Pseudomonas sp. WCS374', 'Penicillium cf. griseofulvum UFMGCB 6741', 'Candidatus Evansia muelleri', 'Cyanobium sp. CACIAM 14', 'Listeriaceae bacterium FSL A5-0209', 'Prochlorococcus sp. MIT 0601', 'Prochlorococcus sp. MIT 0602', 'Prochlorococcus sp. MIT 0701', 'Bacillus rubiinfantis', 'Clostridium sp. CL-6', 'Clostridium sp. CL-2', 'Bacillus andreraoultii', 'Pseudomonas saudiphocaensis', 'Clostridium amazonitimonense', 'Candidatus Moduliflexus flocculans', 'Candidatus Vecturithrix granuli', 'Paenibacillus sp. TCA20', 'Rhizobium sp. YR295', 'Rhizobium sp. YR519', 'Chryseobacterium sp. CF284', 'Rhizobium sp. CF097', 'Rhizobium sp. CF394', 'Rhizobium sp. OK494', 'Luteibacter sp. 9143', 'Luteibacter sp. 9135', 'Massilia sp. 9096', 'Burkholderia sp. 9120', 'Campylobacter sp. RM16704', 'Paenibacillus tyrfis', 'Prochlorococcus sp. MIT 0604', 'Prochlorococcus sp. MIT 0801', 'Oribacterium parvum ACB8', 'Oribacterium asaccharolyticum ACB7', 'Alistipes inops', 'Devosia sp. LC5', 'Methylotenera sp. L2L1', 'Pseudomonas sp. AAC', 'Sphingopyxis sp. LC81', 'Bosea sp. LC85', 'Massilia sp. LC238', 'Veillonella seminalis ACS-216-V-Col6b', 'Polaromonas sp. CG9_12', 'Halomonas sp. KO116', 'Chitinivibrio alkaliphilus ACht1', 'Blochmannia endosymbiont of Polyrhachis (Hedomyrma) turneri', 'Blochmannia endosymbiont of Camponotus (Colobopsis) obliquus', 'Candidatus Schmidhempelia bombi str. Bimp', 'Thermococcus eurythermalis', 'Flavobacterium sp. Fl', 'Butyrivibrio sp. AE3004', 'Rachicladosporium antarcticum', 'Jeotgalibacillus malaysiensis', 'Candidatus Arthromitus sp. SFB-mouse-NL', 'Acinetobacter sp. HR7', 'Pseudorhizobium pelagicum', 'Candidatus Nitrosopumilus koreensis AR1', 'Bosea sp. UNC402CLCol', 'Ruminococcus sp. HUN007', 'Sphingopyxis fribergensis', 'Porphyromonas sp. COT-239 OH1446', 'Porphyromonas sp. COT-290 OH860', 'Shewanella mangrovi', 'Idiomarina atlantica', 'Vibrio sp. ER1A', 'Porphyromonadaceae bacterium COT-184 OH4590', 'Anopheles coluzzii', 'Oscillibacter sp. ER4', 'Candidatus Thermochlorobacteriaceae bacterium GBChlB', 'Chloroflexus sp. MS-G', 'Sphingobium sp. ba1', 'Ceraceosorus guamensis', 'Pseudomonas sp. ML96', 'Serratia sp. Ag1', 'Planococcus sp. PAMC 21323', 'Rickettsiales bacterium Ac37b', 'Thalassospira australica', 'Acinetobacter seifertii', 'Palleronia rufa', 'Coriobacteriaceae bacterium 68-1-3', 'Torrubiella hemipterigena', 'Achromobacter sp. RTa', 'Rhizobium sp. YS-1r', 'Devosia sp. 17-2-E-8', 'Thalassotalea sp. ND16A', 'Paenibacillus sp. FSL P4-0081', 'Paenibacillus sp. FSL R5-0345', 'Paenibacillus sp. FSL R5-0912', 'Paenibacillus sp. FSL R7-0273', 'Paenibacillus sp. FSL R7-0331', 'Paenibacillus sp. FSL H7-0357', 'Paenibacillus sp. FSL H7-0737', 'Sphingopyxis sp. MWB1', 'Sulfurospirillum sp. SCADC', 'Sulfuricurvum sp. MLSB', 'Alteromonas sp. LOR', 'Micromonospora sp. HK10', 'Aquabacterium sp. NJ1', 'Sphingobacterium sp. ML3W', 'Treponema sp. OMZ 838', 'Deinococcus sp. YIM 77859', 'Clostridium sp. KNHs214', 'Myxosarcina sp. GI1', 'Candidatus Izimaplasma sp. HR1', 'Candidatus Izimaplasma sp. HR2', 'Oleiagrimonas soli', 'Lactobacillus sp. wkB10', 'Lactobacillus sp. wkB8', 'Sphingomonas sp. 35-24ZXX', 'Hoeflea sp. BAL378', 'Francisella sp. FSC1006', 'Helicobacter sp. MIT 11-5569', 'Campylobacter sp. MIT 97-5078', 'Sphingomonas taxi', 'Sphingomonas sp. 37zxx', 'Sphingobacteriaceae bacterium DW12', 'Thermofilum uzonense', 'Listeria booriae', 'Caenorhabditis tropicalis', 'Fermentimonas caenicola', 'Rhodococcus sp. B7740', 'Shewanella sp. ECSMB14101', 'Sulfurospirillum sp. MES', 'Rugosibacter aromaticivorans', 'Bacillus sp. X1(2014)', 'Paenibacillus sp. IHBB 10380', 'Paracoccus sp. PAMC 22219', 'Phaeobacter sp. S60', 'Jaminaea rosea', 'Bacillus sp. BH072', 'Bacillus sp. YP1', 'Candidatus Methanoplasma termitum', 'Dickeya undicola', 'Nitrosopumilus adriaticus', 'Pseudomonas sp. HMSC05H02', 'Neisseria sp. HMSC06F02', 'Candidatus Methylopumilus planktonicus', 'Nitrosopumilus piranensis', 'Fusobacterium hwasookii ChDC F128', 'Myroides sp. A21', 'Agrobacterium arsenijevicii', 'Pseudomonas sp. 10B238', 'Haloarcula sp. CBA1115', 'Enterobacteriaceae bacterium ATCC 29904', 'Candidatus Nitrosotenuis cloacae', 'Halanaeroarchaeum sulfurireducens', 'Sinocyclocheilus anshuiensis', 'Candidatus Filomicrobium marinum', 'Sphingomonas hengshuiensis', 'Pseudomonas sp. MRSN12121', 'Vibrio sp. S234-5', 'Psychromicrobium lacuslunae', 'Bacillus sp. LM 4-2', 'Sulfuricella sp. T08', 'Verrucomicrobia bacterium IMCC26134', 'Chania multitudinisentens RB-25', 'Bacillus paralicheniformis ATCC 9945a', 'Metarhizium rileyi RCEF 4871', 'Metarhizium majus ARSEF 297', 'Blattabacterium cuenoti BPAA', 'Lachancea quebecensis', 'Emmonsia sp. CAC-2015a', 'Blastomyces percursus', 'Phialophora attinorum', 'Violaceomyces palustris', 'Paramormyrops kingsleyae', 'Blastomyces gilchristii SLH14081', 'Pseudomicrostroma glucosiphilum', 'Wallemia mellicola CBS 633.66', 'Baudoinia panamericana UAMH 10762', 'Leucoagaricus sp. SymC.cos', 'Pezoloma ericae', 'Neocallimastix californiae', 'Piromyces finnis', 'Anaeromyces robustus', 'Mesorhizobium erdmanii USDA 3471', 'Nematocida displodere', 'Enterobacter roggenkampii EC_38VIM1', 'Edwardsiella anguillarum ET080813', 'Gopherus evgoodei', 'Dacryopinax primogenitus', 'Cryptococcus gattii VGII LA55', 'Cryptococcus gattii VGIV IND107', 'Amphiamblys sp. WSBS2006', 'Carlito syrichta', 'Pseudocercospora fijiensis CIRAD86', 'Testicularia cyperi', 'Xanthomonas cannabis pv. phaseoli', 'Planoprotostelium fungivorum', 'Fortiea contorta PCC 7126', 'Pectobacterium parmentieri WPP163', 'Geobacillus genomosp. 3', 'Bifiguratus adelaidae', 'Emergomyces pasteurianus Ep9510', 'Dinothrombium tinctorium', 'Rachicladosporium sp. CCFEE 5018', 'Xanthomonas phaseoli pv. phaseoli', 'Cordyceps sp. RAO-2017', 'Ophiocordyceps camponoti-rufipedis', 'Ooceraea biroi', 'Malassezia vespertilionis', 'Coniella lustricola', 'Globisporangium ultimum DAOM BR144', 'Blastomyces silverae', 'Mesorhizobium japonicum MAFF 303099', 'Rutstroemia sp. NJR-2017a WRK4', 'Rutstroemia sp. NJR-2017a BVV2', 'Rutstroemia sp. NJR-2017a BBW', 'Cervus hanglu yarkandensis', 'Lactobacillus paragasseri JV-V03', 'Photorhabdus laumondii subsp. laumondii TTO1', 'Pyrrhoderma noxium', 'Hondaea fermentalgiana', 'Yamadazyma tenuis ATCC 10573', 'Hyaloscypha bicolor E', 'Hyaloscypha variabilis F', 'Nothophytophthora sp. Chile5', 'Strigops habroptila', 'Fusarium odoratissimum NRRL 54006', 'Gloeothece citriformis PCC 7424', 'Gloeothece verrucosa PCC 7822', 'Crocosphaera subtropica ATCC 51142', 'Crocosphaera chwakensis CCY0110', 'Rippkaea orientalis PCC 8802', 'Thermothielavioides terrestris NRRL 8126', 'Podospora anserina S mat+', 'Dacryopinax sp. DJM 731 SSP-1', 'Akanthomyces lecanii RCEF 1005', 'Fusarium vanettenii 77-13-4']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', consistency_score_threshold: Fraction = 0.5, filter_consistency_score: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the PhylomeDB database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

param map_to_organism

organism name or NCBI taxon ID of the target species for ortholog mapping.

type map_to_organism

str or int

param map_from_organism

organism name or NCBI taxon ID of the input genes’ source species.

type map_from_organism

str or int

param gene_id_type

the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

type gene_id_type

str or ‘auto’ (default=’auto’)

` :param consistency_score_threshold: the minimum consistency score required for an ortholog mapping to be considered valid. Consistency scores are calculated by PhylomeDB and represent the confidence of the ortholog mapping. setting consistency_score_threshold to 0 will keep all mappings. You can read more about PhylomeDB consistency score on the PhylomeDB website: orthology.phylomedb.org/help

type consistency_score_threshold

float between 0 and 1 (default=0.5)

param filter_consistency_score

if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest consistency score.

type filter_consistency_score

bool (default=True)

param non_unique_mode

How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

type non_unique_mode

‘first’, ‘last’, ‘random’, or ‘none’ (default=’first’)

param remove_unmapped_genes

if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

type remove_unmapped_genes

bool (default=False)

type inplace

bool (default=True)

param inplace

If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

return

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

number_filters(column: ColumnName, operator: Literal['greater than', 'equals', 'lesser than'], value: float, opposite: bool = False, inplace: bool = True)

Applay a number filter (greater than, equal, lesser than) on a particular column in the Filter object.

Parameters

• column (str) – name of the column to filter by

• operator (str: 'gt' / 'greater than' / '>', 'eq' / 'equals' / '=', 'lt' / 'lesser than' / '<') – the operator to filter the column by (greater than, equal or lesser than)

• value (float) – the value to filter by

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/test_deseq.csv')
>>> #keep only rows that have a value greater than 5900 in the column 'baseMean'.
>>> filt.number_filters('baseMean','gt',5900)
Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

>>> filt = filtering.Filter('tests/test_files/test_deseq.csv')
>>> #keep only rows that have a value greater than 5900 in the column 'baseMean'.
>>> filt.number_filters('baseMean','greater than',5900)
Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

>>> filt = filtering.Filter('tests/test_files/test_deseq.csv')
>>> #keep only rows that have a value greater than 5900 in the column 'baseMean'.
>>> filt.number_filters('baseMean','>',5900)
Filtered 26 features, leaving 2 of the original 28 features. Filtered inplace.

numerator

name of the numerator

print_features()

Print the feature indices in the Filter object, sorted by their current order in the FIlter object, and separated by newline.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.sort(by='cond1',ascending=False)
>>> counts.print_features()
WBGene00007075
WBGene00043988
WBGene00043990
WBGene00007079
WBGene00007076
WBGene00043989
WBGene00007063
WBGene00007077
WBGene00007078
WBGene00007071
WBGene00007064
WBGene00007066
WBGene00007074
WBGene00043987
WBGene00007067
WBGene00014997
WBGene00044022
WBGene00077503
WBGene00077504
WBGene00077502
WBGene00007069
WBGene00044951

randomization_test(ref, alpha: Fraction = 0.05, reps: PositiveInt = 10000, save_csv: bool = False, fname: Optional[str] = None, random_seed: Optional[int] = None) → DataFrame

Perform a randomization test to examine whether the fold change of a group of specific genomic features is significantly different than the fold change of a background set of genomic features.

Parameters

• ref (FoldChangeFilter) – A reference FoldChangeFilter object which contains the fold change for every reference gene. Will be used to calculate the expected score and to perform randomizations.

• alpha (float between 0 and 1) – Indicates the threshold for significance (alpha).

• reps (int larger than 0) – How many repetitions to run the randomization for. 10,000 is the default. Recommended 10,000 or higher.

• save_csv (bool, default False) – If True, will save the results to a .csv file, under the name specified in ‘fname’.

• fname (str or pathlib.Path) – The full path and name of the file to which to save the results. For example: ‘C:/dir/file’. No ‘.csv’ suffix is required. If None (default), fname will be requested in a manual prompt.

Return type

pandas DataFrame

Returns

A Dataframe with the number of given genes, the observed fold change for the given group of genes, the expected fold change for a group of genes of that size and the p value for the comparison.

Examples

>>> from rnalysis import filtering
>>> f = filtering.FoldChangeFilter('tests/test_files/fc_1.csv' , 'numerator' , 'denominator')
>>> f_background = f.filter_biotype_from_ref_table('protein_coding', ref='tests/biotype_ref_table_for_tests.csv', inplace=False) #keep only protein-coding genes as reference
Filtered 9 features, leaving 13 of the original 22 features. Filtering result saved to new object.
>>> f_test = f_background.filter_by_attribute('attribute1', ref='tests/attr_ref_table_for_examples.csv', inplace=False)
Filtered 6 features, leaving 7 of the original 13 features. Filtering result saved to new object.
>>> rand_test_res = f_test.randomization_test(f_background)
Calculating...
   group size  observed fold change  ...      pval  significant
0           7              2.806873  ...  0.360264        False

[1 rows x 5 columns]

save_csv(alt_filename: Union[None, str, Path] = None)

Saves the current filtered data to a .csv file.

Parameters

alt_filename (str, pathlib.Path, or None (default)) – If None, file name will be generated automatically according to the filtering methods used. If it’s a string, it will be used as the name of the saved file. Example input: ‘myfilename’

save_parquet(alt_filename: Union[None, str, Path] = None)

Saves the current filtered data to a .parquet file.

Parameters

alt_filename (str, pathlib.Path, or None (default)) – If None, file name will be generated automatically according to the filtering methods used. If it’s a string, it will be used as the name of the saved file. Example input: ‘myfilename’

save_table(suffix: Literal['.csv', '.tsv', '.parquet'] = '.csv', alt_filename: Union[None, str, Path] = None)

Save the current filtered data table.

Parameters

• suffix ('.csv', '.tsv', or '.parquet' (default='.csv')) – the file suffix

• alt_filename (str, pathlib.Path, or None (default)) – If None, file name will be generated automatically according to the filtering methods used. If it’s a string, it will be used as the name of the saved file. Example input: ‘myfilename’

sort(by: Union[str, List[str]], ascending: Union[bool, List[bool]] = True, na_position: str = 'last', inplace: bool = True)

Sort the rows by the values of specified column or columns.

Parameters

• by (str or list of str) – Names of the column or columns to sort by.

• ascending (bool or list of bool (default=True)) – Sort ascending vs. descending. Specify list for multiple sort orders. If this is a list of bools, it must have the same length as ‘by’.

• na_position ('first' or 'last', default 'last') – If ‘first’, puts NaNs at the beginning; if ‘last’, puts NaNs at the end.

• inplace (bool (default=True)) – If True, perform operation in-place. Otherwise, returns a sorted copy of the Filter object without modifying the original.

Returns

None if inplace=True, a sorted Filter object otherwise.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> counts.head()
                cond1  cond2  cond3  cond4
WBGene00007063    633    451    365    388
WBGene00007064     60     57     20     23
WBGene00044951      0      0      0      1
WBGene00007066     55    266     46     39
WBGene00007067     15     13      1      0
>>> counts.sort(by='cond1',ascending=True)
>>> counts.head()
                cond1  cond2  cond3  cond4
WBGene00044951      0      0      0      1
WBGene00077504      0      0      0      0
WBGene00007069      0      2      1      0
WBGene00077502      0      0      0      0
WBGene00077503      1      4      2      0

split_by_attribute(attributes: Union[str, List[str]], ref: Union[str, Path, Literal['predefined']] = 'predefined') → tuple

Splits the features in the Filter object into multiple Filter objects, each corresponding to one of the specified Attribute Reference Table attributes. Each new Filter object will contain only features that belong to its Attribute Reference Table attribute.

Parameters

• attributes (list of strings) – list of attribute names from the Attribute Reference Table to filter by.

• ref – filename/path of the reference table to be used as reference.

Return type

Tuple[filtering.Filter]

Returns

A tuple of Filter objects, each containing only features that match one Attribute Reference Table attribute; the Filter objects are returned in the same order the attributes were given in.

Examples

>>> from rnalysis import filtering
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> attribute1,attribute2 = counts.split_by_attribute(['attribute1','attribute2'],
... ref='tests/attr_ref_table_for_examples.csv')
Filtered 15 features, leaving 7 of the original 22 features. Filtering result saved to new object.
Filtered 20 features, leaving 2 of the original 22 features. Filtering result saved to new object.

split_by_percentile(percentile: Fraction) → tuple

Splits the features in the table into two non-overlapping tables: one containing features below the specified percentile, and the other containing features about the specified percentile.

Parameters

percentile (float between 0 and 1) – The percentile that all features above it will be filtered out.

Return type

Tuple[filtering.Filter, filtering.Filter]

Returns

a tuple of two Filter objects: the first contains all the features below the specified percentile, and the second contains all the features above and equal to the specified percentile.

split_fold_change_direction() → tuple

Splits the features in the FoldChangeFilter object into two non-overlapping FoldChangeFilter objects, based on the direction of their log2(fold change). The first object will contain only features with a positive log2(fold change), the second object will contain only features with a negative log2(fold change). Features with log2(fold change) = 0 will be ignored.

Return type

Tuple[filtering.FoldChangeFilter, filtering.FoldChangeFilter]

Returns

a tuple containing two FoldChangeFilter objects: the first has only features with positive log2 fold change, and the other has only features with negative log2 fold change.

Examples

>>> from rnalysis import filtering
>>> f = filtering.FoldChangeFilter('tests/test_files/fc_1.csv','numerator name','denominator name')
>>> pos_log2fc, neg_log2fc = f.split_fold_change_direction()
Filtered 10 features, leaving 12 of the original 22 features. Filtering result saved to new object.
Filtered 14 features, leaving 8 of the original 22 features. Filtering result saved to new object.

symmetric_difference(other: Union[Filter, set], return_type: Literal['set', 'str'] = 'set')

Returns a set/string of the WBGene indices that exist either in the first Filter object/set OR the second, but NOT in both (set symmetric difference).

Parameters

• other (Filter or set.) – a second Filter object/set to calculate symmetric difference with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the features that exist in exactly one Filter object. If ‘str’, returns a string of the features that exist in exactly one Filter object, delimited by a comma.

Return type

set or str

Returns

a set/string of the features that that exist t in exactly one Filter. (set symmetric difference).

Examples

>>> from rnalysis import filtering
>>> d = filtering.DESeqFilter("tests/test_files/test_deseq.csv")
>>> counts = filtering.CountFilter('tests/test_files/counted.csv')
>>> # calculate difference and return a set
>>> d.symmetric_difference(counts)
{'WBGene00000017', 'WBGene00077504', 'WBGene00000024', 'WBGene00000010', 'WBGene00000020',
'WBGene00007069', 'WBGene00007063', 'WBGene00007067', 'WBGene00007078', 'WBGene00000029', 'WBGene00000006',
'WBGene00007064', 'WBGene00000019', 'WBGene00000004', 'WBGene00007066', 'WBGene00014997', 'WBGene00000023',
'WBGene00007074', 'WBGene00000025', 'WBGene00043989', 'WBGene00043988', 'WBGene00000014', 'WBGene00000027',
'WBGene00000021', 'WBGene00044022', 'WBGene00007079', 'WBGene00000012', 'WBGene00000005', 'WBGene00077503',
'WBGene00000026', 'WBGene00000003', 'WBGene00000002', 'WBGene00077502', 'WBGene00044951', 'WBGene00007077',
'WBGene00000007', 'WBGene00000008', 'WBGene00007076', 'WBGene00000013', 'WBGene00043990', 'WBGene00043987',
'WBGene00007071', 'WBGene00000011', 'WBGene00000015', 'WBGene00000018', 'WBGene00000016', 'WBGene00000028',
'WBGene00007075', 'WBGene00000022', 'WBGene00000009'}

tail(n: PositiveInt = 5) → DataFrame

Return the last n rows of the Filter object. See pandas.DataFrame.tail documentation.

Parameters

n (positive int, default 5) – Number of rows to show.

Return type

pandas.DataFrame

Returns

returns the last n rows of the Filter object.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> d.tail()
                   baseMean  log2FoldChange  ...        pvalue          padj
WBGene00000025  2236.185837        2.477374  ...  1.910000e-81  1.460000e-78
WBGene00000026   343.648987       -4.037191  ...  2.320000e-75  1.700000e-72
WBGene00000027   175.142856        6.352044  ...  1.580000e-74  1.120000e-71
WBGene00000028   219.163200        3.913657  ...  3.420000e-72  2.320000e-69
WBGene00000029  1066.242402       -2.811281  ...  1.420000e-70  9.290000e-68

[5 rows x 6 columns]

>>> d.tail(8) # returns the last 8 rows
                   baseMean  log2FoldChange  ...        pvalue          padj
WBGene00000022   365.813048        6.101303  ...  2.740000e-97  2.400000e-94
WBGene00000023  3168.566714        3.906719  ...  1.600000e-93  1.340000e-90
WBGene00000024   221.925724        4.801676  ...  1.230000e-84  9.820000e-82
WBGene00000025  2236.185837        2.477374  ...  1.910000e-81  1.460000e-78
WBGene00000026   343.648987       -4.037191  ...  2.320000e-75  1.700000e-72
WBGene00000027   175.142856        6.352044  ...  1.580000e-74  1.120000e-71
WBGene00000028   219.163200        3.913657  ...  3.420000e-72  2.320000e-69
WBGene00000029  1066.242402       -2.811281  ...  1.420000e-70  9.290000e-68

[8 rows x 6 columns]

text_filters(column: ColumnName, operator: Literal['equals', 'contains', 'starts with', 'ends with'], value: str, opposite: bool = False, inplace: bool = True)

Applay a text filter (equals, contains, starts with, ends with) on a particular column in the Filter object.

Parameters

• column (str) – name of the column to filter by

• operator (str: 'eq' / 'equals' / '=', 'ct' / 'contains' / 'in', 'sw' / 'starts with', 'ew' / 'ends with') – the operator to filter the column by (equals, contains, starts with, ends with)

• value (number (int or float)) – the value to filter by

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new instance of the Filter object.

Examples

>>> from rnalysis import filtering
>>> filt = filtering.Filter('tests/test_files/text_filters.csv')
>>> # keep only rows that have a value that starts with 'AC3' in the column 'name'.
>>> filt.text_filters('name','sw','AC3')
Filtered 17 features, leaving 5 of the original 22 features. Filtered inplace.

transform(function: Union[Literal['Box-Cox', 'log2', 'log10', 'ln', 'Standardize'], Callable], inplace: bool = True, **function_kwargs)

Transform the values in the Filter object with the specified function.

Parameters

• function (Callable or str ('logx' for base-x log of the data + 1, 'box-cox' for Box-Cox transform of the data + 1, 'standardize' for standardization)) – The function or function name to be applied.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

• function_kwargs – Any additional keyworded arguments taken by the supplied function.

Returns

If ‘inplace’ is False, returns a new instance of the Filter object.

translate_gene_ids(translate_to: Union[str, Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']], translate_from: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', remove_unmapped_genes: bool = False, inplace: bool = True)

Translates gene names/IDs from one type to another. Mapping is done using the UniProtKB Gene ID Mapping service. You can choose to optionally drop from the table all rows that failed to be translated.

Parameters

• translate_to (str) – the gene ID type to translate gene names/IDs to. For example: UniProtKB, Ensembl, Wormbase.

• translate_from (str or 'auto' (default='auto')) – the gene ID type to translate gene names/IDs from. For example: UniProtKB, Ensembl, Wormbase. If translate_from=’auto’, RNAlysis will attempt to automatically determine the gene ID type of the features in the table.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be translated will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If inplace is False, returns a new and translated instance of the Filter object.

union(*others: Union[Filter, set], return_type: Literal['set', 'str'] = 'set')

Returns a set/string of the union of features between multiple Filter objects/sets (the features that exist in at least one of the Filter objects/sets).

Parameters

• others (Filter or set objects.) – Objects to calculate union with.

• return_type ('set' or 'str' (default='set')) – If ‘set’, returns a set of the union features. If ‘str’, returns a string of the union WBGene indices, delimited by a comma.

Return type

set or str

Returns

a set/string of the WBGene indices that exist in at least one of the Filter objects.

Examples

>>> from rnalysis import filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> counts = filtering.Filter('tests/test_files/counted.csv')
>>> # calculate union and return a set
>>> d.union(counts)
{'WBGene00000017', 'WBGene00000021', 'WBGene00044022', 'WBGene00077504', 'WBGene00000012',
'WBGene00000024', 'WBGene00007079', 'WBGene00000010', 'WBGene00000020', 'WBGene00000005', 'WBGene00007069',
'WBGene00007063', 'WBGene00007067', 'WBGene00077503', 'WBGene00007078', 'WBGene00000026', 'WBGene00000029',
'WBGene00000002', 'WBGene00000003', 'WBGene00000006', 'WBGene00007064', 'WBGene00077502', 'WBGene00044951',
'WBGene00000007', 'WBGene00000008', 'WBGene00000019', 'WBGene00007077', 'WBGene00000004', 'WBGene00007066',
'WBGene00007076', 'WBGene00000013', 'WBGene00014997', 'WBGene00000023', 'WBGene00043990', 'WBGene00007074',
'WBGene00000025', 'WBGene00000011', 'WBGene00043987', 'WBGene00007071', 'WBGene00000015', 'WBGene00000018',
'WBGene00043989', 'WBGene00043988', 'WBGene00000014', 'WBGene00000016', 'WBGene00000027', 'WBGene00000028',
'WBGene00007075', 'WBGene00000022', 'WBGene00000009'}

class rnalysis.filtering.Pipeline(filter_type: ~typing.Union[str, ~rnalysis.filtering.Filter, ~rnalysis.filtering.CountFilter, ~rnalysis.filtering.DESeqFilter, ~rnalysis.filtering.FoldChangeFilter] = <class 'rnalysis.filtering.Filter'>)

Bases: GenericPipeline

A collection of functions to be applied sequentially to Filter objects.

Attributes

functions: list

A list of the functions in the Pipeline.

params: list

A list of the parameters of the functions in the Pipeline.

filter_type: Filter object

The type of Filter objects to which the Pipeline can be applied

_apply_filter_norm_sort(func: function, filter_object: Union[Filter, CountFilter, DESeqFilter, FoldChangeFilter], args: tuple, kwargs: dict, inplace: bool, other_outputs: dict, other_cnt)

Apply a filtering/normalizing/sorting function.

Parameters

• func (function) – function to apply

• filter_object (Filter, CountFilter, DESeqFilter, or FoldChangeFilter.) – Filter object to apply function to

• args (tuple) – arguments for the function

• kwargs (dict) – keyworded arguments for the function

• inplace (bool) – if True, function will be applied inplace.

Returns

Filter object to which the function was applied.

_apply_other(func: function, filter_object: Union[Filter, CountFilter, DESeqFilter, FoldChangeFilter], args: tuple, kwargs: dict, other_outputs: dict, other_cnt: dict, recursive_call: bool = False)

Apply a non filtering/splitting/normalizing/sorting function.

Parameters

• func (function) – function to apply

• filter_object (Filter, CountFilter, DESeqFilter, or FoldChangeFilter.) – Filter object to apply function to

• args (tuple) – arguments for the function

• kwargs (dict) – keyworded arguments for the function

• other_outputs (dict) – dictionary with additional function outputs

• other_cnt (dict) – counter for how many times each function was already called

Returns

Filter object to which the function was applied.

_apply_split(func: function, filter_object: Union[Filter, CountFilter, DESeqFilter, FoldChangeFilter], args: tuple, kwargs: dict, other_outputs: dict, other_cnt: dict)

Apply a splitting function.

Parameters

• func (function) – function to apply

• filter_object (Filter, CountFilter, DESeqFilter, or FoldChangeFilter.) – Filter object to apply function to

• args (tuple) – arguments for the function

• kwargs (dict) – keyworded arguments for the function

• other_outputs (dict) – dictionary with additional function outputs

• other_cnt (dict) – counter for how many times each function was already called

Returns

Filter object to which the function was applied.

_func_signature(func: function, args: tuple, kwargs: dict)

Returns a string functions signature for the given function and arguments.

Parameters

• func (function) – the function or method to generate signature for

• args (tuple) – arguments given for the function

• kwargs (dict) – keyworded arguments given for the function

Returns

function signature string

Return type

str

static _param_string(args: tuple, kwargs: dict)

Returns a formatted string of the given arguments and keyworded arguments.

Parameters

• args (tuple) – arguments to format as string

• kwargs (dict) – keyworded arguments to format as string

Returns

a formatted string of arguments and keyworded argumentss

Return type

str

_readable_func_signature(func: function, args: tuple, kwargs: dict)

Returns a human-readable string functions signature for the given function and arguments.

Parameters

• func (function) – the function or method to generate signature for

• args (tuple) – arguments given for the function

• kwargs (dict) – keyworded arguments given for the function

Returns

function signature string

Return type

str

add_function(func: Union[function, str], *args, **kwargs)

Add a function to the pipeline. Arguments can be stated with or without the correspoding keywords. For example: Pipeline.add_function(‘sort’, ‘columnName’, ascending=False, na_position=’first’). Pipelines support virtually all functions in the filtering module, including filtering functions, normalization functions, splitting functions and plotting functions. Do not include the ‘inplace’ argument when adding functions to a pipeline; instead, include it when applying the pipeline to a Filter object using Pipeline.apply_to(). :param func: function to be added :type func: function or name of function from the filtering module :param args: unkeyworded arguments for the added function in their natural order. For example: 0.1, True :param kwargs: keyworded arguments for the added function. For example: opposite=True

Examples

>>> from rnalysis import filtering
>>> pipe = filtering.Pipeline()
>>> pipe.add_function(filtering.Filter.filter_missing_values)
Added function 'Filter.filter_missing_values()' to the pipeline.
>>> pipe.add_function('number_filters', 'col1', 'greater than', value=5, opposite=True)
Added function 'Filter.number_filters('col1', 'greater than', value=5, opposite=True)' to the pipeline.

apply_to(filter_object: Union[Filter, CountFilter, DESeqFilter, FoldChangeFilter], inplace: bool = True) → Optional[Union[Filter, Tuple[Filter, dict], Tuple[Tuple[Filter], dict], dict]]

Sequentially apply all functions in the Pipeline to a given Filter object.

Parameters

• filter_object (Filter, CountFilter, DESeqFilter, or FoldChangeFilter) – filter object to apply the Pipeline to. Type of filter_object must be identical to Pipeline.filter_type.

• inplace (bool (default=True)) – Determines whether to apply operations in-place or not.

Returns

If inplace=False, a Filter object/tuple of Filter objects will be returned. If the functions in the Pipeline return any additional outputs, they will also be returned in a dictionary. Otherwise, nothing will be returned.

Return type

Filter object, Tuple[Filter, dict], dict, or None

Examples

>>> from rnalysis import filtering
>>> # create the pipeline
>>> pipe = filtering.Pipeline('DESeqFilter')
>>> pipe.add_function(filtering.DESeqFilter.filter_missing_values)
Added function 'DESeqFilter.filter_missing_values()' to the pipeline.
>>> pipe.add_function(filtering.DESeqFilter.filter_top_n, by='padj', n=3)
Added function 'DESeqFilter.filter_top_n(by='padj', n=3)' to the pipeline.
>>> pipe.add_function('sort', by='baseMean')
Added function 'DESeqFilter.sort(by='baseMean')' to the pipeline.
>>> # load the Filter object
>>> d = filtering.DESeqFilter('tests/test_files/test_deseq_with_nan.csv')
>>> # apply the Pipeline not-inplace
>>> d_filtered = pipe.apply_to(d, inplace=False)
Filtered 3 features, leaving 25 of the original 28 features. Filtering result saved to new object.
Filtered 22 features, leaving 3 of the original 25 features. Filtering result saved to new object.
Sorted 3 features. Sorting result saved to a new object.
>>> # apply the Pipeline inplace
>>> pipe.apply_to(d)
Filtered 3 features, leaving 25 of the original 28 features. Filtered inplace.
Filtered 22 features, leaving 3 of the original 25 features. Filtered inplace.
Sorted 3 features. Sorted inplace.

export_pipeline(filename: Optional[Union[str, Path]]) → Union[None, str]

Export a Pipeline to a Pipeline YAML file or YAML-like string.

Parameters

filename (str, pathlib.Path, or None) – filename to save the Pipeline YAML to, or None to return a YAML-like string instead.

Returns

if filename is None, returns the Pipeline YAML-like string.

filter_type

type of filter objects to which the Pipeline can be applied

functions

classmethod import_pipeline(filename: Union[str, Path]) → GenericPipeline

Import a Pipeline from a Pipeline YAML file or YAML-like string.

Parameters

filename (str or pathlib.Path) – name of the YAML file containing the Pipeline, or a YAML-like string.

Returns

the imported Pipeline

Return type

Pipeline

params

remove_last_function()

Removes from the Pipeline the last function that was added to it. Removal is in-place.

Examples

>>> from rnalysis import filtering
>>> pipe = filtering.Pipeline()
>>> pipe.add_function(filtering.Filter.filter_missing_values)
Added function 'Filter.filter_missing_values()' to the pipeline.
>>> pipe.remove_last_function()
Removed function filter_missing_values with parameters [] from the pipeline.

rnalysis.enrichment module

This module can perform enrichment analyses on a given set of genomic features and visualize their intersections. These include gene ontology/tissue/phenotype enrichment, enrichment for user-defined attributes, set visualization ,etc. Results of enrichment analyses can be saved to .csv files.

class rnalysis.enrichment.FeatureSet(gene_set: Union[List[str], Set[str], Filter] = None, set_name: str = '')

Bases: set

Receives a filtered gene set and the set’s name (optional) and preforms various enrichment analyses on them.

_inplace(func, func_kwargs, inplace: bool, **update_kwargs)

Executes the user’s choice whether to filter in-place or create a new instance of the FeatureSet object.

_set_ops(others: Union[set, FeatureSet, Tuple[Union[set, FeatureSet]]], op: function) → set

Performs a given set operation on self and on another object (FeatureSet or set). :type others: FeatureSet or set :param others: Other object to perform set operation with. :type: op: Callable (set.union, set.intersection, set.difference or set.symmetric difference) :param op: The set operation to be performed. :return: A set resulting from the set operation.

add()

Add an element to a set.

This has no effect if the element is already present.

biotypes_from_gtf(gtf_path: Union[str, Path], attribute_name: Union[Literal['biotype', 'gene_biotype', 'transcript_biotype', 'gene_type', 'transcript_type'], str] = 'gene_biotype', feature_type: Literal['gene', 'transcript'] = 'gene') → DataFrame

Returns a DataFrame describing the biotypes in the table and their count. The data about feature biotypes is drawn from a GTF (Gene transfer format) file supplied by the user.

Parameters

• gtf_path (str or Path) – Path to your GTF (Gene transfer format) file. The file should match the type of gene names/IDs you use in your table, and should contain an attribute describing biotype.

• attribute_name (str (default='gene_biotype')) – name of the attribute in your GTF file that describes feature biotype.

• feature_type ('gene' or 'transcript' (default='gene')) – determined whether the features/rows in your data table describe individual genes or transcripts.

:param long_format:if True, returns a short-form DataFrame, which states the biotypes in the Filter object and their count. Otherwise, returns a long-form DataFrame, which also provides descriptive statistics of each column per biotype. :rtype: pandas.DataFrame :returns: a pandas DataFrame showing the number of values belonging to each biotype, as well as additional descriptive statistics of format==’long’.

biotypes_from_ref_table(ref: Union[str, Path, Literal['predefined']] = 'predefined')

Returns a DataFrame describing the biotypes in the gene set and their count.

Parameters

ref (str or pathlib.Path (default='predefined')) – Path of the reference file used to determine biotype. Default is the path predefined in the settings file.

Examples

>>> from rnalysis import enrichment, filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> en = enrichment.FeatureSet(d)
>>> en.biotypes(ref='tests/biotype_ref_table_for_tests.csv')
                gene
biotype
protein_coding    26
pseudogene         1
unknown            1

change_set_name(new_name: str)

Change the ‘set_name’ of a FeatureSet to a new name.

Parameters

new_name (str) – the new set name

clear()

Remove all elements from this set.

copy()

Return a shallow copy of a set.

difference(*others: Union[set, FeatureSet]) → FeatureSet

Calculates the set difference of the indices from multiple FeatureSet objects (the indices that appear in the first FeatureSet object but NOT in the other objects).

Parameters

others (FeatureSet, RankedSet or set) – The objects against which the current object will be compared.

Returns

a new FeatureSet with elements in this FeatureSet that are not in the other objects.

Return type

FeatureSet

Examples

>>> from rnalysis import enrichment
>>> en = enrichment.FeatureSet({'WBGene00000001','WBGene00000002','WBGene00000006'}, 'set name')
>>> s = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> en2 = enrichment.FeatureSet({'WBGene00000004','WBGene00000001'})
>>> en.difference(s, en2)
>>> print(en)
FeatureSet: set name
{'WBGene00000006'}

difference_update()

Remove all elements of another set from this set.

discard()

Remove an element from a set if it is a member.

Unlike set.remove(), the discard() method does not raise an exception when an element is missing from the set.

filter_biotype_from_gtf(gtf_path: Union[str, Path], biotype: Union[Literal['protein_coding', 'pseudogene', 'lincRNA', 'miRNA', 'ncRNA', 'piRNA', 'rRNA', 'snoRNA', 'snRNA', 'tRNA'], str, List[str]] = 'protein_coding', attribute_name: Union[Literal['biotype', 'gene_biotype', 'transcript_biotype', 'gene_type', 'transcript_type'], str] = 'gene_biotype', feature_type: Literal['gene', 'transcript'] = 'gene', opposite: bool = False, inplace: bool = True)

Filters out all features that do not match the indicated biotype/biotypes (for example: ‘protein_coding’, ‘ncRNA’, etc). The data about feature biotypes is drawn from a GTF (Gene transfer format) file supplied by the user.

Parameters

• gtf_path (str or Path) – Path to your GTF (Gene transfer format) file. The file should match the type of gene names/IDs you use in your table, and should contain an attribute describing biotype.

• biotype (str or list of strings) – the biotypes which will not be filtered out.

• attribute_name (str (default='gene_biotype')) – name of the attribute in your GTF file that describes feature biotype.

• feature_type ('gene' or 'transcript' (default='gene')) – determined whether the features/rows in your data table describe individual genes or transcripts.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

filter_biotype_from_ref_table(biotype: Union[Literal['protein_coding', 'pseudogene', 'lincRNA', 'miRNA', 'ncRNA', 'piRNA', 'rRNA', 'snoRNA', 'snRNA', 'tRNA'], str, List[str]] = 'protein_coding', ref: Union[str, Path, Literal['predefined']] = 'predefined', opposite: bool = False, inplace: bool = True)

Filters out all features that do not match the indicated biotype/biotypes (for example: ‘protein_coding’, ‘ncRNA’, etc). The data about feature biotypes is drawn from a Biotype Reference Table supplied by the user.

Parameters

• biotype (string or list of strings) – the biotypes which will not be filtered out.

• ref – Name of the biotype reference file used to determine biotypes. Default is the path defined by the user in the settings.yaml file.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

filter_by_attribute(attributes: Union[str, List[str]] = None, mode: Literal['union', 'intersection'] = 'union', ref: Union[str, Path, Literal['predefined']] = 'predefined', opposite: bool = False, inplace: bool = True)

Filters features according to user-defined attributes from an Attribute Reference Table. When multiple attributes are given, filtering can be done in ‘union’ mode (where features that belong to at least one attribute are not filtered out), or in ‘intersection’ mode (where only features that belong to ALL attributes are not filtered out). To learn more about user-defined attributes and Attribute Reference Tables, read the user guide.

Parameters

• attributes (string or list of strings, which are column titles in the user-defined Attribute Reference Table.) – attributes to filter by.

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

• ref (str or pathlib.Path (default='predefined')) – filename/path of the attribute reference table to be used as reference.

• opposite (bool (default=False)) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new and filtered instance of the Filter object.

filter_by_go_annotations(go_ids: Union[str, List[str]], mode: Literal['union', 'intersection'] = 'union', organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', propagate_annotations: bool = True, evidence_types: Union[Literal['any', 'experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = 'any', excluded_evidence_types: Union[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = (), databases: Union[str, Iterable[str]] = 'any', excluded_databases: Union[str, Iterable[str]] = (), qualifiers: Union[Literal['any', 'not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'any', excluded_qualifiers: Union[Literal['not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'not', opposite: bool = False, inplace: bool = True)

Filters genes according to GO annotations, keeping only genes that are annotated with a specific GO term. When multiple GO terms are given, filtering can be done in ‘union’ mode (where genes that belong to at least one GO term are not filtered out), or in ‘intersection’ mode (where only genes that belong to ALL GO terms are not filtered out).

Parameters

• go_ids (str or list of str) –

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

param organism: organism name or NCBI taxon ID for which the function will fetch GO annotations. :type organism: str or int :param gene_id_type: the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping :type gene_id_type: str or ‘auto’ (default=’auto’) :param propagate_annotations: determines the propagation method of GO annotations. ‘no’ does not propagate annotations at all; ‘classic’ propagates all annotations up to the DAG tree’s root; ‘elim’ terminates propagation at nodes which show significant enrichment; ‘weight’ performs propagation in a weighted manner based on the significance of children nodes relatively to their parents; and ‘allm’ uses a combination of all proopagation methods. To read more about the propagation methods, see Alexa et al: https://pubmed.ncbi.nlm.nih.gov/16606683/ :type propagate_annotations: ‘classic’, ‘elim’, ‘weight’, ‘all.m’, or ‘no’ (default=’elim’) :param evidence_types: only annotations with the specified evidence types will be included in the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/ :type evidence_types: str, Iterable of str, ‘experimental’, ‘phylogenetic’ ,’computational’, ‘author’, ‘curator’, ‘electronic’, or ‘any’ (default=’any’) :param excluded_evidence_types: annotations with the specified evidence types will be excluded from the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/ :type excluded_evidence_types: str, Iterable of str, ‘experimental’, ‘phylogenetic’ ,’computational’, ‘author’, ‘curator’, ‘electronic’, or None (default=None) :param databases: only annotations from the specified databases will be included in the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type databases: str, Iterable of str, or ‘any’ (default) :param excluded_databases: annotations from the specified databases will be excluded from the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type excluded_databases: str, Iterable of str, or None (default) :param qualifiers: only annotations with the speficied qualifiers will be included in the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type qualifiers: str, Iterable of str, or ‘any’ (default) :param excluded_qualifiers: annotations with the speficied qualifiers will be excluded from the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type excluded_qualifiers: str, Iterable of str, or None (default=’not’) :type opposite: bool (default=False) :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current FeatureSet object. If False, the function will return a new FeatureSet instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new, filtered instance of the FeatureSet object.

filter_by_kegg_annotations(kegg_ids: Union[str, List[str]], mode: Literal['union', 'intersection'] = 'union', organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', opposite: bool = False, inplace: bool = True)

Filters genes according to KEGG pathways, keeping only genes that belong to specific KEGG pathway. When multiple KEGG IDs are given, filtering can be done in ‘union’ mode (where genes that belong to at least one pathway are not filtered out), or in ‘intersection’ mode (where only genes that belong to ALL pathways are not filtered out).

Parameters

• kegg_ids (str or list of str) – the KEGG pathway IDs according to which the table will be filtered. An example for a legal KEGG pathway ID would be ‘path:cel04020’ for the C. elegans calcium signaling pathway.

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

param organism: organism name or NCBI taxon ID for which the function will fetch GO annotations. :type organism: str or int :param gene_id_type: the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping :type gene_id_type: str or ‘auto’ (default=’auto’) :type opposite: bool (default=False) :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current FeatureSet object. If False, the function will return a new Filter instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new, filtered instance of the FeatureSet object.

find_paralogs_ensembl(organism: Union[Literal['auto'], str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_percent_identity: bool = True)

Find paralogs within the same species using the Ensembl database.

Parameters

• organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_percent_identity (bool (default=True)) – if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest percent_identity score.

Returns

DataFrame describing all discovered paralog mappings.

find_paralogs_panther(organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto')

Find paralogs within the same species using the PantherDB database.

Parameters

• organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

Returns

DataFrame describing all discovered paralog mappings.

gene_set

set of feature names/indices

go_enrichment(organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', alpha: Fraction = 0.05, statistical_test: Literal['fisher', 'hypergeometric', 'randomization'] = 'fisher', biotype: Union[str, List[str], Literal['all']] = 'all', background_genes: Union[Set[str], Filter, FeatureSet] = None, biotype_ref_path: Union[str, Path, Literal['predefined']] = 'predefined', propagate_annotations: Literal['classic', 'elim', 'weight', 'all.m', 'no'] = 'elim', aspects: Union[Literal['any', 'biological_process', 'cellular_component', 'molecular_function'], Iterable[Literal['biological_process', 'cellular_component', 'molecular_function']]] = 'any', evidence_types: Union[Literal['any', 'experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = 'any', excluded_evidence_types: Union[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = (), databases: Union[str, Iterable[str], Literal['any']] = 'any', excluded_databases: Union[str, Iterable[str]] = (), qualifiers: Union[Literal['any', 'not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'any', excluded_qualifiers: Union[Literal['not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'not', exclude_unannotated_genes: bool = True, return_nonsignificant: bool = False, save_csv: bool = False, fname=None, return_fig: bool = False, plot_horizontal: bool = True, show_expected: bool = False, plot_style: Literal['bar', 'lollipop'] = 'bar', plot_ontology_graph: bool = True, ontology_graph_format: Literal['pdf', 'png', 'svg', 'none'] = 'none', randomization_reps: PositiveInt = 10000, random_seed: Optional[int] = None, parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False) → Union[DataFrame, Tuple[DataFrame, Figure]]

Calculates enrichment and depletion of the FeatureSet for Gene Ontology (GO) terms against a background set. The GO terms and annotations are drawn via the GO Solr search engine GOlr, using the search terms defined by the user. The background set is determined by either the input variable ‘background_genes’, or by the input variable ‘biotype’ and a Biotype Reference Table. P-values are corrected for multiple comparisons using the Benjamini–Hochberg step-up procedure (original FDR method). In plots, for the clarity of display, complete depletion (linear enrichment score = 0) appears with the smallest value in the scale.

Parameters

• organism (str or int) – organism name or NCBI taxon ID for which the function will fetch GO annotations.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the GOLR server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• alpha (float between 0 and 1 (default=0.05)) – Indicates the FDR threshold for significance.

• statistical_test ('fisher', 'hypergeometric' or 'randomization' (default='fisher')) – determines the statistical test to be used for enrichment analysis. Note that some propagation methods support only some of the available statistical tests.

• biotype (str specifying a specific biotype, list/set of strings each specifying a biotype, or 'all'. Default 'protein_coding'.) – determines the background genes by their biotype. Requires specifying a Biotype Reference Table. ‘all’ will include all genomic features in the reference table, ‘protein_coding’ will include only protein-coding genes from the reference table, etc. Cannot be specified together with ‘background_genes’.

• background_genes (set of feature indices, filtering.Filter object, or enrichment.FeatureSet object) – a set of specific feature indices to be used as background genes. Cannot be specified together with ‘biotype’.

• biotype_ref_path (str or pathlib.Path (default='predefined')) – the path of the Biotype Reference Table. Will be used to generate background set if ‘biotype’ is specified.

• propagate_annotations ('classic', 'elim', 'weight', 'all.m', or 'no' (default='elim')) – determines the propagation method of GO annotations. ‘no’ does not propagate annotations at all; ‘classic’ propagates all annotations up to the DAG tree’s root; ‘elim’ terminates propagation at nodes which show significant enrichment; ‘weight’ performs propagation in a weighted manner based on the significance of children nodes relatively to their parents; and ‘allm’ uses a combination of all proopagation methods. To read more about the propagation methods, see Alexa et al: https://pubmed.ncbi.nlm.nih.gov/16606683/

• aspects (str, Iterable of str, 'biological_process', 'molecular_function', 'cellular_component', or 'any' (default='any')) – only annotations from the specified GO aspects will be included in the analysis. Legal aspects are ‘biological_process’ (P), ‘molecular_function’ (F), and ‘cellular_component’ (C).

• evidence_types (str, Iterable of str, 'experimental', 'phylogenetic' ,'computational', 'author', 'curator', 'electronic', or 'any' (default='any')) – only annotations with the specified evidence types will be included in the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/

• excluded_evidence_types (str, Iterable of str, 'experimental', 'phylogenetic' ,'computational', 'author', 'curator', 'electronic', or None (default=None)) – annotations with the specified evidence types will be excluded from the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/

• databases – only annotations from the specified databases will be included in the analysis. For a full list of legal databases see the GO Consortium website:

http://amigo.geneontology.org/xrefs :type databases: str, Iterable of str, or ‘any’ (default) :param excluded_databases: annotations from the specified databases will be excluded from the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type excluded_databases: str, Iterable of str, or None (default) :param qualifiers: only annotations with the speficied qualifiers will be included in the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type qualifiers: str, Iterable of str, or ‘any’ (default) :param excluded_qualifiers: annotations with the speficied qualifiers will be excluded from the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type excluded_qualifiers: str, Iterable of str, or None (default=’not’) :param exclude_unannotated_genes: if True, genes that have no annotation associated with them will be excluded from the enrichment analysis. This is the recommended practice for enrichment analysis, since keeping unannotated genes in the analysis increases the chance of discovering spurious enrichment results. :type exclude_unannotated_genes: bool (deafult=True) :param return_nonsignificant: if True, the results DataFrame will include all tested GO terms - both significant and non-significant terms. If False (default), only significant GO terms will be returned. :type return_nonsignificant: bool (default=False) :type save_csv: bool, default False :param save_csv: If True, will save the results to a .csv file, under the name specified in ‘fname’. :type fname: str or pathlib.Path :param fname: The full path and name of the file to which to save the results. For example: ‘C:/dir/file’. No ‘.csv’ suffix is required. If None (default), fname will be requested in a manual prompt. :type return_fig: bool (default=False) :param return_fig: if True, returns a matplotlib Figure object in addition to the results DataFrame. :type plot_ontology_graph: bool (default=True) :param plot_ontology_graph: if True, will generate an ontology graph depicting the significant GO terms and their parent nodes. :type ontology_graph_format: ‘pdf’, ‘png’, ‘svg’, or ‘none’ (default=’none’) :param ontology_graph_format: if ontology_graph_format is not ‘none’, the ontology graph will additonally be generated in the specified file format. :type plot_horizontal: bool (default=True) :param plot_horizontal: if True, results will be plotted with a horizontal bar plot. Otherwise, results will be plotted with a vertical plot. :param show_expected: if True, the observed/expected values will be shown on the plot. :type show_expected: bool (default=False) :param plot_style: style for the plot. Either ‘bar’ for a bar plot or ‘lollipop’ for a lollipop plot in which the lollipop size indicates the size of the observed gene set. :type plot_style: ‘bar’ or ‘lollipop’ (default=’bar’) :type random_seed: non-negative integer (default=None) :type random_seed: if using a randomization test, determine the random seed used to initialize the pseudorandom generator for the randomization test. By default it is picked at random, but you can set it to a particular integer to get consistents results over multiple runs. If not using a randomization test, this parameter will not affect the analysis. :param randomization_reps: if using a randomization test, determine how many randomization repititions to run. Otherwise, this parameter will not affect the analysis. :type randomization_reps: int larger than 0 (default=10000) :type parallel_backend: Literal[PARALLEL_BACKENDS] (default=’loky’) :param parallel_backend: Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise. :rtype: pd.DataFrame (default) or Tuple[pd.DataFrame, matplotlib.figure.Figure] :return: a pandas DataFrame with GO terms as rows/index; and a matplotlib Figure, if ‘return_figure’ is set to True.

Example plot of go_enrichment(plot_ontology_graph=True)

Example plot of go_enrichment()

Example plot of go_enrichment(plot_horizontal = False)

intersection(*others: Union[set, FeatureSet]) → FeatureSet

Calculates the set intersection of the indices from multiple FeatureSet objects (the indices that exist in ALL of the FeatureSet objects).

Parameters

others (FeatureSet, RankedSet or set) – The objects against which the current object will be compared.

Returns

a new FeatureSet with elements common to this FeatureSet and all other objects.

Return type

FeatureSet

Examples

>>> from rnalysis import enrichment
>>> en = enrichment.FeatureSet({'WBGene00000001','WBGene00000002','WBGene00000006'}, 'set name')
>>> s = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> en2 = enrichment.FeatureSet({'WBGene00000004','WBGene00000001'})
>>> en.intersection(s, en2)
>>> print(en)
FeatureSet: set name
{'WBGene00000001'}

intersection_update()

Update a set with the intersection of itself and another.

isdisjoint()

Return True if two sets have a null intersection.

issubset()

Report whether another set contains this set.

issuperset()

Report whether this set contains another set.

kegg_enrichment(organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', alpha: Fraction = 0.05, statistical_test: Literal['fisher', 'hypergeometric', 'randomization'] = 'fisher', biotype: Union[str, List[str], Literal['all']] = 'all', background_genes: Union[Set[str], Filter, FeatureSet] = None, biotype_ref_path: Union[str, Path, Literal['predefined']] = 'predefined', exclude_unannotated_genes: bool = True, return_nonsignificant: bool = False, save_csv: bool = False, fname=None, return_fig: bool = False, plot_horizontal: bool = True, show_expected: bool = False, plot_style: Literal['bar', 'lollipop'] = 'bar', plot_pathway_graphs: bool = True, pathway_graphs_format: Literal['pdf', 'png', 'svg', 'none'] = 'none', randomization_reps: PositiveInt = 10000, random_seed: Optional[int] = None, parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False) → Union[DataFrame, Tuple[DataFrame, Figure]]

Calculates enrichment and depletion of the FeatureSet for Kyoto Encyclopedia of Genes and Genomes (KEGG) curated pathways against a background set. The background set is determined by either the input variable ‘background_genes’, or by the input variable ‘biotype’ and a Biotype Reference Table. P-values are corrected for multiple comparisons using the Benjamini–Hochberg step-up procedure (original FDR method). In plots, for the clarity of display, complete depletion (linear enrichment score = 0) appears with the smallest value in the scale.

Parameters

• organism (str or int) – organism name or NCBI taxon ID for which the function will fetch GO annotations.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• alpha (float between 0 and 1 (default=0.05)) – Indicates the FDR threshold for significance.

• statistical_test ('fisher', 'hypergeometric' or 'randomization' (default='fisher')) – determines the statistical test to be used for enrichment analysis. Note that some propagation methods support only some of the available statistical tests.

• biotype (str specifying a specific biotype, list/set of strings each specifying a biotype, or 'all'. Default 'protein_coding'.) – determines the background genes by their biotype. Requires specifying a Biotype Reference Table. ‘all’ will include all genomic features in the reference table, ‘protein_coding’ will include only protein-coding genes from the reference table, etc. Cannot be specified together with ‘background_genes’.

• background_genes (set of feature indices, filtering.Filter object, or enrichment.FeatureSet object) – a set of specific feature indices to be used as background genes. Cannot be specified together with ‘biotype’.

• biotype_ref_path (str or pathlib.Path (default='predefined')) – the path of the Biotype Reference Table. Will be used to generate background set if ‘biotype’ is specified.

• exclude_unannotated_genes (bool (deafult=True)) – if True, genes that have no annotation associated with them will be excluded from the enrichment analysis. This is the recommended practice for enrichment analysis, since keeping unannotated genes in the analysis increases the chance of discovering spurious enrichment results.

• return_nonsignificant (bool (default=False)) – if True, the results DataFrame will include all tested pathways - both significant and non-significant ones. If False (default), only significant pathways will be returned.

• save_csv (bool, default False) – If True, will save the results to a .csv file, under the name specified in ‘fname’.

• fname (str or pathlib.Path) – The full path and name of the file to which to save the results. For example: ‘C:/dir/file’. No ‘.csv’ suffix is required. If None (default), fname will be requested in a manual prompt.

• return_fig (bool (default=False)) – if True, returns a matplotlib Figure object in addition to the results DataFrame.

• plot_horizontal (bool (default=True)) – if True, results will be plotted with a horizontal bar plot. Otherwise, results will be plotted with a vertical plot.

• show_expected (bool (default=False)) – if True, the observed/expected values will be shown on the plot.

• plot_style ('bar' or 'lollipop' (default='bar')) – style for the plot. Either ‘bar’ for a bar plot or ‘lollipop’ for a lollipop plot in which the lollipop size indicates the size of the observed gene set.

• plot_pathway_graphs (bool (default=True)) – if True, will generate pathway graphs depicting the significant KEGG pathways.

• pathway_graphs_format ('pdf', 'png', 'svg', or None (default=None)) – if pathway_graphs_format is not ‘none’, the pathway graphs will additonally be generated in the specified file format.

• randomization_reps (int larger than 0 (default=10000)) – if using a randomization test, determine how many randomization repititions to run. Otherwise, this parameter will not affect the analysis.

• parallel_backend (Literal[PARALLEL_BACKENDS] (default='loky')) – Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise.

Return type

pd.DataFrame (default) or Tuple[pd.DataFrame, matplotlib.figure.Figure]

Returns

a pandas DataFrame with the indicated pathway names as rows/index; and a matplotlib Figure, if ‘return_figure’ is set to True.

Example plot of kegg_enrichment()

Example plot of kegg_enrichment(plot_horizontal = False)

map_orthologs_ensembl(map_to_organism: Union[str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']], map_from_organism: Union[Literal['auto'], str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_percent_identity: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the Ensembl database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_percent_identity (bool (default=True)) – if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest percent_identity score.

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_orthoinspector(map_to_organism: Union[str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']], map_from_organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the OrthoInspector database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_panther(map_to_organism: Union[str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']], map_from_organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_least_diverged: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the PantherDB database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_least_diverged (bool (default=True)) – if True (default), RNAlysis will only fetch ortholog mappings that were flagged as a ‘least diverged ortholog’ on the PantherDB database. You can read more about this flag on the PantherDB website: https://www.pantherdb.org/genes/

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_phylomedb(map_to_organism: Union[str, int, Literal['Azorhizobium caulinodans ORS 571', 'Buchnera aphidicola str. G002 (Myzus persicae)', 'Cellulomonas gilvus ATCC 13127', 'Dictyoglomus thermophilum H-6-12', 'Methylophilus methylotrophus DSM 46235 = ATCC 53528', 'Pelobacter carbinolicus DSM 2380', 'Shewanella putrefaciens CN-32', 'Myxococcus fulvus HW-1', 'Myxococcus xanthus DK 1622', 'Stigmatella aurantiaca DW4/3-1', 'Cystobacter fuscus DSM 2262', 'Chondromyces apiculatus DSM 436', 'Sorangium cellulosum So0157-2', 'Vitreoscilla stercoraria DSM 513', 'Herpetosiphon aurantiacus DSM 785', 'Simonsiella muelleri ATCC 29453', 'Hyphomonas jannaschiana VP2', 'Flectobacillus major DSM 103', 'Cyclobacterium marinum DSM 745', 'Runella slithyformis DSM 19594', 'Spirosoma linguale DSM 74', 'Rubinisphaera brasiliensis DSM 5305', 'Planctopirus limnophila DSM 3776', 'Gimesia maris DSM 8797', 'Blastopirellula marina DSM 3645', 'Pirellula staleyi DSM 6068', 'Isosphaera pallida ATCC 43644', 'Methylocystis parvus OBBP', 'Borreliella burgdorferi B31', 'Borrelia hermsii DAH', 'Borrelia parkeri SLO', 'Borrelia turicatae 91E135', 'Borrelia anserina BA2', 'Sediminispirochaeta bajacaliforniensis DSM 16054', 'Spirochaeta thermophila DSM 6192', 'Treponema denticola ATCC 35405', 'Brachyspira hyodysenteriae WA1', 'Treponema pallidum subsp. pallidum str. Nichols', 'Treponema phagedenis F0421', 'Treponema bryantii NK4A124', 'Treponema saccharophilum DSM 2985', 'Treponema succinifaciens DSM 2489', "Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'", 'Leptospira interrogans serovar Lai str. 56601', 'Leptospira borgpetersenii serovar Hardjo-bovis str. L550', 'Leptospirillum ferrooxidans C2-3', 'Leptonema illini DSM 21528', 'Novispirillum itersonii subsp. itersonii ATCC 12639', 'Aquaspirillum serpens DSM 68', 'Azospirillum sp. B510', 'Campylobacter coli 76339', 'Campylobacter fetus subsp. venerealis NCTC 10354', 'Campylobacter jejuni subsp. jejuni 414', 'Campylobacter concisus 13826', 'Campylobacter curvus 525.92', 'Campylobacter lari RM2100', 'Campylobacter rectus RM3267', 'Campylobacter showae CSUNSWCD', 'Campylobacter sputorum biovar sputorum', 'Helicobacter pylori 26695', 'Helicobacter acinonychis str. Sheeba', 'Helicobacter cinaedi CCUG 18818 = ATCC BAA-847', 'Helicobacter felis ATCC 49179', 'Helicobacter fennelliae MRY12-0050', 'Helicobacter mustelae 12198', 'Pseudoalteromonas haloplanktis ATCC 14393', 'Brucella abortus 2308', 'Brucella ovis ATCC 25840', 'Elizabethkingia meningoseptica ATCC 13253 = NBRC 12535', 'Flavobacterium aquatile LMG 4008 = ATCC 11947', 'Empedobacter brevis NBRC 14943 = ATCC 43319', 'Chryseobacterium gleum ATCC 35910', 'Psychroflexus gondwanensis ACAM 44', 'Chryseobacterium indologenes NBRC 14944', 'Myroides odoratus DSM 2801', 'Sphingobacterium spiritivorum ATCC 33861', 'Francisella cf. tularensis subsp. novicida 3523', 'Paracoccus denitrificans PD1222', 'Thermus aquaticus Y51MC23', 'Thermus thermophilus HB8', 'Meiothermus ruber DSM 1279', 'Xanthobacter autotrophicus Py2', 'Comamonas testosteroni KF-1', 'Pseudomonas aeruginosa PAO1', 'Pseudoalteromonas atlantica T6c', 'Burkholderia cepacia', 'Brevundimonas diminuta 470-4', 'Pseudomonas fluorescens NCIMB 11764', 'Pseudomonas fragi B25', 'Pseudomonas mendocina NK-01', 'Pseudomonas pseudoalcaligenes AD6', 'Pseudomonas putida KT2440', 'Ralstonia solanacearum GMI1000', 'Pseudomonas stutzeri MF28', 'Pseudomonas syringae pv. syringae B728a', 'Ralstonia pickettii DTP0602', 'Burkholderia glumae BGR1', 'Xanthomonas campestris pv. campestris', 'Xanthomonas translucens DAR61454', 'Xanthomonas citri pv. citri str. 306', 'Xanthomonas oryzae pv. oryzae PXO99A', 'Azotobacter chroococcum NCIMB 8003', 'Azotobacter vinelandii DJ', 'Agrobacterium radiobacter K84', 'Agrobacterium rhizogenes', 'Agrobacterium vitis S4', 'Bradyrhizobium japonicum', 'Sinorhizobium fredii USDA 257', 'Mesorhizobium loti CJ3sym', 'Sinorhizobium meliloti 1021', 'Rhizobium leguminosarum bv. viciae GB30', 'Rhizobium tropici CIAT 899', 'Neorhizobium galegae bv. orientalis str. HAMBI 540', 'Methylobacillus flagellatus KT', 'Methylobacillus glycogenes JCM 2850', 'Methylorubrum extorquens AM1', 'Methylococcus capsulatus str. Bath', 'Methylomonas methanica MC09', 'Methylosinus trichosporium OB3b', 'Acetobacter aceti ATCC 23746', 'Komagataeibacter hansenii ATCC 23769', 'Acetobacter pasteurianus 3P3', 'Gluconobacter oxydans H24', 'Legionella pneumophila str. Paris', 'Legionella hackeliae', 'Legionella longbeachae NSW150', 'Tatlockia micdadei', 'Fluoribacter dumoffii NY 23', 'Acinetobacter baumannii', 'Acinetobacter calcoaceticus ANC 3680', 'Moraxella catarrhalis O35E', 'Neisseria cinerea ATCC 14685', 'Neisseria flavescens NRL30031/H210', 'Neisseria gonorrhoeae NCCP11945', 'Neisseria lactamica 020-06', 'Neisseria meningitidis MC58', 'Neisseria mucosa ATCC 25996', 'Neisseria polysaccharea ATCC 43768', 'Neisseria sicca ATCC 29256', 'Neisseria elongata subsp. glycolytica ATCC 29315', 'Neisseria macacae ATCC 33926', 'Thermomicrobium roseum DSM 5159', 'Kingella denitrificans ATCC 33394', 'Kingella kingae ATCC 23330', 'Kingella oralis ATCC 51147', 'Alcaligenes faecalis', 'Bordetella bronchiseptica RB50', 'Bordetella parapertussis Bpp5', 'Bordetella pertussis Tohama I', 'Bordetella avium 197N', 'Acidiphilium angustum ATCC 35903', 'Acidiphilium cryptum JF-5', 'Acidocella facilis ATCC 35904', 'Ochrobactrum anthropi ATCC 49188', 'Polaribacter irgensii 23-P', 'Beijerinckia indica subsp. indica ATCC 9039', 'Chromobacterium violaceum ATCC 12472', 'Eikenella corrodens ATCC 23834', 'Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821', 'Citrobacter koseri ATCC BAA-895', 'Citrobacter freundii MGH 56', 'Klebsiella aerogenes KCTC 2190', 'Pantoea agglomerans', 'Enterobacter cloacae subsp. cloacae ATCC 13047', 'Erwinia amylovora CFBP1430', 'Pantoea ananatis LMG 20103', 'Pectobacterium carotovorum subsp. carotovorum PC1', 'Dickeya chrysanthemi Ech1591', 'Escherichia coli K-12', 'Shimwellia blattae DSM 4481 = NBRC 105725', 'Escherichia fergusonii B253', 'Atlantibacter hermannii NBRC 105704', 'Pseudescherichia vulneris NBRC 102420', 'Hafnia alvei FB1', 'Klebsiella oxytoca', 'Klebsiella pneumoniae', 'Morganella morganii subsp. morganii KT', 'Proteus mirabilis HI4320', 'Proteus vulgaris', 'Providencia rettgeri DSM 1131', 'Providencia stuartii ATCC 25827', 'Serratia liquefaciens ATCC 27592', 'Serratia marcescens subsp. marcescens Db11', 'Serratia odorifera DSM 4582', 'Shigella boydii CDC 3083-94', 'Shigella dysenteriae 1617', 'Shigella flexneri 2a str. 301', 'Shigella sonnei Ss046', 'Xenorhabdus nematophila ATCC 19061', 'Yersinia enterocolitica LC20', 'Yersinia intermedia ATCC 29909', 'Yersinia pestis CO92', 'Yersinia pseudotuberculosis', 'Edwardsiella tarda ATCC 15947 = NBRC 105688', 'Aeromonas hydrophila subsp. hydrophila ATCC 7966', 'Aeromonas salmonicida subsp. salmonicida A449', 'Aeromonas media WS', 'Aeromonas veronii B565', 'Photobacterium phosphoreum ANT-2200', 'Photobacterium angustum S14', 'Vibrio alginolyticus NBRC 15630 = ATCC 17749', 'Vibrio cholerae O395', 'Aliivibrio fischeri ES114', 'Vibrio parahaemolyticus RIMD 2210633', 'Vibrio proteolyticus NBRC 13287', 'Vibrio vulnificus', 'Grimontia hollisae CIP 101886', 'Vibrio mimicus MB451', 'Vibrio campbellii ATCC BAA-1116', 'Vibrio diazotrophicus NBRC 103148', 'Plesiomonas shigelloides 302-73', 'Aggregatibacter actinomycetemcomitans HK1651', 'Actinobacillus pleuropneumoniae serovar 1 str. 4074', 'Actinobacillus suis H91-0380', 'Actinobacillus capsulatus DSM 19761', 'Actinobacillus equuli subsp. equuli', 'Actinobacillus ureae ATCC 25976', 'Haemophilus haemolyticus M21639', 'Haemophilus influenzae Rd KW20', 'Avibacterium paragallinarum 221', 'Haemophilus parainfluenzae T3T1', 'Histophilus somni 129PT', 'Aggregatibacter aphrophilus NJ8700', 'Haemophilus paraphrohaemolyticus HK411', 'Glaesserella parasuis ZJ0906', 'Aggregatibacter segnis ATCC 33393', 'Pasteurella multocida', 'Gallibacterium anatis UMN179', 'Pasteurella bettyae CCUG 2042', 'Pasteurella dagmatis ATCC 43325', 'Rodentibacter pneumotropicus', 'Anaplasma centrale str. Israel', 'Anaplasma marginale str. St. Maries', 'Bartonella bacilliformis KC583', 'Coxiella burnetii RSA 493', 'Ehrlichia ruminantium str. Welgevonden', 'Rickettsia conorii str. Malish 7', 'Rickettsia prowazekii str. Madrid E', 'Rickettsia rickettsii str. Iowa', 'Orientia tsutsugamushi str. Boryong', 'Rickettsia typhi str. Wilmington', 'Rickettsia akari str. Hartford', 'Rickettsia australis str. Cutlack', 'Rickettsia canadensis str. McKiel', 'Bartonella quintana str. Toulouse', 'Bartonella elizabethae F9251 = ATCC 49927', 'Chlamydia trachomatis D/UW-3/CX', 'Bacteroides fragilis 3_1_12', 'Bacteroides thetaiotaomicron VPI-5482', 'Bacteroides uniformis ATCC 8492', 'Bacteroides vulgatus ATCC 8482', 'Parabacteroides distasonis ATCC 8503', 'Campylobacter gracilis RM3268', 'Sebaldella termitidis ATCC 33386', 'Campylobacter ureolyticus', 'Butyrivibrio fibrisolvens ND3005', 'Fibrobacter succinogenes subsp. succinogenes S85', 'Porphyromonas gingivalis ATCC 33277', 'Prevotella ruminicola 23', 'Prevotella loescheii DSM 19665 = JCM 12249 = ATCC 15930', 'Wolinella succinogenes DSM 1740', 'Oxalobacter formigenes HOxBLS', 'Fusobacterium gonidiaformans ATCC 25563', 'Fusobacterium mortiferum ATCC 9817', 'Fusobacterium nucleatum subsp. nucleatum ATCC 25586', 'Fusobacterium perfoetens ATCC 29250', 'Faecalibacterium prausnitzii A2-165', 'Fusobacterium russii ATCC 25533', 'Fusobacterium varium ATCC 27725', 'Fusobacterium necrophorum subsp. funduliforme ATCC 51357', 'Fusobacterium periodonticum ATCC 33693', 'Fusobacterium ulcerans ATCC 49185', 'Syntrophomonas wolfei subsp. wolfei str. Goettingen G311', 'Dichelobacter nodosus VCS1703A', 'Desulfocurvibacter africanus subsp. africanus str. Walvis Bay', 'Desulfovibrio desulfuricans ND132', 'Desulfovibrio fructosivorans JJ', 'Desulfovibrio gigas DSM 1382 = ATCC 19364', 'Desulfovibrio salexigens DSM 2638', 'Desulfovibrio vulgaris str. Hildenborough', 'Thermodesulfobacterium thermophilum DSM 1276', 'Desulfovibrio longus DSM 6739', 'Desulfobulbus propionicus DSM 2032', 'Desulfococcus multivorans DSM 2059', 'Desulfomicrobium baculatum DSM 4028', 'Desulfovibrio piger ATCC 29098', 'Acidaminococcus fermentans DSM 20731', 'Megasphaera elsdenii DSM 20460', 'Nitrobacter hamburgensis X14', 'Nitrobacter winogradskyi Nb-255', 'Nitrosomonas europaea ATCC 19718', 'Nitrosomonas eutropha C91', 'Acidithiobacillus ferrooxidans ATCC 23270', 'Starkeya novella DSM 506', 'Thiomonas intermedia K12', 'Halothiobacillus neapolitanus c2', 'Thermithiobacillus tepidarius DSM 3134', 'Acidithiobacillus thiooxidans ATCC 19377', 'Thiobacillus thioparus DSM 505', 'Thiomicrospira pelophila DSM 1534', 'Hydrogenobacter thermophilus TK-6', 'Ehrlichia canis str. Jake', 'Ehrlichia chaffeensis str. Arkansas', 'Anaplasma phagocytophilum str. HZ', 'Neorickettsia risticii str. Illinois', 'Neorickettsia sennetsu str. Miyayama', 'Bdellovibrio bacteriovorus HD100', 'Herbaspirillum seropedicae SmR1', 'Selenomonas ruminantium AB3002', 'Cellulophaga lytica DSM 7489', 'Saccharicrinis fermentans DSM 9555 = JCM 21142', 'Pedobacter heparinus DSM 2366', 'Cytophaga hutchinsonii ATCC 33406', 'Flavobacterium johnsoniae UW101', 'Marinilabilia salmonicolor JCM 21150', 'Flavobacterium hydatis', 'Solitalea canadensis DSM 3403', 'Flavobacterium columnare ATCC 49512', 'Bernardetia litoralis DSM 6794', 'Marivirga tractuosa DSM 4126', 'Saprospira grandis str. Lewin', 'Weeksella virosa DSM 16922', 'Bergeyella zoohelcum ATCC 43767', 'Capnocytophaga gingivalis ATCC 33624', 'Capnocytophaga ochracea F0287', 'Capnocytophaga sputigena ATCC 33612', 'Beggiatoa alba B18LD', 'Microscilla marina ATCC 23134', 'Thiothrix nivea DSM 5205', 'Afipia clevelandensis ATCC 49720', 'Afipia felis ATCC 53690', 'Erythrobacter longus', 'Allochromatium vinosum DSM 180', 'Halorhodospira halochloris str. A', 'Halorhodospira halophila SL1', 'Rhodobacter capsulatus SB 1003', 'Rhodobacter sphaeroides 2.4.1', 'Rhodomicrobium vannielii ATCC 17100', 'Rhodopseudomonas palustris CGA009', 'Phaeospirillum fulvum MGU-K5', 'Phaeospirillum molischianum DSM 120', 'Pararhodospirillum photometricum DSM 122', 'Rhodospirillum rubrum ATCC 11170', 'Rhodovibrio salinarum DSM 9154', 'Chlorobium limicola DSM 245', 'Chlorobium phaeovibrioides DSM 265', 'Chlorobium phaeobacteroides DSM 266', 'Chlorobaculum tepidum TLS', 'Pelodictyon luteolum DSM 273', 'Prosthecochloris aestuarii DSM 271', 'Chloroflexus aurantiacus J-10-fl', 'Chlorogloeopsis fritschii PCC 6912', 'Microcystis aeruginosa NIES-843', 'Synechocystis sp. PCC 6714', 'Synechocystis sp. PCC 6803 substr. Kazusa', 'Planktothrix agardhii NIVA-CYA 126/8', 'Anabaena cylindrica PCC 7122', 'Leptolyngbya boryana PCC 6306', 'Tolypothrix sp. PCC 7601', 'Trichodesmium erythraeum IMS101', 'Prochlorococcus marinus str. AS9601', 'Prochlorothrix hollandica PCC 9006 = CALU 1027', 'Nitrosococcus oceani ATCC 19707', 'Nitrosospira multiformis ATCC 25196', 'Leuconostoc gelidum subsp. gasicomitatum LMG 18811', 'Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293', 'Leuconostoc lactis', 'Oenococcus oeni PSU-1', 'Weissella paramesenteroides ATCC 33313', 'Leuconostoc fallax KCTC 3537', 'Leuconostoc carnosum JB16', 'Pediococcus acidilactici DSM 20284', 'Pediococcus pentosaceus ATCC 25745', 'Finegoldia magna ATCC 53516', 'Peptostreptococcus anaerobius VPI 4330 = DSM 2949', 'Ruminococcus albus 8', 'Ruminococcus flavefaciens FD-1', 'Micrococcus luteus NCTC 2665', 'Dermacoccus nishinomiyaensis', 'Kytococcus sedentarius DSM 20547', 'Staphylococcus aureus subsp. aureus Mu50', 'Staphylococcus carnosus subsp. carnosus TM300', 'Staphylococcus epidermidis RP62A', 'Staphylococcus haemolyticus JCSC1435', 'Staphylococcus hyicus', 'Staphylococcus intermedius NCTC 11048', 'Staphylococcus simulans UMC-CNS-990', 'Staphylococcus xylosus', 'Staphylococcus hominis SK119', 'Staphylococcus warneri L37603', 'Staphylococcus sciuri subsp. sciuri Z8', 'Deinococcus radiodurans R1', 'Streptococcus gordonii str. Challis substr. CH1', 'Streptococcus oralis subsp. tigurinus AZ_3a', 'Streptococcus salivarius 57.I', 'Streptococcus sanguinis SK1057', 'Streptococcus suis R61', 'Streptococcus thermophilus LMG 18311', 'Streptococcus mutans UA159', 'Streptococcus sobrinus W1703', 'Streptococcus agalactiae LMG 14747', 'Streptococcus pneumoniae R6', 'Streptococcus pyogenes', 'Streptococcus downei F0415', 'Streptococcus parasanguinis ATCC 903', 'Blautia hansenii DSM 20583', 'Faecalicoccus pleomorphus DSM 20574', 'Streptococcus anginosus DORA_7', 'Streptococcus canis FSL Z3-227', 'Streptococcus criceti HS-6', 'Streptococcus dysgalactiae subsp. equisimilis AC-2713', 'Streptococcus equinus ATCC 9812', 'Streptococcus equi subsp. zooepidemicus', 'Streptococcus intermedius B196', 'Streptococcus macacae NCTC 11558', 'Streptococcus porcinus str. Jelinkova 176', 'Streptococcus ratti FA-1 = DSM 20564', 'Streptococcus vestibularis F0396', 'Streptococcus ferus DSM 20646', 'Streptococcus iniae', 'Streptococcus parauberis NCFD 2020', 'Streptococcus uberis 0140J', 'Enterococcus faecalis V583', 'Enterococcus faecium C68', 'Enterococcus gallinarum EG2', 'Enterococcus hirae ATCC 9790', 'Enterococcus columbae DSM 7374 = ATCC 51263', 'Enterococcus sulfureus ATCC 49903', 'Lactococcus lactis subsp. cremoris SK11', 'Lactococcus garvieae DCC43', 'Lactococcus piscium MKFS47', 'Lactococcus raffinolactis 4877', 'Aerococcus urinae ACS-120-V-Col10a', 'Aerococcus viridans ATCC 11563 = CCUG 4311', 'Gemella haemolysans M341', 'Atopobium minutum 10063974', 'Atopobium parvulum DSM 20469', 'Atopobium rimae ATCC 49626', 'Bacillus amyloliquefaciens Y2', 'Aneurinibacillus aneurinilyticus ATCC 12856', 'Bacillus anthracis str. Ames', 'Brevibacillus brevis X23', 'Bacillus cereus', 'Bacillus coagulans 36D1', 'Bacillus firmus DS1', 'Bacillus licheniformis DSM 13 = ATCC 14580', 'Bacillus megaterium QM B1551', 'Bacillus mycoides KBAB4', 'Paenibacillus polymyxa SC2', 'Bacillus psychrosaccharolyticus ATCC 23296', 'Bacillus pumilus SAFR-032', 'Bacillus sp. (in: Bacteria)', 'Bacillus akibai JCM 9157', 'Bacillus cellulosilyticus DSM 2522', 'Lysinibacillus sphaericus OT4b.31', 'Bacillus subtilis subsp. subtilis str. 168', 'Parageobacillus thermoglucosidasius C56-YS93', 'Bacillus thuringiensis serovar kurstaki', 'Bacillus alcalophilus ATCC 27647 = CGMCC 1.3604', 'Amphibacillus xylanus NBRC 15112', 'Alicyclobacillus acidoterrestris ATCC 49025', 'Bacillus atrophaeus 1942', 'Geobacillus kaustophilus HTA426', 'Paenibacillus larvae subsp. larvae DSM 25430', 'Brevibacillus laterosporus DSM 25', 'Bacillus methanolicus PB1', 'Peribacillus simplex BA2H3', 'Bacillus smithii 7_3_47FAA', 'Virgibacillus halodenitrificans 1806', 'Clostridium acetobutylicum ATCC 824', 'Paraclostridium bifermentans WYM', 'Clostridium botulinum A2 str. Kyoto', 'Clostridium butyricum E4 str. BoNT E BL5262', 'Clostridium cellulovorans 743B', 'Clostridioides difficile', 'Ruminiclostridium josui JCM 17888', 'Clostridium pasteurianum BC1', 'Clostridium perfringens ATCC 13124', 'Paeniclostridium sordellii VPI 9048', 'Clostridium sp. ATCC 29733', 'Clostridium sporogenes PA 3679', 'Thermoclostridium stercorarium subsp. stercorarium DSM 8532', 'Acetoanaerobium sticklandii', 'Clostridium tetani 12124569', 'Hungateiclostridium thermocellum ATCC 27405', 'Thermoanaerobacter thermohydrosulfuricus WC1', 'Thermoanaerobacterium thermosaccharolyticum DSM 571', 'Clostridium tyrobutyricum DSM 2637 = ATCC 25755 = JCM 11008', 'Clostridium beijerinckii NCIMB 8052', 'Ruminiclostridium cellulolyticum H10', 'Moorella thermoacetica ATCC 39073', 'Clostridium cadaveris AGR2141', 'Clostridium kluyveri DSM 555', 'Clostridium ljungdahlii DSM 13528', 'Clostridioides mangenotii TR', 'Clostridium novyi B str. NCTC 9691', 'Erysipelatoclostridium ramosum DSM 1402', 'Clostridium scatologenes', 'Clostridium tetanomorphum DSM 665', 'Gottschalkia acidurici 9a', 'Peptoclostridium litorale DSM 5388', 'Clostridium baratii str. Sullivan', 'Desulfosporosinus orientis DSM 765', 'Desulfotomaculum ruminis DSM 2154', 'Desulfotomaculum nigrificans DSM 574', 'Halobacillus halophilus DSM 2266', 'Sporosarcina ureae DSM 2281', 'Leifsonia xyli subsp. cynodontis DSM 46306', 'Lactobacillus acidophilus 30SC', 'Lactobacillus brevis ATCC 367', 'Lactobacillus buchneri ATCC 11577', 'Lactobacillus casei BL23', 'Weissella confusa LBAE C39-2', 'Lactobacillus delbrueckii subsp. bulgaricus 2038', 'Lactobacillus helveticus CNRZ32', 'Lactobacillus hilgardii DSM 20176 = ATCC 8290', 'Lactobacillus pentosus KCA1', 'Lactobacillus plantarum WCFS1', 'Lactobacillus gasseri ATCC 33323 = JCM 1131', 'Lactobacillus paracasei subsp. paracasei ATCC 25302', 'Lactobacillus reuteri 100-23', 'Lactobacillus sakei subsp. sakei 23K', 'Lactobacillus amylovorus GRL 1112', 'Lactobacillus animalis', 'Lactobacillus coryniformis subsp. coryniformis KCTC 3167 = DSM 20001', 'Lactobacillus farciminis KCTC 3681 = DSM 20184', 'Lactobacillus fermentum IFO 3956', 'Lactobacillus fructivorans KCTC 3543 = DSM 20203', 'Weissella halotolerans DSM 20190', 'Lactobacillus murinus ASF361', 'Lactobacillus ruminis ATCC 27782', 'Lactobacillus salivarius UCC118', 'Lactobacillus sanfranciscensis TMW 1.1304', 'Kandleria vitulina MC3001', 'Fructobacillus fructosus KCTC 3544', 'Lactobacillus oris F0423', 'Lactobacillus vaginalis DSM 5837 = ATCC 49540', 'Listeria ivanovii subsp. londoniensis', 'Listeria monocytogenes EGD-e', 'Listeria seeligeri serovar 1/2b str. SLCC3954', 'Listeria grayi DSM 20601', 'Listeria innocua Clip11262', 'Listeria welshimeri serovar 6b str. SLCC5334', 'Renibacterium salmoninarum ATCC 33209', 'Erysipelothrix rhusiopathiae str. Fujisawa', 'Alloiococcus otitis ATCC 51267', 'Actinomyces naeslundii str. Howell 279', 'Actinomyces viscosus C505', 'Actinomyces israelii DSM 43320', 'Schaalia odontolytica ATCC 17982', 'Trueperella pyogenes TP8', 'Arthrobacter globiformis NBRC 12137', 'Bifidobacterium adolescentis', 'Bifidobacterium bifidum NCIMB 41171', 'Bifidobacterium angulatum DSM 20098 = JCM 7096', 'Bifidobacterium asteroides PRL2011', 'Bifidobacterium breve UCC2003', 'Bifidobacterium catenulatum DSM 16992 = JCM 1194 = LMG 11043', 'Bifidobacterium coryneforme', 'Bifidobacterium cuniculi', 'Bifidobacterium dentium Bd1', 'Bifidobacterium indicum LMG 11587 = DSM 20214', 'Bifidobacterium magnum', 'Bifidobacterium minimum', 'Bifidobacterium pseudolongum subsp. globosum', 'Corynebacterium ammoniagenes DSM 20306', 'Brevibacterium linens BL2', 'Cellulomonas fimi ATCC 484', 'Cellulosimicrobium cellulans J36', 'Cellulomonas flavigena DSM 20109', 'Oerskovia turbata', 'Corynebacterium diphtheriae PW8', 'Corynebacterium glutamicum', 'Corynebacterium pseudotuberculosis', 'Corynebacterium callunae DSM 20147', 'Corynebacterium variabile DSM 44702', 'Peptoclostridium acidaminophilum DSM 3953', 'Holdemanella biformis DSM 3989', 'Eubacterium limosum KIST612', 'Thermodesulfobacterium commune DSM 2178', 'Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1', 'Cutibacterium acnes KPA171202', 'Acidipropionibacterium acidipropionici ATCC 4875', 'Acidipropionibacterium jensenii DSM 20535', 'Pseudopropionibacterium propionicum F0230a', 'Acidipropionibacterium thoenii DSM 20276', 'Mycobacterium avium subsp. avium', 'Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841', 'Mycobacterium intracellulare ATCC 13950', 'Mycobacterium kansasii 732', 'Mycobacterium leprae TN', 'Mycolicibacterium phlei RIVM601174', 'Mycolicibacterium smegmatis MC2 155', 'Mycobacterium tuberculosis H37Rv', 'Mycobacteroides chelonae', 'Mycobacterium marinum M', 'Mycobacterium asiaticum DSM 44297', 'Mycolicibacterium neoaurum VKM Ac-1815D', 'Mycolicibacterium thermoresistibile ATCC 19527', 'Mycolicibacterium chubuense NBB4', 'Mycolicibacterium farcinogenes', 'Mycolicibacterium gilvum PYR-GCK', 'Mycobacterium ulcerans Agy99', 'Mycolicibacterium vaccae ATCC 25954', 'Amycolatopsis methanolica 239', 'Nocardia otitidiscaviarum NBRC 14405', 'Nocardia asteroides NBRC 15531', 'Rhodococcus fascians', 'Rhodococcus rhodochrous ATCC 21198', 'Rhodococcus ruber Chol-4', 'Rhodococcus erythropolis PR4', 'Saccharopolyspora erythraea NRRL 2338', 'Actinopolyspora halophila DSM 43834', 'Saccharomonospora viridis DSM 43017', 'Frankia alni ACN14a', 'Geodermatophilus obscurus DSM 43160', 'Actinoplanes missouriensis 431', 'Actinoplanes utahensis', 'Streptomyces albus subsp. albus', 'Kitasatospora aureofaciens', 'Streptomyces bikiniensis', 'Streptomyces coelicolor A3(2)', 'Streptomyces fradiae', 'Streptomyces glaucescens', 'Streptomyces griseus subsp. griseus NBRC 13350', 'Streptomyces hygroscopicus subsp. jinggangensis 5008', 'Streptomyces lividans 1326', 'Streptomyces scabiei 87.22', 'Streptomyces viridochromogenes DSM 40736', 'Streptomyces halstedii', 'Streptomyces purpureus KA281', 'Streptomyces sclerotialus', 'Streptomyces virginiae', 'Streptomyces cellulosae', 'Streptomyces chartreusis NRRL 12338', 'Actinomadura atramentaria DSM 43919', 'Actinomadura madurae LIID-AJ290', 'Microtetraspora glauca', 'Streptosporangium roseum DSM 43021', 'Streptosporangium amethystogenes', 'Thermobispora bispora DSM 43833', 'Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111', 'Nocardiopsis prasina DSM 43845', 'Thermomonospora curvata DSM 43183', 'Thermobifida fusca YX', 'Microbacterium testaceum StLB037', 'Curtobacterium flaccumfaciens UCD-AKU', 'Tropheryma whipplei str. Twist', 'Pimelobacter simplex', 'Rothia dentocariosa ATCC 17931', 'Mobiluncus curtisii ATCC 43063', 'Mobiluncus mulieris 28-1', 'Gordonia bronchialis DSM 43247', 'Gordonia terrae', 'Sphaerobacter thermophilus DSM 20745', 'Tsukamurella paurometabola DSM 20162', 'Kitasatospora setae KM-6054', 'Pseudonocardia autotrophica', 'Mycoplasma arginini 7264', 'Mycoplasma capricolum subsp. capricolum ATCC 27343', 'Mycoplasma gallisepticum', 'Mycoplasma genitalium G37', 'Mycoplasma hominis', 'Mycoplasma hyopneumoniae J', 'Mycoplasma hyorhinis SK76', 'Mycoplasma mycoides subsp. mycoides SC str. PG1', 'Mycoplasma pneumoniae', 'Mycoplasma leachii PG50', 'Mycoplasma pulmonis', 'Mycoplasma synoviae 53', 'Mycoplasma agalactiae PG2', 'Mycoplasma arthritidis 158L3-1', 'Mycoplasma bovigenitalium 51080', 'Mycoplasmopsis californica', 'Mycoplasma fermentans PG18', 'Mycoplasma iowae 695', 'Mycoplasma mobile', 'Mycoplasma putrefaciens Mput9231', 'Mycoplasma flocculare ATCC 27399', 'Ureaplasma urealyticum serovar 7 str. ATCC 27819', 'Spiroplasma melliferum IPMB4A', 'Spiroplasma apis B31', 'Spiroplasma mirum ATCC 29335', 'Spiroplasma taiwanense CT-1', 'Acholeplasma laidlawii PG-8A', 'Acholeplasma modicum ATCC 29102', 'Mesoplasma florum L1', 'Methanobrevibacter smithii ATCC 35061', 'Methanohalophilus mahii DSM 5219', 'Methanothermus fervidus DSM 2088', 'Methanothermococcus thermolithotrophicus DSM 2095', 'Methanococcus vannielii SB', 'Methanococcus voltae A3', 'Methanotorris igneus Kol 5', 'Methanocaldococcus jannaschii DSM 2661', 'Methanoculleus marisnigri JR1', 'Methanofollis liminatans DSM 4140', 'Methanospirillum hungatei JF-1', 'Methanomicrobium mobile BP', 'Methanosarcina barkeri str. Fusaro', 'Methanosarcina mazei Go1', 'Methanosarcina thermophila TM-1', 'Methanosarcina acetivorans C2A', 'Methanosarcina vacuolata Z-761', 'Methanothrix soehngenii GP6', 'Methanothrix thermoacetophila PT', 'Methanococcoides methylutens MM1', 'Archaeoglobus fulgidus DSM 4304', 'Haloarcula marismortui ATCC 43049', 'Halobacterium salinarum NRC-1', 'Haloferax volcanii DS2', 'Halorubrum lacusprofundi ATCC 49239', 'Halorubrum saccharovorum DSM 1137', 'Halococcus morrhuae DSM 1307', 'Haloferax mediterranei ATCC 33500', 'Natronomonas pharaonis DSM 2160', 'Pyrococcus furiosus DSM 3638', 'Thermococcus litoralis DSM 5473', 'Thermofilum pendens Hrk 5', 'Thermoproteus tenax Kra 1', 'Desulfurococcus mucosus DSM 2162', 'Pyrobaculum islandicum DSM 4184', 'Staphylothermus marinus F1', 'Sulfolobus acidocaldarius DSM 639', 'Saccharolobus solfataricus P2', 'Desulfobacter curvatus DSM 3379', 'Desulfobacter postgatei 2ac9', 'Desulfobacterium autotrophicum HRM2', 'Thermoplasma acidophilum DSM 1728', 'Methanoplanus limicola DSM 2279', 'Methanosphaera stadtmanae DSM 3091', 'Methanopyrus kandleri AV19', 'Methanohalobium evestigatum Z-7303', 'Thermoanaerobacter kivui', 'Halanaerobium praevalens DSM 2228', 'Thermotoga maritima MSB8', 'Thermotoga neapolitana DSM 4359', 'Solemya velum gill symbiont', 'Haliscomenobacter hydrossis DSM 1100', 'Flexistipes sinusarabici DSM 4947', 'Desulfomonile tiedjei DSM 6799', 'Xylella fastidiosa 9a5c', 'Acetonema longum DSM 6540', 'Sporomusa ovata DSM 2662', 'Thermosipho africanus TCF52B', 'Fervidobacterium islandicum', 'Fervidobacterium nodosum Rt17-B1', 'Teredinibacter turnerae T7901', 'Roseobacter denitrificans OCh 114', 'Gardnerella vaginalis 6119V5', 'Citrus sinensis', 'Cardiobacterium hominis ATCC 15826', 'Hirschia baltica ATCC 49814', 'Symbiobacterium thermophilum IAM 14863', 'Verrucomicrobium spinosum DSM 4136 = JCM 18804', 'Marinobacter hydrocarbonoclasticus VT8', 'Halomonas elongata DSM 2581', 'Carnobacterium divergens DSM 20623', 'Carnobacterium gallinarum DSM 4847', 'Carnobacterium mobile DSM 4848', 'Carnobacterium maltaromaticum LMA28', 'Carnobacterium funditum DSM 5970', 'Synergistes jonesii', 'Chondrus crispus', 'Phaeodactylum tricornutum', 'Ectocarpus siliculosus', 'Cryptomonas paramecium', 'Emiliania huxleyi', 'Symbiodinium microadriaticum', 'Chlamydomonas reinhardtii', 'Volvox carteri', 'Auxenochlorella protothecoides', 'Marchantia polymorpha', 'Physcomitrium patens', 'Cannabis sativa', 'Actinidia chinensis var. chinensis', 'Theobroma cacao', 'Carica papaya', 'Citrullus lanatus', 'Cucumis melo', 'Cucumis sativus', 'Populus trichocarpa', 'Arabidopsis thaliana', 'Brassica napus', 'Brassica rapa', 'Brassica oleracea', 'Malus domestica', 'Prunus dulcis', 'Prunus persica', 'Cajanus cajan', 'Cicer arietinum', 'Glycine max', 'Glycine soja', 'Lupinus angustifolius', 'Medicago truncatula', 'Phaseolus vulgaris', 'Vigna angularis', 'Manihot esculenta', 'Ricinus communis', 'Linum usitatissimum', 'Daucus carota subsp. sativus', 'Capsicum annuum', 'Solanum lycopersicum', 'Nicotiana sylvestris', 'Nicotiana tabacum', 'Nicotiana tomentosiformis', 'Nicotiana benthamiana', 'Solanum commersonii', 'Solanum tuberosum', 'Olea europaea', 'Erythranthe guttata', 'Sesamum indicum', 'Helianthus annuus', 'Cynara cardunculus var. scolymus', 'Nelumbo nucifera', 'Hordeum vulgare', 'Oryza longistaminata', 'Oryza rufipogon', 'Oryza sativa Japonica Group', 'Oryza brachyantha', 'Oryza nivara', 'Oryza punctata', 'Oryza glaberrima', 'Setaria italica', 'Setaria viridis', 'Sorghum bicolor', 'Triticum aestivum', 'Triticum turgidum subsp. durum', 'Triticum urartu', 'Zea mays', 'Ananas comosus', 'Musa acuminata', 'Pneumocystis carinii', 'Plasmopara halstedii', 'Phytophthora infestans', 'Phytophthora nicotianae', 'Phytophthora parasitica', 'Phytophthora megakarya', 'Phytophthora palmivora var. palmivora', 'Phycomyces blakesleeanus', 'Schizosaccharomyces pombe 972h-', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces octosporus', 'Cyberlindnera jadinii', 'Pichia kudriavzevii', 'Kluyveromyces marxianus DMKU3-1042', 'Lachancea waltii', 'Pachysolen tannophilus NRRL Y-2460', 'Millerozyma farinosa', 'Komagataella pastoris', 'Scheffersomyces stipitis', 'Pichia membranifaciens NRRL Y-2026', 'Wickerhamomyces anomalus', 'Meyerozyma guilliermondii', 'Saccharomyces bayanus', 'Saccharomyces cerevisiae S288C', 'Lachancea kluyveri', 'Torulaspora delbrueckii CBS 1146', 'Yarrowia lipolytica CLIB122', 'Zygosaccharomyces bailii CLIB 213', 'Lachancea fermentati', 'Zygosaccharomyces rouxii', 'Debaryomyces hansenii', 'Kockovaella imperatae', 'Brettanomyces bruxellensis', 'Taphrina deformans PYCC 5710', 'Bipolaris maydis', 'Bipolaris zeicola', 'Leptosphaeria maculans', 'Histoplasma capsulatum', 'Blastomyces dermatitidis', 'Acremonium chrysogenum ATCC 11550', 'Aspergillus aculeatus', 'Aspergillus clavatus', 'Aspergillus flavus', 'Aspergillus niger', 'Aspergillus oryzae', 'Penicillium camemberti', 'Penicillium chrysogenum', 'Penicillium roqueforti', 'Amorphotheca resinae ATCC 22711', 'Ascosphaera apis ARSEF 7405', 'Claviceps purpurea 20.1', 'Epichloe typhina E8', 'Cryphonectria parasitica', 'Fusarium fujikuroi', 'Neurospora crassa OR74A', 'Sordaria macrospora k-hell', 'Ophiostoma ulmi', 'Sclerotinia sclerotiorum 1980 UF-70', 'Cryptococcus neoformans var. neoformans JEC21', 'Cryptococcus depauperatus CBS 7841', 'Tremella mesenterica', 'Exidia glandulosa HHB12029', 'Ustilago maydis 521', 'Microbotryum violaceum', 'Tilletiaria anomala UBC 951', 'Rhodotorula toruloides', 'Puccinia graminis f. sp. tritici CRL 75-36-700-3', 'Phanerochaete chrysosporium', 'Pleurotus ostreatus var. ostreatus', 'Trametes versicolor FP-101664 SS1', 'Schizophyllum commune', 'Agaricus bisporus', 'Coprinopsis cinerea', 'Lentinula edodes', 'Suillus luteus UH-Slu-Lm8-n1', 'Ascochyta rabiei', 'Colletotrichum orbiculare', 'Candida albicans SC5314', 'Candida maltosa', 'Candida parapsilosis', 'Diutina rugosa', 'Candida tropicalis', 'Coccidioides immitis', 'Fusarium oxysporum', 'Fusarium culmorum CS7071', 'Fusarium graminearum', 'Metarhizium anisopliae ARSEF 549', 'Rhodotorula glutinis', 'Trichoderma harzianum', 'Trichoderma longibrachiatum ATCC 18648', 'Trichophyton rubrum', 'Aureobasidium pullulans EXF-150', 'Alternaria alternata', 'Phialophora americana', 'Saitoella complicata NRRL Y-17804', 'Cryptococcus wingfieldii CBS 7118', 'Grifola frondosa', 'Laetiporus sulphureus 93-53', 'Trametes cinnabarina', 'Leishmania braziliensis MHOM/BR/75/M2904', 'Leishmania donovani BPK282A1', 'Leishmania major', 'Leishmania mexicana MHOM/GT/2001/U1103', 'Leishmania infantum JPCM5', 'Leishmania panamensis', 'Leptomonas seymouri', 'Leishmania tarentolae', 'Trypanosoma brucei brucei', 'Trypanosoma cruzi', 'Trypanosoma equiperdum', 'Trypanosoma rangeli SC58', 'Trichomonas vaginalis', 'Giardia lamblia ATCC 50803', 'Acanthamoeba castellanii str. Neff', 'Entamoeba histolytica', 'Naegleria gruberi', 'Dictyostelium purpureum', 'Eimeria acervulina', 'Eimeria tenella', 'Eimeria maxima', 'Cryptosporidium parvum Iowa II', 'Cryptosporidium muris', 'Toxoplasma gondii ME49', 'Plasmodium berghei', 'Plasmodium chabaudi', 'Plasmodium cynomolgi strain B', 'Plasmodium falciparum 3D7', 'Plasmodium gallinaceum', 'Plasmodium knowlesi strain H', 'Plasmodium reichenowi', 'Plasmodium vivax Sal-1', 'Plasmodium fragile', 'Plasmodium malariae', 'Plasmodium vinckei', 'Plasmodium yoelii yoelii', 'Babesia bovis T2Bo', 'Babesia bigemina', 'Theileria equi', 'Theileria annulata', 'Theileria parva', 'Paramecium tetraurelia', 'Tetrahymena thermophila', 'Ichthyophthirius multifiliis', 'Stylonychia lemnae', 'Stentor coeruleus', 'Exophiala dermatitidis', 'Encephalitozoon cuniculi', 'Hydra vulgaris', 'Schistosoma japonicum', 'Schistosoma mansoni', 'Schistosoma haematobium', 'Echinococcus multilocularis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Ascaris suum', 'Brugia malayi', 'Onchocerca volvulus', 'Meloidogyne hapla', 'Bursaphelenchus xylophilus', 'Trichinella spiralis', 'Helobdella robusta', 'Aplysia californica', 'Biomphalaria glabrata', 'Crassostrea virginica', 'Mizuhopecten yessoensis', 'Daphnia pulex', 'Tigriopus californicus', 'Ixodes scapularis', 'Blattella germanica', 'Acyrthosiphon pisum', 'Bemisia tabaci', 'Tribolium castaneum', 'Bombyx mori', 'Aedes aegypti', 'Aedes albopictus', 'Anopheles gambiae', 'Anopheles albimanus', 'Anopheles dirus', 'Anopheles arabiensis', 'Culex pipiens', 'Culex quinquefasciatus', 'Lutzomyia longipalpis', 'Loa loa', 'Ceratitis capitata', 'Drosophila ananassae', 'Drosophila erecta', 'Drosophila grimshawi', 'Drosophila melanogaster', 'Drosophila mojavensis', 'Drosophila persimilis', 'Drosophila pseudoobscura pseudoobscura', 'Drosophila sechellia', 'Drosophila simulans', 'Drosophila virilis', 'Drosophila yakuba', 'Drosophila willistoni', 'Drosophila saltans', 'Musca domestica', 'Lucilia cuprina', 'Glossina morsitans morsitans', 'Glossina austeni', 'Glossina fuscipes fuscipes', 'Glossina palpalis gambiensis', 'Glossina pallidipes', 'Nasonia vitripennis', 'Apis mellifera', 'Lingula anatina', 'Strongylocentrotus purpuratus', 'Ciona intestinalis', 'Branchiostoma floridae', 'Branchiostoma lanceolatum', 'Petromyzon marinus', 'Eptatretus burgeri', 'Callorhinchus milii', 'Latimeria chalumnae', 'Lepisosteus oculatus', 'Clupea harengus', 'Danio rerio', 'Carassius auratus', 'Cyprinus carpio', 'Astyanax mexicanus', 'Ictalurus punctatus', 'Electrophorus electricus', 'Esox lucius', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Salmo salar', 'Salmo trutta', 'Gadus morhua', 'Fundulus heteroclitus', 'Poecilia reticulata', 'Xiphophorus maculatus', 'Oryzias latipes', 'Cyclopterus lumpus', 'Oreochromis niloticus', 'Haplochromis burtoni', 'Astatotilapia calliptera', 'Sparus aurata', 'Lates calcarifer', 'Xenopus tropicalis', 'Chelonia mydas', 'Chelydra serpentina', 'Chrysemys picta', 'Alligator mississippiensis', 'Crocodylus porosus', 'Sphenodon punctatus', 'Laticauda laticaudata', 'Notechis scutatus', 'Pseudonaja textilis', 'Dromaius novaehollandiae', 'Struthio camelus', 'Apteryx haastii', 'Apteryx owenii', 'Anas platyrhynchos', 'Anser cygnoides', 'Cairina moschata domestica', 'Chaetura pelagica', 'Columba livia', 'Falco peregrinus', 'Aquila chrysaetos chrysaetos', 'Haliaeetus albicilla', 'Numida meleagris', 'Gallus gallus', 'Pavo cristatus', 'Phasianus colchicus', 'Chrysolophus pictus', 'Meleagris gallopavo', 'Serinus canaria', 'Parus major', 'Phalacrocorax carbo', 'Phoenicopterus ruber ruber', 'Aptenodytes forsteri', 'Pygoscelis adeliae', 'Calypte anna', 'Ornithorhynchus anatinus', 'Sarcophilus harrisii', 'Notamacropus eugenii', 'Choloepus hoffmanni', 'Dasypus novemcinctus', 'Erinaceus europaeus', 'Echinops telfairi', 'Pteropus alecto', 'Callithrix jacchus', 'Cercocebus atys', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Papio anubis', 'Theropithecus gelada', 'Mandrillus leucophaeus', 'Gorilla gorilla gorilla', 'Pan paniscus', 'Pan troglodytes', 'Pongo abelii', 'Homo sapiens', 'Canis lupus familiaris', 'Vulpes vulpes', 'Ursus thibetanus thibetanus', 'Ursus americanus', 'Ailuropoda melanoleuca', 'Mustela putorius', 'Felis catus', 'Panthera leo', 'Panthera onca', 'Panthera pardus', 'Panthera tigris', 'Zalophus californianus', 'Odobenus rosmarus', 'Leptonychotes weddellii', 'Orcinus orca', 'Tursiops truncatus', 'Delphinapterus leucas', 'Physeter catodon', 'Balaenoptera acutorostrata', 'Balaenoptera musculus', 'Trichechus manatus', 'Loxodonta africana', 'Equus asinus asinus', 'Equus caballus', 'Procavia capensis', 'Orycteropus afer', 'Sus scrofa', 'Camelus dromedarius', 'Bison bison bison', 'Bos taurus', 'Capra hircus', 'Ovis aries', 'Ochotona princeps', 'Oryctolagus cuniculus', 'Marmota marmota marmota', 'Urocitellus parryii', 'Dipodomys ordii', 'Cricetulus griseus', 'Mesocricetus auratus', 'Peromyscus maniculatus', 'Meriones unguiculatus', 'Mus caroli', 'Mus musculus', 'Mus pahari', 'Mus spretus', 'Mus spicilegus', 'Rattus norvegicus', 'Cavia porcellus', 'Octodon degus', 'Heterocephalus glaber', 'Saccoglossus kowalevskii', 'Trichoplax adhaerens', 'Sagitta elegans', 'Atta cephalotes', 'Blastocystis hominis', 'Danaus plexippus', 'Lynx lynx', 'Melopsittacus undulatus', 'Myzus persicae', 'Rhodnius prolixus', 'Tilletia caries', 'Tilletia controversa', 'Amborella trichopoda', 'Anaerobiospirillum succiniciproducens DSM 6400', 'Arthrobotrys oligospora ATCC 24927', 'Burkholderia mallei ATCC 23344', 'Dicentrarchus labrax', 'Monodelphis domestica', 'Parastagonospora nodorum SN15', 'Solenopsis invicta', 'Sphingomonas paucimobilis', 'Sphingobium yanoikuyae', 'Syncephalastrum racemosum', 'Pelodiscus sinensis', 'Utricularia gibba', 'Natrialba magadii ATCC 43099', 'Pyrobaculum aerophilum str. IM2', 'Brachypodium distachyon', 'Naumovozyma castellii', 'Naumovozyma dairenensis CBS 421', 'Saccharomyces paradoxus', 'Saccharomyces pastorianus Weihenstephan 34/70', 'Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993', 'Penicillium expansum', 'Verticillium dahliae VdLs.17', 'Schizopora paradoxa', 'Puccinia coronata var. avenae f. sp. avenae', 'Puccinia sorghi', 'Puccinia striiformis', 'Saimiri boliviensis', 'Erpetoichthys calabaricus', 'Mnemiopsis leidyi', 'Encephalitozoon hellem ATCC 50504', 'Nosema bombycis CQ1', 'Strigomonas culicis', 'Bifidobacterium animalis subsp. lactis BB-12', 'Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505', 'Lysinibacillus fusiformis ZC1', 'Staphylococcus lugdunensis HKU09-01', 'Streptococcus mitis B6', 'Lactobacillus curvatus CRL 705', 'Saccharopolyspora rectivirgula', 'Acidothermus cellulolyticus 11B', 'Lachnospira multipara ATCC 19207', 'Rubrivivax gelatinosus IL144', 'Nostoc sp. PCC 7524', 'Campylobacter upsaliensis RM3195', 'Legionella anisa str. Linanisette', 'Legionella sainthelensi ATCC 35248 = DSM 19231', 'Acinetobacter lwoffii SH145', 'Neisseria weaveri LMG 5135', 'Burkholderia gladioli BSR3', 'Mesorhizobium huakuii 7653R', "Alteromonas macleodii str. 'Black Sea 11'", 'Francisella philomiragia subsp. philomiragia ATCC 25017', 'Bacteroides eggerthii DSM 20697', 'Tannerella forsythia 92A2', 'Porphyromonas levii DSM 23370', 'Porphyromonas macacae', 'Bacteroides ovatus ATCC 8483', 'Alistipes putredinis DSM 17216', 'Odoribacter splanchnicus DSM 20712', 'Porphyromonas asaccharolytica DSM 20707', 'Porphyromonas endodontalis ATCC 35406', 'Prevotella bivia DNF00188', 'Prevotella buccae ATCC 33574', 'Prevotella buccalis ATCC 35310', 'Prevotella corporis DSM 18810 = JCM 8529', 'Prevotella denticola F0289', 'Prevotella disiens JCM 6334 = ATCC 29426', 'Prevotella intermedia 17', 'Prevotella melaninogenica ATCC 25845', 'Prevotella nigrescens ATCC 33563', 'Prevotella oralis ATCC 33269', 'Prevotella oris C735', 'Prevotella oulorum JCM 14966', 'Prevotella veroralis F0319', 'Rikenella microfusus DSM 15922', 'Cronobacter sakazakii ATCC BAA-894', 'Serratia proteamaculans 568', 'Yersinia kristensenii', 'Vibrio metschnikovii CIP 69.14', 'Vibrio nigripulchritudo SOn1', 'Vibrio orientalis CIP 102891 = ATCC 33934', 'Candidatus Photodesmus katoptron', 'Acetohalobium arabaticum DSM 5501', 'Capnocytophaga canimorsus Cc5', 'Capnocytophaga cynodegmi DSM 19736', 'Arcobacter butzleri RM4018', 'Arcobacter nitrofigilis DSM 7299', 'Sphingomonas parapaucimobilis NBRC 15100', 'Desulfobacula toluolica Tol2', 'Mycoplasma penetrans', 'Colwellia psychrerythraea', 'Carnobacterium alterfunditum DSM 5972', 'Geobacter metallireducens GS-15', 'Ornithobacterium rhinotracheale DSM 15997', 'Cobetia marina', 'Thermodesulfovibrio yellowstonii DSM 11347', 'Arcanobacterium haemolyticum DSM 20595', 'Anolis carolinensis', 'Herbidospora cretacea', 'Clavibacter michiganensis subsp. sepedonicus', 'Komagataeibacter xylinus E25', 'Neisseria subflava NJ9703', 'Burkholderia pseudomallei K96243', 'Tarenaya hassleriana', 'Talaromyces stipitatus ATCC 10500', 'Talaromyces islandicus', 'Allomyces macrogynus', 'Elephantulus edwardii', 'Cyprinodon variegatus', 'Thermoanaerobacterium saccharolyticum JW/SL-YS485', 'Salmonella enterica subsp. enterica serovar Typhimurium str. LT2', 'Mycoplasma bovis PG45', 'Kluyveromyces lactis', 'Alternaria brassicicola', 'Drosophila eugracilis', 'Drosophila takahashii', 'Phlebotomus papatasi', 'Panthera uncia', 'Ursus maritimus', 'Eptesicus fuscus', 'Vombatus ursinus', 'Mytilus galloprovincialis', 'Crassostrea gigas', 'Neospora caninum', 'Haloarcula japonica DSM 6131', 'Natronococcus occultus SP4', 'Methanococcoides burtonii DSM 6242', 'Pyrococcus abyssi GE5', 'Streptomyces cattleya NRRL 8057 = DSM 46488', 'Streptomyces griseoluteus', 'Paenarthrobacter nicotinovorans 231Sha2.1M6', 'Corynebacterium otitidis ATCC 51513', 'Thermoanaerobacter brockii subsp. finnii Ako-1', 'Thermoanaerobacterium xylanolyticum LX-11', 'Ruminiclostridium cellobioparum subsp. termitidis CT1112', 'Cellulosilyticum lentocellum DSM 5427', 'Tyzzerella nexilis DSM 1787', 'Ruminiclostridium papyrosolvens DSM 2782', 'Clostridium paraputrificum AGR2156', 'Staphylococcus caprae M23864:W1', 'Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292', 'Staphylococcus capitis C87', 'Gemella morbillorum M424', 'Dolosigranulum pigrum ATCC 51524', 'Microlunatus phosphovorus NM-1', 'Helicobacter canis NCTC 12740', 'Legionella oakridgensis ATCC 33761 = DSM 21215', 'Acinetobacter haemolyticus MTCC 9819', 'Psychrobacter phenylpyruvicus DSM 7000 = NBRC 102152', 'Pseudomonas savastanoi pv. phaseolicola 1448A', 'Xanthomonas albilineans GPE PC73', 'Bradyrhizobium elkanii WSM2783', 'Rhizobium etli CIAT 652', 'Rhizobium leucaenae USDA 9039', 'Brucella melitensis bv. 1 str. 16M', 'Brucella neotomae 5K33', 'Brucella suis 1330', 'Veillonella parvula DSM 2008', 'Pectobacterium atrosepticum SCRI1043', 'Yersinia aldovae ATCC 35236', 'Yersinia frederiksenii ATCC 33641', 'Yersinia rohdei', 'Yersinia ruckeri', 'Vibrio furnissii NCTC 11218', 'Vibrio navarrensis', 'Vibrio splendidus ZS-139', 'Vibrio tubiashii ATCC 19109', 'Mycoplasma haemofelis Ohio2', 'Turneriella parva DSM 21527', 'Borreliella afzelii PKo', 'Borreliella garinii BgVir', 'Borrelia crocidurae DOU', 'Cytophaga aurantiaca DSM 3654', 'Flavobacterium succinicans LMG 10402', 'Pelobacter propionicus DSM 2379', 'Lawsonia intracellularis PHE/MN1-00', 'Rhodothermus marinus DSM 4252', 'Acholeplasma axanthum ATCC 25176', 'Mycoplasma canadense', 'Mycoplasma canis PG 14', 'Mycoplasma meleagridis', 'Mycoplasma ovipneumoniae 14811', 'Taylorella equigenitalis MCE9', 'Janthinobacterium lividum', 'Dioscorea cayenensis subsp. rotundata', 'Gossypium raimondii', 'Vitis vinifera', 'Lipomyces starkeyi NRRL Y-11557', 'Lachancea cidri', 'Hanseniaspora uvarum DSM 2768', 'Penicillium vulpinum', 'Gaeumannomyces graminis', 'Trichoderma virens', 'Neurospora discreta FGSC 8579', 'Laccaria bicolor', 'Calocera cornea HHB12733', 'Rhodotorula graminis WP1', 'Sporothrix schenckii', 'Tolypocladium inflatum', 'Phytophthora cactorum', 'Drosophila elegans', 'Drosophila emarginata', 'Drosophila ficusphila', 'Drosophila kikkawai', 'Drosophila neocordata', 'Drosophila prosaltans', 'Drosophila sturtevanti', 'Anopheles merus', 'Anopheles stephensi', 'Bombus terrestris', 'Opisthocomus hoazin', 'Fulmarus glacialis', 'Bubo bubo', 'Nothoprocta perdicaria', 'Tinamus major', 'Bos grunniens', 'Bos indicus x Bos taurus', 'Vicugna pacos', 'Microcebus murinus', 'Otolemur garnettii', 'Oryzias melastigma', 'Takifugu rubripes', 'Caenorhabditis remanei', 'Perkinsus marinus ATCC 50983', 'Enterocytozoon bieneusi H348', 'Colletotrichum graminicola M1.001', 'Caldicellulosiruptor bescii DSM 6725', 'Halothermothrix orenii H 168', 'Amycolatopsis orientalis DSM 40040 = KCTC 9412', 'Amycolatopsis lurida NRRL 2430', 'Absiella dolichum DSM 3991', 'Eggerthia catenaformis OT 569 = DSM 20559', 'Methylobacterium radiotolerans JCM 2831', 'Helicobacter hepaticus ATCC 51449', 'Synechococcus elongatus', 'Synechococcus sp. PCC 7002', 'Synechococcus sp. WH 7803', 'Calothrix sp. PCC 6303', 'Calothrix sp. PCC 7103', 'Tetranychus urticae', 'Xiphophorus couchianus', 'Neolamprologus brichardi', 'Desulfurella acetivorans A63', 'Winkia neuii subsp. neuii DSM 8576', 'Cutibacterium avidum 44067', 'Cutibacterium granulosum TM11', 'Propionimicrobium lymphophilum ACS-093-V-SCH5', 'Sporolactobacillus laevolacticus DSM 442', 'Anaerococcus hydrogenalis DSM 7454', 'Peptoniphilus indolicus ATCC 29427', 'Peptoniphilus lacrimalis 315-B', 'Anaerococcus lactolyticus ATCC 51172', 'Parvimonas micra ATCC 33270', 'Anaerococcus prevotii DSM 20548', 'Blautia producta', 'Anaerococcus tetradius ATCC 35098', 'Anaerococcus vaginalis ATCC 51170', 'Coprococcus eutactus ATCC 27759', 'Bartonella doshiae NCTC 12862 = ATCC 700133', 'Bartonella grahamii as4aup', 'Bartonella taylorii 8TBB', 'Bartonella vinsonii subsp. arupensis Pm136co', 'Candidatus Kinetoplastibacterium crithidii TCC036E', 'Acidithiobacillus caldus ATCC 51756', 'Gloeobacter violaceus PCC 7421', 'Acidobacterium capsulatum ATCC 51196', 'Entamoeba invadens IP1', 'Eremothecium gossypii ATCC 10895', 'Aspergillus terreus', 'Uncinocarpus reesii 1704', 'Purpureocillium lilacinum', 'Gambusia affinis', 'Coriobacterium glomerans PW2', 'Catenuloplanes japonicus', 'Brevibacterium casei S18', 'Streptomyces galbus', 'Streptomyces avermitilis MA-4680 = NBRC 14893', 'Bifidobacterium thermophilum', 'Actinopolyspora mortivallis DSM 44261', 'Amycolatopsis mediterranei U32', 'Anoxybacillus flavithermus subsp. yunnanensis str. E13', 'Geobacillus thermodenitrificans NG80-2', 'Geobacillus thermoleovorans CCB_US3_UF5', 'Kyrpidia tusciae DSM 2912', 'Enterococcus avium ATCC 14025', 'Acetobacterium woodii DSM 1030', 'Lactobacillus johnsonii NCC 533', 'Leuconostoc citreum KM20', 'Leuconostoc pseudomesenteroides 4882', 'Melissococcus plutonius ATCC 35311', 'Rickettsia amblyommatis str. GAT-30V', 'Rickettsia bellii OSU 85-389', 'Rickettsia montanensis str. OSU 85-930', 'Rickettsia rhipicephali str. 3-7-female6-CWPP', 'Neorickettsia helminthoeca str. Oregon', 'Gluconacetobacter diazotrophicus PA1 5', 'Paracoccus aminophilus JCM 7686', 'Paracoccus versutus', 'Azospirillum halopraeferens DSM 3675', 'Rhodospirillum centenum SW', 'Candidatus Liberibacter asiaticus str. gxpsy', 'Leptothrix cholodnii SP-6', 'Rahnella aquatilis CIP 78.65 = ATCC 33071', 'Variovorax paradoxus 110B', 'Riemerella anatipestifer RA-GD', 'Pedobacter antarcticus 4BY', 'Pelodictyon phaeoclathratiforme BU-1', 'Sphaerotilus natans subsp. natans DSM 6575', 'Streptobacillus moniliformis DSM 12112', 'Lotus japonicus', 'Mixia osmundae', 'Blumeria graminis', 'Trichophyton tonsurans', 'Trichophyton violaceum', 'Conidiobolus coronatus NRRL 28638', 'Strongyloides ratti', 'Anopheles melas', 'Anopheles quadriannulatus', 'Heliconius melpomene plesseni', 'Chinchilla lanigera', 'Thalassiosira pseudonana', 'Nosema apis BRL 01', 'Eubacterium brachy ATCC 33089', 'Eubacterium nodatum ATCC 33099', 'Daphnia magna', 'Geobacter sulfurreducens PCA', 'Stomoxys calcitrans', 'Streptomyces griseoflavus Tu4000', 'Streptomyces mobaraensis NBRC 13819 = DSM 40847', 'Acholeplasma oculi', 'Naja naja', 'Heliobacterium modesticaldum Ice1', 'Citrobacter amalonaticus', 'Epichloe festucae', 'Macrophomina phaseolina MS6', 'Sporichthya polymorpha DSM 43042', 'Dactylosporangium aurantiacum', 'Corynebacterium kutscheri', 'Corynebacterium pilosum DSM 20521', 'Bifidobacterium choerinum', "Peanut witches'-broom phytoplasma NTU2011", 'Coprothermobacter proteolyticus DSM 5265', 'Rickettsia africae ESF-5', 'Rickettsia helvetica C9P9', 'Rickettsia japonica YH', 'Rickettsia massiliae str. AZT80', 'Rickettsia parkeri str. Portsmouth', 'Rickettsia sibirica 246', 'Rickettsia slovaca str. D-CWPP', 'Ehrlichia muris AS145', 'Nitrococcus mobilis Nb-231', 'Nitrosospira briensis C-128', 'Nitrospina gracilis 3/211', 'Rhodovulum sulfidophilum DSM 1374', 'Bordetella holmesii ATCC 51541', 'Helicobacter heilmannii ASB1.4', 'Helicobacter pullorum MIT 98-5489', 'Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933', 'Hungateiclostridium cellulolyticum CD2', 'Bilophila wadsworthia ATCC 49260', 'Holophaga foetida DSM 6591', 'Bacillus thermoamylovorans', 'Ipomoea triloba', 'Cyberlindnera fabianii', 'Vanderwaltozyma polyspora DSM 70294', 'Fusarium poae', 'Cantharellus cibarius var. cibarius', 'Ganoderma sinense ZZ0214-1', 'Mucor circinelloides', 'Megaselia scalaris', 'Pelecanus crispus', 'Plasmodium ovale curtisi', 'Globisporangium irregulare', 'Aspergillus fischeri NRRL 181', 'Penicillium coprophilum', 'Penicillium digitatum', 'Dermabacter hominis 1368', 'Clostridium saccharoperbutylacetonicum N1-4(HMT)', 'Pseudomonas cichorii JBC1', 'Gaeumannomyces tritici', 'Mycobacteroides abscessus', 'Mycobacterium genavense ATCC 51234', 'Mycolicibacterium rhodesiae JS60', 'Gordonia aichiensis NBRC 108223', 'Gordonia amarae NBRC 15530', 'Gordonia sputi NBRC 100414', 'Clostridium celatum DSM 1785', 'Clostridium intestinale URNW', 'Desulfitobacterium dehalogenans ATCC 51507', 'Brucella canis ATCC 23365', 'Thiobacillus denitrificans DSM 12475', 'Paraburkholderia xenovorans LB400', 'Porphyromonas cangingivalis', 'Porphyromonas canoris', 'Clavispora lusitaniae', 'Lodderomyces elongisporus', 'Glossina brevipalpis', 'Kryptolebias marmoratus', 'Suricata suricatta', 'Gavia stellata', 'Aotus nancymaae', 'Nocardia brasiliensis ATCC 700358', 'Nocardia brevicatena NBRC 12119', 'Nocardia carnea NBRC 14403', 'Nocardia farcinica IFM 10152', 'Nocardia nova SH22a', 'Nocardia transvalensis NBRC 15921', 'Tupaia belangeri', 'Plasmodiophora brassicae', 'Helicobacter bilis ATCC 43879', 'Pisolithus tinctorius Marx 270', 'Laceyella sacchari 1-1', 'Marichromatium purpuratum 984', 'Cavia aperea', 'Thermus scotoductus SA-01', 'Octopus bimaculoides', 'Clostridium algidicarnis', 'Aegilops tauschii', 'Candidatus Phytoplasma mali AT', 'Talaromyces marneffei ATCC 18224', 'Enterococcus casseliflavus EC20', 'Cryptococcus gattii EJB2', 'Heterorhabditis bacteriophora', 'Rhytidhysteron rufulum', 'Rhodococcus opacus', 'Methanosarcina siciliae C2J', 'Chaetomium globosum', 'Rhynchosporium secalis', 'Corynebacterium accolens ATCC 49725', 'Corynebacterium genitalium ATCC 33030', 'Corynebacterium jeikeium K411', 'Photobacterium damselae subsp. damselae CIP 102761', 'Streptomyces pristinaespiralis ATCC 25486', 'Corynebacterium pseudogenitalium ATCC 33035', 'Corynebacterium vitaeruminis DSM 20294', 'Gluconobacter frateurii NBRC 103465', 'Rhodococcus rhodnii LMG 5362', 'Shewanella algae JCM 14758', 'Bartonella henselae str. Houston-1', 'Erysipelothrix tonsillarum DSM 14972', 'Eragrostis curvula', 'Phascolarctos cinereus', 'Alligator sinensis', 'Panicum virgatum', 'Gopherus agassizii', 'Neolentinus lepideus HHB14362 ss-1', 'Micromonas pusilla', 'Fraxinus excelsior', 'Acholeplasma palmae J233', 'Methanococcus maripaludis C6', 'Tuber melanosporum Mel28', 'Faecalitalea cylindroides ATCC 27803', 'Agathobaculum desmolans ATCC 43058', 'Dorea formicigenerans 4_6_53AFAA', 'Anaerobutyricum hallii DSM 3353', 'Eubacterium ramulus ATCC 29099', 'Eubacterium ventriosum ATCC 27560', 'Eubacterium xylanophilum ATCC 35991', 'Mesorhizobium ciceri biovar biserrulae WSM1271', 'Cellvibrio mixtus subsp. mixtus J3-8', 'Methanosalsum zhilinae DSM 4017', 'Mayetiola destructor', 'Hydrogenovibrio crunogenus XCL-2', 'Sulfurimonas denitrificans DSM 1251', 'Blattabacterium sp. (Mastotermes darwiniensis) str. MADAR', 'Methylomicrobium album BG8', 'Veillonella atypica KON', 'Veillonella dispar ATCC 17748', 'Corynebacterium glucuronolyticum ATCC 51867', 'Erythrobacter litoralis HTCC2594', 'Legionella moravica DSM 19234', 'Hypsizygus marmoreus', 'Helcococcus kunzii ATCC 51366', 'Bipolaris victoriae FI3', 'Neurospora tetrasperma', 'Oligotropha carboxidovorans OM5', 'Oryza glumipatula', 'Oryza meridionalis', 'Monodon monoceros', 'Lonchura striata domestica', 'Fusarium avenaceum', 'Acinetobacter johnsonii SH046', 'Acinetobacter junii', 'Acinetobacter radioresistens SH164', 'Junco hyemalis', 'Aliivibrio salmonicida LFI1238', 'Penicillium italicum', 'Nosema ceranae BRL01', 'Streptomyces nodosus', 'Stenotrophomonas maltophilia K279a', 'Fonsecaea pedrosoi CBS 271.37', 'Acinetobacter sp. CIP-A165', 'Daedalea quercina L-15889', 'Fistulina hepatica ATCC 64428', 'Fomitopsis pinicola', 'Stereum hirsutum', 'Ruminococcus bromii L2-63', 'Ruminococcus callidus ATCC 27760', 'Blautia obeum ATCC 29174', 'Leptotrichia buccalis C-1013-b', 'Sutterella wadsworthensis HGA0223', 'Botrytis cinerea', 'Sporobolomyces roseus IAM 13481', 'Actinosynnema mirum DSM 43827', 'Lentzea albidocapillata', 'Xenorhabdus bovienii SS-2004', 'Xenorhabdus poinarii G6', 'Claviceps paspali', 'Claviceps fusiformis', 'Balansia obtecta', 'Thioploca ingrica', 'Borrelia duttonii Ly', 'Rhopalosiphum padi', 'Saccharomonospora azurea SZMC 14600', 'Saccharomonospora cyanea NA-134', 'Saccharomonospora glauca K62', 'Aspergillus carbonarius ITEM 5010', 'Elsinoe australis', 'Penicilliopsis zonata CBS 506.65', 'Ewingella americana ATCC 33852', 'Anopheles atroparvus', 'Seriola dumerili', 'Lomentospora prolificans', 'Bathycoccus prasinos', 'Candidatus Microthrix parvicella RN1', 'Amanita muscaria Koide BX008', 'Porphyromonas catoniae F0037', 'Enterococcus saccharolyticus subsp. saccharolyticus ATCC 43076', 'Drosophila bipectinata', 'Pneumocystis jirovecii SE8', 'Ureaplasma diversum NCTC 246', 'Phocoena sinus', 'Prunus avium', 'Streptomyces acidiscabies 84-104', 'Tuber magnatum', 'Tuber borchii', 'Desulfovibrio termitidis HI1', 'Sorex araneus', 'Rubrobacter radiotolerans', 'Phoenix dactylifera', 'Aciculosporium take MAFF-241224', 'Candida dubliniensis', 'Vittaforma corneae ATCC 50505', 'Halobacteroides halobius DSM 5150', 'Roseobacter litoralis Och 149', 'Lichtheimia corymbifera', 'Desulfofundulus thermocisternus DSM 10259', 'Pygocentrus nattereri', 'Halomonas salina', 'Streptomyces collinus Tu 365', 'Gelatoporia subvermispora B', 'Epichloe amarillans E57', 'Corynebacterium argentoratense DSM 44202', 'Ammonifex degensii KC4', 'Staphylococcus lentus F1142', 'Rickettsia felis URRWXCal2', 'Methanococcus aeolicus Nankai-3', 'Anopheles christyi', 'Tilletia indica', 'Sulfolobus islandicus REY15A', 'Rhopalosiphum maidis', 'Anopheles darlingi', 'Ictidomys tridecemlineatus', 'Capronia epimyces', 'Capronia coronata', 'Pseudomonas alcaligenes NBRC 14159', 'Butyrivibrio proteoclasticus P6B7', 'Prauserella rugosa', 'Kutzneria albida DSM 43870', 'Cathartes aura', 'Zosterops lateralis melanops', 'Halanaerobium saccharolyticum subsp. saccharolyticum DSM 6643', 'Pseudoalteromonas citrea DSM 8771', 'Pseudoalteromonas luteoviolacea B = ATCC 29581', 'Pseudoalteromonas rubra DSM 6842', 'Paenarthrobacter aurescens TC1', 'Brachybacterium faecium DSM 4810', 'Jonesia denitrificans DSM 20603', 'Rothia mucilaginosa DY-18', 'Metallosphaera sedula DSM 5348', 'Monopterus albus', 'Streptomyces wedmorensis', 'Corynebacterium amycolatum SK46', 'Rhodococcus hoagii 103S', 'Corynebacterium matruchotii ATCC 14266', 'Corynebacterium propinquum DSM 44285', 'Corynebacterium striatum ATCC 6940', 'Corynebacterium urealyticum DSM 7109', 'Tolumonas auensis DSM 9187', 'Johnsonella ignava ATCC 51276', 'Catonella morbi ATCC 51271', 'Caldicellulosiruptor saccharolyticus DSM 8903', 'Enterococcus cecorum DSM 20682 = ATCC 43198', 'Enterococcus dispar ATCC 51266', 'Ferrimonas balearica DSM 9799', 'Aureococcus anophagefferens', 'Streptomyces megasporus', 'Trichomonascus ciferrii', 'Paenibacillus alvei TS-15', 'Paenibacillus durus', 'Paenibacillus macerans', 'Bradyrhizobium oligotrophicum S58', 'Caldanaerobius polysaccharolyticus DSM 13641', 'Erythrura gouldiae', 'Zonotrichia albicollis', 'Eimeria mitis', 'Borrelia persica No12', 'Borrelia recurrentis A1', 'Natronococcus amylolyticus DSM 10524', 'Nitrosomonas cryotolerans ATCC 49181', 'Sulfurospirillum barnesii SES-3', 'Geothrix fermentans DSM 14018', 'Dictyostelium discoideum', 'Natronobacterium gregoryi SP2', 'Legionella fairfieldensis ATCC 49588', 'Legionella lansingensis DSM 19556 = ATCC 49751', 'Legionella shakespearei DSM 23087', 'Bipolaris sorokiniana', 'Pyrenophora tritici-repentis Pt-1C-BFP', 'Cyanidioschyzon merolae', 'Tolypocladium capitatum', 'Capnocytophaga granulosa ATCC 51502', 'Leucothrix mucor DSM 2157', 'Eremothecium cymbalariae', 'Eremothecium sinecaudum', 'Nematostella vectensis', 'Mycoplasma conjunctivae HRC/581', 'Mycoplasma bovoculi M165/69', 'Mycoplasma alkalescens 14918', 'Brevibacillus borstelensis 3096-7', 'Wickerhamiella sorbophila', 'Babjeviella inositovora NRRL Y-12698', 'Streptococcus cristatus AS 1.3089', 'Vibrio scophthalmi LMG 19158', 'Desulfohalobium retbaense DSM 5692', 'Nadsonia fulvescens', 'Butyrivibrio crossotus DSM 2876', 'Staphylococcus pasteuri SP1', 'Granulicatella adiacens ATCC 49175', 'Abiotrophia defectiva ATCC 49176', 'Staphylococcus chromogenes MU 970', 'Pseudobutyrivibrio ruminis CF1b', 'Anabaena sp. 90', 'Weissella hellenica', 'Pseudomonas avellanae BPIC 631', 'Mycolicibacterium hassiacum DSM 44199', 'Thermoanaerobacter wiegelii Rt8.B1', 'Spirochaeta africana DSM 8902', 'Sphingobium chlorophenolicum', 'Reticulomyxa filosa', 'Orenia marismortui DSM 5156', 'Parabacteroides merdae ATCC 43184', 'Bacteroides stercoris ATCC 43183', 'Thermosipho melanesiensis BI429', 'Suhomyces tanzawaensis', 'Aureobasidium melanogenum', 'Pseudomonas nitroreducens HBP1', 'Entamoeba dispar', 'Cenarchaeum symbiosum A', 'Dethiosulfovibrio peptidovorans DSM 11002', 'Desulfovibrio bastinii DSM 16055', 'Massilia timonae CCUG 45783', 'Neogobius melanostomus', 'Armillaria gallica', 'Armillaria ostoyae', 'Borrelia miyamotoi LB-2001', 'Rickettsia peacockii str. Rustic', 'Lautropia mirabilis ATCC 51599', 'Bacteroides caccae ATCC 43185', 'Mycoplasma alligatoris A21JP2', 'Lactobacillus rhamnosus GG', 'Streptomyces olivaceus', 'Bibersteinia trehalosi USDA-ARS-USMARC-189', 'Atkinsonella hypoxylon', 'Streptomyces sulphureus DSM 40104', 'Streptomyces lydicus', 'Lactobacillus crispatus ST1', 'Epichloe baconii ATCC 200745', 'Mycobacterium triplex', 'Micromonospora aurantiaca ATCC 27029', 'Pseudomonas amygdali pv. mori str. 301020', 'Pseudomonas corrugata CFBP 5454', 'Pseudomonas fulva 12-X', 'Pseudomonas synxantha BG33R', 'Pseudomonas luteola XLDN4-9', 'Serratia fonticola AU-AP2C', 'Vibrio cyclitrophicus FF75', 'Oreochromis aureus', 'Hyphomicrobium zavarzinii ATCC 27496', 'Acinetobacter pittii PHEA-2', 'Xanthomonas fragariae LMG 25863', 'Neolecta irregularis DAH-3', 'Penicillium freii', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Orchesella cincta', 'Geospiza fortis', 'Novosphingobium aromaticivorans DSM 12444', 'Sporisorium scitamineum', 'Candidatus Arthromitus sp. SFB-mouse-Japan', 'Kineosporia aurantiaca JCM 3230', 'Marinobacterium stanieri S30', 'Psychroserpens burtonensis DSM 12212', 'Rubrobacter xylanophilus DSM 9941', 'Desulfitobacterium hafniense Y51', 'Coffea canephora', 'Nicotiana attenuata', 'Holospora obtusa F1', 'Mycoplasma crocodyli MP145', 'Rhizobium sullae WSM1592', 'Thermoplasma volcanium GSS1', 'Charadrius vociferus', 'Pinctada fucata', 'Arabis alpina', 'Helicobacter trogontum', 'Actinobacillus minor NM305', 'Eubacterium saphenum ATCC 49989', 'Catagonus wagneri', 'Treponema maltophilum ATCC 51939', 'Ureibacillus thermosphaericus str. Thermo-BF', 'Syntrophobotulus glycolicus DSM 8271', 'Wigglesworthia glossinidia endosymbiont of Glossina morsitans morsitans (Yale colony)', 'Kluyvera ascorbata ATCC 33433', 'Eimeria brunetti', 'Eimeria praecox', 'Jaculus jaculus', 'Castor canadensis', 'Mycoplasma auris 15026', 'Mycoplasma yeatsii 13926', 'Trichoderma reesei', 'Ciona savignyi', 'Spraguea lophii 42_110', 'Haloarcula hispanica ATCC 33960', 'Kluyveromyces dobzhanskii CBS 2104', 'Nakaseomyces delphensis', 'Nakaseomyces bacillisporus', 'Tetragenococcus halophilus NBRC 12172', 'Tortispora caseinolytica', 'Meiothermus silvanus DSM 9946', 'Calidithermus chliarophilus DSM 9957', 'Acinetobacter venetianus RAG-1 = CIP 110063', 'Mitsuokella multacida DSM 20544', 'Prevotella dentalis DSM 3688', 'Lactobacillus gallinarum DSM 10532 = JCM 2011', 'Sarcoptes scabiei', 'Plasmodium inui San Antonio 1', 'Brachyspira pilosicoli 95/1000', 'Erysiphe necator', 'Sulfitobacter sp. EE-36', 'Sagittula stellata E-37', 'Haliaeetus leucocephalus', 'Bartonella alsatica IBS 382', 'Caldicellulosiruptor kristjanssonii I77R1B', 'Caldicellulosiruptor lactoaceticus 6A', 'Schaalia georgiae DSM 6843', 'Scophthalmus maximus', 'Desulfonatronovibrio hydrogenovorans DSM 9292', 'Desulfospira joergensenii DSM 10085', 'Enterococcus durans ATCC 6056', 'Enterococcus mundtii QU 25', 'Intrasporangium calvum DSM 43043', 'Brevibacterium mcbrellneri ATCC 49030', 'Hamadaea tsunoensis DSM 44101', 'Hyphomicrobium denitrificans 1NES1', 'Pseudomonas coronafaciens pv. oryzae str. 1_6', 'Pseudomonas resinovorans NBRC 106553', 'Xanthomonas axonopodis pv. vasculorum', 'Treponema lecithinolyticum ATCC 700332', 'Treponema socranskii subsp. socranskii VPI DR56BR1116 = ATCC 35536', 'Thermobrachium celere DSM 8682', 'Thermodesulfobacterium hveragerdense DSM 12571', 'Gordonia hirsuta DSM 44140 = NBRC 16056', 'Treponema paraluiscuniculi Cuniculi A', 'Nocardiopsis alba ATCC BAA-2165', 'Blautia hydrogenotrophica DSM 10507', 'Nakamurella multipartita DSM 44233', 'Mycolicibacterium mageritense DSM 44476 = CIP 104973', 'Pyrenophora teres', 'Sulfobacillus acidophilus TPY', 'Acidimicrobium ferrooxidans DSM 10331', 'Hanseniaspora valbyensis NRRL Y-1626', 'Octadecabacter arcticus 238', 'Pyrococcus horikoshii OT3', 'Peptoniphilus harei ACS-146-V-Sch2b', 'Pseudonocardia asaccharolytica DSM 44247 = NBRC 16224', 'Thermococcus zilligii AN1', 'Methanolacinia petrolearia DSM 11571', 'Pristionchus pacificus', 'Colobus angolensis palliatus', 'Ascoidea rubescens DSM 1968', 'Hyperthermus butylicus DSM 5456', 'Pyrolobus fumarii 1A', 'Thermosphaera aggregans DSM 11486', 'Ferroglobus placidus DSM 10642', 'Raoultella ornithinolytica B6', 'Chroococcidiopsis thermalis PCC 7203', 'Pleurocapsa sp. PCC 7327', 'Spirulina subsalsa PCC 9445', 'Mesitornis unicolor', 'Cariama cristata', 'Eurypyga helias', 'Streptomyces venezuelae ATCC 10712', 'Salmonella bongori N268-08', 'Streptococcus thoraltensis DSM 12221', 'Deinococcus proteolyticus MRP', 'Sciurus vulgaris', 'Flavobacterium branchiophilum FL-15', 'Epichloe elymi E56', 'Caldicellulosiruptor owensensis OL', 'Sediminispirochaeta smaragdinae DSM 11293', 'Pectobacterium betavasculorum', 'Ruegeria lacuscaerulensis ITI-1157', 'Thermonema rossianum DSM 10300', 'Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628', 'Pistacia vera', 'Magnetospirillum gryphiswaldense MSR-1 v2', 'Guillardia theta', 'Actinomyces graevenitzii C83', 'Dehalobacter restrictus DSM 9455', 'Vibrio anguillarum', 'Cuculus canorus', 'Thermococcus barophilus MP', 'Malurus cyaneus samueli', 'Streptomyces toyocaensis', 'Tyto alba', 'Hanseniaspora guilliermondii', 'Hanseniaspora osmophila', 'Bartonella clarridgeiae 73', 'Xanthomonas arboricola pv. celebensis', 'Xanthomonas cassavae CFBP 4642', 'Xanthomonas hortorum pv. carotae str. M081', 'Xanthomonas sacchari', 'Xanthomonas campestris pv. musacearum NCPPB 4379', 'Xanthomonas vesicatoria ATCC 35937', 'Protomyces lactucaedebilis', 'Aeropyrum pernix K1', 'Cottoperca gobio', 'Labrus bergylta', 'Rhizobium gallicum bv. gallicum R602sp', 'Rhizobium giardinii bv. giardinii H152', 'Eubacterium infirmum F0142', 'Glaciecola punicea ACAM 611', 'Shewanella frigidimarina NCIMB 400', 'Helicobacter bizzozeronii CIII-1', 'Afipia broomeae ATCC 49717', 'Thermus oshimai JL-2', 'Psychroflexus torquis ATCC 700755', 'Lactobacillus zeae DSM 20178 = KCTC 3804', 'Acanthisitta chloris', 'Mycoplasma suis str. Illinois', 'Apaloderma vittatum', 'Colius striatus', 'Merops nubicus', 'Trifolium pratense', 'Sulfurospirillum arcachonense DSM 9755', 'Rhizobium mongolense USDA 1844', 'Halomicrobium mukohataei DSM 12286', 'Enterococcus asini ATCC 700915', 'Fragaria vesca subsp. vesca', 'Burkholderia thailandensis MSMB43', 'Daktulosphaira vitifoliae', 'Spirillospora albida', 'Desulfofundulus kuznetsovii DSM 6115', 'Desulfofarcimen acetoxidans DSM 771', 'Desulfovibrio alaskensis G20', 'Treponema medium ATCC 700293', 'Archaeoglobus veneficus SNP6', 'Rhizopus microsporus', 'Streptomyces celluloflavus', 'Kitasatospora azatica KCTC 9699', 'Kitasatospora mediocidica KCTC 9733', 'Debaryomyces fabryi', 'Encephalitozoon intestinalis ATCC 50506', 'Trichoderma citrinoviride', 'Tilletiopsis washingtonensis', 'Rickettsiella grylli', 'Streptococcus macedonicus ACA-DC 198', 'Myotis lucifugus', 'Rhinolophus ferrumequinum', 'Actinotignum schaalii FB123-CNA-2', 'Pantholops hodgsonii', 'Corynespora cassiicola Philippines', 'Cellulophaga algicola DSM 14237', 'Desulfotomaculum reducens MI-1', 'Helicobacter rodentium ATCC 700285', 'Arabidopsis lyrata', 'Taeniopygia guttata', 'Candidatus Phytoplasma australiense', 'Alcanivorax borkumensis SK2', 'Angomonas deanei', 'Sphingomonas echinoides ATCC 14820', 'Paenibacillus alginolyticus DSM 5050 = NBRC 15375', 'Paenibacillus curdlanolyticus YK9', 'Paenibacillus peoriae KCTC 3763', 'Ficedula albicollis', 'Cyanobium gracile PCC 6307', 'Synechococcus sp. WH 7805', 'Prevotella pallens ATCC 700821', 'Penicillium polonicum', 'Penicillium solitum', 'Penicillium nalgiovense', 'Shewanella violacea DSS12', 'Shewanella amazonensis SB2B', 'Shewanella sp. MR-4', 'Shewanella sp. MR-7', 'Lactobacillus paraplantarum', 'Burkholderia vietnamiensis G4', 'Chlorocebus sabaeus', 'Halogeometricum borinquense DSM 11551', 'Phaeobacter gallaeciensis DSM 26640', 'Desulfobacca acetoxidans DSM 11109', 'Saccharopolyspora spinosa NRRL 18395', 'Sanguibacter keddieii DSM 10542', 'Shewanella woodyi ATCC 51908', 'Holdemania filiformis DSM 12042', 'Monilinia laxa', 'Varanus komodoensis', 'Ophiostoma piceae', 'Lynx canadensis', 'Dehalococcoides mccartyi 195', 'Coniosporium apollinis', 'Corynebacterium durum F0235', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Paenibacillus mucilaginosus KNP414', 'Acholeplasma brassicae', 'Enterobacter asburiae LF7a', 'Lelliottia amnigena CHS 78', 'Pluralibacter gergoviae', 'Amphilophus citrinellus', 'Nomascus leucogenys', 'Natronorubrum bangense JCM 10635', 'Hucho hucho', 'Borreliella valaisiana Tom4006', 'Acidiphilium multivorum AIU301', 'Haloterrigena turkmenica DSM 5511', 'Shewanella baltica OS117', 'Anopheles funestus', 'Saccharum spontaneum', 'Natronorubrum tibetense GA33', 'Calocera viscosa TUFC12733', 'Zobellia galactanivorans', 'Aquifex aeolicus VF5', 'Melanopsichium pennsylvanicum 4', 'Trichophyton benhamiae', 'Nannizzia gypsea CBS 118893', 'Microsporum canis CBS 113480', 'Trichophyton verrucosum', 'Trichophyton equinum', 'Desulfovibrio oxyclinae DSM 11498', 'Trichoderma atroviride', "Sodalis glossinidius str. 'morsitans'", 'Hydrogenovibrio kuenenii DSM 12350', 'Sideroxydans lithotrophicus ES-1', 'Demetria terragena DSM 11295', 'Nevskia ramosa DSM 11499', 'Bacillus pseudomycoides DSM 12442', 'Anabas testudineus', 'Desulfurobacterium thermolithotrophum DSM 11699', 'Podarcis muralis', 'Coleofasciculus chthonoplastes PCC 7420', 'Carnimonas nigrificans ATCC BAA-78', 'Dothistroma septosporum', 'Synechococcus sp. CC9311', 'Rhizopus oryzae', 'Mortierella alpina ATCC 32222', 'Lobosporangium transversale', 'Natrialba asiatica DSM 12278', 'Tetragenococcus muriaticus DSM 15685', 'Borreliella bissettii DN127', 'Terasakiella pusilla DSM 6293', 'Marinospirillum minutulum DSM 6287', 'Alcanivorax jadensis T9', 'Corynebacterium ulcerans BR-AD22', 'Pythium aphanidermatum DAOM BR444', 'Halothece sp. PCC 7418', 'Mycoplasma wenyonii str. Massachusetts', 'Oryza barthii', 'Actinoalloteichus cyanogriseus', 'Meiothermus cerbereus DSM 11376', 'Sulfurospirillum deleyianum DSM 6946', 'Desulfocapsa sulfexigens DSM 10523', 'Serendipita indica', 'Erwinia tracheiphila PSU-1', 'Pseudomonas knackmussii B13', 'Wolbachia sp. wRi', 'Lachnoclostridium phytofermentans ISDg', 'Gleimia europaea ACS-120-V-Col10b', 'Komagataeibacter intermedius AF2', 'Pantoea stewartii', 'Streptomyces niger', 'Streptomyces violens', 'Papilio xuthus', 'Streptomyces roseoverticillatus', 'Sulfurospirillum multivorans DSM 12446', 'Streptomyces afghaniensis 772', 'Streptomyces atroolivaceus', 'Streptomyces bicolor', 'Streptomyces catenulae', 'Streptomyces griseorubens', 'Trypanosoma theileri', 'Streptomyces alboflavus', 'Streptomyces aureocirculatus', 'Streptomyces filamentosus NRRL 15998', 'Streptomyces flavidovirens DSM 40150', 'Streptomyces lavenduligriseus', 'Streptomyces mutabilis', 'Kitasatospora purpeofusca', 'Streptomyces resistomycificus', 'Streptomyces varsoviensis', 'Rheinheimera baltica DSM 14885', 'Streptomyces viridosporus ATCC 14672', 'Phytophthora sojae', 'Methanocaldococcus infernus ME', 'Edwardsiella ictaluri 93-146', 'Citrobacter farmeri GTC 1319', 'Citrobacter rodentium ICC168', 'Citrobacter sedlakii NBRC 105722', 'Actinobacillus succinogenes 130Z', 'Lentzea aerocolonigenes', 'Streptomyces cyaneogriseus subsp. noncyanogenus', 'Streptomyces durhamensis', 'Streptomyces flavochromogenes', 'Streptomyces fulvissimus DSM 40593', 'Streptomyces griseoaurantiacus M045', 'Streptomyces iakyrus', 'Streptomyces katrae', 'Streptomyces pyridomyceticus', 'Streptomyces violaceusniger Tu 4113', 'Moschus moschiferus', 'Streptomyces albulus', 'Sphaerobolus stellatus SS14', 'Scleroderma citrinum Foug A', 'Rasamsonia emersonii CBS 393.64', 'Theileria orientalis', 'Streptococcus peroris ATCC 700780', 'Streptococcus infantis SK970', 'Deinococcus geothermalis DSM 11300', 'Anopheles farauti', 'Synechococcus sp. WH 5701', 'Enterobacter cancerogenus ATCC 35316', 'Dickeya paradisiaca Ech703', 'Aquamicrobium defluvii', 'Gasterosteus aculeatus', 'Microplitis demolitor', 'Pseudomonas sp. VLB120', 'Chara braunii', 'Caulobacter henricii', 'Petrotoga mobilis SJ95', 'Natrinema pellirubrum DSM 15624', 'Natrinema pallidum DSM 3751', 'Treponema vincentii ATCC 35580', 'Penicillium oxalicum 114-2', 'Selenomonas sputigena ATCC 35185', 'Trichophyton soudanense CBS 452.61', 'Macrococcus caseolyticus JCSC5402', 'Ostreococcus tauri', 'Edhazardia aedis USNM 41457', 'Pyrobaculum neutrophilum V24Sta', 'Pseudomonas plecoglossicida NB2011', 'Nodularia spumigena CCY9414', 'Shewanella oneidensis MR-1', 'Shewanella pealeana ATCC 700345', 'Flexithrix dorotheae DSM 6795', 'Lewinella cohaerens DSM 23179', 'Lewinella persica DSM 23188', 'Eucalyptus grandis', 'Paxillus involutus ATCC 200175', 'Staphylococcus vitulinus F1028', 'Vibrio halioticoli NBRC 102217', 'Mesorhizobium amorphae CCNWGS0123', 'Enterococcus malodoratus ATCC 43197', 'Enterococcus raffinosus ATCC 49464', 'Tolypocladium ophioglossoides CBS 100239', 'Lonsdalea quercina subsp. quercina', 'Waddlia chondrophila WSU 86-1044', 'Naematelia encephala', 'Hypholoma sublateritium FD-334 SS-4', 'Kocuria rhizophila P7-4', 'Bos mutus', 'Sphaeroforma arctica JP610', 'Thielaviopsis punctulata', 'Lepeophtheirus salmonis', 'Citromicrobium bathyomarinum JL354', 'Ophiocordyceps sinensis', 'Trachipleistophora hominis', 'Bacillus mojavensis RO-H-1 = KCTC 3706', 'Drosophila austrosaltans', 'Drosophila lusaltans', 'Drosophila milleri', 'Nannochloropsis gaditana CCMP526', 'Achromobacter piechaudii HLE', 'Sporisorium reilianum', 'Boechera stricta', 'Eutrema salsugineum', 'Dechloromonas agitata is5', 'Streptomyces seoulensis', 'Thiocystis violascens DSM 198', 'Emmonsia crescens UAMH 3008', 'Cordyceps militaris', 'Piromyces sp. E2', 'Methanocaldococcus vulcanius M7', 'Thermaerobacter marianensis DSM 12885', 'Photobacterium profundum SS9', 'Brevundimonas bacteroides DSM 4726', 'Brevundimonas subvibrioides ATCC 15264', 'Maricaulis maris MCS10', 'Hyphomonas polymorpha PS728', 'Sulfitobacter guttiformis KCTC 32187', 'Thraustotheca clavata', 'Rosa chinensis', 'Stachybotrys chartarum IBT 7711', 'Pseudomonas balearica DSM 6083', 'Anopheles maculatus', 'Anopheles sinensis', 'Oncorhynchus tshawytscha', 'Paraburkholderia caribensis MBA4', 'Saccharomonospora xinjiangensis XJ-54', 'Sinocyclocheilus grahami', 'Pseudomonas mandelii PD30', 'Castellaniella defragrans 65Phen', 'Anas zonorhyncha', 'Thermocrinis ruber DSM 12173', 'Mycolicibacterium tusciae JS617', 'Mannheimia haemolytica M42548', 'Thauera linaloolentis 47Lol = DSM 12138', 'Thauera terpenica 58Eu', 'Alloprevotella tannerae ATCC 51259', 'Prevotella enoeca JCM 12259', 'Vibrio rumoiensis 1S-45', 'Campylobacter hominis ATCC BAA-381', 'Cellulophaga baltica 13', 'Mycetocola saprophilus', 'Streptomyces vitaminophilus DSM 41686', 'Sinorhizobium arboris LMG 14919', 'Pseudomonas monteilii SB3078', 'Malassezia globosa CBS 7966', 'Malassezia sympodialis ATCC 42132', 'Myroides odoratimimus H1bi', 'Solibacillus silvestris StLB046', 'Streptococcus constellatus subsp. pharyngis SK1060 = CCUG 46377', 'Hebeloma cylindrosporum h7', 'Caldivirga maquilingensis IC-167', 'Asticcacaulis biprosthecum C19', 'Sphingobium herbicidovorans NBRC 16415', 'Malassezia pachydermatis', 'Cylindrospermopsis raciborskii CS-505', 'Wolbachia endosymbiont of Drosophila simulans wNo', 'Rosellinia necatrix', 'Sclerotinia borealis F-4128', 'Dendroctonus ponderosae', 'Plasmodium gonderi', 'Leersia perrieri', 'Bifidobacterium subtile', 'Prevotella albensis DSM 11370 = JCM 12258', 'Succinispira mobilis DSM 6222', 'Oidiodendron maius', 'Parascardovia denticolens DSM 10105 = JCM 12538', 'Scardovia inopinata F0304', 'Pseudomonas mosselii SJ10', 'Mycobacterium canettii CIPT 140070017', 'Bifidobacterium gallicum DSM 20093 = LMG 11596', 'Bifidobacterium gallinarum', 'Bifidobacterium merycicum', 'Bifidobacterium ruminantium', 'Streptomyces somaliensis DSM 40738', 'Pectobacterium odoriferum', 'Neonectria ditissima', 'Bifidobacterium pullorum DSM 20433', 'Rhizobium undicola ORS 992 = ATCC 700741', 'Thermothelomyces thermophilus', 'Asticcacaulis excentricus CB 48', 'Podila verticillata', 'Desulfosporosinus meridiei DSM 13257', 'Chitinophaga pinensis DSM 2588', 'Epichloe brachyelytri', 'Microtus ochrogaster', 'Cimex lectularius', 'Bacillus clausii KSM-K16', 'Bacillus pseudofirmus OF4', 'Erwinia pyrifoliae Ep1/96', 'Coniophora puteana', 'Piloderma croceum F 1598', 'Thioflavicoccus mobilis 8321', 'Aphis gossypii', 'Haliangium ochraceum DSM 14365', 'Wolbachia endosymbiont strain TRS of Brugia malayi', 'Aliivibrio wodanis', 'Moritella viscosa', 'Delftia acidovorans SPH-1', 'Acidovorax avenae subsp. avenae ATCC 19860', 'Acidovorax citrulli AAC00-1', 'Cryptosporangium arvum DSM 44712', 'Hylemonella gracilis str. Niagara R', 'Simplicispira psychrophila DSM 11588', 'Colletotrichum higginsianum', 'Acanthochromis polyacanthus', 'Amphiprion ocellaris', 'Treponema brennaborense DSM 12168', 'Hyphomonas adhaerens MHS-3', 'Hyphomonas johnsonii MHS-2', 'Hyphomonas neptunium ATCC 15444', 'Hyphomonas oceanitis SCH89', 'Wolfiporia cocos MD-104 SS10', 'Desulfovibrio alcoholivorans DSM 5433', 'Parageobacillus caldoxylosilyticus CIC9', 'Aminomonas paucivorans DSM 12260', 'Desulfovibrio aminophilus DSM 12254', 'Thermanaerovibrio acidaminovorans DSM 6589', 'Aminobacterium mobile DSM 12262', 'Aminobacterium colombiense DSM 12261', 'Frateuria aurantia DSM 6220', 'Monosiga brevicollis', 'Kitasatospora cheerisanensis KCTC 2395', 'Vagococcus lutrae LBD1', 'Arabidopsis halleri subsp. gemmifera', 'Capsella rubella', 'Picrophilus torridus DSM 9790', 'Atopobium vaginae DSM 15829', 'Centipeda periodontii DSM 2778', 'Phlebiopsis gigantea 11061_1 CR5-6', 'Facklamia languida CCUG 37842', 'Paracoccus pantotrophus J46', 'Anaerovibrio lipolyticus LB2005', 'Anaeroarcus burkinensis DSM 6283', 'Trichosporon asahii', 'Pseudanabaena sp. PCC 7367', 'Streptococcus ovis DSM 16829', 'Pythium arrhenomanes ATCC 12531', 'Buttiauxella agrestis ATCC 33320', 'Budvicia aquatica DSM 5075 = ATCC 35567', 'Leminorella grimontii ATCC 33999 = DSM 5078', 'Tatumella ptyseos ATCC 33301', 'Serratia grimesii', 'Serratia plymuthica', 'Methanocaldococcus fervens AG86', 'Sulfitobacter mediterraneus', 'Prevotella brevis P6B11', 'Gordonia rhizosphera NBRC 16068', 'Myxococcus stipitatus DSM 14675', 'Linepithema humile', 'Parachlamydia acanthamoebae UV-7', 'Chlamydia psittaci 10_1398_11', 'Chlamydia abortus S26/3', 'Chlamydia felis Fe/C-56', 'Chlamydia caviae GPIC', 'Chlamydia pneumoniae TW-183', 'Chlamydia suis MD56', 'Chlamydia muridarum str. Nigg', 'Simkania negevensis Z', 'Leclercia adecarboxylata ATCC 23216 = NBRC 102595', 'Lactobacillus amylolyticus DSM 11664', 'Succinimonas amylolytica DSM 2873', 'Succinivibrio dextrinosolvens H5', 'Methanobrevibacter ruminantium M1', 'Trypanosoma conorhini', 'Methanocorpusculum labreanum Z', 'Methanoculleus bourgensis MS2', 'Clostridium autoethanogenum DSM 10061', 'Clostridium haemolyticum NCTC 9693', 'Gordonia alkanivorans NBRC 16433', 'Slackia exigua ATCC 700122', 'Slackia heliotrinireducens DSM 20476', 'Eggerthella lenta DSM 2243', 'Gemella sanguinis M325', 'Gemella bergeri ATCC 700627', 'Archaeoglobus profundus DSM 5631', 'Magnetospirillum magneticum AMB-1', 'Cryptobacterium curtum DSM 15641', 'Brachyspira intermedia PWS/A', 'Brachyspira murdochii DSM 12563', 'Hippea maritima DSM 10411', 'Lysobacter antibioticus', 'Synechococcus sp. WH 8102', 'Taylorella asinigenitalis MCE3', 'Gordonia polyisoprenivorans VH2', 'Staphylothermus hellenicus DSM 12710', 'Candidatus Odyssella thessalonicensis L13', 'Anthracocystis flocculosa', 'Moesziomyces antarcticus', 'Moesziomyces aphidis DSM 70725', 'Beutenbergia cavernae DSM 12333', 'Desulfotalea psychrophila LSv54', 'Corvus brachyrhynchos', 'Pseudarthrobacter chlorophenolicus A6', 'Clogmia albipunctata', 'Mannheimia varigena USDA-ARS-USMARC-1296', 'Plasmodium relictum', 'Thauera sp. MZ1T', 'Citrus clementina', 'Triticum dicoccoides', 'Achromobacter xylosoxidans A8', 'Bartonella tribocorum CIP 105476', 'Thermacetogenium phaeum DSM 12270', 'Sphaerulina musiva', 'Serpula lacrymans', 'Chlamydia pecorum E58', 'Cladophialophora carrionii', 'Rhinocladiella mackenziei CBS 650.93', 'Arenibacter latericius DSM 15913', 'Syntrophothermus lipocalidus DSM 12680', 'Phaseolibacter flectens ATCC 12775', 'Saccharophagus degradans 2-40', 'Mycoplasma dispar', 'Bacillus flexus T6186-2', 'Bacillus halodurans C-125', 'Propionispira raffinosivorans DSM 20765', 'Camarhynchus parvulus', 'Facklamia sourekii ATCC 700629', 'Burkholderia multivorans ATCC 17616', 'Selaginella moellendorffii', 'Treponema primitia ZAS-2', 'Eremococcus coleocola DSM 15696', 'Thermus igniterrae ATCC 700962', 'Thermus antranikianii DSM 12462', 'Dorea longicatena AGR2136', 'Cyclospora cayetanensis', 'Megaselia abdita', 'Caulobacter segnis ATCC 21756', 'Ceratocystis platani', 'Borreliella spielmanii A14S', 'Streptomyces yeochonensis CN732', 'Gordonia amicalis CCMA-559', 'Corynebacterium terpenotabidum Y-11', 'Ruegeria pomeroyi DSS-3', 'Laccaria amethystina LaAM-08-1', 'Bubalus bubalis', 'Cladophialophora bantiana CBS 173.52', 'Moraxella caprae DSM 19149', 'Oligella ureolytica DSM 18253', 'Oligella urethralis DNF00040', 'Absidia repens', 'Camelina sativa', 'Moritella marina ATCC 15381', 'Hydrogenovibrio sp. Milos-T1', 'Thiomicrorhabdus sp. Milos-T2', 'Enterovibrio calviensis 1F-211', 'Polistes canadensis', 'Synechococcus sp. PCC 7335', 'Aspergillus udagawae', 'Candidatus Paracaedibacter acanthamoebae', 'Mucor ambiguus', 'Candidatus Portiera aleyrodidarum BT-QVLC', 'Exophiala spinifera', 'Hortaea werneckii', 'Catharus ustulatus', 'Bartonella koehlerae C-29', 'Thiomicrospira aerophila AL3', 'Metarhizium album ARSEF 1941', 'Metarhizium acridum CQMa 102', 'Herbaspirillum frisingense GSF30', 'Fischerella muscicola PCC 7414', 'Ketogulonicigenium vulgare WSH-001', 'Pandoraea apista', 'Pandoraea pnomenusa', 'Pandoraea pulmonicola', 'Pandoraea sputorum', 'Pseudaminobacter salicylatoxidans KCT001', 'Edwardsiella hoshinae NBRC 105699 = ATCC 33379', 'Fervidobacterium pennivorans DSM 9078', 'Exserohilum turcicum', 'Roseivivax halodurans JCM 10272', 'Myzus cerasi', 'Thermotoga petrophila RKU-1', 'Thermotoga naphthophila RKU-10', 'Coturnix japonica', 'Cryptosporidium meleagridis', 'Thermicanus aegyptius DSM 12793', 'Shewanella sp. ANA-3', 'Rhizophagus clarus', 'Ramlibacter tataouinensis TTB310', 'Tolypocladium paradoxum', 'Mola mola', 'Dyadobacter fermentans DSM 18053', 'Bordetella petrii', 'Ochrobactrum intermedium LMG 3301', 'Besnoitia besnoiti', 'Desulfurococcus amylolyticus 1221n', 'Gavialis gangeticus', 'Helicobacter pametensis ATCC 51478', 'Burkholderia cenocepacia J2315', 'Pseudomonas sp. M1', 'Legionella fallonii LLAP-10', 'Flavobacterium psychrophilum JIP02/86', 'Salvator merianae', 'Lactobacillus hamsteri DSM 5661 = JCM 6256', 'Halobacteriovorax marinus SJ', 'Eutypa lata', 'Phaethon lepturus', 'Lactobacillus sp. ASF360', 'Clostridium sp. MD294', 'Eubacterium plexicaudatum ASF492', 'Ferroplasma acidarmanus fer1', 'Acetomicrobium mobile DSM 13181', 'Lactobacillus mucosae LM1', 'Periconia macrospinosa', 'Bacillus sp. OxB-1', 'Drechmeria coniospora', 'Mycolicibacterium septicum DSM 44393', 'Phlebia centrifuga', 'Pyrobaculum oguniense TE7', 'Hammondia hammondi', 'Flavobacterium frigidarium DSM 17623', 'Calothrix sp. PCC 7507', 'Spermophilus dauricus', 'Tetraodon nigroviridis', 'Austwickia chelonae NBRC 105200', 'Onion yellows phytoplasma', 'Chloroherpeton thalassium ATCC 35110', 'Verticillium longisporum', 'Madurella mycetomatis', 'Falco tinnunculus', 'Wolbachia endosymbiont of Onchocerca ochengi', 'Fusarium pseudograminearum CS3096', 'Choanephora cucurbitarum', 'Hesseltinella vesiculosa', 'Bipolaris oryzae', 'Methanomethylovorans hollandica DSM 15978', 'Trichoderma asperellum CBS 433.97', 'Saprolegnia parasitica CBS 223.65', 'Aequorivita sublithincola DSM 14238', 'Trichophyton interdigitale H6', 'Candidatus Blochmannia pennsylvanicus str. BPEN', 'Burkholderia ubonensis MSMB22', 'Tetrasphaera elongata Lp2', 'Glarea lozoyensis ATCC 20868', 'Prunus mume', 'Stanieria cyanosphaera PCC 7437', 'Xenococcus sp. PCC 7305', 'Leptolyngbya sp. PCC 7375', 'Desulfallas gibsoniae DSM 7213', 'Solobacterium moorei DSM 22971', 'Gloeocapsa sp. PCC 73106', 'Cyanobacterium stanieri PCC 7202', 'Streptococcus infantarius subsp. infantarius CJ18', 'Proteus penneri ATCC 35198', 'Streptococcus didelphis DSM 15616', 'Acromyrmex echinatior', 'Vavraia culicis subsp. floridensis', 'Gleimia coleocanis DSM 15436', 'Actinomyces urogenitalis DSM 15434', 'Nostoc sp. PCC 7120 = FACHB-418', 'Pogona vitticeps', 'Saccharothrix espanaensis DSM 44229', 'Saccharothrix syringae', 'Riemerella columbina DSM 16469', 'Rhodococcus pyridinivorans SB3094', 'Bordetella hinzii ATCC 51730', 'Oscillochloris trichoides DG-6', 'Penicillium brasilianum', 'Postia placenta Mad-698-R', 'Gloeophyllum trabeum', 'Camponotus floridanus', 'Serratia sp. ATCC 39006', 'Helicobacter suis HS1', 'Cryptococcus amylolentus', 'Adineta vaga', 'Nothobranchius furzeri', 'Ralstonia mannitolilytica', 'Streptacidiphilus neutrinimicus', 'Streptacidiphilus carbonis', 'Streptacidiphilus albus', 'Desulfohalotomaculum alkaliphilum DSM 12257', 'Valsa mali var. pyri', 'Methylibium petroleiphilum PM1', 'Epicoccum nigrum', 'Cryptotermes secundus', 'Anaerostipes caccae DSM 14662', 'Leucosporidium creatinivorum', 'Frankia casuarinae', 'Thermoanaerobacter siderophilus SR4', 'Maylandia zebra', 'Pseudoflavonifractor capillosus ATCC 29799', 'Cupriavidus necator H16', 'Ensifer adhaerens OV14', 'Acinetobacter bereziniae', 'Acinetobacter guillouiae NIPH 991', 'Acinetobacter sp. RUH2624', 'Chelonoidis abingdonii', 'Tenacibaculum maritimum NCIMB 2154', 'Methylosinus sp. LW3', 'Methylosinus sp. PW1', 'Opitutus terrae PB90-1', 'Thermanaerovibrio velox DSM 12556', 'Thermoanaerobacter italicus Ab9', 'Corynebacterium falsenii DSM 44353', 'Coprothermobacter platensis DSM 11748', 'Acinetobacter ursingii DSM 16037 = CIP 107286', 'Acinetobacter schindleri NIPH 900', 'Rickettsia monacensis', 'Hippocampus comes', 'Anaerovorax odorimutans DSM 5092', 'Leptotrichia trevisanii DSM 22070', 'Varroa destructor', 'Myotis brandtii', 'Galerina marginata CBS 339.88', 'Spizellomyces punctatus', 'Lactobacillus jensenii 115-3-CHN', 'Batrachochytrium dendrobatidis JAM81', 'Catenaria anguillulae PL171', 'Serendipita vermifera MAFF 305830', 'Nocardioides sp. CF8', 'Sinorhizobium medicae WSM419', 'Gregarina niphandrodes', 'Pelotomaculum thermopropionicum SI', 'Mycolicibacterium vanbaalenii PYR-1', 'Synechococcus sp. CC9605', 'Synechococcus sp. CC9616', 'Eragrostis tef', 'Porphyromonas gulae', 'Muricauda ruestringensis DSM 13258', 'Bartonella birtlesii E11', 'Kineosphaera limosa NBRC 100340', 'Leptolyngbya sp. PCC 7376', 'Sulfurisphaera tokodaii str. 7', 'Ignatzschineria larvae DSM 13226', 'Aphanomyces astaci', 'Saprolegnia diclina', 'Anopheles minimus', 'Ramularia collo-cygni', 'Enterococcus villorum ATCC 700913', 'Streptococcus australis ATCC 700641', 'Pseudocercospora musae', 'Pseudoramibacter alactolyticus ATCC 23263', 'Melitaea cinxia', 'Bradyrhizobium sp. Tv2a-2', 'Scleropages formosus', 'Actinoplanes globisporus DSM 43857', 'Tetrapisispora phaffii CBS 4417', 'Geoglobus ahangari', 'Dichomitus squalens LYAD-421 SS1', 'Candidatus Carsonella ruddii DC', 'Cordyceps fumosorosea ARSEF 2679', 'Saccharomyces kudriavzevii', 'Saccharomyces mikatae', 'Bradyrhizobium sp. ORS 278', 'Methylobacterium nodulans ORS 2060', 'Alkaliphilus transvaalensis ATCC 700919', 'Streptococcus orisratti DSM 15617', 'Streptomyces auratus AGR0001', 'Mycoplasmopsis columbinum SF7', 'Phoronis australis', 'Globisporangium iwayamae', 'Coprococcus catus GD/7', 'Lactobacillus psittaci DSM 15354', 'Cryptosporidium andersoni', 'Tilletia walkeri', 'Fusarium verticillioides', 'Sphingopyxis alaskensis RB2256', 'Denitrovibrio acetiphilus DSM 12809', 'Pleurocapsa sp. PCC 7319', 'Pseudanabaena sp. PCC 6802', 'Picoides pubescens', 'Beauveria brongniartii RCEF 3172', 'Oscillatoria acuminata PCC 6304', 'Arthrospira platensis NIES-39', 'Nicotiana noctiflora var. noctiflora', 'Bulleidia extructa W1219', 'Lipotes vexillifer', 'Cupriavidus metallidurans CH34', 'Pseudothermotoga thermarum DSM 5069', 'Syntrophobacter fumaroxidans MPOB', 'Microcoleus vaginatus FGP-2', 'Bacillus sonorensis L12', 'Marinomonas mediterranea MMB-1', 'Ustilago hordei Uh4857-4', 'Brucella pinnipedialis B2/94', 'Brucella ceti M644/93/1', 'Roseiflexus castenholzii DSM 13941', 'Ferrimicrobium acidiphilum DSM 19497', 'Helicocarpus griseus UAMH5409', 'Schaalia suimastitidis DSM 15538', 'Pediculus humanus corporis', 'Pyrobaculum arsenaticum DSM 13514', 'Sphingobium xenophagum QYY', 'Tauraco erythrolophus', 'Pannonibacter phragmitetus DSM 14782', 'Photobacterium sp. SKA34', 'Paracoccidioides brasiliensis', 'Diaphorina citri', 'Pseudomonas psychrophila HA-4', 'Cercospora beticola', 'Alicyclobacillus herbarius DSM 13609', 'Oryzias javanicus', 'Helicobacter canadensis MIT 98-5491', 'Bordetella trematum', 'Nocardiopsis xinjiangensis YIM 90004', 'Thiolinea disciformis DSM 14473', 'Thiofilum flexile DSM 14609', 'Drosophila biarmipes', 'Halodesulfovibrio aestuarii DSM 10141', 'Providencia alcalifaciens DSM 30120', 'Thermotoga sp. RQ7', 'Thermotoga sp. RQ2', 'Strigamia maritima', 'Nipponia nippon', 'Catelliglobosispora koreensis DSM 44566', 'Drosophila santomea', 'Phytophthora lateralis MPF4', 'Arthrospira maxima CS-328', 'Carboxydothermus hydrogenoformans Z-2901', 'Halobiforma nitratireducens JCM 10879', 'Galdieria sulphuraria', 'Corynebacterium capitovis DSM 44611', 'Schaalia turicensis ACS-279-V-Col4', 'Thiomicrorhabdus arctica DSM 13458', 'Kineococcus radiotolerans SRS30216 = ATCC BAA-149', 'Bombus impatiens', 'Candidatus Glomeribacter gigasporarum BEG34', 'Nocardia veterana NBRC 100344', 'Anser brachyrhynchus', 'Pteropus vampyrus', 'Rhodococcus jostii RHA1', 'Exiguobacterium antarcticum B7', 'Citrobacter youngae ATCC 29220', 'Caldilinea aerophila DSM 14535 = NBRC 104270', 'Nitrosococcus halophilus Nc 4', 'Methylocapsa acidiphila B2', 'Frankliniella occidentalis', 'Leisingera methylohalidivorans DSM 14336', 'Olsenella uli DSM 7084', 'Phytomonas sp. isolate EM1', 'Phytomonas sp. isolate Hart1', 'Corynebacterium freneyi DNF00450', 'Acinetobacter parvus NIPH 1103', 'Acinetobacter gyllenbergii NIPH 230', 'Paraburkholderia fungorum', 'Ministeria vibrans', 'Actinoplanes sp. SE50/110', 'Ureaplasma parvum serovar 3 str. ATCC 27815', 'Selenomonas flueggei ATCC 43531', 'Selenomonas infelix ATCC 43532', 'Selenomonas noxia ATCC 43541', 'Paenibacillus daejeonensis DSM 15491', 'Nocardia cyriacigeorgica GUH-2', 'Geobacillus vulcani PSS1', 'Idiomarina loihiensis L2TR', 'Caenorhabditis brenneri', 'Bacillus endophyticus 2102', 'Zootermopsis nevadensis', 'Thermocrinis albus DSM 14484', 'Knoellia sinensis KCTC 19936', 'Mycoplasma haemocanis str. Illinois', 'Kocuria polaris', 'Atopobacter phocae ATCC BAA-285', 'Leuconostoc kimchii IMSNU 11154', 'Methylosinus sp. LW4', 'Weissella cibaria KACC 11862', 'Facklamia ignava CCUG 37419', 'Granulicatella elegans ATCC 700633', 'Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)', 'Candidatus Regiella insecticola LSR1', "Serratia symbiotica str. 'Cinara cedri'", 'Blastococcus saxobsidens DD2', 'Helicobacter cetorum MIT 00-7128', 'Olsenella profusa F0195', 'Sistotremastrum niveocremeum HHB9708', 'Isoptericola variabilis 225', 'Plicaturopsis crispa FD-325 SS-3', 'Teleopsis dalmanni', 'Anopheles culicifacies', 'Shimazuella kribbensis DSM 45090', 'Lachnobacterium bovis', 'Nicotiana cordifolia', 'Candidatus Mycoplasma haemolamae str. Purdue', 'Nocardiopsis kunsanensis DSM 44524', 'Cylindrospermum stagnale PCC 7417', 'Desulfitobacterium metallireducens DSM 15288', 'Zobellia uliginosa', 'Filifactor alocis ATCC 35896', 'Eubacterium sulci ATCC 35585', 'Diuraphis noxia', 'Sipha flava', 'Pogonomyrmex barbatus', 'Mobiluncus holmesii ATCC 35242', 'Leifsonia aquatica H1aii', 'Stegastes partitus', 'Methanothermobacter thermautotrophicus str. Delta H', 'Methanothermobacter marburgensis str. Marburg', 'Rathayibacter toxicus DSM 7488', 'Thermosynechococcus elongatus BP-1', 'Halorhabdus utahensis DSM 12940', 'Pseudoloma neurophilia', 'Salinibacter ruber DSM 13855', 'Streptomyces griseofuscus', 'Azovibrio restrictus DSM 23866', 'Azospira oryzae PS', 'Collinsella stercoris DSM 13279', 'Collinsella intestinalis DSM 13280', 'Agrobacterium albertimagni AOL15', 'Thiomicrospira cyclica ALM1', 'Limnospira indica PCC 8005', 'Paracoccus yeei ATCC BAA-599', 'Carnobacterium inhibens subsp. gilichinskyi', 'Lactobacillus iners AB-1', 'Magnaporthiopsis poae', 'Pyricularia grisea', 'Paraburkholderia phymatum STM815', 'Lactobacillus ingluviei str. Autruche 4', 'Sulfuricurvum kujiense DSM 16994', 'Lactobacillus kunkeei', 'Wallemia sebi', 'Streptococcus urinalis 2285-97', 'Phialocephala scopiformis', 'Marinitoga piezophila KA3', 'Streptococcus lutetiensis 033', 'Halonatronum saccharophilum DSM 13868', 'Gemella cuniculi DSM 15828', 'Sporothrix insectorum RCEF 264', 'Escovopsis weberi', 'Pseudomonas sp. MT-1', 'Treponema azotonutricium ZAS-9', 'Pseudoalteromonas ruthenica CP76', 'Bacteroides coprosuis DSM 18011', 'Afipia birgiae 34632', 'Xenophilus azovorans DSM 13620', 'Pseudopedobacter saltans DSM 12145', 'Chloroflexus aggregans DSM 9485', 'Lactobacillus suebicus DSM 5007 = KCTC 3549', 'Thioalkalivibrio thiocyanoxidans ARh 4', 'Burkholderia ambifaria AMMD', 'Burkholderia dolosa PC543', 'Sphingomonas melonis DAPP-PG 224', 'Corynebacterium efficiens YS-314', 'Desulforegula conservatrix Mb1Pa', 'Oceanicaulis alexandrii DSM 11625', 'Alysiella crassa DSM 2578', 'Conchiformibius steedae DSM 2580', 'Kozakia baliensis', 'Moniliophthora perniciosa FA553', 'Sporocytophaga myxococcoides', 'Nitrosomonas sp. AL212', 'Hungatella hathewayi DSM 13479', 'Turicibacter sanguinis PC909', 'Thiorhodospira sibirica ATCC 700588', 'Trametes pubescens', 'Enterococcus phoeniculicola ATCC BAA-412', 'Cellvibrio japonicus Ueda107', 'Bartonella bovis 91-4', 'Bacillus toyonensis BCT-7112', 'Gallibacterium genomosp. 1', 'Enterococcus moraviensis ATCC BAA-383', 'Enterococcus haemoperoxidus ATCC BAA-382', 'Streptococcus entericus DSM 14446', 'Methanothermococcus okinawensis IH1', 'Caulobacter vibrioides NA1000', 'Actinokineospora enzanensis DSM 44649', 'Acaryochloris marina MBIC11017', 'Anaeroglobus geminatus F0357', 'Tulasnella calospora MUT 4182', 'Cyanistes caeruleus', 'Alteromonadales bacterium TW-7', 'Flavobacteria bacterium BBFL7', 'Dysgonomonas gadei ATCC BAA-286', 'Corynebacterium imitans', 'Aphanomyces invadans', 'Jeotgalicoccus psychrophilus DSM 19085', 'Helicobacter winghamensis ATCC BAA-430', 'Leptomonas pyrrhocoris', 'Leptotrichia wadei F0279', 'Leptotrichia hofstadii F0254', 'Leptotrichia shahii DSM 19757', 'Leptotrichia goodfellowii F0264', 'Pseudomonas parafulva NBRC 16636 = DSM 17004', 'Pseudomonas cremoricolorata', 'Vigna radiata var. radiata', 'Phaeomoniella chlamydospora', 'Chromohalobacter salexigens DSM 3043', 'Hahella chejuensis KCTC 2396', 'Folsomia candida', 'Betta splendens', 'Cedecea davisae DSM 4568', 'Novosphingobium resinovorum', 'Trametes coccinea BRFM310', 'Diaporthe helianthi', 'Bifidobacterium scardovii', 'Terrapene carolina triunguis', 'Cedecea neteri', 'Enterobacter sp. MGH 2', 'Megamonas hypermegale DSM 1672', 'Providencia rustigianii DSM 4541', 'Trabulsiella guamensis ATCC 49490', 'Yokenella regensburgei ATCC 43003', 'Collimonas fungivorans Ter331', 'Roseibacterium elongatum DSM 19469', 'Embleya scabrispora DSM 41855', 'Paraburkholderia sacchari', 'Paenibacillus terrae HPL-003', 'Thalassiosira oceanica', 'Microbacterium gubbeenense DSM 15944', 'Nanoarchaeum equitans Kin4-M', 'Ignicoccus hospitalis KIN4/I', 'Corynebacterium casei LMG S-19264', 'Enterococcus gilvus ATCC BAA-350', 'Enterococcus pallens ATCC BAA-351', 'Sphingomonas wittichii RW1', 'Paenibacillus borealis', 'Acidithiobacillus ferrivorans SS3', 'Auricularia delicata', 'Thermodesulfobacterium hydrogeniphilum', 'Planococcus antarcticus DSM 14505', 'Anaeromyxobacter dehalogenans 2CP-C', 'Erythrobacter sp. SD-21', 'Amphiprion percula', 'Corynebacterium kroppenstedtii DSM 44385', 'Corynebacterium lipophiloflavum DSM 44291', 'Corynebacterium mastitidis DSM 44356', 'Corynebacterium camporealensis', 'Corynebacterium singulare', 'Beta vulgaris', 'Aspergillus nidulans FGSC A4', 'Thermococcus cleftensis', 'Wolbachia endosymbiont of Drosophila melanogaster', 'Dysgonomonas mossii DSM 22836', 'Algicola sagamiensis DSM 14643', 'Anabaena sp. PCC 7108', 'Phytophthora ramorum', 'Lactobacillus fuchuensis DSM 14340 = JCM 11249', 'Vulcanisaeta distributa DSM 14429', 'Blattabacterium sp. (Cryptocercus punctulatus) str. Cpu', 'Cupriavidus taiwanensis LMG 19424', 'Mycobacterium sp. MCS', 'Mycobacterium sp. JLS', 'Weissella koreensis KACC 15510', 'Prevotella copri DSM 18205', 'Bartonella schoenbuchensis m07a', 'Synechococcus sp. WH 8109', 'Synechococcus sp. WH 8016', 'Roseburia intestinalis L1-82', 'Thermobaculum terrenum ATCC BAA-798', 'Pseudoalteromonas translucida TAC125', 'Allofustis seminis DSM 15817', 'Ilyobacter polytropus DSM 2926', 'Anaerolinea thermophila UNI-1', 'Candidatus Ishikawaella capsulata Mpkobe', 'Marvinbryantia formatexigens DSM 14469', 'Laribacter hongkongensis HLHK9', 'Salinispora tropica CNB-440', 'Salinispora arenicola CNS-205', 'Legionella drancourtii LLAP12', 'Metarhizium guizhouense ARSEF 977', 'Gelidibacter mesophilus DSM 14095', 'Novosphingobium tardaugens NBRC 16725', 'Exiguobacterium undae DSM 14481', 'Corynebacterium aurimucosum ATCC 700975', 'Anaerotruncus colihominis DSM 17241', 'Saccharospirillum impatiens DSM 12546', 'Clostridium saccharobutylicum DSM 13864', 'Paenibacillus stellifer', 'Epichloe aotearoae', 'Staphylococcus pettenkoferi VCU012', 'Vibrio brasiliensis LMG 20546', 'Vibrio kanaloae 5S-149', 'Methanosarcina lacustris Z-7289', 'Sulfurihydrogenibium subterraneum DSM 15120', 'Halosimplex carlsbadense 2-9-1', 'Mycoplasma anatis 1340', 'Mycoplasma cynos C142', 'Tistrella mobilis KA081020-065', 'Mycoplasma ovis str. Michigan', 'Oceanobacillus picturae', 'Thermodesulfatator indicus DSM 15286', 'Rothia aeria F0184', 'Elizabethkingia miricola', 'Thermococcus sibiricus MM 739', 'Bradyrhizobium sp. th.b2', 'Meiothermus taiwanensis DSM 14542', 'Echeneis naucrates', 'Brachybacterium paraconglomeratum LC44', 'Methylobacter tundripaludum SV96', 'Gemmatimonas aurantiaca T-27', 'Gordonia sihwensis NBRC 108236', 'Ordospora colligata OC4', 'Allobaculum stercoricanis DSM 13633', 'Gordonia paraffinivorans NBRC 108238', 'Thermaerobacter subterraneus DSM 13965', 'Buceros rhinoceros', 'Nestor notabilis', 'Streptococcus sinensis', 'Pseudoalteromonas agarivorans S816', 'Beauveria bassiana', 'Halomonas halocynthiae DSM 14573', 'Lactobacillus malefermentans DSM 5705 = KCTC 3548', 'Python bivittatus', 'Coniochaeta ligniaria NRRL 30616', 'Anaerophaga thermohalophila DSM 12881', 'Pseudothermotoga lettingae TMO', 'Shuttleworthia satelles DSM 14600', 'Facklamia hominis ACS-120-V-Sch10', 'Leptospirillum ferriphilum ML-04', 'Pisolithus microcarpus 441', 'Acetobacter malorum', 'Clostridium colicanis 209318', 'Alicycliphilus denitrificans K601', 'Culicoides sonorensis', 'Sphingomonas elodea ATCC 31461', 'Rhizopogon vesiculosus', 'Cyanobium sp. PCC 7001', 'Robinsoniella peoriensis', 'Salinisphaera shabanensis E1L3A', 'Proteocatella sphenisci DSM 23131', 'Carnobacterium pleistocenium FTR1', 'Pseudopodoces humilis', 'Salarias fasciatus', 'Pyrobaculum calidifontis JCM 11548', 'Schaalia cardiffensis F0333', 'Cyanoderma ruficeps', 'Desulfococcus oleovorans Hxd3', 'Lactobacillus coleohominis 101-4-CHN', 'Pseudodesulfovibrio aespoeensis Aspo-2', 'Erwinia billingiae Eb661', 'Rubritepida flocculans DSM 14296', 'Kribbella flavida DSM 17836', 'Oceanobacillus iheyensis HTE831', 'Oryzias sinensis', 'Stemphylium lycopersici', 'Pseudo-nitzschia multistriata', 'Pseudomonas mediterranea CFBP 5447', 'Schaalia vaccimaxillae DSM 15804', 'Thermodesulfobium narugense DSM 14796', 'Thermoproteus uzoniensis 768-20', 'Crocinitomix catalasitica ATCC 23190', 'Varibaculum cambriense DORA_20', 'Knoellia subterranea KCTC 19937', 'Corallococcus coralloides DSM 2259', 'Desulfovibrio magneticus RS-1', 'Prevotella oryzae DSM 17970', 'Prevotella paludivivens DSM 17968 = JCM 13650', 'Paludibacter propionicigenes WB4', 'Chrysochloris asiatica', 'Fragilariopsis cylindrus CCMP1102', 'Xylanimonas cellulosilytica DSM 15894', 'Marinithermus hydrothermalis DSM 14884', 'Candidatus Baumannia cicadellinicola', 'Bartonella washoeensis Sb944nv', 'Thioalkalivibrio nitratireducens DSM 14787', 'Sneathia amnii', 'Oceanithermus profundus DSM 14977', 'Caldithrix abyssi DSM 13497', 'Methylocystis sp. SC2', 'Labrenzia aggregata IAM 12614', 'Megasphaera micronuciformis F0359', 'Acidaminococcus intestini RyC-MR95', 'Veillonella montpellierensis DNF00314', 'Chlamydotis macqueenii', 'Paracoccus zeaxanthinifaciens ATCC 21588', 'Pediococcus claussenii ATCC BAA-344', 'Thalassolituus oleivorans MIL-1', 'Thermococcus gammatolerans EJ3', 'Mitsuokella jalaludinii DSM 13811', 'Enterovibrio norvegicus FF-33', 'Leptosomus discolor', 'Egretta garzetta', 'Dermacoccus sp. Ellin185', 'Oleispira antarctica RB-8', 'Cetobacterium somerae ATCC BAA-474', 'Candidatus Tremblaya princeps PCIT', 'Paenibacillus graminis', 'Paenibacillus odorifer', 'Babesia ovata', 'Paenibacillus elgii B69', 'Prevotella marshii DSM 16973 = JCM 13450', 'Prevotella micans F0438', 'Bradyrhizobium sp. Ec3.3', 'Mycobacterium sp. KMS', 'Actinotignum urinale DSM 15805', 'Idiomarina baltica OS145', 'Vibrio coralliilyticus ATCC BAA-450', 'Desulfovibrio hydrothermalis AM13 = DSM 14728', 'Rhodococcus aetherivorans', 'Leifsonia rubra CMS 76R', 'Conexibacter woesei DSM 14684', 'Epilithonimonas tenax DSM 16811', 'Fluviicola taffensis DSM 16823', 'Corynebacterium atypicum', 'Plesiocystis pacifica SIR-1', 'Lynx pardinus', 'Chthoniobacter flavus Ellin428', 'Shewanella denitrificans OS217', 'Rhodoferax ferrireducens T118', 'Capsaspora owczarzaki ATCC 30864', 'Streptomyces niveus NCIMB 11891', 'Lactobacillus versmoldensis DSM 14857 = KCTC 3814', 'Athene cunicularia', 'Cardiobacterium valvarum F0432', 'Sphingomonas sp. ATCC 31555', 'Sinorhizobium americanum CCGM7', 'Chroomonas mesostigmatica CCMP1168', 'Haematobacter massiliensis', 'Synechococcus sp. PCC 7336', 'Synechococcus sp. PCC 6312', 'Thermococcus nautili', 'Gillisia limnaea DSM 15749', 'Caldimonas manganoxidans ATCC BAA-369', 'Microdochium bolleyi', 'Nocardioides sp. JS614', 'Caballeronia sordidicola', 'Bradyrhizobium sp. Ai1a-2', 'Porphyrobacter cryptus DSM 12079', 'Actinoplanes friuliensis DSM 7358', 'Deferribacter desulfuricans SSM1', 'Alkanindiges illinoisensis DSM 15370', 'Paraglaciecola mesophila KMM 241', 'Psychroflexus tropicus DSM 15496', 'Haemophilus aegyptius ATCC 11116', 'Streptococcus pasteurianus ATCC 43144', 'Candidatus Pelagibacter ubique HTCC7217', 'Anoxybacillus gonensis', 'Talaromyces verruculosus', 'Calidris pugnax', 'Candidatus Paraburkholderia kirkii UZHbot1', 'Coccidioides posadasii RMSCC 3488', 'Microbacterium paraoxydans 77MFTsu3.2', 'Methylocella silvestris BL2', 'Anopheles epiroticus', 'Nicotiana obtusifolia', 'Caldisphaera lagunensis DSM 15908', 'Pseudomonas poae RE*1-1-14', 'Strix occidentalis caurina', 'Lysinibacillus odysseyi 34hs-1 = NBRC 100172', 'Jaapia argillacea MUCL 33604', 'Punctularia strigosozonata', 'Sulfurimonas autotrophica DSM 16294', 'Actinobaculum massiliense ACS-171-V-Col2', 'Acinetobacter baylyi ADP1', 'Acinetobacter bouvetii DSM 14964 = CIP 107468', 'Acinetobacter gerneri', 'Acinetobacter tandoii', 'Acinetobacter tjernbergiae', 'Acinetobacter towneri', 'Tepidiphilus margaritifer DSM 15129', 'Longispora albida DSM 44784', 'Candidatus Blochmannia floridanus', 'Melampsora larici-populina 98AG31', 'Dickeya dadantii 3937', 'Dickeya zeae Ech586', 'Alicyclobacillus pomorum DSM 14955', 'Bacteroides massiliensis B84634 = Timone 84634 = DSM 17679 = JCM 13223', 'Roseomonas cervicalis ATCC 49957', 'Herminiimonas arsenicoxydans', 'Nitratireductor aquibiodomus NL21 = JCM 21793', 'Mastacembelus armatus', 'Novosphingobium pentaromativorans US6-1', 'Panicum hallii', 'Gymnopus luxurians FD-317 M1', 'Sulfurovum lithotrophicum', 'Bermanella marisrubri', 'Neptuniibacter caesariensis', 'Parvularcula bermudensis HTCC2503', 'Alkaliphilus metalliredigens QYMF', 'Puccinia triticina 1-1 BBBD Race 1', 'Amycolatopsis japonica', 'Amycolatopsis balhimycina FH 1894', 'Amycolatopsis vancoresmycina', 'Plasmodium coatneyi', 'Carnobacterium sp. 17-4', 'Fomitiporia mediterranea', 'Escherichia albertii KF1', 'Nocardia niigatensis NBRC 100131', 'Chaetomium thermophilum', "Candidatus Mycoplasma haemominutum 'Birmingham 1'", 'Marinobacter lipolyticus SM19', 'Afifella pfennigii DSM 17143', 'Corchorus capsularis', 'Nymphaea colorata', 'Thiorhodococcus drewsii AZ1', 'Sandarakinorhabdus limnophila DSM 17366', 'Parambassis ranga', 'Hanseniaspora opuntiae', 'Allokutzneria albata', 'Conchiformibius kuhniae DSM 17694', 'Accipiter nisus', 'Colwellia piezophila ATCC BAA-637', 'Mycobacterium sp. JS623', 'Exophiala mesophila', 'Halomonas campaniensis', 'Shewanella waksmanii ATCC BAA-643', 'Subdoligranulum variabile DSM 15176', 'Anaerofustis stercorihominis DSM 17244', 'Alistipes finegoldii DSM 17242', 'Komagataeibacter rhaeticus AF1', 'Exophiala oligosperma', 'Acaromyces ingoldii', 'Larimichthys crocea', 'Treponema caldarium DSM 7334', 'Erwinia sp. Ejp617', 'Thermomonas fusca DSM 15424', 'Roseovarius mucosus DSM 17069', 'Enhygromyxa salina', 'Dinoroseobacter shibae DFL 12 = DSM 16493', 'Pseudomonas rhizosphaerae', 'Polaromonas naphthalenivorans CJ2', 'Stenotrophomonas rhizophila', 'Bifidobacterium longum NCC2705', 'Spiroplasma chrysopicola DF-1', 'Spiroplasma culicicola AES-1', 'Spiroplasma diminutum CUAS-1', 'Spiroplasma sabaudiense Ar-1343', 'Spiroplasma syrphidicola EA-1', 'Clostridium carboxidivorans P7', 'Microvirga flocculans ATCC BAA-817', 'Marinospirillum insulare DSM 21763', 'Neomegalonema perideroedes DSM 15528', 'Fulvimarina pelagi HTCC2506', 'Anoplophora glabripennis', 'Bifidobacterium psychraerophilum', 'Bacillus vietnamensis', 'Dialister invisus DSM 15470', 'Aquilegia coerulea', 'Brachybacterium muris UCD-AY4', 'Micromonospora sp. ATCC 39149', 'Aeromicrobium marinum DSM 15272', 'Rhodanobacter fulvus Jip2', 'Gemmobacter nectariphilus DSM 15620', 'Bathymodiolus platifrons', 'Bacillus bataviensis LMG 21833', 'Bacillus vireti LMG 21834', 'Thalassospira xiamenensis M-5 = DSM 17429', 'Treponema putidum', 'Kordia algicida OT-1', 'Moniliophthora roreri', 'Mastigocladopsis repens PCC 10914', 'Synechococcus sp. RS9916', 'Synechococcus sp. RS9917', 'Polytolypa hystricis UAMH7299', 'Phaeobacter inhibens DSM 17395', 'Frankia elaeagni', 'Natrinema altunense', 'Kocuria marina', 'Phaeoacremonium minimum', 'Halomonas boliviensis LC1', 'Hymenobacter norwichensis DSM 15439', 'Exiguobacterium oxidotolerans JCM 12280', 'Methylorubrum populi BJ001', 'Buteo japonicus', 'Methanobrevibacter sp. AbM4', 'Pyrus x bretschneideri', 'Lottia gigantea', 'Geobacter bemidjiensis Bem', 'Geopsychrobacter electrodiphilus DSM 16401', 'Enhydrobacter aerosaccus SK60', 'Corynebacterium halotolerans YIM 70093 = DSM 44683', 'Erysiphe pulchra', 'Myotis davidii', 'Sulfitobacter indolifex HEL-45', 'Yaniella halotolerans DSM 15476', 'Paenibacillus sanguinis 2301083 = DSM 16941', 'Paenibacillus massiliensis 2301065 = DSM 16942', 'Fictibacillus gelatini DSM 15865', 'Comamonas aquatica NBRC 14918', 'Aestuariibacter salexigens DSM 15300', 'Salvia miltiorrhiza', 'Algoriphagus mannitolivorans DSM 15301', 'Rickettsia heilongjiangensis 054', 'Grosmannia clavigera kw1407', 'Bigelowiella natans', 'Corynebacterium ciconiae DSM 44920', 'Lactobacillus antri DSM 16041', 'Lactobacillus ultunensis DSM 16047', 'Paenibacillus lactis 154', 'Nocardia higoensis NBRC 100133', 'Nocardia pneumoniae NBRC 100136', 'Prevotella shahii DSM 15611 = JCM 12083', 'Prevotella salivae DSM 15606', 'Thermovibrio ammonificans HB-1', 'Arenibacter certesii DSM 19833', 'Flavobacterium frigoris PS1', 'Arsenicicoccus bolidensis DSM 15745', "Aster yellows witches'-broom phytoplasma AYWB", 'Streptococcus minor DSM 17118', 'Halobiforma lacisalsi AJ5', 'Aeropyrum camini SY1 = JCM 12091', 'Methylophaga aminisulfidivorans MP', 'Scardovia wiggsiae F0424', 'Lactobacillus rossiae DSM 15814', 'Saccharibacter floricola DSM 15669', 'Streptococcus devriesei DSM 19639', 'Beijerinckia mobilis', 'Desulfobulbus japonicus DSM 18378', 'Dyella japonica A8', 'Phanerochaete carnosa HHB-10118-sp', 'Belliella baltica DSM 15883', 'Effusibacillus pohliae DSM 22757', 'Halomonas alkaliantarctica', 'Synechococcus sp. CB0101', 'Acidovorax sp. JS42', 'Desulfitobacterium dichloroeliminans LMG P-21439', 'Candidatus Kinetoplastibacterium blastocrithidii (ex Strigomonas culicis)', 'Candidatus Midichloria mitochondrii IricVA', 'Corynebacterium caspium DSM 44850', 'Pseudoalteromonas sp. SM9913', 'Amanita thiersii Skay4041', 'Streptacidiphilus jiangxiensis', 'Alcanivorax sp. DG881', 'Marinobacter algicola DG893', 'Diplodia corticola', 'Chryseobacterium formosense', 'Candidatus Scalindua brodae', 'Lactobacillus kitasatonis DSM 16761 = JCM 1039', 'Oribacterium sinus F0268', 'Pseudomonas alkylphenolica', 'Pseudomonas psychrotolerans L19', 'Erythrobacter sp. NAP1', 'Lactobacillus vini DSM 20605', 'Akkermansia muciniphila ATCC BAA-835', 'Nocardiopsis valliformis DSM 45023', 'Nocardiopsis ganjiahuensis DSM 45031', 'Mycobacterium parascrofulaceum ATCC BAA-614', 'Pterocles gutturalis', 'Woodsholea maritima DSM 17123', 'Halobacillus dabanensis', 'Pseudonocardia dioxanivorans CB1190', 'Crinalium epipsammum PCC 9333', 'Helcococcus sueciensis DSM 17243', 'Amazona collaria', 'Ostreococcus lucimarinus CCE9901', 'Xenoturbella bocki', 'Acidilobus saccharovorans 345-15', 'Prevotella bergensis DSM 17361', 'Thioalkalivibrio thiocyanodenitrificans ARhD 1', 'Burkholderia sp. Ch1-1', 'Pseudomonas lutea', 'Methylohalobius crimeensis 10Ki', 'Klebsiella variicola UCI 18', 'Cynoglossus semilaevis', 'Thiocapsa marina 5811', 'Candidatus Paracaedimonas acanthamoebae', 'Candidatus Paracaedibacter symbiosus', 'Hoeflea phototrophica DFL-43', 'Nautilia profundicola AmH', 'Fictibacillus macauensis ZFHKF-1', 'Wallemia ichthyophaga', 'Yoonia vestfoldensis SKA53', "Acidomyces sp. 'richmondensis'", 'Enterococcus italicus DSM 15952', 'Bacillus bogoriensis ATCC BAA-922', 'Wolbachia endosymbiont of Cimex lectularius', 'Staphylococcus equorum subsp. equorum Mu2', 'Tupaia chinensis', 'Bacteroides cellulosilyticus WH2', 'Thermococcus sp. AM4', 'Serinicoccus marinus DSM 15273', 'Candidatus Jettenia caeni', 'Cupriavidus pinatubonensis JMP134', 'Mucispirillum schaedleri ASF457', 'Psychrobacter aquaticus CMS 56', 'Nocardia testacea NBRC 100365', 'Coccomyxa subellipsoidea', 'Cardinium endosymbiont cEper1 of Encarsia pergandiella', 'Deinococcus frigens DSM 12807', 'Deinococcus marmoris DSM 12784', 'Candidatus Blochmannia vafer str. BVAF', 'Candidatus Blochmannia chromaiodes str. 640', 'Pseudomonas syringae pv. tomato str. DC3000', 'Oceanicola granulosus HTCC2516', 'Robiginitalea biformata HTCC2501', 'Vibrio ezurae NBRC 102218', 'Saccharomyces boulardii (nom. inval.)', 'Clytia hemisphaerica', 'Mahella australiensis 50-1 BON', 'Paraburkholderia phenoliruptrix BR3459a', 'Natronolimnohabitans innermongolicus JCM 12255', 'Ethanoligenens harbinense YUAN-3', 'Owenweeksia hongkongensis DSM 17368', 'Verruconis gallopava', 'Streptomyces sp. C', 'Fonsecaea monophora', 'Solimonas variicoloris DSM 15731', 'Bacillus fordii DSM 16014 = CIP 108821', 'Streptococcus castoreus DSM 17536', 'Paeniglutamicibacter gangotriensis Lz1y', 'Arcobacter cibarius LMG 21996', 'Glycomyces arizonensis DSM 44726', 'Parvibaculum lavamentivorans DS-1', 'Glutamicibacter arilaitensis Re117', 'Gulosibacter molinativorax DSM 13485', 'Lentisphaera araneosa HTCC2155', 'Sphingomonas phyllosphaerae 5.2', 'Nocardia aobensis NBRC 100429', 'Nocardia concava NBRC 100430', 'Pleomorphomonas koreensis DSM 23070', 'Roseomonas gilardii subsp. rosea ATCC BAA-691', 'Streptococcus pseudopneumoniae IS7493', 'Otus sunia', 'Kitasatospora arboriphila', 'Corynebacterium resistens DSM 45100', 'Mycolicibacterium cosmeticum', 'Halomonas anticariensis FP35 = DSM 16096', 'Desulfatibacillum alkenivorans AK-01', 'Nocardia takedensis NBRC 100417', 'Dechloromonas aromatica RCB', 'Microbulbifer agarilyticus S89', 'Campylobacter insulaenigrae NCTC 12927', 'Nitrosomonas sp. Is79A3', 'Intestinibacter bartlettii DSM 16795', 'Paraburkholderia phytofirmans PsJN', 'Mycobacterium liflandii 128FXT', 'Cavenderia fasciculata', 'Thermosinus carboxydivorans Nor1', 'Pleomorphomonas oryzae DSM 16300', 'Kangiella koreensis DSM 16069', 'Kangiella aquimarina DSM 16071', 'Marinobacter daepoensis DSM 16072', 'Lysobacter concretionis Ko07 = DSM 16239', 'Acinetobacter beijerinckii CIP 110307', 'Jonesia quinghaiensis DSM 15701', 'Salipiger mucosus DSM 16094', 'Wolbachia endosymbiont of Culex quinquefasciatus Pel', 'Viridibacillus arenosi FSL R5-213', 'Crocosphaera watsonii WH 8501', 'Pneumocystis murina', 'Marinomonas ushuaiensis DSM 15871', 'Gordonia effusa NBRC 100432', 'Algoriphagus marincola DSM 16067', 'Botryobasidium botryosum', 'Capsella grandiflora', 'Oceanimonas smirnovii ATCC BAA-899', 'Acholeplasma equifetale ATCC 29724', 'Acholeplasma granularum ATCC 19168', 'Acholeplasma hippikon ATCC 29725', 'Trichormus variabilis ATCC 29413', 'Byssochlamys spectabilis No. 5', 'Salinimonas chungwhensis DSM 16280', 'Pontibacillus chungwhensis BH030062', 'Silanimonas lenta DSM 16282', 'Desulfurispora thermophila DSM 16022', 'Desulfallas alcoholivorax DSM 16058', 'Rhodopirellula baltica SH 1', 'Anoxybacillus tepidamans PS2', 'Methylovorus glucosetrophus SIP3-4', 'Pseudocohnilembus persalinus', 'Chryseobacterium antarcticum', 'Porphyromonas gingivicanis', 'Chelativorans sp. BNC1', 'Microbulbifer variabilis ATCC 700307', 'Thalassobacter stenotrophicus', 'Granulicoccus phenolivorans DSM 17626 = NBRC 107789 = JCM 15570', 'Neisseria bacilliformis ATCC BAA-1200', 'Lactobacillus kefiranofaciens ZW3', 'Paenibacillus wynnii', 'Nitratifractor salsuginis DSM 16511', 'Microbotryum intermedium', 'Streptococcus marimammalium DSM 18627', 'Sporolactobacillus terrae DSM 11697', 'Atopococcus tabaci DSM 17538', 'Bartonella rattimassiliensis 15908', 'Marinobacter sp. ELB17', 'Fangia hongkongensis FSC776 = DSM 21703', 'Methylomicrobium alcaliphilum 20Z', 'Shewanella sediminis HAW-EB3', 'Shewanella halifaxensis HAW-EB4', 'Flavobacterium antarcticum DSM 19726', 'Arthrobacter castelli DSM 16402', 'Nostoc punctiforme PCC 73102', 'Olleya marilimosa CAM030', 'Actinomyces dentalis DSM 19115', 'Hyaloperonospora arabidopsidis', 'Pontibacillus marinus BH030004 = DSM 16465', 'Candida orthopsilosis Co 90-125', 'Candida metapsilosis', 'Sphaerochaeta coccoides DSM 17374', 'Exiguobacterium marinum DSM 16307', 'Microbacterium oleivorans', 'Chlorobaculum parvum NCIB 8327', 'Limimaricola hongkongensis DSM 17492', 'Opitutaceae bacterium TAV1', 'Acidobacteriaceae bacterium TAA 166', 'Collimonas arenae', 'Aquimarina muelleri DSM 19832', 'Gramella echinicola DSM 19838', 'Novosphingopyxis baekryungensis DSM 16222', 'Agromyces italicus DSM 16388', 'Antrostomus carolinensis', 'Nocardiopsis baichengensis YIM 90130', 'Pochonia chlamydosporia 170', 'Azorhizobium doebereinerae UFLA1-100', 'Candidatus Amoebophilus asiaticus 5a2', 'Caenorhabditis japonica', 'Rozella allomycis CSF55', 'Porphyromonas uenonis 60-3', 'Prevotella multiformis DSM 16608', 'Nocardia jiangxiensis NBRC 101359', 'Sander lucioperca', 'Kosakonia radicincitans DSM 16656', 'Pseudoalteromonas sp. Bsw20308', 'Staphylococcus pseudintermedius ED99', 'Stackebrandtia nassauensis DSM 44728', 'Capitella teleta', 'Phenylobacterium zucineum HLK1', 'Streptomyces flavovariabilis', 'Alcanivorax dieselolei B5', 'Thioclava pacifica DSM 10166', 'Acetobacter nitrogenifigens DSM 23921 = LMG 23498', 'Streptomyces roseochromogenus subsp. oscitans DS 12.976', 'Streptomyces xylophagus', 'Streptomyces sviceus ATCC 29083', 'Streptomyces fulvoviolaceus', 'Streptomyces thermolilacinus SPC6', 'Micromonospora lupini str. Lupac 08', 'Hahella ganghwensis DSM 17046', 'Episyrphus balteatus', 'Alkaliflexus imshenetskii DSM 15055', 'Segniliparus rotundus DSM 44985', 'Segniliparus rugosus ATCC BAA-974', 'Hellea balneolensis DSM 19091', 'Haliea salexigens DSM 19537', 'Balneola vulgaris DSM 17893', 'Amycolatopsis rifamycinica', 'Bradyrhizobium sp. BTAi1', 'Kordiimonas gwangyangensis DSM 19435 = JCM 12864', 'Microbotryum lychnidis-dioicae p1A1 Lamole', 'Hungateiclostridium clariflavum DSM 19732', 'Microbotryum aff. violaceum TUB 011817', 'Bacteroides helcogenes P 36-108', 'Nocardia exalbida NBRC 100660', "Penicillium sp. 'occitanis'", 'Comamonas granuli NBRC 101663', 'Arthrobacter sp. FB24', 'Jannaschia sp. CCS1', 'Aminiphilus circumscriptus DSM 16581', 'Photorhabdus asymbiotica', 'Bartonella melophagi K-2C', 'Bacteroides salyersiae WAL 10018 = DSM 18765 = JCM 12988', 'Bacteroides nordii CL02T12C05', 'Acaricomes phytoseiuli DSM 14247', 'Erythrobacter vulgaris', 'Thermosediminibacter oceani DSM 16646', 'Ruegeria sp. TM1040', 'Dactylococcopsis salina PCC 8305', 'Flavonifractor plautii 1_3_50AFAA', 'Lysinibacillus massiliensis 4400831 = CIP 108448 = CCUG 49529', 'Martelella mediterranea DSM 17316', 'Haloquadratum walsbyi J07HQW2', 'Cyphellophora europaea', 'Desulfovibrio alkalitolerans DSM 16529', 'Agromyces subbeticus DSM 16689', 'Proteiniphilum acetatigenes DSM 18083', 'Rubellimicrobium thermophilum DSM 16684', 'Candidatus Hepatoplasma crinochetorum Av', 'Micromonas commoda', 'Polaromonas sp. JS666', 'Caldalkalibacillus thermarum TA2.A1', 'Patulibacter minatonensis DSM 18081', 'Frankia sp. EAN1pec', 'Frankia inefficax', 'Frankia saprophytica', 'Pseudoalteromonas spongiae UST010723-006', 'Denticeps clupeoides', 'Leptotrombidium deliense', 'Adhaeribacter aquaticus DSM 16391', 'Francisella orientalis str. Toba 04', 'Rhodococcus triatomae BKS 15-14', 'Glaciecola nitratireducens FR1064', 'Lachancea meyersii CBS 8951', 'Catellicoccus marimammalium M35/04/3', 'Bacillus lehensis G1', 'Roseburia hominis A2-183', 'Methanosaeta harundinacea 6Ac', 'Seriola lalandi dorsalis', 'Advenella mimigardefordensis DPN7', 'Corynebacterium tuscaniense DNF00037', 'Halobacillus kuroshimensis DSM 18393', 'Pundamilia nyererei', 'Lactobacillus apis', 'Lactobacillus harbinensis DSM 16991', 'Catenulispora acidiphila DSM 44928', 'Actinospica robiniae DSM 44927', 'Thauera sp. 27', 'Endozoicomonas elysicola', 'Pusillimonas noertemannii BS8', 'Marinimicrobium agarilyticum DSM 16975', 'Calidithermus timidus DSM 17022', 'Lactobacillus apodemi DSM 16634 = JCM 16172', 'Chryseobacterium vrystaatense', 'Aphis glycines', 'Gracilibacillus boraciitolerans JCM 21714', 'Sinocyclocheilus rhinocerous', 'Apteryx rowi', 'Bacillus boroniphilus JCM 21738', 'Dialister microaerophilus UPII 345-E', 'Chrysiogenes arsenatis DSM 11915', 'Persephonella marina EX-H1', 'Sulfurihydrogenibium azorense Az-Fu1', 'Candidatus Liberibacter americanus str. Sao Paulo', 'Deinococcus apachensis DSM 19763', 'Deinococcus maricopensis DSM 21211', 'Deinococcus pimensis DSM 21231', 'Bacteroides plebeius DSM 17135', 'Bacteroides coprocola DSM 17136', 'Bacteroides pyogenes JCM 10003', 'Neofusicoccum parvum', 'Prevotella multisaccharivorax DSM 17128', 'Advenella kashmirensis W13003', 'Deinococcus deserti VCD115', 'Modiolus philippinarum', 'Linnemannia elongata AG-77', 'Paraburkholderia terrae NBRC 100964', 'Thermococcus kodakarensis KOD1', 'Paraburkholderia mimosarum LMG 23256 = NBRC 106338', 'Flavobacterium indicum GPTSA100-9 = DSM 17447', 'Emticicia oligotrophica DSM 17448', 'Pseudomonas entomophila L48', 'Streptococcus massiliensis DSM 18628', 'Croceibacter atlanticus HTCC2559', 'Janibacter sp. HTCC2649', 'Dokdonia sp. MED134', 'Polaribacter sp. MED152', 'Maribacter sp. HTCC2170', 'Lyngbya sp. PCC 8106', 'Synechococcus sp. BL107', 'Bacillus sp. NRRL B-14911', 'Geobacter lovleyi SZ', 'Drechslerella stenobrocha 248', 'Nitrobacter sp. Nb-311A', 'Oceanicaulis sp. HTCC2633', 'Pseudooceanicola batsensis HTCC2597', 'Roseobacter sp. MED193', 'Roseovarius nubinhibens ISM', 'Roseovarius sp. 217', 'Sphingomonas sp. SKA58', 'Sulfitobacter sp. NAS-14.1', 'Rhodobacteraceae bacterium HTCC2083', 'Alteromonas mediterranea', 'Marinomonas sp. MED121', 'Pseudoalteromonas tunicata D2', 'Psychromonas sp. CNPT3', 'Vibrio sp. MED222', 'Prolixibacter bellariivorans ATCC BAA-1284', 'Mariprofundus ferrooxydans PV-1', 'Pseudoxanthomonas suwonensis 11-1', 'Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069', 'Belgica antarctica', 'Leadbetterella byssophila DSM 17132', 'Syntrophus aciditrophicus SB', 'Synechococcus sp. RCC307', 'Synechococcus sp. CC9902', 'Microbispora sp. ATCC PTA-5024', 'Rubrivivax benzoatilyticus JA2 = ATCC BAA-35', 'Kuraishia capsulata', 'Enterococcus caccae ATCC BAA-1240', 'Nostoc sp. PCC 7107', 'Mycolicibacterium rufum', 'Mycolicibacterium aromaticivorans JS19b1 = JCM 16368', 'Clostridium sulfidigenes', 'Pyricularia oryzae 70-15', 'Bradyrhizobium sp. WSM1743', 'Bradyrhizobium sp. WSM1253', 'Bradyrhizobium sp. WSM471', 'Nonlabens sediminis', 'Clostridium lundense DSM 17049', 'Formosa agariphila KMM 3901', 'Gordonia soli NBRC 108243', 'Pseudocercospora eumusae', 'Synechococcus sp. JA-3-3Ab', "Synechococcus sp. JA-2-3B'a(2-13)", 'Lepidothrix coronata', 'Pseudomonas moraviensis R28-S', 'Pseudomonas simiae', 'Wheat blue dwarf phytoplasma', 'Porphyromonas somerae DSM 23386', 'Sharpea azabuensis DSM 18934', 'Sphingomonas sp. BHC-A', 'Leptolyngbya valderiana BDU 20041', 'Paenibacillus sp. JDR-2', 'Bacillus infantis NRRL B-14911', 'Kwoniella bestiolae CBS 10118', 'Kwoniella dejecticola CBS 10117', 'Moelleriella libera RCEF 2490', 'Phytophthora kernoviae', 'Coxiella endosymbiont of Amblyomma americanum', 'Paraglaciecola psychrophila 170', 'Pseudozyma hubeiensis', 'Candidatus Accumulibacter phosphatis clade IIA str. UW-1', 'Bifidobacterium crudilactis', 'Syntrophorhabdus aromaticivorans UI', 'Nonlabens dokdonensis DSW-6', 'Parabacteroides goldsteinii dnLKV18', 'Alistipes onderdonkii WAL 8169 = DSM 19147', 'Alistipes shahii WAL 8301', 'Manacus vitellinus', 'Rhizoclosmatium globosum', 'Flavobacterium saliperosum S13', 'Bacteroides intestinalis DSM 17393', 'Amycolatopsis jejuensis', 'Nitrospira defluvii', 'Psychrobacter cryohalolentis K5', 'Kamptonema formosum PCC 6407', 'Sphingobium japonicum UT26S', 'Clostridium drakei', 'Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7', 'Candidatus Solibacter usitatus Ellin6076', 'Halococcus hamelinensis 100A6', 'Truepera radiovictrix DSM 17093', 'Exiguobacterium sibiricum 255-15', 'Hirsutella minnesotensis 3608', 'Alkalihalobacillus okhensis', 'Psychrobacter arcticus 273-4', 'Rickettsia tamurae', 'Ignisphaera aggregans DSM 17230', 'Methylobacterium oryzae CBMB20', 'Halococcus thailandensis JCM 13552', 'Thermovirga lienii DSM 17291', 'Candidatus Sulcia muelleri PSPU', 'Rhodonellum psychrophilum GCM71 = DSM 17998', 'Oenococcus kitaharae DSM 17330', 'Pyronema omphalodes', 'Chlorobium chlorochromatii CaD3', 'Gordonia sp. KTR9', 'Halorubrum ezzemoulense DSM 17463', 'Pseudodonghicola xiamenensis DSM 18339', 'Bacteroides finegoldii DSM 17565', 'Nitrosopumilus maritimus SCM1', 'Erwinia tasmaniensis Et1/99', 'Mycobacterium colombiense CECT 3035', 'Desulfosporosinus youngiae DSM 17734', 'Criblamydia sequanensis CRIB-18', 'Thermodesulfovibrio thiophilus DSM 17215', 'Tuberibacillus calidus DSM 17572', 'Spathaspora passalidarum NRRL Y-27907', 'Amorphus coralli DSM 19760', 'Desulfovibrio frigidus DSM 17176', 'Ascodesmis nigricans', 'Peptostreptococcus stomatis DSM 17678', 'Agrococcus lahaulensis DSM 17612', 'Methylophilaceae bacterium B1', 'Burkholderia oklahomensis', 'Thermococcus onnurineus NA1', 'Pyrococcus sp. NA2', 'Paenibacillus barengoltzii G22', 'Salipiger bermudensis HTCC2601', 'Flavobacterium soli DSM 19725', 'Kutzneria sp. 744', 'Podiceps cristatus', 'Geobacter pickeringii', 'Amycolatopsis benzoatilytica AK 16/65', 'Lysobacter daejeonensis GH1-9', 'Echinicola pacifica DSM 19836', 'Moraxella boevrei DSM 14165', 'Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896', 'Rhodanobacter spathiphylli B39', 'Streptomyces davaonensis JCM 4913', 'Exophiala xenobiotica', 'Streptacidiphilus oryzae TH49', 'Rhizobium favelukesii', 'Spironucleus salmonicida', 'Desulfovirgula thermocuniculi DSM 16036', 'Cercospora zeina', 'Psychrobacter sp. PRwf-1', 'Micavibrio aeruginosavorus ARL-13', 'Corynebacterium marinum DSM 44953', 'Flavobacterium daejeonense DSM 17708', 'Flavobacterium suncheonense GH29-5 = DSM 17707', 'Roseobacter sp. AzwK-3b', 'Alkalilimnicola ehrlichii MLHE-1', 'Oscillibacter valericigenes Sjm18-20', 'Salinispora pacifica CNT003', 'Geobacter uraniireducens Rf4', 'Xenorhabdus doucetiae', 'Shewanella sp. W3-18-1', 'Halostagnicola larsenii XH-48', 'Arenimonas malthae CC-JY-1', 'Niastella koreensis GR20-10', 'Streptomyces sp. Tu6071', 'Limnoperna fortunei', 'Alloscardovia criceti DSM 17774', 'Bifidobacterium tsurumiense', 'Micromonospora chokoriensis', 'Phocaeicola dorei', 'Lactobacillus parabrevis ATCC 53295', 'Cercospora berteroae', 'Psychromonas ingrahamii 37', 'Roseiflexus sp. RS-1', 'Microbacterium indicum DSM 19969', 'Acidovorax sp. KKS102', 'Methanoregula boonei 6A8', 'Streptomyces olindensis', 'Pseudomonas extremaustralis 14-3 substr. 14-3b', 'Shewanella loihica PV-4', 'Smaragdicoccus niigatensis DSM 44881 = NBRC 103563', 'Methylotenera mobilis 13', 'Bryobacter aggregatus MPL3', 'Zavarzinella formosa DSM 19928', 'Schlesneria paludicola DSM 18645', 'Leeuwenhoekiella blandensis MED217', 'Roseburia inulinivorans DSM 16841', 'Exiguobacterium sp. AT1b', 'Rubritalea marina DSM 17716', 'Tieghemostelium lacteum', 'Streptococcus pseudoporcinus SPIN 20026', 'Pseudarthrobacter phenanthrenivorans Sphe3', 'Streptomyces vietnamensis', 'Flavobacterium reichenbachii', 'Candidatus Protochlamydia amoebophila UWE25', 'Kaistia granuli DSM 23481', 'Prevotella stercorea DSM 18206', 'Ktedonobacter racemifer DSM 44963', 'Dyella ginsengisoli LA-4', 'Janibacter hoylei PVAS-1', 'Verminephrobacter eiseniae EF01-2', 'Granulibacter bethesdensis CGDNIH1', 'Endocarpon pusillum Z07020', 'Ferrimonas futtsuensis DSM 18154', 'Chryseobacterium caeni DSM 17710', 'Pelosinus fermentans DSM 17108', 'Frankia discariae', 'Belnapia moabensis DSM 16746', 'Paenibacillus sabinae T27', 'Ruania albidiflava DSM 18029', 'Caulobacter sp. K31', 'Haladaptatus paucihalophilus DX253', 'Yersinia similis', 'Phycicoccus jejuensis', 'Rhodobacterales bacterium HTCC2255', 'Pelusios castaneus', 'Blattabacterium sp. (Periplaneta americana) str. BPLAN', 'Blattabacterium sp. (Blatta orientalis) str. Tarazona', 'Rheinheimera perlucida DSM 18276', 'Paenibacillus terrigena DSM 21567', 'Mesonia mobilis DSM 19841', 'Haloterrigena limicola JCM 13563', 'Gallionella capsiferriformans ES-2', 'Arenimonas composti TR7-09 = DSM 18010', 'Flavobacterium filum DSM 17961', 'Brevundimonas aveniformis DSM 17977', 'Erwinia typographi', 'Bacteroides xylanisolvens XB1A', 'Rhodobacter sp. SW2', 'Fischerella thermalis PCC 7521', 'Bartonella tamiae Th239', 'Rivularia sp. PCC 7116', 'Campylobacter cuniculorum DSM 23162 = LMG 24588', 'Reinekea blandensis MED297', 'Janthinobacterium sp. Marseille', 'Pseudooceanicola nanhaiensis DSM 18065', 'Sphaeramia orbicularis', 'Natranaerobius thermophilus JW/NM-WN-LF', 'Haloplanus natans DSM 17983', 'Gordonia shandongensis DSM 45094', 'Olivibacter sitiensis DSM 17696', 'Zhouia amylolytica AD3', 'Paracoccus halophilus', 'Bacteroides barnesiae DSM 18169 = JCM 13652', 'Phocaeicola salanitronis DSM 18170', 'Thermobacillus composti KWC4', 'Methyloversatilis universalis FAM5', 'Novosphingobium nitrogenifigens DSM 19370', 'Cyanobacterium aponinum PCC 10605', 'Streptomyces bingchenggensis BCW-1', 'Vibrio sinaloensis DSM 21326', 'Propithecus coquereli', 'Aciduliprofundum boonei T469', 'Paenibacillus fonticola DSM 21315', 'Niabella aurantiaca DSM 17617', 'Pseudomonas protegens CHA0', 'Cohnella laeviribosi DSM 21336', 'Lactobacillus namurensis str. Chizuka 01', 'Streptococcus ictaluri 707-05', 'Hydrogenobaculum sp. Y04AAS1', 'Lachancea thermotolerans', 'Amycolatopsis nigrescens CSC17Ta-90', 'Algiphilus aromaticivorans DG1253', 'Verrucomicrobiae bacterium DG1235', 'Erythrobacter sp. JL475', 'Ornithinimicrobium pekingense DSM 21552', 'Bacillus aidingensis DSM 18341', 'Cycloclasticus sp. P1', 'Pseudophaeobacter arcticus DSM 23566', 'Thermophagus xiamenensis', 'Paraburkholderia ferrariae NBRC 106233', 'Prevotella timonensis 4401737 = DSM 22865 = JCM 15640', 'Methanobacterium arcticum', 'Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)', 'Moraxella bovoculi 237', 'Bacteroides coprophilus DSM 18228 = JCM 13818', 'Nitratiruptor sp. SB155-2', 'Sulfurovum sp. NBC37-1', 'Halovivax ruber XH-70', 'Halopiger xanaduensis SH-6', 'Parabacteroides johnsonii CL02T12C29', 'Cupriavidus sp. amp6', 'Natronorubrum sulfidifaciens JCM 14089', 'Rhodobacteraceae bacterium HTCC2150', 'Labrenzia alexandrii DFL-11', 'Algoriphagus machipongonensis', 'Bartonella australis Aust/NH1', 'Roseobacter sp. SK209-2-6', 'Hydnomerulius pinastri MD-312', 'Stachybotrys chlorohalonata IBT 40285', 'Wenxinia marina DSM 24838', 'Lactobacillus farraginis DSM 18382 = JCM 14108', 'Lactobacillus parafarraginis F0439', 'Echinicola vietnamensis DSM 17526', 'Actinocatenispora sera', 'Ehrlichia sp. HF', 'Vibrio sp. 16', 'Roseobacter sp. GAI101', 'Roseobacter sp. CCS2', 'Pedobacter sp. BAL39', 'Flavobacteria bacterium BAL38', 'Brevundimonas sp. BAL3', 'Stenotrophomonas sp. SKA14', 'Flavobacteriales bacterium ALC-1', 'Roseovarius sp. TM1035', 'Lysobacter defluvii IMMIB APB-9 = DSM 18482', 'Alicyclobacillus macrosporangiidus CPP55', 'Alicyclobacillus contaminans DSM 17975', 'Paraburkholderia nodosa DSM 21604', 'Sphingomonas jaspsi DSM 18422', 'Deinococcus misasensis DSM 22328', 'Methylophaga thiooxydans DMS010', 'Perlucidibaca piscinae DSM 21586', 'Terriglobus roseus DSM 18391', 'Uliginosibacterium gangwonense DSM 18521', 'Halalkalibacillus halophilus DSM 18494', 'Mesoflavibacter zeaxanthinifaciens S86', 'Gracilibacillus lacisalsi DSM 19029', 'Pestalotiopsis fici', 'Congregibacter litoralis KT71', 'Porphyromonas crevioricanis', 'Bhargavaea cecembensis DSE10', 'Cylindrobasidium torrendii FP15055 ss-10', 'Lactobacillus ceti DSM 22408', 'Coraliomargarita akajimensis DSM 45221', 'Bartonella rochalimae ATCC BAA-1498', 'Cyanothece sp. PCC 7425', 'Gilvimarinus chinensis DSM 19667', 'Brachybacterium phenoliresistens', 'Aspergillus ruber CBS 135680', 'Acinetobacter brisouii ANC 4119', 'Aestuariimicrobium kwangyangense DSM 21549', 'Thioalkalivibrio sp. K90mix', 'Lactobacillus hayakitensis DSM 18933 = JCM 14209', 'Andreprevotia chitinilytica DSM 18519', 'Sphingomonas sanxanigenens DSM 19645 = NX02', 'Marmoricola aequoreus', 'Lachnospiraceae bacterium 28-4', 'Lachnospiraceae bacterium 3-1', 'Lachnospiraceae bacterium A2', 'Lachnospiraceae bacterium A4', 'Barnesiella viscericola DSM 18177', 'Segetibacter koreensis DSM 18137', 'Proteiniclasticum ruminis DSM 24773', 'Agrilactobacillus composti DSM 18527 = JCM 14202', 'Helicobacter macacae MIT 99-5501', 'Trichoderma gamsii', 'Zunongwangia profunda SM-A87', 'Desulfocurvus vexinensis DSM 17965', 'Thermoanaerobacter sp. X514', 'Enterobacter sp. 638', 'Streptococcus merionis DSM 19192', 'Pontibacter korlensis', 'Marinomonas sp. MWYL1', 'Amphimedon queenslandica', 'Wohlfahrtiimonas chitiniclastica DSM 18708', 'Corynebacterium ureicelerivorans', 'Aureimonas ureilytica DSM 18598 = NBRC 106430', 'Candidatus Riesia pediculicola USDA', 'Actinomycetospora chiangmaiensis DSM 45062', 'Haloferax mucosum ATCC BAA-1512', 'Sphingobacterium sp. PM2-P1-29', 'Virgibacillus sp. SK37', 'Shewanella piezotolerans WP3', 'Maritimibacter alkaliphilus HTCC2654', 'Nonomuraea coxensis DSM 45129', 'Anaeromyxobacter sp. Fw109-5', 'Marinobacterium litorale DSM 23545', 'Geminicoccus roseus DSM 18922', 'Alicyclobacillus acidocaldarius subsp. acidocaldarius Tc-4-1', 'Leisingera daeponensis DSM 23529', 'Streptacidiphilus rugosus AM-16', 'Bacillus sp. m3-13', 'Natrinema sp. J7-2', 'Sphingomonas astaxanthinifaciens DSM 22298', 'Stegodyphus mimosarum', 'Prevotella pleuritidis JCM 14110', 'Streptomyces xiamenensis', 'Bacillus coahuilensis m4-4', 'Nocardioidaceae bacterium Broad-1', 'Clostridiisalibacter paucivorans DSM 22131', 'Treponema pedis str. T A4', 'Blastobotrys adeninivorans', 'Periophthalmus magnuspinnatus', 'Coprococcus comes ATCC 27758', 'Gordonia malaquae NBRC 108250', 'Gramella forsetii KT0803', 'Halogeometricum pallidum JCM 14848', 'Clostridium sp. SS2/1', 'Clostridium sp. M62/1', 'Clostridium sp. L2-50', 'Chryseobacterium daeguense DSM 19388', 'Entamoeba nuttalli P19', 'Paracoccus sp. TRP', 'Intrasporangium oryzae NRRL B-24470', 'Desulfotomaculum hydrothermale Lam5 = DSM 18033', 'Mycetohabitans rhizoxinica HKI 454', 'Candidatus Vesicomyosocius okutanii', 'Solimonas soli DSM 21787', 'Cronobacter turicensis z3032', 'Halalkalicoccus jeotgali B3', 'Halorubrum halophilum', 'Caldicellulosiruptor hydrothermalis 108', 'Caldicellulosiruptor kronotskyensis 2002', 'Lysobacter dokdonensis DS-58', 'Planococcus donghaensis MPA1U2', 'Actinopolyspora erythraea', 'Pseudoxanthomonas spadix BD-a59', 'Solimonas flava DSM 18980', 'Nodosilinea nodulosa PCC 7104', 'Rhodanobacter thiooxydans LCS2', 'Natronomonas moolapensis 8.8.11', 'Burkholderia sp. KJ006', 'Penicillium antarcticum', 'Selenomonas bovis DSM 23594', 'Notospermus geniculatus', 'Neptunomonas japonica DSM 18939', 'Methanosarcina horonobensis HB-1 = JCM 15518', 'Blautia wexlerae DSM 19850', 'Salinicoccus albus DSM 19776', 'Nevskia soli DSM 19509', 'Prevotella amnii CRIS 21A-A', 'Alloscardovia omnicolens DSM 21503', 'Yersinia massiliensis CCUG 53443', 'Microvirga lupini', 'Lactobacillus equicursoris DSM 19284 = JCM 14600 = CIP 110162', 'Diplodia seriata', 'Methanolobus psychrophilus R15', 'Paraburkholderia bryophila 376MFSha3.1', 'Sphingobium ummariense RL-3', 'Sulfitobacter donghicola DSW-25 = KCTC 12864 = JCM 14565', 'Chryseobacterium oranimense G311', 'Chryseobacterium halperniae', 'Chryseobacterium luteum', 'Stenoxybacter acetivorans DSM 19021', 'Mucilaginibacter paludis DSM 18603', 'Basidiobolus meristosporus CBS 931.73', 'Elusimicrobium minutum Pei191', 'Rhizobium sp. IRBG74', 'Helicobacter japonicus', 'Calidris pygmaea', 'Thiomonas arsenitoxydans', 'Methylobacterium sp. 4-46', 'Flavobacterium subsaxonicum WB 4.1-42 = DSM 21790', 'Algoriphagus vanfongensis DSM 17529', 'Nocardia rhamnosiphila', 'Bacillus chagannorensis DSM 18086', 'Salsuginibacillus kocurii DSM 18087', 'Humibacter albus DSM 18994', 'Desulfurivibrio alkaliphilus AHT 2', 'Dethiobacter alkaliphilus AHT 1', 'Moritella dasanensis ArB 0140', 'Candidatus Riesia pediculischaeffi PTSU', 'Jonquetella anthropi E3_33 E1', 'Dactylellina haptotyla', 'Halorhabdus tiamatea SARL4B', 'Baudoinia compniacensis', 'Spirosoma luteum DSM 19990', 'Spirosoma spitsbergense DSM 19989', 'Paenibacillus ginsengihumi DSM 21568', 'Kazachstania africana CBS 2517', 'Deinococcus peraridilitoris DSM 19664', 'Nocardioides halotolerans DSM 19273', 'Streptococcus sp. C150', 'Idiomarina salinarum', 'Fibularhizoctonia sp. CBS 109695', 'Sulfurihydrogenibium sp. YO3AOP1', 'Streptacidiphilus jeojiense', 'Robiginitomaculum antarcticum DSM 21748', 'Brucella sp. UK1/97', 'Brucella sp. F23/97', 'Brucella sp. F96/2', 'Brucella sp. UK40/99', 'Brucella sp. F8/99', 'Brucella sp. F5/99', 'Megamonas funiformis YIT 11815', 'Sutterella parvirubra YIT 11816', 'Ruminococcus gauvreauii DSM 19829', 'Streptococcus henryi DSM 19005', 'Streptococcus caballi DSM 19004', 'Candidatus Pelagibacter sp. HTCC7211', 'Pseudovibrio sp. JE062', 'Rhodobacterales bacterium Y4I', 'Ruegeria sp. R11', 'Prevotella maculosa DSM 19339 = JCM 15638', 'Promicromonospora kroppenstedtii DSM 19349', 'Pseudomonas sp. Chol1', 'Gouania willdenowi', 'Corynebacterium timonense 5401744', 'Corynebacterium massiliense DSM 45435', 'Hofstenia miamia', 'Knoellia aerolata DSM 18566', 'Geobacter sp. M18', 'Geobacter sp. M21', 'Bradyrhizobium sp. Cp5.3', 'Brucella microti CCM 4915', 'Sporolactobacillus vineae DSM 21990 = SL153', 'Maribacter forsetii DSM 18668', 'Gryllotalpicola ginsengisoli DSM 22003', 'Rickettsia endosymbiont of Ixodes scapularis', 'Psychromonas ossibalaenae ATCC BAA-1528', 'Reyranella massiliensis 521', 'Leptobrachium leishanense', 'Chryseobacterium soli', 'Adlercreutzia equolifaciens DSM 19450', 'Eudoraea adriatica DSM 19308', 'Niabella soli DSM 19437', 'Anaeromyxobacter sp. K', 'Epichloe gansuensis', 'Simiduia agarivorans SA1 = DSM 21679', 'Rhizobium selenitireducens ATCC BAA-1503', 'Microbacterium profundi', 'Propionibacterium sp. 5_U_42AFAA', 'Veillonella sp. 6_1_27', 'Rudanella lutea DSM 19387', 'Microbacterium luticocti DSM 19459', 'Streptomyces scopuliridis RB72', 'Pseudoclavibacter soli DSM 23366', 'Amphritea japonica ATCC BAA-1530', 'Neovison vison', 'Roseomonas aerilata DSM 19363', 'Desulfarculus baarsii DSM 2075', 'Kwoniella pini CBS 10737', 'Bdellovibrio exovorus JSS', 'Haladaptatus cibarius D43', 'Henriciella marina DSM 19595', 'Joostella marina DSM 19592', 'Halomonas lutea DSM 23508', 'Paraprevotella clara YIT 11840', 'Paraprevotella xylaniphila YIT 11841', 'Kiloniella laminariae DSM 19542', 'Chthonomonas calidirosea T49', 'Gracilimonas tropica DSM 19535', 'Spongiibacter tropicus DSM 19543', 'Glaciecola sp. HTCC2999', 'Chryseobacterium gregarium DSM 19109', 'Xanthomonas campestris pv. vesicatoria str. 85-10', 'Bizionia argentinensis JUB59', 'Saccharibacillus sacchari DSM 19268', 'Candidatus Cloacimonas acidaminovorans str. Evry', 'Streptococcus plurextorum DSM 22810', 'Rhizoctonia solani AG-8 WAC10335', 'Bacteroides sp. 1_1_30', 'Bacteroides sp. 3_1_23', 'Bacteroides sp. 3_1_33FAA', 'Bacteroides sp. 3_2_5', 'Bacteroides sp. 4_1_36', 'Bacteroides sp. 4_3_47FAA', 'Bacteroides sp. 9_1_42FAA', 'Clostridium sp. 7_2_43FAA', 'Desulfovibrio sp. 3_1_syn3', 'Escherichia sp. 1_1_43', 'Escherichia sp. 4_1_40B', 'Eubacterium sp. 3_1_31', 'Micromonospora sp. M42', 'Ruminococcus sp. 5_1_39BFAA', 'Synergistes sp. 3_1_syn1', 'Veillonella sp. 3_1_44', 'Clostridiales bacterium 1_7_47FAA', 'Erysipelotrichaceae bacterium 2_2_44A', 'Elioraea tepidiphila DSM 17972', 'Chloracidobacterium thermophilum B', 'Planomicrobium glaciei CHR43', 'Saccharibacillus kuerlensis DSM 22868', 'Kribbella catacumbae DSM 19601', 'Komagataella phaffii GS115', 'Ogataea polymorpha NCYC 495 leu1.1', 'Lactobacillus nodensis DSM 19682 = JCM 14932 = NBRC 107160', 'Actinomyces massiliensis F0489', 'Alkaliphilus oremlandii OhILAs', 'Babesia sp. Xinjiang', 'Pontibacillus yanchengensis Y32', 'Paxillus rubicundulus Ve08.2h10', 'Veillonella magna DSM 19857', 'Hemiselmis andersenii', 'Streptomyces sp. Mg1', 'Streptomyces sp. SPB074', 'Acinetobacter sp. Ver3', 'Singulisphaera acidiphila DSM 18658', 'Ilumatobacter coccineus YM16-304', 'Lachnoanaerobaculum saburreum F0468', 'Rhodobacteraceae bacterium KLH11', 'Sistotremastrum suecicum HHB10207 ss-3', 'Bacteroides sp. 1_1_14', 'Bacteroides sp. 2_1_22', 'Bacteroides sp. 2_1_33B', 'Bacteroides sp. 2_2_4', 'Parabacteroides sp. 20_3', 'Bacteroides sp. 3_1_19', 'Bacteroides sp. 3_1_40A', 'Coprobacillus sp. 8_2_54BFAA', 'Streptococcus sp. 2_1_36FAA', 'Burkholderiales bacterium 1_1_47', 'Erysipelotrichaceae bacterium 6_1_45', 'Prevotella histicola JCM 15637 = DNF00424', 'Cladophialophora yegresii', 'Gracilibacillus halophilus YIM-C55.5', 'Salinimicrobium terrae DSM 17865', 'Pantoea vagans C9-1', 'Gordonibacter pamelaeae 7-10-1-b', 'Geobacillus sp. WCH70', 'Dasania marina DSM 21967', 'Bifidobacterium bombi DSM 19703', 'Haloplasma contractile SSD-17B', 'Candidatus Desulforudis audaxviator MP104C', 'Nitratireductor basaltis', 'Nitrosococcus watsonii C-113', 'Colletotrichum gloeosporioides', 'Methanosphaerula palustris E1-9c', 'Pedobacter borealis DSM 19626', 'Pseudohaliea rubra DSM 19751', 'Leisingera aquimarina DSM 24565', 'Modestobacter marinus', 'Bacteroides graminisolvens DSM 19988 = JCM 15093', 'Aliiglaciecola lipolytica E3', 'Calditerrivibrio nitroreducens DSM 19672', 'Verrucomicrobia bacterium LP2A', 'Haematomicrobium sanguinis DSM 21259', 'Brevibacterium ravenspurgense 5401308 = CCUG 53855', 'Gluconobacter morbifer G707', 'Commensalibacter intestini A911', 'Myroides profundi', 'Bartonella rattaustraliani AUST/NH4', 'Lactobacillus otakiensis DSM 19908 = JCM 15040', 'Lactobacillus kisonensis F0435', 'Paenibacillus sp. Y412MC10', 'Galeopterus variegatus', 'Oscillatoria nigro-viridis PCC 7112', 'Burkholderia lata', 'Lactobacillus fabifermentans T30PCM01', 'Cystoisospora suis', 'Geoalkalibacter subterraneus', 'Paenibacillus riograndensis SBR5', 'Sphingobium sp. YBL2', 'Pelosinus sp. UFO1', 'Dialister succinatiphilus YIT 11850', 'Barnesiella intestinihominis YIT 11860', 'Parasutterella excrementihominis YIT 11859', 'Acinetobacter soli', 'Aequorivita capsosiphonis DSM 23843', 'Shewanella marina JCM 15074', 'Corynebacterium ulceribovis DSM 45146', 'Flavobacteria bacterium MS024-2A', 'Serratia sp. SCBI', 'Campylobacter peloridis LMG 23910', 'Desulfonatronospira thiodismutans ASO3-1', 'Halarchaeum acidiphilum MH1-52-1', 'Mesorhizobium metallidurans STM 2683', 'Corynebacterium sputi DSM 45148', 'Marinobacter sp. BSs20148', 'Litoreibacter arenae DSM 19593', 'Leucobacter chironomi DSM 19883', 'Brachymonas chironomi DSM 19884', 'Megamonas rupellensis DSM 19944', 'Bacillus velezensis FZB42', 'Dyadobacter alkalitolerans DSM 23607', 'Rhizobium alamii', 'Chryseobacterium palustre DSM 21579', 'Psychrobacter sp. TB15', 'Arthrobacter sp. TB 23', 'Spirosoma panaciterrae DSM 21099', 'Thermoanaerobacter pseudethanolicus ATCC 33223', 'Thauera sp. 63', 'Campylobacter subantarcticus LMG 24377', 'Candidatus Nitrososphaera gargensis Ga9.2', 'Brevibacillus panacihumi W25', 'Arenimonas oryziterrae DSM 21050 = YC6267', 'Flavobacterium rivuli WB 3.3-2 = DSM 21788', 'Borreliella finlandensis', 'Candidatus Korarchaeum cryptofilum OPF8', 'Tepidanaerobacter acetatoxydans Re1', 'Metarhizium brunneum ARSEF 3297', 'Streptomyces avicenniae', 'Glaciibacter superstes DSM 21135', 'Citreicella sp. SE45', 'Porphyromonas bennonis DSM 23058 = JCM 16335', 'Thermodesulfatator atlanticus DSM 21156', 'Butyricicoccus pullicaecorum 1.2', 'Thalassospira profundimaris WP0211', 'Deinococcus gobiensis I-0', 'Eggerthella sp. YY7918', 'Streptococcus porci DSM 23759', 'Aeromonas diversa CDC 2478-85', 'Salisaeta longa DSM 21114', 'Flavobacterium sasangense DSM 21067', 'Kushneria aurantia DSM 21353', 'Jejuia pallidilutea', 'Haloterrigena salina JCM 13891', 'Novosphingobium acidiphilum DSM 19966', 'Chromera velia CCMP2878', 'Rheinheimera sp. A13L', 'Leisingera caerulea DSM 24564', 'Cinara cedri', 'Peptoniphilus duerdenii ATCC BAA-1640', 'Cloacibacillus evryensis DSM 19522', 'Bradyrhizobium genosp. SA-4 str. CB756', 'Pedobacter sp. V48', 'Oceanimonas sp. GK1', 'Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2', 'Methylacidiphilum infernorum V4', 'Vibrio azureus NBRC 104587', 'Dictyoglomus turgidum DSM 6724', 'Caloramator australicus RC3', 'Lacticigenium naphtae DSM 19658', 'Prevotella falsenii DSM 22864 = JCM 15124', 'Nesterenkonia alba DSM 19423', 'Muricauda lutaonensis', 'Providencia burhodogranariea DSM 19968', 'Providencia sneebia DSM 19967', 'Jeotgalicoccus marinus DSM 19772', 'Pontibacillus litoralis JSM 072002', 'Pontibacillus halophilus JSM 076056 = DSM 19796', 'Pantoea sp. aB', 'Citromicrobium sp. JLT1363', 'Bifidobacterium mongoliense DSM 21395', 'Lactobacillus sucicola DSM 21376 = JCM 15457', 'Alcanivorax hongdengensis A-11-3', 'Deinococcus aquatilis DSM 23025', 'Elaphomyces granulatus', 'Ectothiorhodospira sp. PHS-1', 'Brucella sp. NVSL 07-0026', 'Brucella sp. 83/13', 'Acinetobacter sp. NIPH 817', 'Pseudomonas caeni DSM 24390', 'Sphingobium lactosutens DS20', 'Trichophyton mentagrophytes', 'Marinobacter santoriniensis NKSG1', 'Acinetobacter sp. ATCC 27244', 'Thiothrix lacustris DSM 21227', 'Haloglycomyces albus DSM 45210', 'Oceanibaculum indicum P24', 'Listeria marthii FSL S4-120', 'Thecamonas trahens', 'Rhodoluna lacicola', 'Pelagibacterium halotolerans B2', 'Flavobacteriaceae bacterium 3519-10', 'Actinopolymorpha alba DSM 45243', 'Mesorhizobium australicum WSM2073', 'Psychrobacter lutiphocae DSM 21542', 'Rudaea cellulosilytica DSM 22992', 'Thermus islandicus DSM 21543', 'Corynebacterium lubricantis DSM 45231', 'Peronospora effusa', 'Actinoplanes subtropicus', 'Geobacillus sp. Y412MC61', 'Actinomyces johnsonii F0510', 'Butyricimonas synergistica DSM 23225', 'Thioalkalivibrio sp. AKL11', 'Thioalkalivibrio sp. ALJ24', 'Alishewanella jeotgali KCTC 22429', 'Paraoerskovia marina DSM 21750', 'Sporothrix brasiliensis 5110', 'Hydrogenobaculum sp. 3684', 'Hydrogenobaculum sp. HO', 'Hydrogenobaculum sp. SN', 'Mycobacterium vulneris', 'Phycisphaera mikurensis NBRC 102666', 'Pseudogulbenkiania ferrooxidans 2002', 'Geobacillus sp. Y412MC52', 'Pseudonocardia acaciae DSM 45401', 'Aromatoleum aromaticum EbN1', 'Caldicoprobacter oshimai DSM 21659', 'Sediminimonas qiaohouensis DSM 21189', 'Salinarimonas rosea DSM 21201', 'Erysipelotrichaceae bacterium 5_2_54FAA', 'Ruminococcaceae bacterium D16', 'Cryptococcus gattii VGIII', 'Dehalogenimonas lykanthroporepellens BL-DC-9', 'Pseudomonas pelagia CL-AP6', 'Vibrio breoganii 1C10', 'Alishewanella agri BL06', 'Cobetia crustatorum', 'Halomonas jeotgali Hwa', 'Photobacterium leiognathi lrivu.4.1', 'Chlorella variabilis', 'Thiomonas sp. CB2', 'Flavobacterium chungangense LMG 26729', 'Galbibacter marinus', 'Staphylococcus massiliensis S46', 'Novosphingobium sp. Rr 2-17', 'Bacteroides sp. D1', 'Bacteroides sp. D2', 'Clostridium sp. D5', 'Coprobacillus sp. D7', 'Candidatus Liberibacter solanacearum CLso-ZC1', 'Propionibacterium acidifaciens DSM 21887', 'Corynebacterium freiburgense DSM 45254', 'Chryseobacterium piperi', 'Lentibacillus jeotgali', 'Salinicoccus carnicancri Crm', 'Aeromonas lacus', 'Aureobasidium namibiae CBS 147.97', 'Lysinibacillus sinduriensis BLB-1 = JCM 15800', 'Aliagarivorans taiwanensis DSM 22990', 'Prevotella sp. C561', 'Streptococcus sp. C300', 'Streptococcus sp. M143', 'Streptococcus sp. M334', 'Acidianus hospitalis W1', 'Salinisphaera hydrothermalis C41B8', 'Parabacteroides sp. D13', 'Scedosporium apiospermum', 'Geoglobus acetivorans', "Saccharomycetaceae sp. 'Ashbya aceri'", 'Metarhizium robertsii ARSEF 23', 'Dickeya poaceiphila', 'Cladophialophora immunda', 'Pseudoalteromonas lipolytica SCSIO 04301', 'Methanocella paludicola SANAE', 'Ochrobactrum rhizosphaerae SJY1', 'Psychrobacter sp. G', 'Encephalitozoon romaleae SJ-2008', 'Absidia idahoensis var. thermophila', 'Thermoanaerobacter sp. X513', 'Francisella salina', 'Candidatus Hodgkinia cicadicola Dsem', 'Pandoraea oxalativorans', 'Bacillus gaemokensis', 'Bacillus manliponensis', 'Parabacteroides gordonii MS-1 = DSM 23371', 'Pseudomonas taeanensis MS-3', 'Corynebacterium maris DSM 45190', 'Phialocephala subalpina', 'Polynucleobacter necessarius STIR1', 'Polynucleobacter asymbioticus QLW-P1DMWA-1', 'Streptomyces iranensis', 'Indibacter alkaliphilus LW1', 'Enterorhabdus mucosicola DSM 19490', 'Bacillus cytotoxicus NVH 391-98', 'Geobacillus sp. Y4.1MC1', 'Thermococcus paralvinellae', 'Rubidibacter lacunae KORDI 51-2', 'Thermoanaerobacter mathranii subsp. mathranii str. A3', 'Synechococcus sp. KORDI-49', 'Synechococcus sp. KORDI-52', 'Bacteroides sp. D20', 'Bacteroides sp. D22', 'Nematocida parisii', 'Oceanobacillus manasiensis', 'Terribacillus aidingensis', 'Myripristis murdjan', 'Pseudomonas chlororaphis', 'Rhizophagus irregularis', 'Patulibacter americanus DSM 16676', 'Kazachstania naganishii', 'Brevundimonas naejangsanensis', 'Prevotella fusca JCM 17724', 'Prevotella scopos JCM 17725', 'Alteromonas australica', 'Methylacidiphilum fumariolicum SolV', 'Streptomyces sp. SPB78', 'Streptomyces sp. AA4', 'Ignavibacterium album JCM 16511', 'Roseivivax isoporae LMG 25204', 'Piliocolobus tephrosceles', 'Pantoea sp. At-9b', 'Pantoea sp. Sc1', 'Mesorhizobium opportunistum WSM2075', 'Allofrancisella guangzhouensis', 'Rhodopirellula sp. SWK7', 'Prevotella aurantiaca JCM 15754', 'Desulfovibrio sp. U5L', 'Brenneria sp. EniD312', 'Corynebacterium pyruviciproducens ATCC BAA-1742', 'Fibroporia radiculosa', 'Meiothermus rufus DSM 22234', 'Neisseria wadsworthii 9715', 'Neisseria shayeganii 871', 'Dinoponera quadriceps', 'Asaia platycodi SF2.1', 'Harpegnathos saltator', 'Arenibacter algicola', 'Polycyclovorans algicola TG408', 'Methylocystis sp. ATCC 49242', 'Blattabacterium sp. (Blattella germanica) str. Bge', 'Bacteroides clarus YIT 12056', 'Bacteroides fluxus YIT 12057', 'Bacteroides oleiciplenus YIT 12058', 'Alistipes indistinctus YIT 12060', 'Odoribacter laneus YIT 12061', 'Slackia piriformis YIT 12062', 'Collinsella tanakaei YIT 12063', 'Succinatimonas hippei YIT 12066', 'Phascolarctobacterium succinatutens YIT 12067', 'Sphingobium sp. SYK-6', 'Sphingomonas sp. Mn802worker', 'Tomitella biformata AHU 1821', 'Thiorhodovibrio sp. 970', 'Saccharomonospora marina XMU15', 'Acinetobacter rudis CIP 110305', 'Thalassobium sp. R2A62', 'Prevotella saccharolytica F0055', 'Bifidobacterium bohemicum DSM 22767', 'Bifidobacterium actinocoloniiforme DSM 22766', 'Pyramidobacter piscolens W5455', 'Acidobacteriaceae bacterium KBS 146', 'Hoyosella subflava DQS3-9A1', 'Lactobacillus florum 2F', 'Burkholderia sp. CCGE1001', 'Burkholderia sp. CCGE1003', 'Clostridium sp. DL-VIII', 'Neisseria sp. oral taxon 014 str. F0314', 'Tatumella morbirosei', 'Silicibacter sp. TrichCH4B', 'Methanocaldococcus sp. FS406-22', 'Streptomyces sp. e14', 'Enterocytozoon hepatopenaei', 'Plasmodium gaboni', 'Methylobacterium sp. MB200', 'Micromonospora sp. L5', 'Cesiribacter andamanensis AMV16', 'Clostridium sp. ATCC BAA-442', 'Actinomyces sp. oral taxon 848 str. F0332', 'Acetomicrobium hydrogeniformans ATCC BAA-1850', 'Anaerostipes hadrus DSM 3319', 'Actinoplanes sp. N902-109', 'Sulfuricella denitrificans skB26', 'Fibrella aestuarina BUZ 2', 'Aurantimonas manganoxydans SI85-9A1', 'Kosmotoga olearia TBF 19.5.1', 'Actinomyces sp. oral taxon 180 str. F0310', 'Fretibacterium fastidiosum', 'Oribacterium sp. oral taxon 078 str. F0262', 'Bacteroidetes oral taxon 274 str. F0058', 'Peptoniphilus sp. oral taxon 386 str. F0131', 'Paenibacillus sp. oral taxon 786 str. D14', 'Prevotella sp. oral taxon 299 str. F0039', 'Prevotella sp. oral taxon 317 str. F0108', 'Actinomyces sp. oral taxon 849 str. F0330', 'Albugo laibachii', 'Prevotella sp. oral taxon 472 str. F0295', 'Pseudogymnoascus destructans 20631-21', 'Pandoraea vervacti', 'Halanaerobium hydrogeniformans', 'Ruminococcus sp. SR1/5', 'Flavobacterium beibuense F44-8', 'Candidatus Koribacter versatilis Ellin345', 'Ralstonia sp. 5_2_56FAA', 'Lachnospiraceae bacterium 1_1_57FAA', 'Lachnospiraceae bacterium 2_1_58FAA', 'Lachnospiraceae bacterium 6_1_63FAA', 'Lachnospiraceae bacterium 5_1_57FAA', 'Lachnospiraceae bacterium 3_1_57FAA_CT1', 'Lachnospiraceae bacterium 7_1_58FAA', 'Lachnospiraceae bacterium 9_1_43BFAA', 'Lachnospiraceae bacterium 5_1_63FAA', 'Pseudomonas sp. H2', 'Lachnospiraceae bacterium 1_4_56FAA', 'Lachnospiraceae bacterium 6_1_37FAA', 'Erysipelotrichaceae bacterium 21_3', 'Erysipelotrichaceae bacterium 3_1_53', 'Parabacteroides sp. D25', 'Porphyromonas sp. 31_2', 'Paraburkholderia acidipaludis NBRC 101816', 'Olsenella sp. oral taxon 809 str. F0356', 'Brachybacterium squillarum M-6-3', "Candidatus Parvarchaeum acidiphilum ARMAN-4_'5-way FS'", "Candidatus Parvarchaeum acidophilus ARMAN-5_'5-way FS'", 'Fibrisoma limi BUZ 3', 'Methylocapsa aurea', 'Leucobacter salsicius M1-8', 'Borreliella bavariensis PBi', 'Bacillus oceanisediminis 2691', 'Dietzia alimentaria 72', 'Campylobacter sp. 10_1_50', 'Clostridium sp. 7_3_54FAA', 'Coprobacillus sp. 3_3_56FAA', 'Desulfovibrio sp. 6_1_46AFAA', 'Eggerthella sp. 1_3_56FAA', 'Klebsiella sp. 4_1_44FAA', 'Neisseria sp. GT4A_CT1', 'Tannerella sp. 6_1_58FAA_CT1', 'Lachnospiraceae bacterium 3_1_46FAA', 'Lachnospiraceae bacterium 8_1_57FAA', 'Subdoligranulum sp. 4_3_54A2FAA', 'Bacillus sp. 7_6_55CFAA_CT2', 'Bacillus sp. BT1B_CT2', 'Bacillus sp. 2_A_57_CT2', 'Aquimarina macrocephali JAMB N27', 'Afipia sp. 1NLS2', 'Rhodanobacter denitrificans', 'Bacillus sp. 1NLA3E', 'Raphidiopsis brookii D9', 'Thelohanellus kitauei', 'Geminocystis herdmanii PCC 6308', 'Paenibacillus pini JCM 16418', 'Candidatus Profftella armatura', 'Microvirga aerilata', 'Candidatus Uzinura diaspidicola str. ASNER', 'Candidatus Methylomirabilis oxyfera', 'Leptotrichia sp. oral taxon 225 str. F0581', 'Alloprevotella rava F0323', 'Propionibacterium sp. oral taxon 192 str. F0372', 'Selenomonas artemidis F0399', 'Veillonella sp. oral taxon 158 str. F0412', 'Veillonella sp. oral taxon 780 str. F0422', 'Enterorhabdus caecimuris B7', 'Bacteroides sartorii dnLKV3', 'Microbacterium yannicii PS01', 'Cardinium endosymbiont cBtQ1 of Bemisia tabaci', 'Aciduliprofundum sp. MAR08-339', 'Candidatus Babela massiliensis', 'Bacteroides faecis MAJ27', 'Vibrio sp. RC586', 'Lachancea nothofagi', 'Fervidicoccus fontis Kam940', 'Sphingomonas sp. PR090111-T3T-6A', 'Pseudomonas sp. S9', 'Lichtheimia ramosa', 'Oribacterium sp. NK2B42', 'Colletotrichum fructicola Nara gc5', 'Rhizobium vignae', 'Geobacillus sp. C56-T3', 'Fonticula alba', 'Caldisericum exile AZM16c01', 'Vibrio atlanticus LGP32', 'Enterobacteriaceae bacterium strain FGI 57', 'Halogranum salarium B-1', 'Bilophila sp. 4_1_30', "Marssonina brunnea f. sp. 'multigermtubi' MB_m1", 'Virgibacillus alimentarius', 'Megasphaera genomosp. type_1 str. 28L', 'Vibrio caribbeanicus ATCC BAA-2122', 'Vibrio sp. N418', 'Novosphingobium sp. PP1Y', 'Saccharomyces arboricola H-6', 'Capnocytophaga sp. oral taxon 329 str. F0087', 'Actinomyces sp. oral taxon 171 str. F0337', 'Colletotrichum chlorophyti', 'Colletotrichum tofieldiae', 'Bradyrhizobiaceae bacterium SG-6C', 'Frankia sp. QA3', 'Actinomyces sp. oral taxon 178 str. F0338', 'Capnocytophaga sp. oral taxon 338 str. F0234', 'Colletotrichum fioriniae', 'Streptomyces sp. GXT6', 'Actinomyces sp. oral taxon 170 str. F0386', 'Actinomyces sp. oral taxon 172 str. F0311', 'Actinomyces sp. oral taxon 175 str. F0384', 'Actinomyces sp. oral taxon 181 str. F0379', 'Actinomyces sp. oral taxon 448 str. F0400', 'Aggregatibacter sp. oral taxon 458 str. W10330', 'Atopobium sp. oral taxon 199 str. F0494', 'Atopobium sp. oral taxon 810 str. F0209', 'Capnocytophaga sp. oral taxon 324 str. F0483', 'Capnocytophaga sp. oral taxon 326 str. F0382', 'Capnocytophaga sp. oral taxon 332 str. F0381', 'Capnocytophaga sp. oral taxon 336 str. F0502', 'Capnocytophaga sp. oral taxon 380 str. F0488', 'Fusobacterium sp. oral taxon 370 str. F0437', 'Leptotrichia sp. oral taxon 215 str. W9775', 'Microbacterium sp. oral taxon 186 str. F0373', 'Neisseria sp. oral taxon 020 str. F0370', 'Oribacterium sp. oral taxon 108 str. F0425', 'Peptoniphilus sp. oral taxon 375 str. F0436', 'Porphyromonas sp. oral taxon 278 str. W7784', 'Prevotella sp. oral taxon 306 str. F0472', 'Prevotella sp. oral taxon 473 str. F0040', 'Selenomonas sp. oral taxon 137 str. F0430', 'Selenomonas sp. oral taxon 138 str. F0429', 'Selenomonas sp. oral taxon 149 str. 67H29BP', 'Streptococcus sp. oral taxon 056 str. F0418', 'Streptococcus sp. oral taxon 058 str. F0407', 'Streptococcus sp. oral taxon 071 str. 73H25AP', 'Actinobaculum sp. oral taxon 183 str. F0552', 'Lachnospiraceae bacterium oral taxon 082 str. F0431', 'Lachnospiraceae oral taxon 107 str. F0167', 'Parvimonas sp. oral taxon 393 str. F0440', 'Candidatus Atelocyanobacterium thalassa isolate SIO64986', 'Alteromonas naphthalenivorans', 'Ensifer sojae CCBAU 05684', 'Caldicellulosiruptor obsidiansis OB47', 'Hyphopichia burtonii NRRL Y-1933', 'Hyphomicrobium sp. MC1', 'Plasmodium sp. DRC-Itaito', 'Nitratireductor indicus C115', 'Acidovorax ebreus TPSY', 'Vibrio genomosp. F10 str. ZF-129', 'Anncaliia algerae PRA109', 'Leptothrix ochracea L12', 'Rahnella sp. Y9602', 'Delftia sp. Cs1-4', 'Melanaphis sacchari', 'Collinsella sp. 4_8_47FAA', 'Lachnospiraceae bacterium 2_1_46FAA', 'Sphingobacterium sp. 21', 'Methylocystis sp. SB2', 'Ahrensia sp. R2A130', 'Roseibium sp. TrichSKD4', 'Sphingomonas sp. MM-1', 'Olleya sp. VCSM12', 'Mobilicoccus pelagius NBRC 104925', 'Aspergillus fumigatus Af293', 'Oceanobacillus kimchii X50', 'Azoarcus sp. KH32C', 'Pseudogulbenkiania sp. NH8B', 'Thioalkalivibrio sp. ALSr1', 'Sulfuritalea hydrogenivorans sk43H', 'Klebsiella sp. MS 92-3', 'Coprococcus sp. ART55/1', 'Halobacterium sp. DL1', 'Escherichia sp. TW09308', 'Winogradskyella sp. PG-2', 'Photobacterium aphoticum', 'Methylophaga nitratireducenticrescens', 'Methylophaga frappieri', 'Clostridium sp. BNL1100', 'Bacillus sp. WP8', 'Acinetobacter indicus CIP 110367', 'Burkholderia insecticola', 'Burkholderia sp. RPE67', 'Sporosarcina newyorkensis 2681', 'Massilia consociata', 'Bifidobacterium callitrichos DSM 23973', 'Bifidobacterium stellenboschense', 'Bifidobacterium biavatii DSM 23969', 'Siansivirga zeaxanthinifaciens CC-SAMT-1', 'Haemophilus sp. oral taxon 851 str. F0397', 'Paraburkholderia bannensis NBRC 103871', 'Moraxella macacae 0408225', 'Pyrenochaeta sp. DS3sAY3a', 'Stagonospora sp. SRC1lsM3a', 'Vibrio jasicida MWB 21', 'Citreicella sp. 357', 'Candidatus Puniceispirillum marinum IMCC1322', 'Serratia sp. AS12', 'Serratia sp. AS13', 'Sinorhizobium sp. CCBAU 05631', 'Opitutaceae bacterium TAV5', 'Burkholderiaceae bacterium PBA', 'Nesterenkonia sp. F', 'Sugiyamaella lignohabitans', 'Peptoanaerobacter stomatis', 'Stomatobaculum longum', 'Kipferlia bialata', 'Fonsecaea nubica', 'Cryptosporidium ubiquitum', 'Trichoderma parareesei', 'Caenispirillum salinarum AK4', 'Agrobacterium sp. H13-3', 'Gemmatirosa kalamazoonesis', 'Streptomyces sp. SirexAA-E', 'Thermincola potens JR', 'Burkholderiales bacterium JOSHI_001', 'Microvirga lotononidis', 'Oscillatoriales cyanobacterium C42_A2020_001', 'Schizosaccharomyces cryophilus', 'Methanothermobacter sp. CaT2', 'Chloroflexus sp. Y-396-1', 'Methanobacterium paludis', 'Ogataea angusta', 'Terriglobus saanensis SP1PR4', 'Bacteroides stercorirosoris JCM 17103', 'Lactobacillus pasteurii DSM 23907 = CRBIP 24.76', 'Celeribacter baekdonensis B30', 'Mycolicibacter sinensis', 'Peptoniphilus sp. 1-1', 'Methyloferula stellata AR4', 'Ruminococcus sp. NK3A76', 'Clostridiales bacterium NK3B98', 'Erysipelotrichaceae bacterium NK3D112', 'Lachnospiraceae bacterium NK4A136', 'Lachnospiraceae bacterium NK4A144', 'Lachnospiraceae bacterium NK4A179', 'Methanobacterium lacus', 'Chryseobacterium sp. StRB126', 'Pseudodesulfovibrio piezophilus C1TLV30', 'Cutaneotrichosporon oleaginosum', 'Plasmodium sp. gorilla clade G2', 'Fulvivirga imtechensis AK7', 'Methanoregula formicica SMSP', 'Schleiferia thermophila str. Yellowstone', 'Candidatus Zinderia insecticola CARI', 'Mageeibacillus indolicus UPII9-5', 'Fukomys damarensis', 'Desulfosporosinus acidiphilus SJ4', 'Methylovorus sp. MP688', 'Candidatus Nanosalina sp. J07AB43', 'Candidatus Nanosalinarum sp. J07AB56', 'Plautia stali symbiont', 'Nonlabens ulvanivorans', 'Phytopythium vexans DAOM BR484', 'Clostridium sp. HGF2', 'Alistipes sp. HGB5', 'Fusarium sp. FOSC 3-a', 'Actinokineospora spheciospongiae', 'SAR116 cluster alpha proteobacterium HIMB100', 'Pseudovibrio sp. FO-BEG1', 'Caldanaerobacter subterraneus subsp. tengcongensis MB4', 'Mycolicibacterium iranicum UM_TJL', 'Desulfosporosinus sp. OT', 'Knoellia flava TL1', 'Kangiella geojedonensis', 'Rhynchosporium commune', 'Rhynchosporium agropyri', 'Asinibacterium sp. OR53', 'Balearica regulorum', 'Synechocystis sp. PCC 7509', 'Bartonella florencae', 'Pseudomonas brassicacearum', 'Nonlabens marinus S1-08', 'Serratia sp. M24T3', 'Desulfosarcina sp. BuS5', 'Aminobacter sp. J41', 'Bacillus sp. J33', 'Bacillus sp. J37', 'Chelativorans sp. J32', 'Paenibacillus sp. J14', 'Paracoccus sp. J39', 'Luteimonas sp. J29', 'Nocardioides sp. J54', 'Rhizopus delemar', 'Mogibacterium sp. CM50', 'Desulfurispirillum indicum S5', 'Marinomonas posidonica IVIA-Po-181', 'Actinomyces sp. ICM47', 'Atopobium sp. BS2', 'Selenomonas sp. FOBRC6', 'Selenomonas sp. FOBRC9', 'Shuttleworthia sp. MSX8B', 'Streptococcus sp. CM6', 'Veillonella sp. AS16', 'Lachnoanaerobaculum sp. OBRC5-5', 'Lachnoanaerobaculum sp. MSX33', 'Casaltella massiliensis', 'Fenollaria massiliensis', 'Levyella massiliensis', 'Anaerococcus provencensis', 'Bacteroidetes bacterium SCGC AAA027-N21', 'Granulicella mallensis MP5ACTX8', 'Granulicella tundricola MP5ACTX9', 'Desulfovibrio sp. X2', 'Burkholderia sp. WSM2230', 'Hippea jasoniae', 'Hippea sp. KM1', 'Arcobacter sp. L', 'Gordonia neofelifaecis NRRL B-59395', 'Diplocarpon rosae', 'Salpingoeca rosetta', 'Arenimonas metalli CF5-1', 'Paraburkholderia dilworthii', 'Fusarium proliferatum', 'Palaeococcus pacificus DY20341', 'Bacillus sp. 17376', 'Fonsecaea multimorphosa CBS 102226', 'Leuconostoc sp. C2', 'Deinococcus wulumuqiensis R12', 'Aquimarina agarivorans', 'Morus notabilis', 'Ruegeria conchae', 'Lacinutrix sp. 5H-3-7-4', 'Glaciecola sp. 4H-3-7+YE-5', 'Dokdonia sp. 4H-3-7-5', 'Bifidobacterium reuteri DSM 23975', 'Heterobasidion irregulare', 'Mycoplasma parvum str. Indiana', 'Staphylococcus argenteus M21126', 'Vulcanisaeta moutnovskia 768-28', 'Ruegeria halocynthiae', 'Gillisia sp. CAL575', 'Staphylococcus agnetis', 'Lebetimonas sp. JS170', 'Polymorphum gilvum SL003B-26A1', 'Vibrio sp. HENC-03', 'Erosia sp. biolep03', 'Candidatus Kinetoplastibacterium desouzaii TCC079E', 'Candidatus Kinetoplastibacterium galatii TCC219', 'Candidatus Kinetoplastibacterium oncopeltii TCC290E', 'Desmospora sp. 8437', 'Porphyromonas sp. KLE 1280', 'Streptomyces himastatinicus ATCC 53653', 'Halomonas sp. TD01', 'Methylophaga lonarensis MPL', 'Selenomonas sp. F0473', 'Streptococcus sp. F0441', 'Streptococcus sp. F0442', 'Sedimentitalea nanhaiensis DSM 24252', 'Megasphaera sp. UPII 135-E', 'Cryobacterium roopkundense', 'Daldinia sp. EC12', 'Hypoxylon sp. CI-4A', 'Psychrobacter sp. 1501(2011)', 'Leisingera sp. ANG1', 'Candidatus Pelagibacter sp. IMCC9063', 'Verrucosispora maris AB-18-032', 'Fimbriimonas ginsengisoli Gsoil 348', 'Ogataea parapolymorpha DL-1', 'Metallosphaera cuprina Ar-4', 'Listeria weihenstephanensis FSL R9-0317', 'Defluviitoga tunisiensis', 'Candidatus Nitrosarchaeum limnium SFB1', 'Sphingomonas sp. S17', 'Pusillimonas sp. T7-7', 'Pyrococcus yayanosii CH1', 'Candidatus Tremblaya phenacola PAVE', 'Exophiala sideris', 'Nannospalax galili', 'Endozoicomonas montiporae', 'Pseudomonas sp. StFLB209', 'Acinetobacter sp. P8-3-8', 'Sphingomonas sp. KC8', 'Caloramator sp. ALD01', 'Campylobacter volucris LMG 24379', 'Corynebacterium nuruki S6-4', 'Bacillus timonensis', 'Brevibacterium senegalense', 'Kurthia sp. Dielmo', 'Kurthia massiliensis', 'Kurthia senegalensis', 'Exophiala aquamarina CBS 119918', 'Marinobacter adhaerens HP15', 'Thioalkalivibrio sulfidiphilus HL-EbGr7', 'Nitrososphaera viennensis EN76', 'Paenibacillus sp. HW567', 'Legionella massiliensis', 'Deferrisoma camini S3R1', 'Dehalobacter sp. FTH1', 'Idiomarina sp. A28L', 'Bradyrhizobium sp. WSM2793', 'Bradyrhizobium sp. WSM3983', 'Mesorhizobium sp. WSM3224', 'Mesorhizobium sp. WSM3626', 'Bradyrhizobium sp. ARR65', 'Drosophila rhopaloa', 'Ensifer sp. WSM1721', 'Candidatus Arthromitus sp. SFB-rat-Yit', 'Wickerhamomyces ciferrii', 'Aureobasidium subglaciale EXF-2481', 'Clostridium sp. SY8519', 'Rhizobium sp. IBUN', 'Ochrovirga pacifica', 'Thermococcus sp. 4557', 'Acidiphilium sp. PM', 'Demequina mangrovi', 'Citricoccus sp. CH26A', 'Oceaniovalibus guishaninsula JLT2003', 'Aminicenantes bacterium SCGC AAA252-A02', 'Zymoseptoria brevis', 'Zymoseptoria tritici', 'Candidatus Moranella endobia PCIT', 'Paracoccidioides lutzii', 'Anditalea andensis', 'Paenibacillus sp. Aloe-11', 'Verticillium alfalfae VaMs.102', 'Acetobacteraceae bacterium AT-5844', 'Thermoplasmatales archaeon BRNA1', 'Methylotenera versatilis 301', 'Psychrobacter sp. TB67', 'Grimontia indica', 'Nocardia sp. BMG51109', 'Ensifer sp. BR816', 'Azospirillum baldaniorum', 'Amycolatopsis halophila YIM 93223', 'Aspergillus luchuensis IFO 4308', 'Halonotius sp. J07HN4', 'Bacillus sp. NSP22.2', 'Tetrapisispora blattae', 'Caballeronia grimmiae', 'Lachancea dasiensis CBS 10888', 'Porticoccus hydrocarbonoclasticus MCTG13d', 'Armillaria solidipes', 'Pantoea rwandensis', 'Thiolapillus brandeum', 'Acetobacter okinawensis JCM 25146', 'Staphylococcus sp. HGB0015', 'Paenisporosarcina sp. HGH0030', 'Streptomyces sp. HGB0020', 'Parabacteroides sp. HGS0025', 'Bacteroides sp. HPS0048', 'Coprococcus sp. HPP0074', 'Coprococcus sp. HPP0048', 'Serinicoccus profundi MCCC 1A05965', 'Haemophilus sputorum CCUG 13788', 'Paenibacillus sp. HGH0039', 'Corynebacterium sp. HFH0082', 'Rhizobium mesoamericanum STM3625', 'Leucobacter chromiiresistens JG 31', 'Citrobacter sp. S-77', 'Saccharomyces eubayanus', 'Candidatus Aquiluna sp. IMCC13023', 'Hepatospora eriocheir', 'Enterospora canceri', 'Aquimarina agarilytica ZC1', 'Bartonella sp. DB5-6', 'Streptococcus sp. SK140', 'Streptococcus sp. SK643', 'Methylobacterium sp. GXF4', 'Arthrobacter sp. PAO19', 'Burkholderia sp. YI23', 'Coprobacter fastidiosus NSB1', 'Limnohabitans sp. Rim28', 'Limnohabitans sp. Rim47', 'Arthrobacter sp. MA-N2', 'Paracoccus sp. N5', 'Methylopila sp. M107', 'Methylobacterium sp. 10', 'Methylobacterium sp. 77', 'Methylophilaceae bacterium 11', 'Pyrobaculum ferrireducens', 'Actinomyces sp. ICM39', 'Clostridium sp. MSTE9', 'Rickettsia philipii str. 364D', 'Paenirhodobacter enshiensis', 'Penicillium rubens', 'Thermus sp. CCB_US3_UF1', 'Metallosphaera yellowstonensis MK1', 'Atopobium sp. BV3Ac4', 'Propionimicrobium sp. BV2F7', 'Peptoniphilus sp. BV3C26', 'Coriobacteriaceae bacterium BV3Ac1', 'Megasphaera sp. BV3C16-1', 'Psychrobacter sp. PAMC 21119', 'Sphingomonas sp. PAMC 26605', 'Sphingomonas sp. PAMC 26617', 'Methylophilus sp. 5', 'Arthrobacter sp. 31Y', 'Hoeflea sp. 108', 'Vibrio sp. EJY3', 'Elizabethkingia anophelis NUHP1', 'Brevibacillus massiliensis', 'Actinomyces sp. ph3', 'Halomonas sp. GFAJ-1', 'Arthrobacter sp. Rue61a', 'Rhizobium grahamii CCGE 502', 'Sphingopyxis sp. LC363', 'Methylopila sp. 73B', 'Mycobacterium sp. 141', 'Actinomadura flavalba DSM 45200', 'Corynebacterium doosanense CAU 212 = DSM 45436', 'Gordonia kroppenstedtii DSM 45133', 'Fodinicurvata fenggangensis DSM 21160', 'Fodinicurvata sediminis DSM 21159', 'Halomonas zhanjiangensis DSM 21076', 'Hirschia maritima DSM 19733', 'Pedobacter oryzae DSM 19973', 'Ponticaulis koreensis DSM 19734', 'Rubellimicrobium mesophilum DSM 19309', 'Thiomicrorhabdus sp. Kp2', 'Gonapodya prolifera JEL478', 'SAR86 cluster bacterium SAR86A', 'SAR86 cluster bacterium SAR86B', 'Magnetococcus marinus MC-1', 'Treponema sp. JC4', 'Pseudomonas sp. P179', 'Limimaricola cinnabarinus LL-001', 'Bosea sp. 117', 'Bradyrhizobium sp. DOA9', 'Paenibacillus beijingensis', 'Bacillus sp. JS', 'Paraglaciecola arctica BSs20135', 'Weissella oryzae SG25', 'Marine Group I thaumarchaeote SCGC AB-629-I23', 'Nitrospina sp. AB-629-B18', 'Dehalobacter sp. CF', 'Sphaerochaeta globosa str. Buddy', 'Sphaerochaeta pleomorpha str. Grapes', 'Flavobacterium sp. 83', 'Methylobacterium sp. 88A', 'Xanthobacter sp. 126', 'Arthrobacter sp. 35W', 'Bacillus sp. 37MA', 'Rhizobium sp. CCGE 510', 'Melioribacter roseus P3M-2', 'Alkalihalobacillus ligniniphilus', 'Cellvibrio sp. BR', 'Klebsiella michiganensis E718', 'Nocardiopsis sp. CNT312', 'Streptomyces sp. CNH099', 'Saccharomonospora sp. CNQ490', 'Xanthomarina gelatinilytica', 'Endozoicomonas numazuensis', 'Clostridium arbusti SL206', 'Mycobacterium paraintracellulare', 'Lactobacillus curieae', 'Pseudomassariella vexata', 'Homolaphlyctis polyrhiza', 'Novosphingobium sp. AP12', 'Sphingobium sp. AP49', 'Rhizobium sp. CF080', 'Rhizobium sp. CF122', 'Flavobacterium sp. CF136', 'Herbaspirillum sp. CF444', 'Pseudomonas sp. GM21', 'Herbaspirillum sp. YR522', 'Phyllobacterium sp. YR531', 'Tritrichomonas foetus', 'Acinetobacter sp. CIP 101934', 'Acinetobacter sp. CIP 101966', 'Acinetobacter sp. CIP 102082', 'Acinetobacter sp. CIP 102129', 'Acinetobacter sp. CIP 102136', 'Acinetobacter sp. CIP 102143', 'Acinetobacter sp. CIP 102159', 'Acinetobacter sp. CIP 102529', 'Acinetobacter sp. CIP 102637', 'Acinetobacter sp. CIP 51.11', 'Acinetobacter sp. CIP 53.82', 'Acinetobacter sp. CIP 56.2', 'Acinetobacter sp. CIP 64.7', 'Acinetobacter sp. CIP A162', 'Lysinibacillus varians', 'Dehalobacter sp. DCA', 'Ornithinibacillus scapharcae TW25', 'Achromobacter arsenitoxydans SY8', 'Acinetobacter oleivorans DR1', 'Geminisphaera colitermitum TAV2', 'Pseudomonas furukawaii', 'Arthrobacter sp. 9MFCol3.1', 'Leifsonia sp. 109', 'Tsukamurella sp. 1534', 'Arthrobacter sp. 161MFSha2.1', 'Arthrobacter sp. 162MFSha1.1', 'Microbacterium sp. 292MF', 'Nematocida sp. 1 ERTm2', 'Streptomyces sp. LaPpAH-108', 'Streptomyces sp. MspMP-M5', 'Moorea producens 3L', 'Streptococcus sp. I-G2', 'Streptococcus sp. I-P16', 'Streptomyces sp. HmicA12', 'Tumebacillus flagellatus', 'Streptomyces sp. LaPpAH-95', 'Streptomyces sp. Amel2xE9', 'Streptomyces sp. ATexAB-D23', 'Streptomyces sp. BoleA5', 'Streptomyces sp. PsTaAH-124', 'Streptomyces sp. FxanaC1', 'Mycobacterium sp. 155', 'Thermotoga sp. Cell2', 'Thermotoga sp. 2812B', 'Arthrobacter sp. 135MFCol5.1', 'Thioalkalivibrio sp. ALJT', 'Thioalkalivibrio sp. ALD1', 'Thioalkalivibrio sp. ALMg11', 'Thioalkalivibrio sp. ALE31', 'Thiomonas sp. FB-Cd', 'Prevotella sp. 10(H)', 'Desulfurobacterium sp. TC5-1', 'Persephonella sp. IF05-L8', 'Persephonella sp. KM09-Lau-8', 'Kosakonia sacchari SP1', 'Thioalkalivibrio sp. ALJ7', 'Thioalkalivibrio sp. ALJ11', 'Thioalkalivibrio sp. ALJ16', "Leptospirillum sp. Group II 'C75'", 'Ustilaginoidea virens', 'Bordetella sp. FB-8', 'Nocardia sp. BMG111209', 'Brucella sp. 63/311', 'Ruminococcus bicirculans', 'Candidatus Nasuia deltocephalinicola str. NAS-ALF', 'Euryhalocaulis caribicus', 'Streptococcus sp. ACC21', 'Ruminococcus champanellensis 18P13 = JCM 17042', 'Pseudomonas donghuensis', 'Clostridium sp. 12(A)', 'Cronobacter condimenti 1330', 'Richelia intracellularis HH01', 'Imtechella halotolerans K1', 'Methylotenera sp. 73s', 'Sulfurovum sp. AR', 'Enterobacter sp. R4-368', 'Halomonas xinjiangensis', 'Draconibacterium orientale', 'Xanthobacteraceae bacterium 501b', 'Mycobacterium sp. MOTT36Y', 'Mycobacterium sp. H4Y', 'Streptomyces pratensis ATCC 33331', 'Bacillus sp. 123MFChir2', 'Nocardia sp. CNY236', 'Streptomyces sp. CNT372', 'Streptomyces sp. CNY243', 'Brucella sp. F5/06', 'Brucella sp. 56/94', 'Citrobacter sp. KTE30', 'Escherichia sp. KTE114', 'Citrobacter sp. KTE151', 'Escherichia sp. KTE11', 'Escherichia sp. KTE31', 'Citrobacter sp. KTE32', 'Vitrella brassicaformis CCMP3155', 'Rhodobacteraceae bacterium PD-2', 'Streptomyces sp. 142MFCol3.1', 'Streptomyces sp. 351MFTsu5.1', 'Streptomyces sp. 303MFCol5.2', 'Nocardia sp. 348MFTsu5.1', 'Mycobacterium sp. 360MFTsu5.1', 'Terracoccus sp. 273MFTsu3.1', 'Oxytricha trifallax', 'Sulfurimonas hongkongensis', 'Catenovulum agarivorans DS-2', 'Fischerella sp. PCC 9431', 'Fischerella sp. PCC 9605', 'Geitlerinema sp. PCC 7407', 'Gloeocapsa sp. PCC 7428', 'Microcoleus sp. PCC 7113', 'Oscillatoria sp. PCC 10802', 'Chamaesiphon minutus PCC 6605', 'Synechococcus sp. PCC 7502', 'Leptolyngbya sp. PCC 6406', 'Colletotrichum sublineola', 'Fischerella sp. PCC 9339', 'Sphingopyxis sp. MC1', 'Herbaspirillum sp. GW103', 'Methanocella conradii HZ254', 'Methanocella arvoryzae MRE50', 'Peptoniphilus rhinitidis 1-13', 'Sulfurimonas gotlandica GD1', 'Agrobacterium fabrum str. C58', 'Alcanivorax nanhaiticus', 'Microbacterium sp. C448', 'Komagataeibacter medellinensis NBRC 3288', 'Halomonas huangheensis', 'Bacillus xiamenensis', 'Bacillus zhangzhouensis', 'Arenitalea lutea', 'Candidatus Photodesmus blepharus', 'Mycoplasma feriruminatoris', 'Pseudomonas sp. M47T1', 'Cladophialophora psammophila', 'Deinococcus swuensis', 'Escherichia sp. KTE52', 'Klebsiella sp. KTE92', 'Escherichia sp. KTE96', 'Escherichia sp. KTE159', 'Myroides injenensis M09-0166', 'Pyrococcus sp. ST04', 'Mesotoga prima MesG1.Ag.4.2', 'Thioclava dalianensis', 'Blattabacterium sp. (Blaberus giganteus)', 'Rhodovulum sp. PH10', 'Flavobacterium sp. ACAM 123', 'Burkholderia sp. lig30', 'Lactobacillus hokkaidonensis JCM 18461', 'Snodgrassella alvi', 'Gilliamella apicola', 'Corvus moneduloides', 'Clostridium sp. Maddingley MBC34-26', 'Paenibacillus sp. OSY-SE', 'Mangrovimonas yunxiaonensis', 'Arthrobacter sp. M2012083', 'Janthinobacterium sp. HH01', 'Thermogladius calderae 1633', 'Anaerovibrio sp. RM50', 'Ruminobacter sp. RM87', 'Bacteriovorax sp. Seq25_V', 'Bacteriovorax sp. BAL6_X', 'Flavobacterium sp. F52', 'Lactobacillus oryzae JCM 18671', 'Halopiger salifodinae', 'Achlya hypogyna', 'Lactobacillus hominis DSM 23910 = CRBIP 24.179', 'Geobacter daltonii FRC-32', 'Acidaminococcus sp. HPA0509', 'Actinomyces sp. HPA0247', 'Corynebacterium sp. KPL1814', 'Corynebacterium sp. KPL1817', 'Corynebacterium sp. KPL1818', 'Corynebacterium sp. KPL1821', 'Corynebacterium sp. KPL1824', 'Corynebacterium sp. KPL1855', 'Corynebacterium sp. KPL1856', 'Corynebacterium sp. KPL1857', 'Corynebacterium sp. KPL1859', 'Corynebacterium sp. KPL1860', 'Dermabacter sp. HFH0086', 'Propionibacterium sp. HGH0353', 'Propionibacterium sp. KPL1838', 'Propionibacterium sp. KPL1844', 'Propionibacterium sp. KPL1852', 'Pseudomonas sp. HPB0071', 'Streptococcus sp. HPH0090', 'Streptomyces sp. HPH0547', 'Veillonella sp. HPA0037', 'Corynebacterium sp. KPL1986', 'Corynebacterium sp. KPL1989', 'Corynebacterium sp. KPL1995', 'Corynebacterium sp. KPL1996', 'Corynebacterium sp. KPL1998', 'Corynebacterium sp. KPL2004', 'Propionibacterium sp. KPL2005', 'Propionibacterium sp. KPL2009', 'Streptomyces sp. CNR698', 'Novosphingobium sp. MBES04', 'Pseudomonas sp. Lz4W', 'Gallaecimonas xiamenensis 3-C-1', 'Idiomarina xiamenensis 10-D-4', 'Sphingobium sp. C100', 'Hyphomonas sp. L-53-1-40', 'Pseudomonas sp. UW4', 'Marinomonas profundimaris', 'Celeribacter indicus', 'Commensalibacter sp. MX01', 'Colletotrichum orchidophilum', 'Streptomyces sp. AA0539', 'Gemmata massiliana', 'Pseudoxanthomonas sp. GW2', 'Chelatococcus sp. GW1', 'Dyadobacter tibetensis Y620-1', 'Enterobacteriaceae bacterium B14', 'Acidocella sp. MX-AZ02', 'Diaporthe ampelina', 'Thermus tengchongensis YIM 77401', 'Amphibacillus jilinensis Y1', 'Clostridium bornimense', 'Acinetobacter sp. NIPH 542', 'Acinetobacter sp. NIPH 298', 'Acinetobacter sp. CIP 64.2', 'Acinetobacter sp. NIPH 1847', 'Acinetobacter sp. NIPH 3623', 'Acinetobacter sp. CIP 110321', 'Acinetobacter sp. CIP 70.18', 'Acinetobacter sp. ANC 3880', 'Acinetobacter sp. NIPH 1867', 'Acinetobacter sp. ANC 4105', 'Acinetobacter sp. NIPH 284', 'Acinetobacter sp. ANC 3862', 'Acinetobacter sp. NIPH 2168', 'Acinetobacter sp. ANC 3929', 'Acinetobacter sp. NIPH 2100', 'Acinetobacter sp. NIPH 713', 'Acinetobacter sp. NIPH 899', 'Acinetobacter sp. NIPH 236', 'Acinetobacter sp. NIPH 758', 'Acinetobacter sp. ANC 3789', 'Cupriavidus sp. BIS7', 'Roseomonas sp. B5', 'Xylona heveae TC161', 'Octadecabacter antarcticus 307', 'Streptomyces sp. GBA 94-10', 'Brucella inopinata BO1', 'Lactobacillus mellifer', 'Lactobacillus kullabergensis', 'Lactobacillus helsingborgensis', 'Lactobacillus kimbladii', 'Lactobacillus melliventris', 'Lactobacillus mellis', 'Acinetobacter nectaris CIP 110549', 'Actinomyces sp. S4-C9', 'Arcanobacterium sp. S3PF19', 'Peptostreptococcus sp. MV1', 'Methanobacterium sp. Maddingley MBC34', 'Altibacter lentus', 'Corynebacterium humireducens NBRC 106098 = DSM 45392', 'Enterobacteriaceae bacterium LSJC7', 'Mangrovibacter sp. MFB070', 'Pantoea sp. A4', 'Dickeya sp. DW 0440', 'Oscillibacter sp. KLE 1728', 'Oscillibacter sp. KLE 1745', 'Blautia sp. KLE 1732', 'Clostridium sp. KLE 1755', 'Streptomyces rapamycinicus NRRL 5491', 'Actinomyces sp. oral taxon 877 str. F0543', 'Capnocytophaga sp. oral taxon 863 str. F0517', 'Leptotrichia sp. oral taxon 879 str. F0557', 'Prevotella sp. F0091', 'Paenibacillus sp. FSL H7-689', 'Paenibacillus sp. FSL R7-277', 'Leptolyngbya sp. KIOST-1', 'Sphingobacterium deserti', 'Flavobacterium sp. WG21', 'Cupriavidus sp. GA3-3', 'Alkalibacterium sp. AK22', 'Candidatus Nitrosopumilus sediminis', 'Salimicrobium jeotgali', 'Bradyrhizobium sp. DFCI-1', 'Flaviramulus ichthyoenteri Th78', 'Lachancea sp. CBS 6924', 'Lachancea mirantina', 'Paenisporosarcina sp. TG-14', 'Nitratireductor pacificus pht-3B', 'Thermotoga sp. Mc24', 'Lactobacillus shenzhenensis LY-73', 'Clohesyomyces aquaticus', 'Desulfuromonas sp. TF', 'Corynebacterium ihumii', 'Megasphaera massiliensis', 'Nesterenkonia massiliensis', 'Nosocomiicoccus massiliensis', 'Enorma timonensis', 'Desulfobacula sp. TS', 'Clostridiales bacterium VE202-13', 'Clostridiales bacterium VE202-18', 'Clostridiales bacterium VE202-09', 'Clostridiales bacterium VE202-08', 'Clostridiales bacterium VE202-14', 'Clostridiales bacterium VE202-21', 'Marinobacterium sp. AK27', 'Geobacillus sp. GHH01', 'Chryseobacterium sp. JM1', 'Chryseobacterium sp. FH1', 'Staphylococcus sp. E463', 'Pacificimonas flava', 'Gayadomonas joobiniege G7', 'Ralstonia sp. AU12-08', 'Eubacterium sp. 14-2', 'Lachnospiraceae bacterium M18-1', 'Lachnospiraceae bacterium MD335', 'Firmicutes bacterium M10-2', 'Oscillibacter sp. 1-3', 'Dorea sp. 5-2', 'Lachnospiraceae bacterium MD308', 'Lachnospiraceae bacterium 10-1', 'Parabacteroides sp. ASF519', 'Anaerotruncus sp. G3(2012)', 'Candidatus Pantoea carbekii', 'Haloquadratum sp. J07HQX50', 'Halonotius sp. J07HN6', 'Halorubrum sp. J07HR59', 'Sodalis praecaptivus', 'Dokdonia sp. PRO95', 'Bacillus massiliogorillae', 'Luteimonas huabeiensis HB2', 'Campylobacter iguaniorum', 'Magnetospirillum caucaseum', 'Mariniradius saccharolyticus AK6', 'Lachancea lanzarotensis', 'Borreliella chilensis', 'Nocardiopsis potens DSM 45234', 'Rhizobium sp. 2MFCol3.1', 'Halobacillus sp. BAB-2008', 'Paramicrosporidium saccamoebae', 'Arsenophonus endosymbiont str. Hangzhou of Nilaparvata lugens', 'Microbacterium sp. UCD-TDU', 'Parvularcula oceani', 'Blastomonas sp. AAP53', 'Sandarakinorhabdus sp. AAP62', 'Porphyrobacter sp. AAP82', 'Candidatus Sulfuricurvum sp. RIFRC-1', 'Imhoffiella purpurea', 'Gillisia sp. Hel_I_29', 'Maribacter sp. Hel_I_7', 'Polaribacter sp. Hel1_85', 'Polaribacter sp. Hel_I_88', 'Muricauda sp. MAR_2010_75', 'Salegentibacter sp. Hel_I_6', 'Pseudomonas sp. FGI182', "Leptospirillum sp. Group IV 'UBA BS'", 'Streptomyces sp. 769', 'Phascolarctobacterium sp. CAG:207', 'Phascolarctobacterium sp. CAG:266', 'Oscillibacter ruminantium GH1', 'Edwardsiella piscicida C07-087', 'Candidatus Endolissoclinum faulkneri L2', 'Pseudomonas sp. URMO17WK12:I8', 'Streptomyces sp. PAMC 26508', 'Nafulsella turpanensis ZLM-10', 'Lysinibacillus manganicus DSM 26584', 'Thioalkalivibrio sp. ALE6', 'Thioalkalivibrio sp. ALE19', 'Thioalkalivibrio sp. AKL19', 'Frischella perrara', 'Sediminibacterium sp. C3', 'Acidobacteriaceae bacterium KBS 83', 'Acidobacteriaceae bacterium KBS 89', 'Pantoea sp. IMH', 'Pseudomonas sp. G5(2012)', 'Peptoniphilus timonensis JC401', 'Rhodococcus sp. AW25M09', 'Acidovorax sp. MR-S7', 'Thioalkalivibrio sp. ALR17-21', 'Flavobacterium sp. KJJ', 'Pedobacter sp. R20-19', 'Megasphaera sp. NM10', 'Liberibacter crescens BT-1', 'Mycobacterium sp. VKM Ac-1817D', 'Paenibacillus antibioticophila', 'Candidatus Hepatobacter penaei', 'Acidovorax sp. JHL-9', 'Escherichia sp. KTE172', 'Hippea alviniae EP5-r', 'Synechococcus sp. KORDI-100', 'Gorillibacterium massiliense', 'Butyrivibrio sp. AE2015', 'Butyrivibrio sp. VCD2006', 'Butyrivibrio sp. AE3009', 'Butyrivibrio sp. XPD2006', 'Butyrivibrio sp. FC2001', 'Butyrivibrio sp. AE3006', 'Prevotella sp. AGR2160', 'Butyrivibrio sp. WCD3002', 'Butyrivibrio sp. VCB2006', 'Butyrivibrio sp. LC3010', 'Butyrivibrio sp. WCD2001', 'Butyrivibrio sp. XBB1001', 'Butyrivibrio sp. NC3005', 'Butyrivibrio sp. MC2013', 'Meira miltonrushii', 'Hyphomonas pacifica', 'Hyphomonas sp. CY54-11-8', 'Hyphomonas beringensis', 'Hyphomonas chukchiensis', 'Hyphomonas atlantica', 'Asticcacaulis sp. AC460', 'Asticcacaulis sp. AC402', 'Asticcacaulis sp. AC466', 'Frankia sp. Iso899', 'Tolumonas lignilytica', 'Nocardioides sp. Iso805N', 'Paenibacillus sp. A9', 'Planktomarina temperata RCA23', 'Actinomyces sp. S6-Spd3', 'Tissierellia bacterium S7-1-4', 'Prevotella sp. S7-1-8', 'Pandoraea sp. SD6-2', 'Brachyspira hampsonii 30446', 'Mesorhizobium sp. L2C084A000', 'Mesorhizobium sp. LNJC398B00', 'Prevotella sp. S7 MS 2', 'Bacillus massiliosenegalensis JC6', 'Achromobacter insuavis AXX-A', 'Arcticibacter svalbardensis MN12-7', 'Streptomyces sp. CNT318', 'Streptomyces sp. TAA040', 'Anaerococcus senegalensis JC48', 'Alistipes senegalensis JC50', 'Actinomyces timonensis DSM 23838', 'Nitrosospira lacus', 'Magnetospira sp. QH-2', 'Streptomyces sp. TAA204', 'Candidatus Methanomethylophilus alvus Mx1201', 'Dietzia sp. UCD-THP', 'Kocuria sp. UCD-OTCP', 'Leucobacter sp. UCD-THU', 'Halopiger djelfimassiliensis', 'Halopiger goleimassiliensis', 'Pseudomonas sp. ATCC 13867', 'Photobacterium gaetbulicola Gung47', 'Thermodesulfobacterium geofontis OPF15', 'Parageobacillus genomosp. 1', 'Aquimarina pacifica', 'Mesorhizobium sp. STM 4661', 'Intestinimonas butyriciproducens', 'Myxococcus hansupus', 'Afipia sp. OHSU_I-C4', 'Bradyrhizobium sp. OHSU_III', 'Psychrobacter sp. JCM 18900', 'Mesorhizobium sp. URHA0056', 'Microbacterium sp. URHA0036', 'Marmoricola sp. URHB0036', 'Mycobacterium sp. URHD0025', 'Alteromonas sp. ALT199', 'Bradyrhizobium sp. URHA0002', 'Streptomyces sp. TAA486', 'Methanocaldococcus bathoardescens', 'Caldisalinibacter kiritimatiensis', 'Cellulomonas sp. KRMCY2', 'Clostridium sp. ASBs410', 'Geovibrio sp. L21-Ace-BES', 'Microbacterium sp. KROCY2', 'Oceanicola sp. HL-35', 'Marinobacter nanhaiticus D15-8W', 'Sporosarcina sp. EUR3 2.2.2', 'Alcanivorax pacificus W11-5', 'Termitomyces sp. J132', 'Streptomyces hokutonensis', 'Desulfohalovibrio reitneri', 'Salinispira pacifica', 'Arthrobacter sp. Br18', 'Arthrobacter sp. H14', 'Thermocrinis sp. GBS', 'Aureispira sp. CCB-QB1', 'Peniophora sp. CONT', 'Perkinsela sp. CCAP 1560/4', 'Streptococcus sp. HSISM1', 'Streptococcus sp. HSISB1', 'Streptococcus sp. HSISS1', 'Streptococcus sp. HSISS2', 'Streptococcus sp. HSISS3', 'Enterococcus sp. HSIEG1', 'Blattabacterium sp. (Nauphoeta cinerea)', 'Archaeoglobus sulfaticallidus PM70-1', 'Aquimarina atlantica', 'Thioclava atlantica', 'Candidatus Mycoplasma girerdii', 'Mesorhizobium sp. NBIMC_P2-C3', 'Clostridiales bacterium oral taxon 876 str. F0540', 'Mitsuokella sp. oral taxon 131 str. W9106', 'Peptostreptococcaceae bacterium oral taxon 113 str. W5053', 'Selenomonas sp. oral taxon 892 str. F0426', 'Rhodococcus defluvii', 'Mycobacterium sp. TKK-01-0059', 'Serratia sp. FS14', 'Prolemur simus', 'Thermoactinomyces daqus', 'Enterobacter sp. MGH 1', 'Enterobacter sp. MGH 3', 'Enterobacter sp. MGH 6', 'Enterobacter sp. MGH 7', 'Enterobacter sp. MGH 10', 'Enterobacter sp. MGH 15', 'Enterobacter sp. MGH 22', 'Enterobacter sp. MGH 23', 'Enterobacter sp. MGH 24', 'Enterobacter sp. MGH 25', 'Enterobacter sp. MGH 33', 'Enterobacter sp. MGH 37', 'Enterobacter sp. MGH 38', 'Enterobacter sp. BWH 37', 'Enterobacter sp. BIDMC 26', 'Enterobacter sp. BIDMC 27', 'Enterobacter sp. BIDMC 28', 'Enterobacter sp. BIDMC 29', 'Enterobacter sp. BIDMC 30', 'Novosphingobium lindaniclasticum LE124', 'Cycloclasticus zancles 78-ME', 'Thermus caliditerrae', 'Auricularia subglabra TFB-10046 SS5', 'Sphingobium baderi LL03', 'Candidatus Saccharimonas aalborgensis', 'Salinarchaeum sp. Harcht-Bsk1', 'Bifidobacterium moukalabense DSM 27321', 'Tepidicaulis marinus', 'Spiribacter salinus M19-40', 'Spiribacter curvatus', 'Sphingobium bisphenolivorans', 'Polaribacter sp. Hel1_33_49', 'Calothrix sp. 336/3', 'Bacillus sp. UNC438CL73TsuS30', 'Luminiphilus syltensis NOR5-1B', 'Flavobacterium enshiense DK69', 'Brucella sp. 04-5288', 'Sulfitobacter geojensis', 'Sulfitobacter noctilucicola', 'Sulfitobacter noctilucae', 'Saccharibacter sp. AM169', 'Epichloe mollis', 'Winogradskyella psychrotolerans RS-3', 'Halomonas sp. A3H3', 'Bacillus sp. EB01', 'Paucisalibacillus sp. EB02', 'Bacillus ndiopicus', 'Bacillus dielmoensis', 'Anaerosalibacter massiliensis', 'Bacteroides neonati', 'Pseudoalteromonas piratica', 'Arthrobacter sp. AK-YN10', 'Cyclobacterium qasimii M12-11B', 'Synechococcus sp. UTEX 2973', 'Thioclava indica', 'Bacteriovorax sp. BSW11_IV', 'Peptoniphilus mikwangii', 'Roseovarius sp. MCTG156(2b)', 'Arcobacter sp. AF1028', 'Arcobacter lanthieri', 'Bradyrhizobium diazoefficiens USDA 110', 'Rhodococcus sp. PML026', 'Hymenobacter sp. APR13', 'Batrachochytrium salamandrivorans', 'Lutibaculum baratangense AMV1', 'Thermofilum adornatum', 'Zygosaccharomyces parabailii', 'Rhodobacteraceae bacterium HIMB11', 'Fonsecaea erecta', 'Mycobacterium sp. UM_WGJ', 'Mycobacterium sp. UM_WWY', 'Firmicutes bacterium ASF500', 'Dyella jiangningensis', 'Gemmatimonas phototrophica', 'Desulfonauticus sp. A7A', 'Sphingomonas sp. FUKUSWIS1', 'Methanobacterium sp. MB1', 'Spirosoma radiotolerans', 'Streptomyces sp. URHA0041', 'Geodermatophilaceae bacterium URHB0048', 'Mesorhizobium sp. URHC0008', 'Cellulomonas sp. URHE0023', 'Bradyrhizobium sp. URHD0069', 'Blastococcus sp. URHD0036', 'Halomonas sp. 23_GOM-1509m', 'Sulfitobacter sp. 20_GPM-1509m', 'Intrasporangiaceae bacterium URHB0013', 'Ahrensia sp. 13_GOM-1096m', 'Tenacibaculum sp. 47A_GOM-205m', 'Mycobacterium sp. URHB0044', 'Alcanivorax sp. 43B_GOM-46m', 'Solirubrobacterales bacterium URHD0059', 'Dongia sp. URHE0060', 'Geodermatophilaceae bacterium URHA0031', 'Rhodospirillales bacterium URHD0088', 'Paenibacillus darwinianus', 'Streptomycetaceae bacterium MP113-05', 'Aliihoeflea sp. 2WW', 'Brevibacterium sp. VCM10', 'Caulobacteraceae bacterium PMMR1', 'Sporosarcina sp. D27', 'Thermogemmatispora carboxidivorans', 'Thermorudis peleae', 'Acidobacterium ailaaui', 'Methyloceanibacter caenitepidi', 'Francisella sp. W12-1067', 'Lysobacter arseniciresistens ZS79', 'Hymenobacter sp. DG25B', 'Leptolyngbya sp. Heron Island J', 'Exiguobacterium chiriqhucha RW-2', 'Sphingobacterium paucimobilis HER1398', 'Methylophilus sp. OH31', 'Staphylococcus sp. M0480', 'Clostridium sp. Ade.TY', 'Pseudogymnoascus sp. VKM F-3808', 'Kalmanozyma brasiliensis', 'Prevotella sp. HUN102', 'Eubacterium sp. AB3007', 'Flavimarina sp. Hel_I_48', 'Leeuwenhoekiella sp. MAR_2009_132', 'Sediminibacter sp. Hel_I_10', 'Ruminococcaceae bacterium AE2021', 'Lachnospiraceae bacterium AC2031', 'Bifidobacterium sp. 7101', 'Bifidobacterium sp. A11', 'Candidatus Saccharibacteria bacterium RAAC3_TM7_1', 'Thermosynechococcus sp. NK55a', 'Paenibacillus sp. MAEPY2', 'Haloferula sp. BvORR071', 'Verrucomicrobium sp. BvORR034', 'Marinobacter sp. ES-1', 'Leucobacter sp. PH1c', 'Serratia sp. H1n', 'Alcanivorax sp. P2S70', 'Halomonas sp. PBN3', 'Candidatus Micropelagos thuwalensis', 'Exiguobacterium sp. MH3', 'Ophiocordyceps australis', 'Bacteroidales bacterium CF', 'Flavobacterium limnosediminis JC2902', 'Sulfitobacter pseudonitzschiae', 'Streptomyces sp. A02', 'Verrucomicrobium sp. BvORR106', 'Corynebacterium glyciniphilum AJ 3170', 'Candidatus Methanomassiliicoccus intestinalis Issoire-Mx1', 'Synechococcus sp. NKBG15041c', 'Betaproteobacteria bacterium MOLA814', 'Bacillus sp. MB2021', 'Butyrivibrio sp. FCS014', 'Butyrivibrio sp. MC2021', 'Prevotella sp. MA2016', 'Oribacterium sp. FC2011', 'Pseudobutyrivibrio sp. LB2011', 'Lachnospiraceae bacterium AC2028', 'Lachnospiraceae bacterium AC3007', 'Lachnospiraceae bacterium MA2020', 'Lachnospiraceae bacterium MC2017', 'Youngiibacter fragilis 232.1', 'Candidatus Tachikawaea gelatinosa', 'Candidatus Nitrosopelagicus brevis', 'Bacteroides sp. Ga6A2', 'Treponema sp. C6A8', 'Oribacterium sp. P6A1', 'Prevotella sp. P6B1', 'Pseudobutyrivibrio sp. MD2005', 'Ruminococcus sp. FC2018', 'Selenomonas sp. ND2010', 'Serratia sp. DD3', 'Shinella sp. DD12', 'Lachnospiraceae bacterium C6A11', 'Lachnospiraceae bacterium FE2018', 'Lachnospiraceae bacterium MD2004', 'Lachnospiraceae bacterium NC2004', 'Lachnospiraceae bacterium ND2006', 'Lachnospiraceae bacterium P6A3', 'Lachnospiraceae bacterium P6B14', 'Lachnospiraceae bacterium V9D3004', 'Lachnospiraceae bacterium YSB2008', 'Propionibacteriaceae bacterium P6A17', 'Ruminococcaceae bacterium AB4001', 'Methyloglobulus morosus KoM1', 'Rhizobiales bacterium YIM 77505', 'Gammaproteobacteria bacterium MOLA455', 'Corynebacterium jeddahense', 'Clostridium saudiense', 'Pseudomonas sp. TKP', 'Candidatus Walczuchella monophlebidarum', 'Marinobacter sp. MCTG268', 'Halomonas sp. TG39a', 'Oceanicola sp. MCTG156(1a)', 'Gloeobacter kilaueensis JS1', 'Defluviimonas sp. 20V17', 'Streptococcus sp. VT 162', 'Pseudogymnoascus sp. VKM F-3775', 'Pseudogymnoascus sp. VKM F-4246', 'Pseudogymnoascus sp. VKM F-4281 (FW-2241)', 'Pseudogymnoascus sp. VKM F-4513 (FW-928)', 'Pseudogymnoascus sp. VKM F-4514 (FW-929)', 'Pseudogymnoascus sp. VKM F-4515 (FW-2607)', 'Pseudogymnoascus sp. VKM F-4516 (FW-969)', 'Pseudogymnoascus sp. VKM F-4517 (FW-2822)', 'Pseudogymnoascus sp. VKM F-103', 'Pseudogymnoascus sp. VKM F-4518 (FW-2643)', 'Pseudogymnoascus sp. VKM F-4519 (FW-2642)', 'Pseudogymnoascus sp. VKM F-4520 (FW-2644)', 'Marinobacter similis', 'Marinobacter salarius', 'Kurthia huakuii LAM0618', 'Bacillus sp. SJS', 'Hyphomicrobium nitrativorans NL23', 'Candidatus Entotheonella factor', 'Candidatus Entotheonella gemina', 'Afipia sp. P52-10', 'Geobacillus icigianus', 'Candidatus Halobonum tyrrellensis G22', 'Mannheimia sp. USDA-ARS-USMARC-1261', 'Mucinivorans hirudinis', 'Methanosarcina sp. Kolksee', 'Methanosarcina sp. MTP4', 'Methanosarcina sp. WH1', 'Methanosarcina sp. WWM596', 'Acinetobacter bohemicus ANC 3994', 'Alcanivorax sp. 97CO-5', 'Candidatus Symbiobacter mobilis CR', 'Pseudogymnoascus sp. VKM F-3557', 'Citrobacter sp. MGH 55', 'Pseudomonas sp. BAY1663', 'Talaromyces atroroseus', 'Clostridium sp. K25', 'Aquimarina megaterium XH134', 'Candidatus Protochlamydia massiliensis', 'Candidatus Rubidus massiliensis', 'Xylella taiwanensis', 'Gynuella sunshinyii YC6258', 'Sciscionella sp. SE31', 'Hymenobacter swuensis DY53', 'Bacillus sp. Pc3', 'Campylobacter corcagiensis', 'Halobellus rufus', 'Arthrobacter sp. UNC362MFTsu5.1', 'Mycobacterium sp. UNC280MFTsu5.1', 'Caulobacter sp. UNC358MFTsu5.1', 'Clostridium sp. KNHs205', 'Microbacterium sp. UNCCL10', 'Paenibacillus sp. UNC451MF', 'Phyllobacterium sp. UNC302MFCol5.2', 'Rhodococcus sp. UNC23MFCrub1.1', 'Rhodococcus sp. UNC363MFTsu5.1', 'Sphingomonas sp. UNC305MFCol5.2', 'Thermus amyloliquefaciens', 'Bacillus sp. TS-2', 'Microbacterium sp. MRS-1', 'Microbacterium sp. Cr-K32', 'Microbacterium sp. Cr-K20', 'Pseudomonas sp. RL', 'Chryseobacterium hispalense DSM 25574', 'Microbulbifer sp. HZ11', 'Candidatus Accumulibacter sp. BA-93', 'Cellulomonas sp. HZM', 'Chlamydia avium 10DC88', 'Chlamydia gallinacea 08-1274/3', 'Halapricum salinum', 'Caballeronia jiangsuensis', 'Serpentinomonas raichei', 'Serpentinomonas mccroryi', 'Candidatus Phaeomarinobacter ectocarpi', 'Lachnospiraceae bacterium AC2029', 'Candidatus Nitrososphaera evergladensis SR1', 'Geomicrobium sp. JCM 19037', 'Geomicrobium sp. JCM 19038', 'Bacillus sp. JCM 19046', 'Paraphaeosphaeria sporulosa', 'Weeksella massiliensis', 'Haemophilus massiliensis', 'Neobacillus jeddahensis', 'Jeotgalicoccus saudimassiliensis', 'Metalysinibacillus saudimassiliensis', 'Actibacterium atlanticum', 'Pseudooceanicola atlanticus', 'Pseudoalteromonas sp. SCSIO_11900', 'Virgibacillus massiliensis', 'Oceanobacillus jeddahense', 'Brucella papionis', 'Klebsiella quasipneumoniae subsp. quasipneumoniae UCICRE 14', 'Actinosporangium sp. NRRL B-3428', 'Glycomyces sp. NRRL B-16210', 'Saccharothrix sp. NRRL B-16314', 'Streptomyces sp. NRRL F-2580', 'Streptomyces sp. NRRL F-2890', 'Streptomyces sp. NRRL F-5008', 'Streptomyces sp. NRRL F-5053', 'Streptomyces sp. NRRL F-5065', 'Streptomyces sp. NRRL F-5123', 'Streptomyces sp. NRRL F-5126', 'Streptomyces sp. NRRL F-5135', 'Streptomyces sp. NRRL F-525', 'Streptomyces sp. NRRL F-5630', 'Streptomyces sp. NRRL F-6677', 'Streptomyces sp. NRRL S-118', 'Streptomyces sp. NRRL S-149', 'Streptomyces sp. NRRL S-1777', 'Streptomyces sp. NRRL S-237', 'Streptomyces sp. NRRL S-337', 'Streptomyces sp. NRRL S-340', 'Streptomyces sp. NRRL S-37', 'Streptomyces sp. NRRL S-474', 'Streptomyces sp. NRRL S-646', 'Streptomyces sp. NRRL S-87', 'Streptomyces sp. NRRL S-920', 'Streptomyces sp. NRRL WC-3626', 'Streptomyces sp. NRRL WC-3742', 'Streptomyces sp. NRRL WC-3773', 'Micromonospora parva', 'Aeromicrobium massiliense JC14', 'Peptoniphilus grossensis ph5', 'Peptoniphilus senegalensis JC140', "Oceanobacillus massiliensis str. N'diop", 'Paenibacillus senegalensis JC66', 'Clostridium senegalense JC122', 'Cellulomonas massiliensis JC225', 'Noviherbaspirillum massiliense JC206', 'Timonella senegalensis JC301', 'Burkholderia sp. 2002721687', 'Bacillus massilioanorexius AP8', 'Bartonella senegalensis OS02', 'Holdemania massiliensis AP2', 'Thioalkalivibrio sp. HK1', 'Burkholderiales bacterium GJ-E10', 'Lacinutrix jangbogonensis', 'Rhodovulum sp. NI22', 'Kineothrix alysoides', 'Alistipes ihumii AP11', 'Candidatus Stoquefichus massiliensis AP9', 'Clostridium ihumii AP5', 'Candidatus Blastococcus massiliensis AP3', 'Streptomyces sp. Tu 6176', 'Sphingomonas sp. RIT328', 'Pseudomonas sp. RIT357', 'Prochlorococcus sp. scB241_528O2', 'Prochlorococcus sp. scB245a_520K10', 'Talaromyces cellulolyticus', 'Basilea psittacipulmonis DSM 24701', 'Falsirhodobacter sp. alg1', 'Burkholderia sp. K24', 'Enorma massiliensis phI', 'Kallipyga massiliensis ph2', 'Senegalimassilia anaerobia JC110', 'Lysinibacillus sp. BF-4', 'Mizugakiibacter sediminis', 'Deinococcus phoenicis', 'Streptomyces sp. NRRL B-24720', 'Peptostreptococcaceae bacterium VA2', 'Halomonas sp. HL-48', 'Marinobacter sp. HL-58', 'Oceanicaulis sp. HL-87', 'Porphyrobacter sp. HL-46', 'Curtobacterium sp. S6', 'Spirochaeta lutea', 'Pantoea sp. PSNIH2', 'Pantoea sp. PSNIH1', 'Psychroserpens jangbogonensis', 'Exiguobacterium sp. AB2', 'Rhodoferax saidenbachensis ED16', 'Cadophora sp. DSE1049', 'Selenomonas sp. AE3005', 'Ferriphaselus sp. R-1', 'Ghiorsea bivora', 'Mitosporidium daphniae', 'Martelella endophytica', 'Candidatus Sodalis pierantonius str. SOPE', 'Clostridium sp. HMP27', 'Desulfosporosinus sp. HMP52', 'Corynebacterium sp. ATCC 6931', 'Pseudomonas sp. Ant30-3', 'Deinococcus sp. RL', 'Trichoderma guizhouense', 'Flavobacterium gilvum', 'Flavobacterium seoulense', 'Gammaproteobacteria bacterium MFB021', 'Arthrobacter sp. PAMC 25486', 'Mesoaciditoga lauensis cd-1655R = DSM 25116', 'Pseudomonas sp. WCS374', 'Penicillium cf. griseofulvum UFMGCB 6741', 'Candidatus Evansia muelleri', 'Cyanobium sp. CACIAM 14', 'Listeriaceae bacterium FSL A5-0209', 'Prochlorococcus sp. MIT 0601', 'Prochlorococcus sp. MIT 0602', 'Prochlorococcus sp. MIT 0701', 'Bacillus rubiinfantis', 'Clostridium sp. CL-6', 'Clostridium sp. CL-2', 'Bacillus andreraoultii', 'Pseudomonas saudiphocaensis', 'Clostridium amazonitimonense', 'Candidatus Moduliflexus flocculans', 'Candidatus Vecturithrix granuli', 'Paenibacillus sp. TCA20', 'Rhizobium sp. YR295', 'Rhizobium sp. YR519', 'Chryseobacterium sp. CF284', 'Rhizobium sp. CF097', 'Rhizobium sp. CF394', 'Rhizobium sp. OK494', 'Luteibacter sp. 9143', 'Luteibacter sp. 9135', 'Massilia sp. 9096', 'Burkholderia sp. 9120', 'Campylobacter sp. RM16704', 'Paenibacillus tyrfis', 'Prochlorococcus sp. MIT 0604', 'Prochlorococcus sp. MIT 0801', 'Oribacterium parvum ACB8', 'Oribacterium asaccharolyticum ACB7', 'Alistipes inops', 'Devosia sp. LC5', 'Methylotenera sp. L2L1', 'Pseudomonas sp. AAC', 'Sphingopyxis sp. LC81', 'Bosea sp. LC85', 'Massilia sp. LC238', 'Veillonella seminalis ACS-216-V-Col6b', 'Polaromonas sp. CG9_12', 'Halomonas sp. KO116', 'Chitinivibrio alkaliphilus ACht1', 'Blochmannia endosymbiont of Polyrhachis (Hedomyrma) turneri', 'Blochmannia endosymbiont of Camponotus (Colobopsis) obliquus', 'Candidatus Schmidhempelia bombi str. Bimp', 'Thermococcus eurythermalis', 'Flavobacterium sp. Fl', 'Butyrivibrio sp. AE3004', 'Rachicladosporium antarcticum', 'Jeotgalibacillus malaysiensis', 'Candidatus Arthromitus sp. SFB-mouse-NL', 'Acinetobacter sp. HR7', 'Pseudorhizobium pelagicum', 'Candidatus Nitrosopumilus koreensis AR1', 'Bosea sp. UNC402CLCol', 'Ruminococcus sp. HUN007', 'Sphingopyxis fribergensis', 'Porphyromonas sp. COT-239 OH1446', 'Porphyromonas sp. COT-290 OH860', 'Shewanella mangrovi', 'Idiomarina atlantica', 'Vibrio sp. ER1A', 'Porphyromonadaceae bacterium COT-184 OH4590', 'Anopheles coluzzii', 'Oscillibacter sp. ER4', 'Candidatus Thermochlorobacteriaceae bacterium GBChlB', 'Chloroflexus sp. MS-G', 'Sphingobium sp. ba1', 'Ceraceosorus guamensis', 'Pseudomonas sp. ML96', 'Serratia sp. Ag1', 'Planococcus sp. PAMC 21323', 'Rickettsiales bacterium Ac37b', 'Thalassospira australica', 'Acinetobacter seifertii', 'Palleronia rufa', 'Coriobacteriaceae bacterium 68-1-3', 'Torrubiella hemipterigena', 'Achromobacter sp. RTa', 'Rhizobium sp. YS-1r', 'Devosia sp. 17-2-E-8', 'Thalassotalea sp. ND16A', 'Paenibacillus sp. FSL P4-0081', 'Paenibacillus sp. FSL R5-0345', 'Paenibacillus sp. FSL R5-0912', 'Paenibacillus sp. FSL R7-0273', 'Paenibacillus sp. FSL R7-0331', 'Paenibacillus sp. FSL H7-0357', 'Paenibacillus sp. FSL H7-0737', 'Sphingopyxis sp. MWB1', 'Sulfurospirillum sp. SCADC', 'Sulfuricurvum sp. MLSB', 'Alteromonas sp. LOR', 'Micromonospora sp. HK10', 'Aquabacterium sp. NJ1', 'Sphingobacterium sp. ML3W', 'Treponema sp. OMZ 838', 'Deinococcus sp. YIM 77859', 'Clostridium sp. KNHs214', 'Myxosarcina sp. GI1', 'Candidatus Izimaplasma sp. HR1', 'Candidatus Izimaplasma sp. HR2', 'Oleiagrimonas soli', 'Lactobacillus sp. wkB10', 'Lactobacillus sp. wkB8', 'Sphingomonas sp. 35-24ZXX', 'Hoeflea sp. BAL378', 'Francisella sp. FSC1006', 'Helicobacter sp. MIT 11-5569', 'Campylobacter sp. MIT 97-5078', 'Sphingomonas taxi', 'Sphingomonas sp. 37zxx', 'Sphingobacteriaceae bacterium DW12', 'Thermofilum uzonense', 'Listeria booriae', 'Caenorhabditis tropicalis', 'Fermentimonas caenicola', 'Rhodococcus sp. B7740', 'Shewanella sp. ECSMB14101', 'Sulfurospirillum sp. MES', 'Rugosibacter aromaticivorans', 'Bacillus sp. X1(2014)', 'Paenibacillus sp. IHBB 10380', 'Paracoccus sp. PAMC 22219', 'Phaeobacter sp. S60', 'Jaminaea rosea', 'Bacillus sp. BH072', 'Bacillus sp. YP1', 'Candidatus Methanoplasma termitum', 'Dickeya undicola', 'Nitrosopumilus adriaticus', 'Pseudomonas sp. HMSC05H02', 'Neisseria sp. HMSC06F02', 'Candidatus Methylopumilus planktonicus', 'Nitrosopumilus piranensis', 'Fusobacterium hwasookii ChDC F128', 'Myroides sp. A21', 'Agrobacterium arsenijevicii', 'Pseudomonas sp. 10B238', 'Haloarcula sp. CBA1115', 'Enterobacteriaceae bacterium ATCC 29904', 'Candidatus Nitrosotenuis cloacae', 'Halanaeroarchaeum sulfurireducens', 'Sinocyclocheilus anshuiensis', 'Candidatus Filomicrobium marinum', 'Sphingomonas hengshuiensis', 'Pseudomonas sp. MRSN12121', 'Vibrio sp. S234-5', 'Psychromicrobium lacuslunae', 'Bacillus sp. LM 4-2', 'Sulfuricella sp. T08', 'Verrucomicrobia bacterium IMCC26134', 'Chania multitudinisentens RB-25', 'Bacillus paralicheniformis ATCC 9945a', 'Metarhizium rileyi RCEF 4871', 'Metarhizium majus ARSEF 297', 'Blattabacterium cuenoti BPAA', 'Lachancea quebecensis', 'Emmonsia sp. CAC-2015a', 'Blastomyces percursus', 'Phialophora attinorum', 'Violaceomyces palustris', 'Paramormyrops kingsleyae', 'Blastomyces gilchristii SLH14081', 'Pseudomicrostroma glucosiphilum', 'Wallemia mellicola CBS 633.66', 'Baudoinia panamericana UAMH 10762', 'Leucoagaricus sp. SymC.cos', 'Pezoloma ericae', 'Neocallimastix californiae', 'Piromyces finnis', 'Anaeromyces robustus', 'Mesorhizobium erdmanii USDA 3471', 'Nematocida displodere', 'Enterobacter roggenkampii EC_38VIM1', 'Edwardsiella anguillarum ET080813', 'Gopherus evgoodei', 'Dacryopinax primogenitus', 'Cryptococcus gattii VGII LA55', 'Cryptococcus gattii VGIV IND107', 'Amphiamblys sp. WSBS2006', 'Carlito syrichta', 'Pseudocercospora fijiensis CIRAD86', 'Testicularia cyperi', 'Xanthomonas cannabis pv. phaseoli', 'Planoprotostelium fungivorum', 'Fortiea contorta PCC 7126', 'Pectobacterium parmentieri WPP163', 'Geobacillus genomosp. 3', 'Bifiguratus adelaidae', 'Emergomyces pasteurianus Ep9510', 'Dinothrombium tinctorium', 'Rachicladosporium sp. CCFEE 5018', 'Xanthomonas phaseoli pv. phaseoli', 'Cordyceps sp. RAO-2017', 'Ophiocordyceps camponoti-rufipedis', 'Ooceraea biroi', 'Malassezia vespertilionis', 'Coniella lustricola', 'Globisporangium ultimum DAOM BR144', 'Blastomyces silverae', 'Mesorhizobium japonicum MAFF 303099', 'Rutstroemia sp. NJR-2017a WRK4', 'Rutstroemia sp. NJR-2017a BVV2', 'Rutstroemia sp. NJR-2017a BBW', 'Cervus hanglu yarkandensis', 'Lactobacillus paragasseri JV-V03', 'Photorhabdus laumondii subsp. laumondii TTO1', 'Pyrrhoderma noxium', 'Hondaea fermentalgiana', 'Yamadazyma tenuis ATCC 10573', 'Hyaloscypha bicolor E', 'Hyaloscypha variabilis F', 'Nothophytophthora sp. Chile5', 'Strigops habroptila', 'Fusarium odoratissimum NRRL 54006', 'Gloeothece citriformis PCC 7424', 'Gloeothece verrucosa PCC 7822', 'Crocosphaera subtropica ATCC 51142', 'Crocosphaera chwakensis CCY0110', 'Rippkaea orientalis PCC 8802', 'Thermothielavioides terrestris NRRL 8126', 'Podospora anserina S mat+', 'Dacryopinax sp. DJM 731 SSP-1', 'Akanthomyces lecanii RCEF 1005', 'Fusarium vanettenii 77-13-4']], map_from_organism: Union[Literal['auto'], str, int, Literal['Azorhizobium caulinodans ORS 571', 'Buchnera aphidicola str. G002 (Myzus persicae)', 'Cellulomonas gilvus ATCC 13127', 'Dictyoglomus thermophilum H-6-12', 'Methylophilus methylotrophus DSM 46235 = ATCC 53528', 'Pelobacter carbinolicus DSM 2380', 'Shewanella putrefaciens CN-32', 'Myxococcus fulvus HW-1', 'Myxococcus xanthus DK 1622', 'Stigmatella aurantiaca DW4/3-1', 'Cystobacter fuscus DSM 2262', 'Chondromyces apiculatus DSM 436', 'Sorangium cellulosum So0157-2', 'Vitreoscilla stercoraria DSM 513', 'Herpetosiphon aurantiacus DSM 785', 'Simonsiella muelleri ATCC 29453', 'Hyphomonas jannaschiana VP2', 'Flectobacillus major DSM 103', 'Cyclobacterium marinum DSM 745', 'Runella slithyformis DSM 19594', 'Spirosoma linguale DSM 74', 'Rubinisphaera brasiliensis DSM 5305', 'Planctopirus limnophila DSM 3776', 'Gimesia maris DSM 8797', 'Blastopirellula marina DSM 3645', 'Pirellula staleyi DSM 6068', 'Isosphaera pallida ATCC 43644', 'Methylocystis parvus OBBP', 'Borreliella burgdorferi B31', 'Borrelia hermsii DAH', 'Borrelia parkeri SLO', 'Borrelia turicatae 91E135', 'Borrelia anserina BA2', 'Sediminispirochaeta bajacaliforniensis DSM 16054', 'Spirochaeta thermophila DSM 6192', 'Treponema denticola ATCC 35405', 'Brachyspira hyodysenteriae WA1', 'Treponema pallidum subsp. pallidum str. Nichols', 'Treponema phagedenis F0421', 'Treponema bryantii NK4A124', 'Treponema saccharophilum DSM 2985', 'Treponema succinifaciens DSM 2489', "Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'", 'Leptospira interrogans serovar Lai str. 56601', 'Leptospira borgpetersenii serovar Hardjo-bovis str. L550', 'Leptospirillum ferrooxidans C2-3', 'Leptonema illini DSM 21528', 'Novispirillum itersonii subsp. itersonii ATCC 12639', 'Aquaspirillum serpens DSM 68', 'Azospirillum sp. B510', 'Campylobacter coli 76339', 'Campylobacter fetus subsp. venerealis NCTC 10354', 'Campylobacter jejuni subsp. jejuni 414', 'Campylobacter concisus 13826', 'Campylobacter curvus 525.92', 'Campylobacter lari RM2100', 'Campylobacter rectus RM3267', 'Campylobacter showae CSUNSWCD', 'Campylobacter sputorum biovar sputorum', 'Helicobacter pylori 26695', 'Helicobacter acinonychis str. Sheeba', 'Helicobacter cinaedi CCUG 18818 = ATCC BAA-847', 'Helicobacter felis ATCC 49179', 'Helicobacter fennelliae MRY12-0050', 'Helicobacter mustelae 12198', 'Pseudoalteromonas haloplanktis ATCC 14393', 'Brucella abortus 2308', 'Brucella ovis ATCC 25840', 'Elizabethkingia meningoseptica ATCC 13253 = NBRC 12535', 'Flavobacterium aquatile LMG 4008 = ATCC 11947', 'Empedobacter brevis NBRC 14943 = ATCC 43319', 'Chryseobacterium gleum ATCC 35910', 'Psychroflexus gondwanensis ACAM 44', 'Chryseobacterium indologenes NBRC 14944', 'Myroides odoratus DSM 2801', 'Sphingobacterium spiritivorum ATCC 33861', 'Francisella cf. tularensis subsp. novicida 3523', 'Paracoccus denitrificans PD1222', 'Thermus aquaticus Y51MC23', 'Thermus thermophilus HB8', 'Meiothermus ruber DSM 1279', 'Xanthobacter autotrophicus Py2', 'Comamonas testosteroni KF-1', 'Pseudomonas aeruginosa PAO1', 'Pseudoalteromonas atlantica T6c', 'Burkholderia cepacia', 'Brevundimonas diminuta 470-4', 'Pseudomonas fluorescens NCIMB 11764', 'Pseudomonas fragi B25', 'Pseudomonas mendocina NK-01', 'Pseudomonas pseudoalcaligenes AD6', 'Pseudomonas putida KT2440', 'Ralstonia solanacearum GMI1000', 'Pseudomonas stutzeri MF28', 'Pseudomonas syringae pv. syringae B728a', 'Ralstonia pickettii DTP0602', 'Burkholderia glumae BGR1', 'Xanthomonas campestris pv. campestris', 'Xanthomonas translucens DAR61454', 'Xanthomonas citri pv. citri str. 306', 'Xanthomonas oryzae pv. oryzae PXO99A', 'Azotobacter chroococcum NCIMB 8003', 'Azotobacter vinelandii DJ', 'Agrobacterium radiobacter K84', 'Agrobacterium rhizogenes', 'Agrobacterium vitis S4', 'Bradyrhizobium japonicum', 'Sinorhizobium fredii USDA 257', 'Mesorhizobium loti CJ3sym', 'Sinorhizobium meliloti 1021', 'Rhizobium leguminosarum bv. viciae GB30', 'Rhizobium tropici CIAT 899', 'Neorhizobium galegae bv. orientalis str. HAMBI 540', 'Methylobacillus flagellatus KT', 'Methylobacillus glycogenes JCM 2850', 'Methylorubrum extorquens AM1', 'Methylococcus capsulatus str. Bath', 'Methylomonas methanica MC09', 'Methylosinus trichosporium OB3b', 'Acetobacter aceti ATCC 23746', 'Komagataeibacter hansenii ATCC 23769', 'Acetobacter pasteurianus 3P3', 'Gluconobacter oxydans H24', 'Legionella pneumophila str. Paris', 'Legionella hackeliae', 'Legionella longbeachae NSW150', 'Tatlockia micdadei', 'Fluoribacter dumoffii NY 23', 'Acinetobacter baumannii', 'Acinetobacter calcoaceticus ANC 3680', 'Moraxella catarrhalis O35E', 'Neisseria cinerea ATCC 14685', 'Neisseria flavescens NRL30031/H210', 'Neisseria gonorrhoeae NCCP11945', 'Neisseria lactamica 020-06', 'Neisseria meningitidis MC58', 'Neisseria mucosa ATCC 25996', 'Neisseria polysaccharea ATCC 43768', 'Neisseria sicca ATCC 29256', 'Neisseria elongata subsp. glycolytica ATCC 29315', 'Neisseria macacae ATCC 33926', 'Thermomicrobium roseum DSM 5159', 'Kingella denitrificans ATCC 33394', 'Kingella kingae ATCC 23330', 'Kingella oralis ATCC 51147', 'Alcaligenes faecalis', 'Bordetella bronchiseptica RB50', 'Bordetella parapertussis Bpp5', 'Bordetella pertussis Tohama I', 'Bordetella avium 197N', 'Acidiphilium angustum ATCC 35903', 'Acidiphilium cryptum JF-5', 'Acidocella facilis ATCC 35904', 'Ochrobactrum anthropi ATCC 49188', 'Polaribacter irgensii 23-P', 'Beijerinckia indica subsp. indica ATCC 9039', 'Chromobacterium violaceum ATCC 12472', 'Eikenella corrodens ATCC 23834', 'Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821', 'Citrobacter koseri ATCC BAA-895', 'Citrobacter freundii MGH 56', 'Klebsiella aerogenes KCTC 2190', 'Pantoea agglomerans', 'Enterobacter cloacae subsp. cloacae ATCC 13047', 'Erwinia amylovora CFBP1430', 'Pantoea ananatis LMG 20103', 'Pectobacterium carotovorum subsp. carotovorum PC1', 'Dickeya chrysanthemi Ech1591', 'Escherichia coli K-12', 'Shimwellia blattae DSM 4481 = NBRC 105725', 'Escherichia fergusonii B253', 'Atlantibacter hermannii NBRC 105704', 'Pseudescherichia vulneris NBRC 102420', 'Hafnia alvei FB1', 'Klebsiella oxytoca', 'Klebsiella pneumoniae', 'Morganella morganii subsp. morganii KT', 'Proteus mirabilis HI4320', 'Proteus vulgaris', 'Providencia rettgeri DSM 1131', 'Providencia stuartii ATCC 25827', 'Serratia liquefaciens ATCC 27592', 'Serratia marcescens subsp. marcescens Db11', 'Serratia odorifera DSM 4582', 'Shigella boydii CDC 3083-94', 'Shigella dysenteriae 1617', 'Shigella flexneri 2a str. 301', 'Shigella sonnei Ss046', 'Xenorhabdus nematophila ATCC 19061', 'Yersinia enterocolitica LC20', 'Yersinia intermedia ATCC 29909', 'Yersinia pestis CO92', 'Yersinia pseudotuberculosis', 'Edwardsiella tarda ATCC 15947 = NBRC 105688', 'Aeromonas hydrophila subsp. hydrophila ATCC 7966', 'Aeromonas salmonicida subsp. salmonicida A449', 'Aeromonas media WS', 'Aeromonas veronii B565', 'Photobacterium phosphoreum ANT-2200', 'Photobacterium angustum S14', 'Vibrio alginolyticus NBRC 15630 = ATCC 17749', 'Vibrio cholerae O395', 'Aliivibrio fischeri ES114', 'Vibrio parahaemolyticus RIMD 2210633', 'Vibrio proteolyticus NBRC 13287', 'Vibrio vulnificus', 'Grimontia hollisae CIP 101886', 'Vibrio mimicus MB451', 'Vibrio campbellii ATCC BAA-1116', 'Vibrio diazotrophicus NBRC 103148', 'Plesiomonas shigelloides 302-73', 'Aggregatibacter actinomycetemcomitans HK1651', 'Actinobacillus pleuropneumoniae serovar 1 str. 4074', 'Actinobacillus suis H91-0380', 'Actinobacillus capsulatus DSM 19761', 'Actinobacillus equuli subsp. equuli', 'Actinobacillus ureae ATCC 25976', 'Haemophilus haemolyticus M21639', 'Haemophilus influenzae Rd KW20', 'Avibacterium paragallinarum 221', 'Haemophilus parainfluenzae T3T1', 'Histophilus somni 129PT', 'Aggregatibacter aphrophilus NJ8700', 'Haemophilus paraphrohaemolyticus HK411', 'Glaesserella parasuis ZJ0906', 'Aggregatibacter segnis ATCC 33393', 'Pasteurella multocida', 'Gallibacterium anatis UMN179', 'Pasteurella bettyae CCUG 2042', 'Pasteurella dagmatis ATCC 43325', 'Rodentibacter pneumotropicus', 'Anaplasma centrale str. Israel', 'Anaplasma marginale str. St. Maries', 'Bartonella bacilliformis KC583', 'Coxiella burnetii RSA 493', 'Ehrlichia ruminantium str. Welgevonden', 'Rickettsia conorii str. Malish 7', 'Rickettsia prowazekii str. Madrid E', 'Rickettsia rickettsii str. Iowa', 'Orientia tsutsugamushi str. Boryong', 'Rickettsia typhi str. Wilmington', 'Rickettsia akari str. Hartford', 'Rickettsia australis str. Cutlack', 'Rickettsia canadensis str. McKiel', 'Bartonella quintana str. Toulouse', 'Bartonella elizabethae F9251 = ATCC 49927', 'Chlamydia trachomatis D/UW-3/CX', 'Bacteroides fragilis 3_1_12', 'Bacteroides thetaiotaomicron VPI-5482', 'Bacteroides uniformis ATCC 8492', 'Bacteroides vulgatus ATCC 8482', 'Parabacteroides distasonis ATCC 8503', 'Campylobacter gracilis RM3268', 'Sebaldella termitidis ATCC 33386', 'Campylobacter ureolyticus', 'Butyrivibrio fibrisolvens ND3005', 'Fibrobacter succinogenes subsp. succinogenes S85', 'Porphyromonas gingivalis ATCC 33277', 'Prevotella ruminicola 23', 'Prevotella loescheii DSM 19665 = JCM 12249 = ATCC 15930', 'Wolinella succinogenes DSM 1740', 'Oxalobacter formigenes HOxBLS', 'Fusobacterium gonidiaformans ATCC 25563', 'Fusobacterium mortiferum ATCC 9817', 'Fusobacterium nucleatum subsp. nucleatum ATCC 25586', 'Fusobacterium perfoetens ATCC 29250', 'Faecalibacterium prausnitzii A2-165', 'Fusobacterium russii ATCC 25533', 'Fusobacterium varium ATCC 27725', 'Fusobacterium necrophorum subsp. funduliforme ATCC 51357', 'Fusobacterium periodonticum ATCC 33693', 'Fusobacterium ulcerans ATCC 49185', 'Syntrophomonas wolfei subsp. wolfei str. Goettingen G311', 'Dichelobacter nodosus VCS1703A', 'Desulfocurvibacter africanus subsp. africanus str. Walvis Bay', 'Desulfovibrio desulfuricans ND132', 'Desulfovibrio fructosivorans JJ', 'Desulfovibrio gigas DSM 1382 = ATCC 19364', 'Desulfovibrio salexigens DSM 2638', 'Desulfovibrio vulgaris str. Hildenborough', 'Thermodesulfobacterium thermophilum DSM 1276', 'Desulfovibrio longus DSM 6739', 'Desulfobulbus propionicus DSM 2032', 'Desulfococcus multivorans DSM 2059', 'Desulfomicrobium baculatum DSM 4028', 'Desulfovibrio piger ATCC 29098', 'Acidaminococcus fermentans DSM 20731', 'Megasphaera elsdenii DSM 20460', 'Nitrobacter hamburgensis X14', 'Nitrobacter winogradskyi Nb-255', 'Nitrosomonas europaea ATCC 19718', 'Nitrosomonas eutropha C91', 'Acidithiobacillus ferrooxidans ATCC 23270', 'Starkeya novella DSM 506', 'Thiomonas intermedia K12', 'Halothiobacillus neapolitanus c2', 'Thermithiobacillus tepidarius DSM 3134', 'Acidithiobacillus thiooxidans ATCC 19377', 'Thiobacillus thioparus DSM 505', 'Thiomicrospira pelophila DSM 1534', 'Hydrogenobacter thermophilus TK-6', 'Ehrlichia canis str. Jake', 'Ehrlichia chaffeensis str. Arkansas', 'Anaplasma phagocytophilum str. HZ', 'Neorickettsia risticii str. Illinois', 'Neorickettsia sennetsu str. Miyayama', 'Bdellovibrio bacteriovorus HD100', 'Herbaspirillum seropedicae SmR1', 'Selenomonas ruminantium AB3002', 'Cellulophaga lytica DSM 7489', 'Saccharicrinis fermentans DSM 9555 = JCM 21142', 'Pedobacter heparinus DSM 2366', 'Cytophaga hutchinsonii ATCC 33406', 'Flavobacterium johnsoniae UW101', 'Marinilabilia salmonicolor JCM 21150', 'Flavobacterium hydatis', 'Solitalea canadensis DSM 3403', 'Flavobacterium columnare ATCC 49512', 'Bernardetia litoralis DSM 6794', 'Marivirga tractuosa DSM 4126', 'Saprospira grandis str. Lewin', 'Weeksella virosa DSM 16922', 'Bergeyella zoohelcum ATCC 43767', 'Capnocytophaga gingivalis ATCC 33624', 'Capnocytophaga ochracea F0287', 'Capnocytophaga sputigena ATCC 33612', 'Beggiatoa alba B18LD', 'Microscilla marina ATCC 23134', 'Thiothrix nivea DSM 5205', 'Afipia clevelandensis ATCC 49720', 'Afipia felis ATCC 53690', 'Erythrobacter longus', 'Allochromatium vinosum DSM 180', 'Halorhodospira halochloris str. A', 'Halorhodospira halophila SL1', 'Rhodobacter capsulatus SB 1003', 'Rhodobacter sphaeroides 2.4.1', 'Rhodomicrobium vannielii ATCC 17100', 'Rhodopseudomonas palustris CGA009', 'Phaeospirillum fulvum MGU-K5', 'Phaeospirillum molischianum DSM 120', 'Pararhodospirillum photometricum DSM 122', 'Rhodospirillum rubrum ATCC 11170', 'Rhodovibrio salinarum DSM 9154', 'Chlorobium limicola DSM 245', 'Chlorobium phaeovibrioides DSM 265', 'Chlorobium phaeobacteroides DSM 266', 'Chlorobaculum tepidum TLS', 'Pelodictyon luteolum DSM 273', 'Prosthecochloris aestuarii DSM 271', 'Chloroflexus aurantiacus J-10-fl', 'Chlorogloeopsis fritschii PCC 6912', 'Microcystis aeruginosa NIES-843', 'Synechocystis sp. PCC 6714', 'Synechocystis sp. PCC 6803 substr. Kazusa', 'Planktothrix agardhii NIVA-CYA 126/8', 'Anabaena cylindrica PCC 7122', 'Leptolyngbya boryana PCC 6306', 'Tolypothrix sp. PCC 7601', 'Trichodesmium erythraeum IMS101', 'Prochlorococcus marinus str. AS9601', 'Prochlorothrix hollandica PCC 9006 = CALU 1027', 'Nitrosococcus oceani ATCC 19707', 'Nitrosospira multiformis ATCC 25196', 'Leuconostoc gelidum subsp. gasicomitatum LMG 18811', 'Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293', 'Leuconostoc lactis', 'Oenococcus oeni PSU-1', 'Weissella paramesenteroides ATCC 33313', 'Leuconostoc fallax KCTC 3537', 'Leuconostoc carnosum JB16', 'Pediococcus acidilactici DSM 20284', 'Pediococcus pentosaceus ATCC 25745', 'Finegoldia magna ATCC 53516', 'Peptostreptococcus anaerobius VPI 4330 = DSM 2949', 'Ruminococcus albus 8', 'Ruminococcus flavefaciens FD-1', 'Micrococcus luteus NCTC 2665', 'Dermacoccus nishinomiyaensis', 'Kytococcus sedentarius DSM 20547', 'Staphylococcus aureus subsp. aureus Mu50', 'Staphylococcus carnosus subsp. carnosus TM300', 'Staphylococcus epidermidis RP62A', 'Staphylococcus haemolyticus JCSC1435', 'Staphylococcus hyicus', 'Staphylococcus intermedius NCTC 11048', 'Staphylococcus simulans UMC-CNS-990', 'Staphylococcus xylosus', 'Staphylococcus hominis SK119', 'Staphylococcus warneri L37603', 'Staphylococcus sciuri subsp. sciuri Z8', 'Deinococcus radiodurans R1', 'Streptococcus gordonii str. Challis substr. CH1', 'Streptococcus oralis subsp. tigurinus AZ_3a', 'Streptococcus salivarius 57.I', 'Streptococcus sanguinis SK1057', 'Streptococcus suis R61', 'Streptococcus thermophilus LMG 18311', 'Streptococcus mutans UA159', 'Streptococcus sobrinus W1703', 'Streptococcus agalactiae LMG 14747', 'Streptococcus pneumoniae R6', 'Streptococcus pyogenes', 'Streptococcus downei F0415', 'Streptococcus parasanguinis ATCC 903', 'Blautia hansenii DSM 20583', 'Faecalicoccus pleomorphus DSM 20574', 'Streptococcus anginosus DORA_7', 'Streptococcus canis FSL Z3-227', 'Streptococcus criceti HS-6', 'Streptococcus dysgalactiae subsp. equisimilis AC-2713', 'Streptococcus equinus ATCC 9812', 'Streptococcus equi subsp. zooepidemicus', 'Streptococcus intermedius B196', 'Streptococcus macacae NCTC 11558', 'Streptococcus porcinus str. Jelinkova 176', 'Streptococcus ratti FA-1 = DSM 20564', 'Streptococcus vestibularis F0396', 'Streptococcus ferus DSM 20646', 'Streptococcus iniae', 'Streptococcus parauberis NCFD 2020', 'Streptococcus uberis 0140J', 'Enterococcus faecalis V583', 'Enterococcus faecium C68', 'Enterococcus gallinarum EG2', 'Enterococcus hirae ATCC 9790', 'Enterococcus columbae DSM 7374 = ATCC 51263', 'Enterococcus sulfureus ATCC 49903', 'Lactococcus lactis subsp. cremoris SK11', 'Lactococcus garvieae DCC43', 'Lactococcus piscium MKFS47', 'Lactococcus raffinolactis 4877', 'Aerococcus urinae ACS-120-V-Col10a', 'Aerococcus viridans ATCC 11563 = CCUG 4311', 'Gemella haemolysans M341', 'Atopobium minutum 10063974', 'Atopobium parvulum DSM 20469', 'Atopobium rimae ATCC 49626', 'Bacillus amyloliquefaciens Y2', 'Aneurinibacillus aneurinilyticus ATCC 12856', 'Bacillus anthracis str. Ames', 'Brevibacillus brevis X23', 'Bacillus cereus', 'Bacillus coagulans 36D1', 'Bacillus firmus DS1', 'Bacillus licheniformis DSM 13 = ATCC 14580', 'Bacillus megaterium QM B1551', 'Bacillus mycoides KBAB4', 'Paenibacillus polymyxa SC2', 'Bacillus psychrosaccharolyticus ATCC 23296', 'Bacillus pumilus SAFR-032', 'Bacillus sp. (in: Bacteria)', 'Bacillus akibai JCM 9157', 'Bacillus cellulosilyticus DSM 2522', 'Lysinibacillus sphaericus OT4b.31', 'Bacillus subtilis subsp. subtilis str. 168', 'Parageobacillus thermoglucosidasius C56-YS93', 'Bacillus thuringiensis serovar kurstaki', 'Bacillus alcalophilus ATCC 27647 = CGMCC 1.3604', 'Amphibacillus xylanus NBRC 15112', 'Alicyclobacillus acidoterrestris ATCC 49025', 'Bacillus atrophaeus 1942', 'Geobacillus kaustophilus HTA426', 'Paenibacillus larvae subsp. larvae DSM 25430', 'Brevibacillus laterosporus DSM 25', 'Bacillus methanolicus PB1', 'Peribacillus simplex BA2H3', 'Bacillus smithii 7_3_47FAA', 'Virgibacillus halodenitrificans 1806', 'Clostridium acetobutylicum ATCC 824', 'Paraclostridium bifermentans WYM', 'Clostridium botulinum A2 str. Kyoto', 'Clostridium butyricum E4 str. BoNT E BL5262', 'Clostridium cellulovorans 743B', 'Clostridioides difficile', 'Ruminiclostridium josui JCM 17888', 'Clostridium pasteurianum BC1', 'Clostridium perfringens ATCC 13124', 'Paeniclostridium sordellii VPI 9048', 'Clostridium sp. ATCC 29733', 'Clostridium sporogenes PA 3679', 'Thermoclostridium stercorarium subsp. stercorarium DSM 8532', 'Acetoanaerobium sticklandii', 'Clostridium tetani 12124569', 'Hungateiclostridium thermocellum ATCC 27405', 'Thermoanaerobacter thermohydrosulfuricus WC1', 'Thermoanaerobacterium thermosaccharolyticum DSM 571', 'Clostridium tyrobutyricum DSM 2637 = ATCC 25755 = JCM 11008', 'Clostridium beijerinckii NCIMB 8052', 'Ruminiclostridium cellulolyticum H10', 'Moorella thermoacetica ATCC 39073', 'Clostridium cadaveris AGR2141', 'Clostridium kluyveri DSM 555', 'Clostridium ljungdahlii DSM 13528', 'Clostridioides mangenotii TR', 'Clostridium novyi B str. NCTC 9691', 'Erysipelatoclostridium ramosum DSM 1402', 'Clostridium scatologenes', 'Clostridium tetanomorphum DSM 665', 'Gottschalkia acidurici 9a', 'Peptoclostridium litorale DSM 5388', 'Clostridium baratii str. Sullivan', 'Desulfosporosinus orientis DSM 765', 'Desulfotomaculum ruminis DSM 2154', 'Desulfotomaculum nigrificans DSM 574', 'Halobacillus halophilus DSM 2266', 'Sporosarcina ureae DSM 2281', 'Leifsonia xyli subsp. cynodontis DSM 46306', 'Lactobacillus acidophilus 30SC', 'Lactobacillus brevis ATCC 367', 'Lactobacillus buchneri ATCC 11577', 'Lactobacillus casei BL23', 'Weissella confusa LBAE C39-2', 'Lactobacillus delbrueckii subsp. bulgaricus 2038', 'Lactobacillus helveticus CNRZ32', 'Lactobacillus hilgardii DSM 20176 = ATCC 8290', 'Lactobacillus pentosus KCA1', 'Lactobacillus plantarum WCFS1', 'Lactobacillus gasseri ATCC 33323 = JCM 1131', 'Lactobacillus paracasei subsp. paracasei ATCC 25302', 'Lactobacillus reuteri 100-23', 'Lactobacillus sakei subsp. sakei 23K', 'Lactobacillus amylovorus GRL 1112', 'Lactobacillus animalis', 'Lactobacillus coryniformis subsp. coryniformis KCTC 3167 = DSM 20001', 'Lactobacillus farciminis KCTC 3681 = DSM 20184', 'Lactobacillus fermentum IFO 3956', 'Lactobacillus fructivorans KCTC 3543 = DSM 20203', 'Weissella halotolerans DSM 20190', 'Lactobacillus murinus ASF361', 'Lactobacillus ruminis ATCC 27782', 'Lactobacillus salivarius UCC118', 'Lactobacillus sanfranciscensis TMW 1.1304', 'Kandleria vitulina MC3001', 'Fructobacillus fructosus KCTC 3544', 'Lactobacillus oris F0423', 'Lactobacillus vaginalis DSM 5837 = ATCC 49540', 'Listeria ivanovii subsp. londoniensis', 'Listeria monocytogenes EGD-e', 'Listeria seeligeri serovar 1/2b str. SLCC3954', 'Listeria grayi DSM 20601', 'Listeria innocua Clip11262', 'Listeria welshimeri serovar 6b str. SLCC5334', 'Renibacterium salmoninarum ATCC 33209', 'Erysipelothrix rhusiopathiae str. Fujisawa', 'Alloiococcus otitis ATCC 51267', 'Actinomyces naeslundii str. Howell 279', 'Actinomyces viscosus C505', 'Actinomyces israelii DSM 43320', 'Schaalia odontolytica ATCC 17982', 'Trueperella pyogenes TP8', 'Arthrobacter globiformis NBRC 12137', 'Bifidobacterium adolescentis', 'Bifidobacterium bifidum NCIMB 41171', 'Bifidobacterium angulatum DSM 20098 = JCM 7096', 'Bifidobacterium asteroides PRL2011', 'Bifidobacterium breve UCC2003', 'Bifidobacterium catenulatum DSM 16992 = JCM 1194 = LMG 11043', 'Bifidobacterium coryneforme', 'Bifidobacterium cuniculi', 'Bifidobacterium dentium Bd1', 'Bifidobacterium indicum LMG 11587 = DSM 20214', 'Bifidobacterium magnum', 'Bifidobacterium minimum', 'Bifidobacterium pseudolongum subsp. globosum', 'Corynebacterium ammoniagenes DSM 20306', 'Brevibacterium linens BL2', 'Cellulomonas fimi ATCC 484', 'Cellulosimicrobium cellulans J36', 'Cellulomonas flavigena DSM 20109', 'Oerskovia turbata', 'Corynebacterium diphtheriae PW8', 'Corynebacterium glutamicum', 'Corynebacterium pseudotuberculosis', 'Corynebacterium callunae DSM 20147', 'Corynebacterium variabile DSM 44702', 'Peptoclostridium acidaminophilum DSM 3953', 'Holdemanella biformis DSM 3989', 'Eubacterium limosum KIST612', 'Thermodesulfobacterium commune DSM 2178', 'Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1', 'Cutibacterium acnes KPA171202', 'Acidipropionibacterium acidipropionici ATCC 4875', 'Acidipropionibacterium jensenii DSM 20535', 'Pseudopropionibacterium propionicum F0230a', 'Acidipropionibacterium thoenii DSM 20276', 'Mycobacterium avium subsp. avium', 'Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841', 'Mycobacterium intracellulare ATCC 13950', 'Mycobacterium kansasii 732', 'Mycobacterium leprae TN', 'Mycolicibacterium phlei RIVM601174', 'Mycolicibacterium smegmatis MC2 155', 'Mycobacterium tuberculosis H37Rv', 'Mycobacteroides chelonae', 'Mycobacterium marinum M', 'Mycobacterium asiaticum DSM 44297', 'Mycolicibacterium neoaurum VKM Ac-1815D', 'Mycolicibacterium thermoresistibile ATCC 19527', 'Mycolicibacterium chubuense NBB4', 'Mycolicibacterium farcinogenes', 'Mycolicibacterium gilvum PYR-GCK', 'Mycobacterium ulcerans Agy99', 'Mycolicibacterium vaccae ATCC 25954', 'Amycolatopsis methanolica 239', 'Nocardia otitidiscaviarum NBRC 14405', 'Nocardia asteroides NBRC 15531', 'Rhodococcus fascians', 'Rhodococcus rhodochrous ATCC 21198', 'Rhodococcus ruber Chol-4', 'Rhodococcus erythropolis PR4', 'Saccharopolyspora erythraea NRRL 2338', 'Actinopolyspora halophila DSM 43834', 'Saccharomonospora viridis DSM 43017', 'Frankia alni ACN14a', 'Geodermatophilus obscurus DSM 43160', 'Actinoplanes missouriensis 431', 'Actinoplanes utahensis', 'Streptomyces albus subsp. albus', 'Kitasatospora aureofaciens', 'Streptomyces bikiniensis', 'Streptomyces coelicolor A3(2)', 'Streptomyces fradiae', 'Streptomyces glaucescens', 'Streptomyces griseus subsp. griseus NBRC 13350', 'Streptomyces hygroscopicus subsp. jinggangensis 5008', 'Streptomyces lividans 1326', 'Streptomyces scabiei 87.22', 'Streptomyces viridochromogenes DSM 40736', 'Streptomyces halstedii', 'Streptomyces purpureus KA281', 'Streptomyces sclerotialus', 'Streptomyces virginiae', 'Streptomyces cellulosae', 'Streptomyces chartreusis NRRL 12338', 'Actinomadura atramentaria DSM 43919', 'Actinomadura madurae LIID-AJ290', 'Microtetraspora glauca', 'Streptosporangium roseum DSM 43021', 'Streptosporangium amethystogenes', 'Thermobispora bispora DSM 43833', 'Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111', 'Nocardiopsis prasina DSM 43845', 'Thermomonospora curvata DSM 43183', 'Thermobifida fusca YX', 'Microbacterium testaceum StLB037', 'Curtobacterium flaccumfaciens UCD-AKU', 'Tropheryma whipplei str. Twist', 'Pimelobacter simplex', 'Rothia dentocariosa ATCC 17931', 'Mobiluncus curtisii ATCC 43063', 'Mobiluncus mulieris 28-1', 'Gordonia bronchialis DSM 43247', 'Gordonia terrae', 'Sphaerobacter thermophilus DSM 20745', 'Tsukamurella paurometabola DSM 20162', 'Kitasatospora setae KM-6054', 'Pseudonocardia autotrophica', 'Mycoplasma arginini 7264', 'Mycoplasma capricolum subsp. capricolum ATCC 27343', 'Mycoplasma gallisepticum', 'Mycoplasma genitalium G37', 'Mycoplasma hominis', 'Mycoplasma hyopneumoniae J', 'Mycoplasma hyorhinis SK76', 'Mycoplasma mycoides subsp. mycoides SC str. PG1', 'Mycoplasma pneumoniae', 'Mycoplasma leachii PG50', 'Mycoplasma pulmonis', 'Mycoplasma synoviae 53', 'Mycoplasma agalactiae PG2', 'Mycoplasma arthritidis 158L3-1', 'Mycoplasma bovigenitalium 51080', 'Mycoplasmopsis californica', 'Mycoplasma fermentans PG18', 'Mycoplasma iowae 695', 'Mycoplasma mobile', 'Mycoplasma putrefaciens Mput9231', 'Mycoplasma flocculare ATCC 27399', 'Ureaplasma urealyticum serovar 7 str. ATCC 27819', 'Spiroplasma melliferum IPMB4A', 'Spiroplasma apis B31', 'Spiroplasma mirum ATCC 29335', 'Spiroplasma taiwanense CT-1', 'Acholeplasma laidlawii PG-8A', 'Acholeplasma modicum ATCC 29102', 'Mesoplasma florum L1', 'Methanobrevibacter smithii ATCC 35061', 'Methanohalophilus mahii DSM 5219', 'Methanothermus fervidus DSM 2088', 'Methanothermococcus thermolithotrophicus DSM 2095', 'Methanococcus vannielii SB', 'Methanococcus voltae A3', 'Methanotorris igneus Kol 5', 'Methanocaldococcus jannaschii DSM 2661', 'Methanoculleus marisnigri JR1', 'Methanofollis liminatans DSM 4140', 'Methanospirillum hungatei JF-1', 'Methanomicrobium mobile BP', 'Methanosarcina barkeri str. Fusaro', 'Methanosarcina mazei Go1', 'Methanosarcina thermophila TM-1', 'Methanosarcina acetivorans C2A', 'Methanosarcina vacuolata Z-761', 'Methanothrix soehngenii GP6', 'Methanothrix thermoacetophila PT', 'Methanococcoides methylutens MM1', 'Archaeoglobus fulgidus DSM 4304', 'Haloarcula marismortui ATCC 43049', 'Halobacterium salinarum NRC-1', 'Haloferax volcanii DS2', 'Halorubrum lacusprofundi ATCC 49239', 'Halorubrum saccharovorum DSM 1137', 'Halococcus morrhuae DSM 1307', 'Haloferax mediterranei ATCC 33500', 'Natronomonas pharaonis DSM 2160', 'Pyrococcus furiosus DSM 3638', 'Thermococcus litoralis DSM 5473', 'Thermofilum pendens Hrk 5', 'Thermoproteus tenax Kra 1', 'Desulfurococcus mucosus DSM 2162', 'Pyrobaculum islandicum DSM 4184', 'Staphylothermus marinus F1', 'Sulfolobus acidocaldarius DSM 639', 'Saccharolobus solfataricus P2', 'Desulfobacter curvatus DSM 3379', 'Desulfobacter postgatei 2ac9', 'Desulfobacterium autotrophicum HRM2', 'Thermoplasma acidophilum DSM 1728', 'Methanoplanus limicola DSM 2279', 'Methanosphaera stadtmanae DSM 3091', 'Methanopyrus kandleri AV19', 'Methanohalobium evestigatum Z-7303', 'Thermoanaerobacter kivui', 'Halanaerobium praevalens DSM 2228', 'Thermotoga maritima MSB8', 'Thermotoga neapolitana DSM 4359', 'Solemya velum gill symbiont', 'Haliscomenobacter hydrossis DSM 1100', 'Flexistipes sinusarabici DSM 4947', 'Desulfomonile tiedjei DSM 6799', 'Xylella fastidiosa 9a5c', 'Acetonema longum DSM 6540', 'Sporomusa ovata DSM 2662', 'Thermosipho africanus TCF52B', 'Fervidobacterium islandicum', 'Fervidobacterium nodosum Rt17-B1', 'Teredinibacter turnerae T7901', 'Roseobacter denitrificans OCh 114', 'Gardnerella vaginalis 6119V5', 'Citrus sinensis', 'Cardiobacterium hominis ATCC 15826', 'Hirschia baltica ATCC 49814', 'Symbiobacterium thermophilum IAM 14863', 'Verrucomicrobium spinosum DSM 4136 = JCM 18804', 'Marinobacter hydrocarbonoclasticus VT8', 'Halomonas elongata DSM 2581', 'Carnobacterium divergens DSM 20623', 'Carnobacterium gallinarum DSM 4847', 'Carnobacterium mobile DSM 4848', 'Carnobacterium maltaromaticum LMA28', 'Carnobacterium funditum DSM 5970', 'Synergistes jonesii', 'Chondrus crispus', 'Phaeodactylum tricornutum', 'Ectocarpus siliculosus', 'Cryptomonas paramecium', 'Emiliania huxleyi', 'Symbiodinium microadriaticum', 'Chlamydomonas reinhardtii', 'Volvox carteri', 'Auxenochlorella protothecoides', 'Marchantia polymorpha', 'Physcomitrium patens', 'Cannabis sativa', 'Actinidia chinensis var. chinensis', 'Theobroma cacao', 'Carica papaya', 'Citrullus lanatus', 'Cucumis melo', 'Cucumis sativus', 'Populus trichocarpa', 'Arabidopsis thaliana', 'Brassica napus', 'Brassica rapa', 'Brassica oleracea', 'Malus domestica', 'Prunus dulcis', 'Prunus persica', 'Cajanus cajan', 'Cicer arietinum', 'Glycine max', 'Glycine soja', 'Lupinus angustifolius', 'Medicago truncatula', 'Phaseolus vulgaris', 'Vigna angularis', 'Manihot esculenta', 'Ricinus communis', 'Linum usitatissimum', 'Daucus carota subsp. sativus', 'Capsicum annuum', 'Solanum lycopersicum', 'Nicotiana sylvestris', 'Nicotiana tabacum', 'Nicotiana tomentosiformis', 'Nicotiana benthamiana', 'Solanum commersonii', 'Solanum tuberosum', 'Olea europaea', 'Erythranthe guttata', 'Sesamum indicum', 'Helianthus annuus', 'Cynara cardunculus var. scolymus', 'Nelumbo nucifera', 'Hordeum vulgare', 'Oryza longistaminata', 'Oryza rufipogon', 'Oryza sativa Japonica Group', 'Oryza brachyantha', 'Oryza nivara', 'Oryza punctata', 'Oryza glaberrima', 'Setaria italica', 'Setaria viridis', 'Sorghum bicolor', 'Triticum aestivum', 'Triticum turgidum subsp. durum', 'Triticum urartu', 'Zea mays', 'Ananas comosus', 'Musa acuminata', 'Pneumocystis carinii', 'Plasmopara halstedii', 'Phytophthora infestans', 'Phytophthora nicotianae', 'Phytophthora parasitica', 'Phytophthora megakarya', 'Phytophthora palmivora var. palmivora', 'Phycomyces blakesleeanus', 'Schizosaccharomyces pombe 972h-', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces octosporus', 'Cyberlindnera jadinii', 'Pichia kudriavzevii', 'Kluyveromyces marxianus DMKU3-1042', 'Lachancea waltii', 'Pachysolen tannophilus NRRL Y-2460', 'Millerozyma farinosa', 'Komagataella pastoris', 'Scheffersomyces stipitis', 'Pichia membranifaciens NRRL Y-2026', 'Wickerhamomyces anomalus', 'Meyerozyma guilliermondii', 'Saccharomyces bayanus', 'Saccharomyces cerevisiae S288C', 'Lachancea kluyveri', 'Torulaspora delbrueckii CBS 1146', 'Yarrowia lipolytica CLIB122', 'Zygosaccharomyces bailii CLIB 213', 'Lachancea fermentati', 'Zygosaccharomyces rouxii', 'Debaryomyces hansenii', 'Kockovaella imperatae', 'Brettanomyces bruxellensis', 'Taphrina deformans PYCC 5710', 'Bipolaris maydis', 'Bipolaris zeicola', 'Leptosphaeria maculans', 'Histoplasma capsulatum', 'Blastomyces dermatitidis', 'Acremonium chrysogenum ATCC 11550', 'Aspergillus aculeatus', 'Aspergillus clavatus', 'Aspergillus flavus', 'Aspergillus niger', 'Aspergillus oryzae', 'Penicillium camemberti', 'Penicillium chrysogenum', 'Penicillium roqueforti', 'Amorphotheca resinae ATCC 22711', 'Ascosphaera apis ARSEF 7405', 'Claviceps purpurea 20.1', 'Epichloe typhina E8', 'Cryphonectria parasitica', 'Fusarium fujikuroi', 'Neurospora crassa OR74A', 'Sordaria macrospora k-hell', 'Ophiostoma ulmi', 'Sclerotinia sclerotiorum 1980 UF-70', 'Cryptococcus neoformans var. neoformans JEC21', 'Cryptococcus depauperatus CBS 7841', 'Tremella mesenterica', 'Exidia glandulosa HHB12029', 'Ustilago maydis 521', 'Microbotryum violaceum', 'Tilletiaria anomala UBC 951', 'Rhodotorula toruloides', 'Puccinia graminis f. sp. tritici CRL 75-36-700-3', 'Phanerochaete chrysosporium', 'Pleurotus ostreatus var. ostreatus', 'Trametes versicolor FP-101664 SS1', 'Schizophyllum commune', 'Agaricus bisporus', 'Coprinopsis cinerea', 'Lentinula edodes', 'Suillus luteus UH-Slu-Lm8-n1', 'Ascochyta rabiei', 'Colletotrichum orbiculare', 'Candida albicans SC5314', 'Candida maltosa', 'Candida parapsilosis', 'Diutina rugosa', 'Candida tropicalis', 'Coccidioides immitis', 'Fusarium oxysporum', 'Fusarium culmorum CS7071', 'Fusarium graminearum', 'Metarhizium anisopliae ARSEF 549', 'Rhodotorula glutinis', 'Trichoderma harzianum', 'Trichoderma longibrachiatum ATCC 18648', 'Trichophyton rubrum', 'Aureobasidium pullulans EXF-150', 'Alternaria alternata', 'Phialophora americana', 'Saitoella complicata NRRL Y-17804', 'Cryptococcus wingfieldii CBS 7118', 'Grifola frondosa', 'Laetiporus sulphureus 93-53', 'Trametes cinnabarina', 'Leishmania braziliensis MHOM/BR/75/M2904', 'Leishmania donovani BPK282A1', 'Leishmania major', 'Leishmania mexicana MHOM/GT/2001/U1103', 'Leishmania infantum JPCM5', 'Leishmania panamensis', 'Leptomonas seymouri', 'Leishmania tarentolae', 'Trypanosoma brucei brucei', 'Trypanosoma cruzi', 'Trypanosoma equiperdum', 'Trypanosoma rangeli SC58', 'Trichomonas vaginalis', 'Giardia lamblia ATCC 50803', 'Acanthamoeba castellanii str. Neff', 'Entamoeba histolytica', 'Naegleria gruberi', 'Dictyostelium purpureum', 'Eimeria acervulina', 'Eimeria tenella', 'Eimeria maxima', 'Cryptosporidium parvum Iowa II', 'Cryptosporidium muris', 'Toxoplasma gondii ME49', 'Plasmodium berghei', 'Plasmodium chabaudi', 'Plasmodium cynomolgi strain B', 'Plasmodium falciparum 3D7', 'Plasmodium gallinaceum', 'Plasmodium knowlesi strain H', 'Plasmodium reichenowi', 'Plasmodium vivax Sal-1', 'Plasmodium fragile', 'Plasmodium malariae', 'Plasmodium vinckei', 'Plasmodium yoelii yoelii', 'Babesia bovis T2Bo', 'Babesia bigemina', 'Theileria equi', 'Theileria annulata', 'Theileria parva', 'Paramecium tetraurelia', 'Tetrahymena thermophila', 'Ichthyophthirius multifiliis', 'Stylonychia lemnae', 'Stentor coeruleus', 'Exophiala dermatitidis', 'Encephalitozoon cuniculi', 'Hydra vulgaris', 'Schistosoma japonicum', 'Schistosoma mansoni', 'Schistosoma haematobium', 'Echinococcus multilocularis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Ascaris suum', 'Brugia malayi', 'Onchocerca volvulus', 'Meloidogyne hapla', 'Bursaphelenchus xylophilus', 'Trichinella spiralis', 'Helobdella robusta', 'Aplysia californica', 'Biomphalaria glabrata', 'Crassostrea virginica', 'Mizuhopecten yessoensis', 'Daphnia pulex', 'Tigriopus californicus', 'Ixodes scapularis', 'Blattella germanica', 'Acyrthosiphon pisum', 'Bemisia tabaci', 'Tribolium castaneum', 'Bombyx mori', 'Aedes aegypti', 'Aedes albopictus', 'Anopheles gambiae', 'Anopheles albimanus', 'Anopheles dirus', 'Anopheles arabiensis', 'Culex pipiens', 'Culex quinquefasciatus', 'Lutzomyia longipalpis', 'Loa loa', 'Ceratitis capitata', 'Drosophila ananassae', 'Drosophila erecta', 'Drosophila grimshawi', 'Drosophila melanogaster', 'Drosophila mojavensis', 'Drosophila persimilis', 'Drosophila pseudoobscura pseudoobscura', 'Drosophila sechellia', 'Drosophila simulans', 'Drosophila virilis', 'Drosophila yakuba', 'Drosophila willistoni', 'Drosophila saltans', 'Musca domestica', 'Lucilia cuprina', 'Glossina morsitans morsitans', 'Glossina austeni', 'Glossina fuscipes fuscipes', 'Glossina palpalis gambiensis', 'Glossina pallidipes', 'Nasonia vitripennis', 'Apis mellifera', 'Lingula anatina', 'Strongylocentrotus purpuratus', 'Ciona intestinalis', 'Branchiostoma floridae', 'Branchiostoma lanceolatum', 'Petromyzon marinus', 'Eptatretus burgeri', 'Callorhinchus milii', 'Latimeria chalumnae', 'Lepisosteus oculatus', 'Clupea harengus', 'Danio rerio', 'Carassius auratus', 'Cyprinus carpio', 'Astyanax mexicanus', 'Ictalurus punctatus', 'Electrophorus electricus', 'Esox lucius', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Salmo salar', 'Salmo trutta', 'Gadus morhua', 'Fundulus heteroclitus', 'Poecilia reticulata', 'Xiphophorus maculatus', 'Oryzias latipes', 'Cyclopterus lumpus', 'Oreochromis niloticus', 'Haplochromis burtoni', 'Astatotilapia calliptera', 'Sparus aurata', 'Lates calcarifer', 'Xenopus tropicalis', 'Chelonia mydas', 'Chelydra serpentina', 'Chrysemys picta', 'Alligator mississippiensis', 'Crocodylus porosus', 'Sphenodon punctatus', 'Laticauda laticaudata', 'Notechis scutatus', 'Pseudonaja textilis', 'Dromaius novaehollandiae', 'Struthio camelus', 'Apteryx haastii', 'Apteryx owenii', 'Anas platyrhynchos', 'Anser cygnoides', 'Cairina moschata domestica', 'Chaetura pelagica', 'Columba livia', 'Falco peregrinus', 'Aquila chrysaetos chrysaetos', 'Haliaeetus albicilla', 'Numida meleagris', 'Gallus gallus', 'Pavo cristatus', 'Phasianus colchicus', 'Chrysolophus pictus', 'Meleagris gallopavo', 'Serinus canaria', 'Parus major', 'Phalacrocorax carbo', 'Phoenicopterus ruber ruber', 'Aptenodytes forsteri', 'Pygoscelis adeliae', 'Calypte anna', 'Ornithorhynchus anatinus', 'Sarcophilus harrisii', 'Notamacropus eugenii', 'Choloepus hoffmanni', 'Dasypus novemcinctus', 'Erinaceus europaeus', 'Echinops telfairi', 'Pteropus alecto', 'Callithrix jacchus', 'Cercocebus atys', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Papio anubis', 'Theropithecus gelada', 'Mandrillus leucophaeus', 'Gorilla gorilla gorilla', 'Pan paniscus', 'Pan troglodytes', 'Pongo abelii', 'Homo sapiens', 'Canis lupus familiaris', 'Vulpes vulpes', 'Ursus thibetanus thibetanus', 'Ursus americanus', 'Ailuropoda melanoleuca', 'Mustela putorius', 'Felis catus', 'Panthera leo', 'Panthera onca', 'Panthera pardus', 'Panthera tigris', 'Zalophus californianus', 'Odobenus rosmarus', 'Leptonychotes weddellii', 'Orcinus orca', 'Tursiops truncatus', 'Delphinapterus leucas', 'Physeter catodon', 'Balaenoptera acutorostrata', 'Balaenoptera musculus', 'Trichechus manatus', 'Loxodonta africana', 'Equus asinus asinus', 'Equus caballus', 'Procavia capensis', 'Orycteropus afer', 'Sus scrofa', 'Camelus dromedarius', 'Bison bison bison', 'Bos taurus', 'Capra hircus', 'Ovis aries', 'Ochotona princeps', 'Oryctolagus cuniculus', 'Marmota marmota marmota', 'Urocitellus parryii', 'Dipodomys ordii', 'Cricetulus griseus', 'Mesocricetus auratus', 'Peromyscus maniculatus', 'Meriones unguiculatus', 'Mus caroli', 'Mus musculus', 'Mus pahari', 'Mus spretus', 'Mus spicilegus', 'Rattus norvegicus', 'Cavia porcellus', 'Octodon degus', 'Heterocephalus glaber', 'Saccoglossus kowalevskii', 'Trichoplax adhaerens', 'Sagitta elegans', 'Atta cephalotes', 'Blastocystis hominis', 'Danaus plexippus', 'Lynx lynx', 'Melopsittacus undulatus', 'Myzus persicae', 'Rhodnius prolixus', 'Tilletia caries', 'Tilletia controversa', 'Amborella trichopoda', 'Anaerobiospirillum succiniciproducens DSM 6400', 'Arthrobotrys oligospora ATCC 24927', 'Burkholderia mallei ATCC 23344', 'Dicentrarchus labrax', 'Monodelphis domestica', 'Parastagonospora nodorum SN15', 'Solenopsis invicta', 'Sphingomonas paucimobilis', 'Sphingobium yanoikuyae', 'Syncephalastrum racemosum', 'Pelodiscus sinensis', 'Utricularia gibba', 'Natrialba magadii ATCC 43099', 'Pyrobaculum aerophilum str. IM2', 'Brachypodium distachyon', 'Naumovozyma castellii', 'Naumovozyma dairenensis CBS 421', 'Saccharomyces paradoxus', 'Saccharomyces pastorianus Weihenstephan 34/70', 'Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993', 'Penicillium expansum', 'Verticillium dahliae VdLs.17', 'Schizopora paradoxa', 'Puccinia coronata var. avenae f. sp. avenae', 'Puccinia sorghi', 'Puccinia striiformis', 'Saimiri boliviensis', 'Erpetoichthys calabaricus', 'Mnemiopsis leidyi', 'Encephalitozoon hellem ATCC 50504', 'Nosema bombycis CQ1', 'Strigomonas culicis', 'Bifidobacterium animalis subsp. lactis BB-12', 'Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505', 'Lysinibacillus fusiformis ZC1', 'Staphylococcus lugdunensis HKU09-01', 'Streptococcus mitis B6', 'Lactobacillus curvatus CRL 705', 'Saccharopolyspora rectivirgula', 'Acidothermus cellulolyticus 11B', 'Lachnospira multipara ATCC 19207', 'Rubrivivax gelatinosus IL144', 'Nostoc sp. PCC 7524', 'Campylobacter upsaliensis RM3195', 'Legionella anisa str. Linanisette', 'Legionella sainthelensi ATCC 35248 = DSM 19231', 'Acinetobacter lwoffii SH145', 'Neisseria weaveri LMG 5135', 'Burkholderia gladioli BSR3', 'Mesorhizobium huakuii 7653R', "Alteromonas macleodii str. 'Black Sea 11'", 'Francisella philomiragia subsp. philomiragia ATCC 25017', 'Bacteroides eggerthii DSM 20697', 'Tannerella forsythia 92A2', 'Porphyromonas levii DSM 23370', 'Porphyromonas macacae', 'Bacteroides ovatus ATCC 8483', 'Alistipes putredinis DSM 17216', 'Odoribacter splanchnicus DSM 20712', 'Porphyromonas asaccharolytica DSM 20707', 'Porphyromonas endodontalis ATCC 35406', 'Prevotella bivia DNF00188', 'Prevotella buccae ATCC 33574', 'Prevotella buccalis ATCC 35310', 'Prevotella corporis DSM 18810 = JCM 8529', 'Prevotella denticola F0289', 'Prevotella disiens JCM 6334 = ATCC 29426', 'Prevotella intermedia 17', 'Prevotella melaninogenica ATCC 25845', 'Prevotella nigrescens ATCC 33563', 'Prevotella oralis ATCC 33269', 'Prevotella oris C735', 'Prevotella oulorum JCM 14966', 'Prevotella veroralis F0319', 'Rikenella microfusus DSM 15922', 'Cronobacter sakazakii ATCC BAA-894', 'Serratia proteamaculans 568', 'Yersinia kristensenii', 'Vibrio metschnikovii CIP 69.14', 'Vibrio nigripulchritudo SOn1', 'Vibrio orientalis CIP 102891 = ATCC 33934', 'Candidatus Photodesmus katoptron', 'Acetohalobium arabaticum DSM 5501', 'Capnocytophaga canimorsus Cc5', 'Capnocytophaga cynodegmi DSM 19736', 'Arcobacter butzleri RM4018', 'Arcobacter nitrofigilis DSM 7299', 'Sphingomonas parapaucimobilis NBRC 15100', 'Desulfobacula toluolica Tol2', 'Mycoplasma penetrans', 'Colwellia psychrerythraea', 'Carnobacterium alterfunditum DSM 5972', 'Geobacter metallireducens GS-15', 'Ornithobacterium rhinotracheale DSM 15997', 'Cobetia marina', 'Thermodesulfovibrio yellowstonii DSM 11347', 'Arcanobacterium haemolyticum DSM 20595', 'Anolis carolinensis', 'Herbidospora cretacea', 'Clavibacter michiganensis subsp. sepedonicus', 'Komagataeibacter xylinus E25', 'Neisseria subflava NJ9703', 'Burkholderia pseudomallei K96243', 'Tarenaya hassleriana', 'Talaromyces stipitatus ATCC 10500', 'Talaromyces islandicus', 'Allomyces macrogynus', 'Elephantulus edwardii', 'Cyprinodon variegatus', 'Thermoanaerobacterium saccharolyticum JW/SL-YS485', 'Salmonella enterica subsp. enterica serovar Typhimurium str. LT2', 'Mycoplasma bovis PG45', 'Kluyveromyces lactis', 'Alternaria brassicicola', 'Drosophila eugracilis', 'Drosophila takahashii', 'Phlebotomus papatasi', 'Panthera uncia', 'Ursus maritimus', 'Eptesicus fuscus', 'Vombatus ursinus', 'Mytilus galloprovincialis', 'Crassostrea gigas', 'Neospora caninum', 'Haloarcula japonica DSM 6131', 'Natronococcus occultus SP4', 'Methanococcoides burtonii DSM 6242', 'Pyrococcus abyssi GE5', 'Streptomyces cattleya NRRL 8057 = DSM 46488', 'Streptomyces griseoluteus', 'Paenarthrobacter nicotinovorans 231Sha2.1M6', 'Corynebacterium otitidis ATCC 51513', 'Thermoanaerobacter brockii subsp. finnii Ako-1', 'Thermoanaerobacterium xylanolyticum LX-11', 'Ruminiclostridium cellobioparum subsp. termitidis CT1112', 'Cellulosilyticum lentocellum DSM 5427', 'Tyzzerella nexilis DSM 1787', 'Ruminiclostridium papyrosolvens DSM 2782', 'Clostridium paraputrificum AGR2156', 'Staphylococcus caprae M23864:W1', 'Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292', 'Staphylococcus capitis C87', 'Gemella morbillorum M424', 'Dolosigranulum pigrum ATCC 51524', 'Microlunatus phosphovorus NM-1', 'Helicobacter canis NCTC 12740', 'Legionella oakridgensis ATCC 33761 = DSM 21215', 'Acinetobacter haemolyticus MTCC 9819', 'Psychrobacter phenylpyruvicus DSM 7000 = NBRC 102152', 'Pseudomonas savastanoi pv. phaseolicola 1448A', 'Xanthomonas albilineans GPE PC73', 'Bradyrhizobium elkanii WSM2783', 'Rhizobium etli CIAT 652', 'Rhizobium leucaenae USDA 9039', 'Brucella melitensis bv. 1 str. 16M', 'Brucella neotomae 5K33', 'Brucella suis 1330', 'Veillonella parvula DSM 2008', 'Pectobacterium atrosepticum SCRI1043', 'Yersinia aldovae ATCC 35236', 'Yersinia frederiksenii ATCC 33641', 'Yersinia rohdei', 'Yersinia ruckeri', 'Vibrio furnissii NCTC 11218', 'Vibrio navarrensis', 'Vibrio splendidus ZS-139', 'Vibrio tubiashii ATCC 19109', 'Mycoplasma haemofelis Ohio2', 'Turneriella parva DSM 21527', 'Borreliella afzelii PKo', 'Borreliella garinii BgVir', 'Borrelia crocidurae DOU', 'Cytophaga aurantiaca DSM 3654', 'Flavobacterium succinicans LMG 10402', 'Pelobacter propionicus DSM 2379', 'Lawsonia intracellularis PHE/MN1-00', 'Rhodothermus marinus DSM 4252', 'Acholeplasma axanthum ATCC 25176', 'Mycoplasma canadense', 'Mycoplasma canis PG 14', 'Mycoplasma meleagridis', 'Mycoplasma ovipneumoniae 14811', 'Taylorella equigenitalis MCE9', 'Janthinobacterium lividum', 'Dioscorea cayenensis subsp. rotundata', 'Gossypium raimondii', 'Vitis vinifera', 'Lipomyces starkeyi NRRL Y-11557', 'Lachancea cidri', 'Hanseniaspora uvarum DSM 2768', 'Penicillium vulpinum', 'Gaeumannomyces graminis', 'Trichoderma virens', 'Neurospora discreta FGSC 8579', 'Laccaria bicolor', 'Calocera cornea HHB12733', 'Rhodotorula graminis WP1', 'Sporothrix schenckii', 'Tolypocladium inflatum', 'Phytophthora cactorum', 'Drosophila elegans', 'Drosophila emarginata', 'Drosophila ficusphila', 'Drosophila kikkawai', 'Drosophila neocordata', 'Drosophila prosaltans', 'Drosophila sturtevanti', 'Anopheles merus', 'Anopheles stephensi', 'Bombus terrestris', 'Opisthocomus hoazin', 'Fulmarus glacialis', 'Bubo bubo', 'Nothoprocta perdicaria', 'Tinamus major', 'Bos grunniens', 'Bos indicus x Bos taurus', 'Vicugna pacos', 'Microcebus murinus', 'Otolemur garnettii', 'Oryzias melastigma', 'Takifugu rubripes', 'Caenorhabditis remanei', 'Perkinsus marinus ATCC 50983', 'Enterocytozoon bieneusi H348', 'Colletotrichum graminicola M1.001', 'Caldicellulosiruptor bescii DSM 6725', 'Halothermothrix orenii H 168', 'Amycolatopsis orientalis DSM 40040 = KCTC 9412', 'Amycolatopsis lurida NRRL 2430', 'Absiella dolichum DSM 3991', 'Eggerthia catenaformis OT 569 = DSM 20559', 'Methylobacterium radiotolerans JCM 2831', 'Helicobacter hepaticus ATCC 51449', 'Synechococcus elongatus', 'Synechococcus sp. PCC 7002', 'Synechococcus sp. WH 7803', 'Calothrix sp. PCC 6303', 'Calothrix sp. PCC 7103', 'Tetranychus urticae', 'Xiphophorus couchianus', 'Neolamprologus brichardi', 'Desulfurella acetivorans A63', 'Winkia neuii subsp. neuii DSM 8576', 'Cutibacterium avidum 44067', 'Cutibacterium granulosum TM11', 'Propionimicrobium lymphophilum ACS-093-V-SCH5', 'Sporolactobacillus laevolacticus DSM 442', 'Anaerococcus hydrogenalis DSM 7454', 'Peptoniphilus indolicus ATCC 29427', 'Peptoniphilus lacrimalis 315-B', 'Anaerococcus lactolyticus ATCC 51172', 'Parvimonas micra ATCC 33270', 'Anaerococcus prevotii DSM 20548', 'Blautia producta', 'Anaerococcus tetradius ATCC 35098', 'Anaerococcus vaginalis ATCC 51170', 'Coprococcus eutactus ATCC 27759', 'Bartonella doshiae NCTC 12862 = ATCC 700133', 'Bartonella grahamii as4aup', 'Bartonella taylorii 8TBB', 'Bartonella vinsonii subsp. arupensis Pm136co', 'Candidatus Kinetoplastibacterium crithidii TCC036E', 'Acidithiobacillus caldus ATCC 51756', 'Gloeobacter violaceus PCC 7421', 'Acidobacterium capsulatum ATCC 51196', 'Entamoeba invadens IP1', 'Eremothecium gossypii ATCC 10895', 'Aspergillus terreus', 'Uncinocarpus reesii 1704', 'Purpureocillium lilacinum', 'Gambusia affinis', 'Coriobacterium glomerans PW2', 'Catenuloplanes japonicus', 'Brevibacterium casei S18', 'Streptomyces galbus', 'Streptomyces avermitilis MA-4680 = NBRC 14893', 'Bifidobacterium thermophilum', 'Actinopolyspora mortivallis DSM 44261', 'Amycolatopsis mediterranei U32', 'Anoxybacillus flavithermus subsp. yunnanensis str. E13', 'Geobacillus thermodenitrificans NG80-2', 'Geobacillus thermoleovorans CCB_US3_UF5', 'Kyrpidia tusciae DSM 2912', 'Enterococcus avium ATCC 14025', 'Acetobacterium woodii DSM 1030', 'Lactobacillus johnsonii NCC 533', 'Leuconostoc citreum KM20', 'Leuconostoc pseudomesenteroides 4882', 'Melissococcus plutonius ATCC 35311', 'Rickettsia amblyommatis str. GAT-30V', 'Rickettsia bellii OSU 85-389', 'Rickettsia montanensis str. OSU 85-930', 'Rickettsia rhipicephali str. 3-7-female6-CWPP', 'Neorickettsia helminthoeca str. Oregon', 'Gluconacetobacter diazotrophicus PA1 5', 'Paracoccus aminophilus JCM 7686', 'Paracoccus versutus', 'Azospirillum halopraeferens DSM 3675', 'Rhodospirillum centenum SW', 'Candidatus Liberibacter asiaticus str. gxpsy', 'Leptothrix cholodnii SP-6', 'Rahnella aquatilis CIP 78.65 = ATCC 33071', 'Variovorax paradoxus 110B', 'Riemerella anatipestifer RA-GD', 'Pedobacter antarcticus 4BY', 'Pelodictyon phaeoclathratiforme BU-1', 'Sphaerotilus natans subsp. natans DSM 6575', 'Streptobacillus moniliformis DSM 12112', 'Lotus japonicus', 'Mixia osmundae', 'Blumeria graminis', 'Trichophyton tonsurans', 'Trichophyton violaceum', 'Conidiobolus coronatus NRRL 28638', 'Strongyloides ratti', 'Anopheles melas', 'Anopheles quadriannulatus', 'Heliconius melpomene plesseni', 'Chinchilla lanigera', 'Thalassiosira pseudonana', 'Nosema apis BRL 01', 'Eubacterium brachy ATCC 33089', 'Eubacterium nodatum ATCC 33099', 'Daphnia magna', 'Geobacter sulfurreducens PCA', 'Stomoxys calcitrans', 'Streptomyces griseoflavus Tu4000', 'Streptomyces mobaraensis NBRC 13819 = DSM 40847', 'Acholeplasma oculi', 'Naja naja', 'Heliobacterium modesticaldum Ice1', 'Citrobacter amalonaticus', 'Epichloe festucae', 'Macrophomina phaseolina MS6', 'Sporichthya polymorpha DSM 43042', 'Dactylosporangium aurantiacum', 'Corynebacterium kutscheri', 'Corynebacterium pilosum DSM 20521', 'Bifidobacterium choerinum', "Peanut witches'-broom phytoplasma NTU2011", 'Coprothermobacter proteolyticus DSM 5265', 'Rickettsia africae ESF-5', 'Rickettsia helvetica C9P9', 'Rickettsia japonica YH', 'Rickettsia massiliae str. AZT80', 'Rickettsia parkeri str. Portsmouth', 'Rickettsia sibirica 246', 'Rickettsia slovaca str. D-CWPP', 'Ehrlichia muris AS145', 'Nitrococcus mobilis Nb-231', 'Nitrosospira briensis C-128', 'Nitrospina gracilis 3/211', 'Rhodovulum sulfidophilum DSM 1374', 'Bordetella holmesii ATCC 51541', 'Helicobacter heilmannii ASB1.4', 'Helicobacter pullorum MIT 98-5489', 'Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933', 'Hungateiclostridium cellulolyticum CD2', 'Bilophila wadsworthia ATCC 49260', 'Holophaga foetida DSM 6591', 'Bacillus thermoamylovorans', 'Ipomoea triloba', 'Cyberlindnera fabianii', 'Vanderwaltozyma polyspora DSM 70294', 'Fusarium poae', 'Cantharellus cibarius var. cibarius', 'Ganoderma sinense ZZ0214-1', 'Mucor circinelloides', 'Megaselia scalaris', 'Pelecanus crispus', 'Plasmodium ovale curtisi', 'Globisporangium irregulare', 'Aspergillus fischeri NRRL 181', 'Penicillium coprophilum', 'Penicillium digitatum', 'Dermabacter hominis 1368', 'Clostridium saccharoperbutylacetonicum N1-4(HMT)', 'Pseudomonas cichorii JBC1', 'Gaeumannomyces tritici', 'Mycobacteroides abscessus', 'Mycobacterium genavense ATCC 51234', 'Mycolicibacterium rhodesiae JS60', 'Gordonia aichiensis NBRC 108223', 'Gordonia amarae NBRC 15530', 'Gordonia sputi NBRC 100414', 'Clostridium celatum DSM 1785', 'Clostridium intestinale URNW', 'Desulfitobacterium dehalogenans ATCC 51507', 'Brucella canis ATCC 23365', 'Thiobacillus denitrificans DSM 12475', 'Paraburkholderia xenovorans LB400', 'Porphyromonas cangingivalis', 'Porphyromonas canoris', 'Clavispora lusitaniae', 'Lodderomyces elongisporus', 'Glossina brevipalpis', 'Kryptolebias marmoratus', 'Suricata suricatta', 'Gavia stellata', 'Aotus nancymaae', 'Nocardia brasiliensis ATCC 700358', 'Nocardia brevicatena NBRC 12119', 'Nocardia carnea NBRC 14403', 'Nocardia farcinica IFM 10152', 'Nocardia nova SH22a', 'Nocardia transvalensis NBRC 15921', 'Tupaia belangeri', 'Plasmodiophora brassicae', 'Helicobacter bilis ATCC 43879', 'Pisolithus tinctorius Marx 270', 'Laceyella sacchari 1-1', 'Marichromatium purpuratum 984', 'Cavia aperea', 'Thermus scotoductus SA-01', 'Octopus bimaculoides', 'Clostridium algidicarnis', 'Aegilops tauschii', 'Candidatus Phytoplasma mali AT', 'Talaromyces marneffei ATCC 18224', 'Enterococcus casseliflavus EC20', 'Cryptococcus gattii EJB2', 'Heterorhabditis bacteriophora', 'Rhytidhysteron rufulum', 'Rhodococcus opacus', 'Methanosarcina siciliae C2J', 'Chaetomium globosum', 'Rhynchosporium secalis', 'Corynebacterium accolens ATCC 49725', 'Corynebacterium genitalium ATCC 33030', 'Corynebacterium jeikeium K411', 'Photobacterium damselae subsp. damselae CIP 102761', 'Streptomyces pristinaespiralis ATCC 25486', 'Corynebacterium pseudogenitalium ATCC 33035', 'Corynebacterium vitaeruminis DSM 20294', 'Gluconobacter frateurii NBRC 103465', 'Rhodococcus rhodnii LMG 5362', 'Shewanella algae JCM 14758', 'Bartonella henselae str. Houston-1', 'Erysipelothrix tonsillarum DSM 14972', 'Eragrostis curvula', 'Phascolarctos cinereus', 'Alligator sinensis', 'Panicum virgatum', 'Gopherus agassizii', 'Neolentinus lepideus HHB14362 ss-1', 'Micromonas pusilla', 'Fraxinus excelsior', 'Acholeplasma palmae J233', 'Methanococcus maripaludis C6', 'Tuber melanosporum Mel28', 'Faecalitalea cylindroides ATCC 27803', 'Agathobaculum desmolans ATCC 43058', 'Dorea formicigenerans 4_6_53AFAA', 'Anaerobutyricum hallii DSM 3353', 'Eubacterium ramulus ATCC 29099', 'Eubacterium ventriosum ATCC 27560', 'Eubacterium xylanophilum ATCC 35991', 'Mesorhizobium ciceri biovar biserrulae WSM1271', 'Cellvibrio mixtus subsp. mixtus J3-8', 'Methanosalsum zhilinae DSM 4017', 'Mayetiola destructor', 'Hydrogenovibrio crunogenus XCL-2', 'Sulfurimonas denitrificans DSM 1251', 'Blattabacterium sp. (Mastotermes darwiniensis) str. MADAR', 'Methylomicrobium album BG8', 'Veillonella atypica KON', 'Veillonella dispar ATCC 17748', 'Corynebacterium glucuronolyticum ATCC 51867', 'Erythrobacter litoralis HTCC2594', 'Legionella moravica DSM 19234', 'Hypsizygus marmoreus', 'Helcococcus kunzii ATCC 51366', 'Bipolaris victoriae FI3', 'Neurospora tetrasperma', 'Oligotropha carboxidovorans OM5', 'Oryza glumipatula', 'Oryza meridionalis', 'Monodon monoceros', 'Lonchura striata domestica', 'Fusarium avenaceum', 'Acinetobacter johnsonii SH046', 'Acinetobacter junii', 'Acinetobacter radioresistens SH164', 'Junco hyemalis', 'Aliivibrio salmonicida LFI1238', 'Penicillium italicum', 'Nosema ceranae BRL01', 'Streptomyces nodosus', 'Stenotrophomonas maltophilia K279a', 'Fonsecaea pedrosoi CBS 271.37', 'Acinetobacter sp. CIP-A165', 'Daedalea quercina L-15889', 'Fistulina hepatica ATCC 64428', 'Fomitopsis pinicola', 'Stereum hirsutum', 'Ruminococcus bromii L2-63', 'Ruminococcus callidus ATCC 27760', 'Blautia obeum ATCC 29174', 'Leptotrichia buccalis C-1013-b', 'Sutterella wadsworthensis HGA0223', 'Botrytis cinerea', 'Sporobolomyces roseus IAM 13481', 'Actinosynnema mirum DSM 43827', 'Lentzea albidocapillata', 'Xenorhabdus bovienii SS-2004', 'Xenorhabdus poinarii G6', 'Claviceps paspali', 'Claviceps fusiformis', 'Balansia obtecta', 'Thioploca ingrica', 'Borrelia duttonii Ly', 'Rhopalosiphum padi', 'Saccharomonospora azurea SZMC 14600', 'Saccharomonospora cyanea NA-134', 'Saccharomonospora glauca K62', 'Aspergillus carbonarius ITEM 5010', 'Elsinoe australis', 'Penicilliopsis zonata CBS 506.65', 'Ewingella americana ATCC 33852', 'Anopheles atroparvus', 'Seriola dumerili', 'Lomentospora prolificans', 'Bathycoccus prasinos', 'Candidatus Microthrix parvicella RN1', 'Amanita muscaria Koide BX008', 'Porphyromonas catoniae F0037', 'Enterococcus saccharolyticus subsp. saccharolyticus ATCC 43076', 'Drosophila bipectinata', 'Pneumocystis jirovecii SE8', 'Ureaplasma diversum NCTC 246', 'Phocoena sinus', 'Prunus avium', 'Streptomyces acidiscabies 84-104', 'Tuber magnatum', 'Tuber borchii', 'Desulfovibrio termitidis HI1', 'Sorex araneus', 'Rubrobacter radiotolerans', 'Phoenix dactylifera', 'Aciculosporium take MAFF-241224', 'Candida dubliniensis', 'Vittaforma corneae ATCC 50505', 'Halobacteroides halobius DSM 5150', 'Roseobacter litoralis Och 149', 'Lichtheimia corymbifera', 'Desulfofundulus thermocisternus DSM 10259', 'Pygocentrus nattereri', 'Halomonas salina', 'Streptomyces collinus Tu 365', 'Gelatoporia subvermispora B', 'Epichloe amarillans E57', 'Corynebacterium argentoratense DSM 44202', 'Ammonifex degensii KC4', 'Staphylococcus lentus F1142', 'Rickettsia felis URRWXCal2', 'Methanococcus aeolicus Nankai-3', 'Anopheles christyi', 'Tilletia indica', 'Sulfolobus islandicus REY15A', 'Rhopalosiphum maidis', 'Anopheles darlingi', 'Ictidomys tridecemlineatus', 'Capronia epimyces', 'Capronia coronata', 'Pseudomonas alcaligenes NBRC 14159', 'Butyrivibrio proteoclasticus P6B7', 'Prauserella rugosa', 'Kutzneria albida DSM 43870', 'Cathartes aura', 'Zosterops lateralis melanops', 'Halanaerobium saccharolyticum subsp. saccharolyticum DSM 6643', 'Pseudoalteromonas citrea DSM 8771', 'Pseudoalteromonas luteoviolacea B = ATCC 29581', 'Pseudoalteromonas rubra DSM 6842', 'Paenarthrobacter aurescens TC1', 'Brachybacterium faecium DSM 4810', 'Jonesia denitrificans DSM 20603', 'Rothia mucilaginosa DY-18', 'Metallosphaera sedula DSM 5348', 'Monopterus albus', 'Streptomyces wedmorensis', 'Corynebacterium amycolatum SK46', 'Rhodococcus hoagii 103S', 'Corynebacterium matruchotii ATCC 14266', 'Corynebacterium propinquum DSM 44285', 'Corynebacterium striatum ATCC 6940', 'Corynebacterium urealyticum DSM 7109', 'Tolumonas auensis DSM 9187', 'Johnsonella ignava ATCC 51276', 'Catonella morbi ATCC 51271', 'Caldicellulosiruptor saccharolyticus DSM 8903', 'Enterococcus cecorum DSM 20682 = ATCC 43198', 'Enterococcus dispar ATCC 51266', 'Ferrimonas balearica DSM 9799', 'Aureococcus anophagefferens', 'Streptomyces megasporus', 'Trichomonascus ciferrii', 'Paenibacillus alvei TS-15', 'Paenibacillus durus', 'Paenibacillus macerans', 'Bradyrhizobium oligotrophicum S58', 'Caldanaerobius polysaccharolyticus DSM 13641', 'Erythrura gouldiae', 'Zonotrichia albicollis', 'Eimeria mitis', 'Borrelia persica No12', 'Borrelia recurrentis A1', 'Natronococcus amylolyticus DSM 10524', 'Nitrosomonas cryotolerans ATCC 49181', 'Sulfurospirillum barnesii SES-3', 'Geothrix fermentans DSM 14018', 'Dictyostelium discoideum', 'Natronobacterium gregoryi SP2', 'Legionella fairfieldensis ATCC 49588', 'Legionella lansingensis DSM 19556 = ATCC 49751', 'Legionella shakespearei DSM 23087', 'Bipolaris sorokiniana', 'Pyrenophora tritici-repentis Pt-1C-BFP', 'Cyanidioschyzon merolae', 'Tolypocladium capitatum', 'Capnocytophaga granulosa ATCC 51502', 'Leucothrix mucor DSM 2157', 'Eremothecium cymbalariae', 'Eremothecium sinecaudum', 'Nematostella vectensis', 'Mycoplasma conjunctivae HRC/581', 'Mycoplasma bovoculi M165/69', 'Mycoplasma alkalescens 14918', 'Brevibacillus borstelensis 3096-7', 'Wickerhamiella sorbophila', 'Babjeviella inositovora NRRL Y-12698', 'Streptococcus cristatus AS 1.3089', 'Vibrio scophthalmi LMG 19158', 'Desulfohalobium retbaense DSM 5692', 'Nadsonia fulvescens', 'Butyrivibrio crossotus DSM 2876', 'Staphylococcus pasteuri SP1', 'Granulicatella adiacens ATCC 49175', 'Abiotrophia defectiva ATCC 49176', 'Staphylococcus chromogenes MU 970', 'Pseudobutyrivibrio ruminis CF1b', 'Anabaena sp. 90', 'Weissella hellenica', 'Pseudomonas avellanae BPIC 631', 'Mycolicibacterium hassiacum DSM 44199', 'Thermoanaerobacter wiegelii Rt8.B1', 'Spirochaeta africana DSM 8902', 'Sphingobium chlorophenolicum', 'Reticulomyxa filosa', 'Orenia marismortui DSM 5156', 'Parabacteroides merdae ATCC 43184', 'Bacteroides stercoris ATCC 43183', 'Thermosipho melanesiensis BI429', 'Suhomyces tanzawaensis', 'Aureobasidium melanogenum', 'Pseudomonas nitroreducens HBP1', 'Entamoeba dispar', 'Cenarchaeum symbiosum A', 'Dethiosulfovibrio peptidovorans DSM 11002', 'Desulfovibrio bastinii DSM 16055', 'Massilia timonae CCUG 45783', 'Neogobius melanostomus', 'Armillaria gallica', 'Armillaria ostoyae', 'Borrelia miyamotoi LB-2001', 'Rickettsia peacockii str. Rustic', 'Lautropia mirabilis ATCC 51599', 'Bacteroides caccae ATCC 43185', 'Mycoplasma alligatoris A21JP2', 'Lactobacillus rhamnosus GG', 'Streptomyces olivaceus', 'Bibersteinia trehalosi USDA-ARS-USMARC-189', 'Atkinsonella hypoxylon', 'Streptomyces sulphureus DSM 40104', 'Streptomyces lydicus', 'Lactobacillus crispatus ST1', 'Epichloe baconii ATCC 200745', 'Mycobacterium triplex', 'Micromonospora aurantiaca ATCC 27029', 'Pseudomonas amygdali pv. mori str. 301020', 'Pseudomonas corrugata CFBP 5454', 'Pseudomonas fulva 12-X', 'Pseudomonas synxantha BG33R', 'Pseudomonas luteola XLDN4-9', 'Serratia fonticola AU-AP2C', 'Vibrio cyclitrophicus FF75', 'Oreochromis aureus', 'Hyphomicrobium zavarzinii ATCC 27496', 'Acinetobacter pittii PHEA-2', 'Xanthomonas fragariae LMG 25863', 'Neolecta irregularis DAH-3', 'Penicillium freii', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Orchesella cincta', 'Geospiza fortis', 'Novosphingobium aromaticivorans DSM 12444', 'Sporisorium scitamineum', 'Candidatus Arthromitus sp. SFB-mouse-Japan', 'Kineosporia aurantiaca JCM 3230', 'Marinobacterium stanieri S30', 'Psychroserpens burtonensis DSM 12212', 'Rubrobacter xylanophilus DSM 9941', 'Desulfitobacterium hafniense Y51', 'Coffea canephora', 'Nicotiana attenuata', 'Holospora obtusa F1', 'Mycoplasma crocodyli MP145', 'Rhizobium sullae WSM1592', 'Thermoplasma volcanium GSS1', 'Charadrius vociferus', 'Pinctada fucata', 'Arabis alpina', 'Helicobacter trogontum', 'Actinobacillus minor NM305', 'Eubacterium saphenum ATCC 49989', 'Catagonus wagneri', 'Treponema maltophilum ATCC 51939', 'Ureibacillus thermosphaericus str. Thermo-BF', 'Syntrophobotulus glycolicus DSM 8271', 'Wigglesworthia glossinidia endosymbiont of Glossina morsitans morsitans (Yale colony)', 'Kluyvera ascorbata ATCC 33433', 'Eimeria brunetti', 'Eimeria praecox', 'Jaculus jaculus', 'Castor canadensis', 'Mycoplasma auris 15026', 'Mycoplasma yeatsii 13926', 'Trichoderma reesei', 'Ciona savignyi', 'Spraguea lophii 42_110', 'Haloarcula hispanica ATCC 33960', 'Kluyveromyces dobzhanskii CBS 2104', 'Nakaseomyces delphensis', 'Nakaseomyces bacillisporus', 'Tetragenococcus halophilus NBRC 12172', 'Tortispora caseinolytica', 'Meiothermus silvanus DSM 9946', 'Calidithermus chliarophilus DSM 9957', 'Acinetobacter venetianus RAG-1 = CIP 110063', 'Mitsuokella multacida DSM 20544', 'Prevotella dentalis DSM 3688', 'Lactobacillus gallinarum DSM 10532 = JCM 2011', 'Sarcoptes scabiei', 'Plasmodium inui San Antonio 1', 'Brachyspira pilosicoli 95/1000', 'Erysiphe necator', 'Sulfitobacter sp. EE-36', 'Sagittula stellata E-37', 'Haliaeetus leucocephalus', 'Bartonella alsatica IBS 382', 'Caldicellulosiruptor kristjanssonii I77R1B', 'Caldicellulosiruptor lactoaceticus 6A', 'Schaalia georgiae DSM 6843', 'Scophthalmus maximus', 'Desulfonatronovibrio hydrogenovorans DSM 9292', 'Desulfospira joergensenii DSM 10085', 'Enterococcus durans ATCC 6056', 'Enterococcus mundtii QU 25', 'Intrasporangium calvum DSM 43043', 'Brevibacterium mcbrellneri ATCC 49030', 'Hamadaea tsunoensis DSM 44101', 'Hyphomicrobium denitrificans 1NES1', 'Pseudomonas coronafaciens pv. oryzae str. 1_6', 'Pseudomonas resinovorans NBRC 106553', 'Xanthomonas axonopodis pv. vasculorum', 'Treponema lecithinolyticum ATCC 700332', 'Treponema socranskii subsp. socranskii VPI DR56BR1116 = ATCC 35536', 'Thermobrachium celere DSM 8682', 'Thermodesulfobacterium hveragerdense DSM 12571', 'Gordonia hirsuta DSM 44140 = NBRC 16056', 'Treponema paraluiscuniculi Cuniculi A', 'Nocardiopsis alba ATCC BAA-2165', 'Blautia hydrogenotrophica DSM 10507', 'Nakamurella multipartita DSM 44233', 'Mycolicibacterium mageritense DSM 44476 = CIP 104973', 'Pyrenophora teres', 'Sulfobacillus acidophilus TPY', 'Acidimicrobium ferrooxidans DSM 10331', 'Hanseniaspora valbyensis NRRL Y-1626', 'Octadecabacter arcticus 238', 'Pyrococcus horikoshii OT3', 'Peptoniphilus harei ACS-146-V-Sch2b', 'Pseudonocardia asaccharolytica DSM 44247 = NBRC 16224', 'Thermococcus zilligii AN1', 'Methanolacinia petrolearia DSM 11571', 'Pristionchus pacificus', 'Colobus angolensis palliatus', 'Ascoidea rubescens DSM 1968', 'Hyperthermus butylicus DSM 5456', 'Pyrolobus fumarii 1A', 'Thermosphaera aggregans DSM 11486', 'Ferroglobus placidus DSM 10642', 'Raoultella ornithinolytica B6', 'Chroococcidiopsis thermalis PCC 7203', 'Pleurocapsa sp. PCC 7327', 'Spirulina subsalsa PCC 9445', 'Mesitornis unicolor', 'Cariama cristata', 'Eurypyga helias', 'Streptomyces venezuelae ATCC 10712', 'Salmonella bongori N268-08', 'Streptococcus thoraltensis DSM 12221', 'Deinococcus proteolyticus MRP', 'Sciurus vulgaris', 'Flavobacterium branchiophilum FL-15', 'Epichloe elymi E56', 'Caldicellulosiruptor owensensis OL', 'Sediminispirochaeta smaragdinae DSM 11293', 'Pectobacterium betavasculorum', 'Ruegeria lacuscaerulensis ITI-1157', 'Thermonema rossianum DSM 10300', 'Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628', 'Pistacia vera', 'Magnetospirillum gryphiswaldense MSR-1 v2', 'Guillardia theta', 'Actinomyces graevenitzii C83', 'Dehalobacter restrictus DSM 9455', 'Vibrio anguillarum', 'Cuculus canorus', 'Thermococcus barophilus MP', 'Malurus cyaneus samueli', 'Streptomyces toyocaensis', 'Tyto alba', 'Hanseniaspora guilliermondii', 'Hanseniaspora osmophila', 'Bartonella clarridgeiae 73', 'Xanthomonas arboricola pv. celebensis', 'Xanthomonas cassavae CFBP 4642', 'Xanthomonas hortorum pv. carotae str. M081', 'Xanthomonas sacchari', 'Xanthomonas campestris pv. musacearum NCPPB 4379', 'Xanthomonas vesicatoria ATCC 35937', 'Protomyces lactucaedebilis', 'Aeropyrum pernix K1', 'Cottoperca gobio', 'Labrus bergylta', 'Rhizobium gallicum bv. gallicum R602sp', 'Rhizobium giardinii bv. giardinii H152', 'Eubacterium infirmum F0142', 'Glaciecola punicea ACAM 611', 'Shewanella frigidimarina NCIMB 400', 'Helicobacter bizzozeronii CIII-1', 'Afipia broomeae ATCC 49717', 'Thermus oshimai JL-2', 'Psychroflexus torquis ATCC 700755', 'Lactobacillus zeae DSM 20178 = KCTC 3804', 'Acanthisitta chloris', 'Mycoplasma suis str. Illinois', 'Apaloderma vittatum', 'Colius striatus', 'Merops nubicus', 'Trifolium pratense', 'Sulfurospirillum arcachonense DSM 9755', 'Rhizobium mongolense USDA 1844', 'Halomicrobium mukohataei DSM 12286', 'Enterococcus asini ATCC 700915', 'Fragaria vesca subsp. vesca', 'Burkholderia thailandensis MSMB43', 'Daktulosphaira vitifoliae', 'Spirillospora albida', 'Desulfofundulus kuznetsovii DSM 6115', 'Desulfofarcimen acetoxidans DSM 771', 'Desulfovibrio alaskensis G20', 'Treponema medium ATCC 700293', 'Archaeoglobus veneficus SNP6', 'Rhizopus microsporus', 'Streptomyces celluloflavus', 'Kitasatospora azatica KCTC 9699', 'Kitasatospora mediocidica KCTC 9733', 'Debaryomyces fabryi', 'Encephalitozoon intestinalis ATCC 50506', 'Trichoderma citrinoviride', 'Tilletiopsis washingtonensis', 'Rickettsiella grylli', 'Streptococcus macedonicus ACA-DC 198', 'Myotis lucifugus', 'Rhinolophus ferrumequinum', 'Actinotignum schaalii FB123-CNA-2', 'Pantholops hodgsonii', 'Corynespora cassiicola Philippines', 'Cellulophaga algicola DSM 14237', 'Desulfotomaculum reducens MI-1', 'Helicobacter rodentium ATCC 700285', 'Arabidopsis lyrata', 'Taeniopygia guttata', 'Candidatus Phytoplasma australiense', 'Alcanivorax borkumensis SK2', 'Angomonas deanei', 'Sphingomonas echinoides ATCC 14820', 'Paenibacillus alginolyticus DSM 5050 = NBRC 15375', 'Paenibacillus curdlanolyticus YK9', 'Paenibacillus peoriae KCTC 3763', 'Ficedula albicollis', 'Cyanobium gracile PCC 6307', 'Synechococcus sp. WH 7805', 'Prevotella pallens ATCC 700821', 'Penicillium polonicum', 'Penicillium solitum', 'Penicillium nalgiovense', 'Shewanella violacea DSS12', 'Shewanella amazonensis SB2B', 'Shewanella sp. MR-4', 'Shewanella sp. MR-7', 'Lactobacillus paraplantarum', 'Burkholderia vietnamiensis G4', 'Chlorocebus sabaeus', 'Halogeometricum borinquense DSM 11551', 'Phaeobacter gallaeciensis DSM 26640', 'Desulfobacca acetoxidans DSM 11109', 'Saccharopolyspora spinosa NRRL 18395', 'Sanguibacter keddieii DSM 10542', 'Shewanella woodyi ATCC 51908', 'Holdemania filiformis DSM 12042', 'Monilinia laxa', 'Varanus komodoensis', 'Ophiostoma piceae', 'Lynx canadensis', 'Dehalococcoides mccartyi 195', 'Coniosporium apollinis', 'Corynebacterium durum F0235', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Paenibacillus mucilaginosus KNP414', 'Acholeplasma brassicae', 'Enterobacter asburiae LF7a', 'Lelliottia amnigena CHS 78', 'Pluralibacter gergoviae', 'Amphilophus citrinellus', 'Nomascus leucogenys', 'Natronorubrum bangense JCM 10635', 'Hucho hucho', 'Borreliella valaisiana Tom4006', 'Acidiphilium multivorum AIU301', 'Haloterrigena turkmenica DSM 5511', 'Shewanella baltica OS117', 'Anopheles funestus', 'Saccharum spontaneum', 'Natronorubrum tibetense GA33', 'Calocera viscosa TUFC12733', 'Zobellia galactanivorans', 'Aquifex aeolicus VF5', 'Melanopsichium pennsylvanicum 4', 'Trichophyton benhamiae', 'Nannizzia gypsea CBS 118893', 'Microsporum canis CBS 113480', 'Trichophyton verrucosum', 'Trichophyton equinum', 'Desulfovibrio oxyclinae DSM 11498', 'Trichoderma atroviride', "Sodalis glossinidius str. 'morsitans'", 'Hydrogenovibrio kuenenii DSM 12350', 'Sideroxydans lithotrophicus ES-1', 'Demetria terragena DSM 11295', 'Nevskia ramosa DSM 11499', 'Bacillus pseudomycoides DSM 12442', 'Anabas testudineus', 'Desulfurobacterium thermolithotrophum DSM 11699', 'Podarcis muralis', 'Coleofasciculus chthonoplastes PCC 7420', 'Carnimonas nigrificans ATCC BAA-78', 'Dothistroma septosporum', 'Synechococcus sp. CC9311', 'Rhizopus oryzae', 'Mortierella alpina ATCC 32222', 'Lobosporangium transversale', 'Natrialba asiatica DSM 12278', 'Tetragenococcus muriaticus DSM 15685', 'Borreliella bissettii DN127', 'Terasakiella pusilla DSM 6293', 'Marinospirillum minutulum DSM 6287', 'Alcanivorax jadensis T9', 'Corynebacterium ulcerans BR-AD22', 'Pythium aphanidermatum DAOM BR444', 'Halothece sp. PCC 7418', 'Mycoplasma wenyonii str. Massachusetts', 'Oryza barthii', 'Actinoalloteichus cyanogriseus', 'Meiothermus cerbereus DSM 11376', 'Sulfurospirillum deleyianum DSM 6946', 'Desulfocapsa sulfexigens DSM 10523', 'Serendipita indica', 'Erwinia tracheiphila PSU-1', 'Pseudomonas knackmussii B13', 'Wolbachia sp. wRi', 'Lachnoclostridium phytofermentans ISDg', 'Gleimia europaea ACS-120-V-Col10b', 'Komagataeibacter intermedius AF2', 'Pantoea stewartii', 'Streptomyces niger', 'Streptomyces violens', 'Papilio xuthus', 'Streptomyces roseoverticillatus', 'Sulfurospirillum multivorans DSM 12446', 'Streptomyces afghaniensis 772', 'Streptomyces atroolivaceus', 'Streptomyces bicolor', 'Streptomyces catenulae', 'Streptomyces griseorubens', 'Trypanosoma theileri', 'Streptomyces alboflavus', 'Streptomyces aureocirculatus', 'Streptomyces filamentosus NRRL 15998', 'Streptomyces flavidovirens DSM 40150', 'Streptomyces lavenduligriseus', 'Streptomyces mutabilis', 'Kitasatospora purpeofusca', 'Streptomyces resistomycificus', 'Streptomyces varsoviensis', 'Rheinheimera baltica DSM 14885', 'Streptomyces viridosporus ATCC 14672', 'Phytophthora sojae', 'Methanocaldococcus infernus ME', 'Edwardsiella ictaluri 93-146', 'Citrobacter farmeri GTC 1319', 'Citrobacter rodentium ICC168', 'Citrobacter sedlakii NBRC 105722', 'Actinobacillus succinogenes 130Z', 'Lentzea aerocolonigenes', 'Streptomyces cyaneogriseus subsp. noncyanogenus', 'Streptomyces durhamensis', 'Streptomyces flavochromogenes', 'Streptomyces fulvissimus DSM 40593', 'Streptomyces griseoaurantiacus M045', 'Streptomyces iakyrus', 'Streptomyces katrae', 'Streptomyces pyridomyceticus', 'Streptomyces violaceusniger Tu 4113', 'Moschus moschiferus', 'Streptomyces albulus', 'Sphaerobolus stellatus SS14', 'Scleroderma citrinum Foug A', 'Rasamsonia emersonii CBS 393.64', 'Theileria orientalis', 'Streptococcus peroris ATCC 700780', 'Streptococcus infantis SK970', 'Deinococcus geothermalis DSM 11300', 'Anopheles farauti', 'Synechococcus sp. WH 5701', 'Enterobacter cancerogenus ATCC 35316', 'Dickeya paradisiaca Ech703', 'Aquamicrobium defluvii', 'Gasterosteus aculeatus', 'Microplitis demolitor', 'Pseudomonas sp. VLB120', 'Chara braunii', 'Caulobacter henricii', 'Petrotoga mobilis SJ95', 'Natrinema pellirubrum DSM 15624', 'Natrinema pallidum DSM 3751', 'Treponema vincentii ATCC 35580', 'Penicillium oxalicum 114-2', 'Selenomonas sputigena ATCC 35185', 'Trichophyton soudanense CBS 452.61', 'Macrococcus caseolyticus JCSC5402', 'Ostreococcus tauri', 'Edhazardia aedis USNM 41457', 'Pyrobaculum neutrophilum V24Sta', 'Pseudomonas plecoglossicida NB2011', 'Nodularia spumigena CCY9414', 'Shewanella oneidensis MR-1', 'Shewanella pealeana ATCC 700345', 'Flexithrix dorotheae DSM 6795', 'Lewinella cohaerens DSM 23179', 'Lewinella persica DSM 23188', 'Eucalyptus grandis', 'Paxillus involutus ATCC 200175', 'Staphylococcus vitulinus F1028', 'Vibrio halioticoli NBRC 102217', 'Mesorhizobium amorphae CCNWGS0123', 'Enterococcus malodoratus ATCC 43197', 'Enterococcus raffinosus ATCC 49464', 'Tolypocladium ophioglossoides CBS 100239', 'Lonsdalea quercina subsp. quercina', 'Waddlia chondrophila WSU 86-1044', 'Naematelia encephala', 'Hypholoma sublateritium FD-334 SS-4', 'Kocuria rhizophila P7-4', 'Bos mutus', 'Sphaeroforma arctica JP610', 'Thielaviopsis punctulata', 'Lepeophtheirus salmonis', 'Citromicrobium bathyomarinum JL354', 'Ophiocordyceps sinensis', 'Trachipleistophora hominis', 'Bacillus mojavensis RO-H-1 = KCTC 3706', 'Drosophila austrosaltans', 'Drosophila lusaltans', 'Drosophila milleri', 'Nannochloropsis gaditana CCMP526', 'Achromobacter piechaudii HLE', 'Sporisorium reilianum', 'Boechera stricta', 'Eutrema salsugineum', 'Dechloromonas agitata is5', 'Streptomyces seoulensis', 'Thiocystis violascens DSM 198', 'Emmonsia crescens UAMH 3008', 'Cordyceps militaris', 'Piromyces sp. E2', 'Methanocaldococcus vulcanius M7', 'Thermaerobacter marianensis DSM 12885', 'Photobacterium profundum SS9', 'Brevundimonas bacteroides DSM 4726', 'Brevundimonas subvibrioides ATCC 15264', 'Maricaulis maris MCS10', 'Hyphomonas polymorpha PS728', 'Sulfitobacter guttiformis KCTC 32187', 'Thraustotheca clavata', 'Rosa chinensis', 'Stachybotrys chartarum IBT 7711', 'Pseudomonas balearica DSM 6083', 'Anopheles maculatus', 'Anopheles sinensis', 'Oncorhynchus tshawytscha', 'Paraburkholderia caribensis MBA4', 'Saccharomonospora xinjiangensis XJ-54', 'Sinocyclocheilus grahami', 'Pseudomonas mandelii PD30', 'Castellaniella defragrans 65Phen', 'Anas zonorhyncha', 'Thermocrinis ruber DSM 12173', 'Mycolicibacterium tusciae JS617', 'Mannheimia haemolytica M42548', 'Thauera linaloolentis 47Lol = DSM 12138', 'Thauera terpenica 58Eu', 'Alloprevotella tannerae ATCC 51259', 'Prevotella enoeca JCM 12259', 'Vibrio rumoiensis 1S-45', 'Campylobacter hominis ATCC BAA-381', 'Cellulophaga baltica 13', 'Mycetocola saprophilus', 'Streptomyces vitaminophilus DSM 41686', 'Sinorhizobium arboris LMG 14919', 'Pseudomonas monteilii SB3078', 'Malassezia globosa CBS 7966', 'Malassezia sympodialis ATCC 42132', 'Myroides odoratimimus H1bi', 'Solibacillus silvestris StLB046', 'Streptococcus constellatus subsp. pharyngis SK1060 = CCUG 46377', 'Hebeloma cylindrosporum h7', 'Caldivirga maquilingensis IC-167', 'Asticcacaulis biprosthecum C19', 'Sphingobium herbicidovorans NBRC 16415', 'Malassezia pachydermatis', 'Cylindrospermopsis raciborskii CS-505', 'Wolbachia endosymbiont of Drosophila simulans wNo', 'Rosellinia necatrix', 'Sclerotinia borealis F-4128', 'Dendroctonus ponderosae', 'Plasmodium gonderi', 'Leersia perrieri', 'Bifidobacterium subtile', 'Prevotella albensis DSM 11370 = JCM 12258', 'Succinispira mobilis DSM 6222', 'Oidiodendron maius', 'Parascardovia denticolens DSM 10105 = JCM 12538', 'Scardovia inopinata F0304', 'Pseudomonas mosselii SJ10', 'Mycobacterium canettii CIPT 140070017', 'Bifidobacterium gallicum DSM 20093 = LMG 11596', 'Bifidobacterium gallinarum', 'Bifidobacterium merycicum', 'Bifidobacterium ruminantium', 'Streptomyces somaliensis DSM 40738', 'Pectobacterium odoriferum', 'Neonectria ditissima', 'Bifidobacterium pullorum DSM 20433', 'Rhizobium undicola ORS 992 = ATCC 700741', 'Thermothelomyces thermophilus', 'Asticcacaulis excentricus CB 48', 'Podila verticillata', 'Desulfosporosinus meridiei DSM 13257', 'Chitinophaga pinensis DSM 2588', 'Epichloe brachyelytri', 'Microtus ochrogaster', 'Cimex lectularius', 'Bacillus clausii KSM-K16', 'Bacillus pseudofirmus OF4', 'Erwinia pyrifoliae Ep1/96', 'Coniophora puteana', 'Piloderma croceum F 1598', 'Thioflavicoccus mobilis 8321', 'Aphis gossypii', 'Haliangium ochraceum DSM 14365', 'Wolbachia endosymbiont strain TRS of Brugia malayi', 'Aliivibrio wodanis', 'Moritella viscosa', 'Delftia acidovorans SPH-1', 'Acidovorax avenae subsp. avenae ATCC 19860', 'Acidovorax citrulli AAC00-1', 'Cryptosporangium arvum DSM 44712', 'Hylemonella gracilis str. Niagara R', 'Simplicispira psychrophila DSM 11588', 'Colletotrichum higginsianum', 'Acanthochromis polyacanthus', 'Amphiprion ocellaris', 'Treponema brennaborense DSM 12168', 'Hyphomonas adhaerens MHS-3', 'Hyphomonas johnsonii MHS-2', 'Hyphomonas neptunium ATCC 15444', 'Hyphomonas oceanitis SCH89', 'Wolfiporia cocos MD-104 SS10', 'Desulfovibrio alcoholivorans DSM 5433', 'Parageobacillus caldoxylosilyticus CIC9', 'Aminomonas paucivorans DSM 12260', 'Desulfovibrio aminophilus DSM 12254', 'Thermanaerovibrio acidaminovorans DSM 6589', 'Aminobacterium mobile DSM 12262', 'Aminobacterium colombiense DSM 12261', 'Frateuria aurantia DSM 6220', 'Monosiga brevicollis', 'Kitasatospora cheerisanensis KCTC 2395', 'Vagococcus lutrae LBD1', 'Arabidopsis halleri subsp. gemmifera', 'Capsella rubella', 'Picrophilus torridus DSM 9790', 'Atopobium vaginae DSM 15829', 'Centipeda periodontii DSM 2778', 'Phlebiopsis gigantea 11061_1 CR5-6', 'Facklamia languida CCUG 37842', 'Paracoccus pantotrophus J46', 'Anaerovibrio lipolyticus LB2005', 'Anaeroarcus burkinensis DSM 6283', 'Trichosporon asahii', 'Pseudanabaena sp. PCC 7367', 'Streptococcus ovis DSM 16829', 'Pythium arrhenomanes ATCC 12531', 'Buttiauxella agrestis ATCC 33320', 'Budvicia aquatica DSM 5075 = ATCC 35567', 'Leminorella grimontii ATCC 33999 = DSM 5078', 'Tatumella ptyseos ATCC 33301', 'Serratia grimesii', 'Serratia plymuthica', 'Methanocaldococcus fervens AG86', 'Sulfitobacter mediterraneus', 'Prevotella brevis P6B11', 'Gordonia rhizosphera NBRC 16068', 'Myxococcus stipitatus DSM 14675', 'Linepithema humile', 'Parachlamydia acanthamoebae UV-7', 'Chlamydia psittaci 10_1398_11', 'Chlamydia abortus S26/3', 'Chlamydia felis Fe/C-56', 'Chlamydia caviae GPIC', 'Chlamydia pneumoniae TW-183', 'Chlamydia suis MD56', 'Chlamydia muridarum str. Nigg', 'Simkania negevensis Z', 'Leclercia adecarboxylata ATCC 23216 = NBRC 102595', 'Lactobacillus amylolyticus DSM 11664', 'Succinimonas amylolytica DSM 2873', 'Succinivibrio dextrinosolvens H5', 'Methanobrevibacter ruminantium M1', 'Trypanosoma conorhini', 'Methanocorpusculum labreanum Z', 'Methanoculleus bourgensis MS2', 'Clostridium autoethanogenum DSM 10061', 'Clostridium haemolyticum NCTC 9693', 'Gordonia alkanivorans NBRC 16433', 'Slackia exigua ATCC 700122', 'Slackia heliotrinireducens DSM 20476', 'Eggerthella lenta DSM 2243', 'Gemella sanguinis M325', 'Gemella bergeri ATCC 700627', 'Archaeoglobus profundus DSM 5631', 'Magnetospirillum magneticum AMB-1', 'Cryptobacterium curtum DSM 15641', 'Brachyspira intermedia PWS/A', 'Brachyspira murdochii DSM 12563', 'Hippea maritima DSM 10411', 'Lysobacter antibioticus', 'Synechococcus sp. WH 8102', 'Taylorella asinigenitalis MCE3', 'Gordonia polyisoprenivorans VH2', 'Staphylothermus hellenicus DSM 12710', 'Candidatus Odyssella thessalonicensis L13', 'Anthracocystis flocculosa', 'Moesziomyces antarcticus', 'Moesziomyces aphidis DSM 70725', 'Beutenbergia cavernae DSM 12333', 'Desulfotalea psychrophila LSv54', 'Corvus brachyrhynchos', 'Pseudarthrobacter chlorophenolicus A6', 'Clogmia albipunctata', 'Mannheimia varigena USDA-ARS-USMARC-1296', 'Plasmodium relictum', 'Thauera sp. MZ1T', 'Citrus clementina', 'Triticum dicoccoides', 'Achromobacter xylosoxidans A8', 'Bartonella tribocorum CIP 105476', 'Thermacetogenium phaeum DSM 12270', 'Sphaerulina musiva', 'Serpula lacrymans', 'Chlamydia pecorum E58', 'Cladophialophora carrionii', 'Rhinocladiella mackenziei CBS 650.93', 'Arenibacter latericius DSM 15913', 'Syntrophothermus lipocalidus DSM 12680', 'Phaseolibacter flectens ATCC 12775', 'Saccharophagus degradans 2-40', 'Mycoplasma dispar', 'Bacillus flexus T6186-2', 'Bacillus halodurans C-125', 'Propionispira raffinosivorans DSM 20765', 'Camarhynchus parvulus', 'Facklamia sourekii ATCC 700629', 'Burkholderia multivorans ATCC 17616', 'Selaginella moellendorffii', 'Treponema primitia ZAS-2', 'Eremococcus coleocola DSM 15696', 'Thermus igniterrae ATCC 700962', 'Thermus antranikianii DSM 12462', 'Dorea longicatena AGR2136', 'Cyclospora cayetanensis', 'Megaselia abdita', 'Caulobacter segnis ATCC 21756', 'Ceratocystis platani', 'Borreliella spielmanii A14S', 'Streptomyces yeochonensis CN732', 'Gordonia amicalis CCMA-559', 'Corynebacterium terpenotabidum Y-11', 'Ruegeria pomeroyi DSS-3', 'Laccaria amethystina LaAM-08-1', 'Bubalus bubalis', 'Cladophialophora bantiana CBS 173.52', 'Moraxella caprae DSM 19149', 'Oligella ureolytica DSM 18253', 'Oligella urethralis DNF00040', 'Absidia repens', 'Camelina sativa', 'Moritella marina ATCC 15381', 'Hydrogenovibrio sp. Milos-T1', 'Thiomicrorhabdus sp. Milos-T2', 'Enterovibrio calviensis 1F-211', 'Polistes canadensis', 'Synechococcus sp. PCC 7335', 'Aspergillus udagawae', 'Candidatus Paracaedibacter acanthamoebae', 'Mucor ambiguus', 'Candidatus Portiera aleyrodidarum BT-QVLC', 'Exophiala spinifera', 'Hortaea werneckii', 'Catharus ustulatus', 'Bartonella koehlerae C-29', 'Thiomicrospira aerophila AL3', 'Metarhizium album ARSEF 1941', 'Metarhizium acridum CQMa 102', 'Herbaspirillum frisingense GSF30', 'Fischerella muscicola PCC 7414', 'Ketogulonicigenium vulgare WSH-001', 'Pandoraea apista', 'Pandoraea pnomenusa', 'Pandoraea pulmonicola', 'Pandoraea sputorum', 'Pseudaminobacter salicylatoxidans KCT001', 'Edwardsiella hoshinae NBRC 105699 = ATCC 33379', 'Fervidobacterium pennivorans DSM 9078', 'Exserohilum turcicum', 'Roseivivax halodurans JCM 10272', 'Myzus cerasi', 'Thermotoga petrophila RKU-1', 'Thermotoga naphthophila RKU-10', 'Coturnix japonica', 'Cryptosporidium meleagridis', 'Thermicanus aegyptius DSM 12793', 'Shewanella sp. ANA-3', 'Rhizophagus clarus', 'Ramlibacter tataouinensis TTB310', 'Tolypocladium paradoxum', 'Mola mola', 'Dyadobacter fermentans DSM 18053', 'Bordetella petrii', 'Ochrobactrum intermedium LMG 3301', 'Besnoitia besnoiti', 'Desulfurococcus amylolyticus 1221n', 'Gavialis gangeticus', 'Helicobacter pametensis ATCC 51478', 'Burkholderia cenocepacia J2315', 'Pseudomonas sp. M1', 'Legionella fallonii LLAP-10', 'Flavobacterium psychrophilum JIP02/86', 'Salvator merianae', 'Lactobacillus hamsteri DSM 5661 = JCM 6256', 'Halobacteriovorax marinus SJ', 'Eutypa lata', 'Phaethon lepturus', 'Lactobacillus sp. ASF360', 'Clostridium sp. MD294', 'Eubacterium plexicaudatum ASF492', 'Ferroplasma acidarmanus fer1', 'Acetomicrobium mobile DSM 13181', 'Lactobacillus mucosae LM1', 'Periconia macrospinosa', 'Bacillus sp. OxB-1', 'Drechmeria coniospora', 'Mycolicibacterium septicum DSM 44393', 'Phlebia centrifuga', 'Pyrobaculum oguniense TE7', 'Hammondia hammondi', 'Flavobacterium frigidarium DSM 17623', 'Calothrix sp. PCC 7507', 'Spermophilus dauricus', 'Tetraodon nigroviridis', 'Austwickia chelonae NBRC 105200', 'Onion yellows phytoplasma', 'Chloroherpeton thalassium ATCC 35110', 'Verticillium longisporum', 'Madurella mycetomatis', 'Falco tinnunculus', 'Wolbachia endosymbiont of Onchocerca ochengi', 'Fusarium pseudograminearum CS3096', 'Choanephora cucurbitarum', 'Hesseltinella vesiculosa', 'Bipolaris oryzae', 'Methanomethylovorans hollandica DSM 15978', 'Trichoderma asperellum CBS 433.97', 'Saprolegnia parasitica CBS 223.65', 'Aequorivita sublithincola DSM 14238', 'Trichophyton interdigitale H6', 'Candidatus Blochmannia pennsylvanicus str. BPEN', 'Burkholderia ubonensis MSMB22', 'Tetrasphaera elongata Lp2', 'Glarea lozoyensis ATCC 20868', 'Prunus mume', 'Stanieria cyanosphaera PCC 7437', 'Xenococcus sp. PCC 7305', 'Leptolyngbya sp. PCC 7375', 'Desulfallas gibsoniae DSM 7213', 'Solobacterium moorei DSM 22971', 'Gloeocapsa sp. PCC 73106', 'Cyanobacterium stanieri PCC 7202', 'Streptococcus infantarius subsp. infantarius CJ18', 'Proteus penneri ATCC 35198', 'Streptococcus didelphis DSM 15616', 'Acromyrmex echinatior', 'Vavraia culicis subsp. floridensis', 'Gleimia coleocanis DSM 15436', 'Actinomyces urogenitalis DSM 15434', 'Nostoc sp. PCC 7120 = FACHB-418', 'Pogona vitticeps', 'Saccharothrix espanaensis DSM 44229', 'Saccharothrix syringae', 'Riemerella columbina DSM 16469', 'Rhodococcus pyridinivorans SB3094', 'Bordetella hinzii ATCC 51730', 'Oscillochloris trichoides DG-6', 'Penicillium brasilianum', 'Postia placenta Mad-698-R', 'Gloeophyllum trabeum', 'Camponotus floridanus', 'Serratia sp. ATCC 39006', 'Helicobacter suis HS1', 'Cryptococcus amylolentus', 'Adineta vaga', 'Nothobranchius furzeri', 'Ralstonia mannitolilytica', 'Streptacidiphilus neutrinimicus', 'Streptacidiphilus carbonis', 'Streptacidiphilus albus', 'Desulfohalotomaculum alkaliphilum DSM 12257', 'Valsa mali var. pyri', 'Methylibium petroleiphilum PM1', 'Epicoccum nigrum', 'Cryptotermes secundus', 'Anaerostipes caccae DSM 14662', 'Leucosporidium creatinivorum', 'Frankia casuarinae', 'Thermoanaerobacter siderophilus SR4', 'Maylandia zebra', 'Pseudoflavonifractor capillosus ATCC 29799', 'Cupriavidus necator H16', 'Ensifer adhaerens OV14', 'Acinetobacter bereziniae', 'Acinetobacter guillouiae NIPH 991', 'Acinetobacter sp. RUH2624', 'Chelonoidis abingdonii', 'Tenacibaculum maritimum NCIMB 2154', 'Methylosinus sp. LW3', 'Methylosinus sp. PW1', 'Opitutus terrae PB90-1', 'Thermanaerovibrio velox DSM 12556', 'Thermoanaerobacter italicus Ab9', 'Corynebacterium falsenii DSM 44353', 'Coprothermobacter platensis DSM 11748', 'Acinetobacter ursingii DSM 16037 = CIP 107286', 'Acinetobacter schindleri NIPH 900', 'Rickettsia monacensis', 'Hippocampus comes', 'Anaerovorax odorimutans DSM 5092', 'Leptotrichia trevisanii DSM 22070', 'Varroa destructor', 'Myotis brandtii', 'Galerina marginata CBS 339.88', 'Spizellomyces punctatus', 'Lactobacillus jensenii 115-3-CHN', 'Batrachochytrium dendrobatidis JAM81', 'Catenaria anguillulae PL171', 'Serendipita vermifera MAFF 305830', 'Nocardioides sp. CF8', 'Sinorhizobium medicae WSM419', 'Gregarina niphandrodes', 'Pelotomaculum thermopropionicum SI', 'Mycolicibacterium vanbaalenii PYR-1', 'Synechococcus sp. CC9605', 'Synechococcus sp. CC9616', 'Eragrostis tef', 'Porphyromonas gulae', 'Muricauda ruestringensis DSM 13258', 'Bartonella birtlesii E11', 'Kineosphaera limosa NBRC 100340', 'Leptolyngbya sp. PCC 7376', 'Sulfurisphaera tokodaii str. 7', 'Ignatzschineria larvae DSM 13226', 'Aphanomyces astaci', 'Saprolegnia diclina', 'Anopheles minimus', 'Ramularia collo-cygni', 'Enterococcus villorum ATCC 700913', 'Streptococcus australis ATCC 700641', 'Pseudocercospora musae', 'Pseudoramibacter alactolyticus ATCC 23263', 'Melitaea cinxia', 'Bradyrhizobium sp. Tv2a-2', 'Scleropages formosus', 'Actinoplanes globisporus DSM 43857', 'Tetrapisispora phaffii CBS 4417', 'Geoglobus ahangari', 'Dichomitus squalens LYAD-421 SS1', 'Candidatus Carsonella ruddii DC', 'Cordyceps fumosorosea ARSEF 2679', 'Saccharomyces kudriavzevii', 'Saccharomyces mikatae', 'Bradyrhizobium sp. ORS 278', 'Methylobacterium nodulans ORS 2060', 'Alkaliphilus transvaalensis ATCC 700919', 'Streptococcus orisratti DSM 15617', 'Streptomyces auratus AGR0001', 'Mycoplasmopsis columbinum SF7', 'Phoronis australis', 'Globisporangium iwayamae', 'Coprococcus catus GD/7', 'Lactobacillus psittaci DSM 15354', 'Cryptosporidium andersoni', 'Tilletia walkeri', 'Fusarium verticillioides', 'Sphingopyxis alaskensis RB2256', 'Denitrovibrio acetiphilus DSM 12809', 'Pleurocapsa sp. PCC 7319', 'Pseudanabaena sp. PCC 6802', 'Picoides pubescens', 'Beauveria brongniartii RCEF 3172', 'Oscillatoria acuminata PCC 6304', 'Arthrospira platensis NIES-39', 'Nicotiana noctiflora var. noctiflora', 'Bulleidia extructa W1219', 'Lipotes vexillifer', 'Cupriavidus metallidurans CH34', 'Pseudothermotoga thermarum DSM 5069', 'Syntrophobacter fumaroxidans MPOB', 'Microcoleus vaginatus FGP-2', 'Bacillus sonorensis L12', 'Marinomonas mediterranea MMB-1', 'Ustilago hordei Uh4857-4', 'Brucella pinnipedialis B2/94', 'Brucella ceti M644/93/1', 'Roseiflexus castenholzii DSM 13941', 'Ferrimicrobium acidiphilum DSM 19497', 'Helicocarpus griseus UAMH5409', 'Schaalia suimastitidis DSM 15538', 'Pediculus humanus corporis', 'Pyrobaculum arsenaticum DSM 13514', 'Sphingobium xenophagum QYY', 'Tauraco erythrolophus', 'Pannonibacter phragmitetus DSM 14782', 'Photobacterium sp. SKA34', 'Paracoccidioides brasiliensis', 'Diaphorina citri', 'Pseudomonas psychrophila HA-4', 'Cercospora beticola', 'Alicyclobacillus herbarius DSM 13609', 'Oryzias javanicus', 'Helicobacter canadensis MIT 98-5491', 'Bordetella trematum', 'Nocardiopsis xinjiangensis YIM 90004', 'Thiolinea disciformis DSM 14473', 'Thiofilum flexile DSM 14609', 'Drosophila biarmipes', 'Halodesulfovibrio aestuarii DSM 10141', 'Providencia alcalifaciens DSM 30120', 'Thermotoga sp. RQ7', 'Thermotoga sp. RQ2', 'Strigamia maritima', 'Nipponia nippon', 'Catelliglobosispora koreensis DSM 44566', 'Drosophila santomea', 'Phytophthora lateralis MPF4', 'Arthrospira maxima CS-328', 'Carboxydothermus hydrogenoformans Z-2901', 'Halobiforma nitratireducens JCM 10879', 'Galdieria sulphuraria', 'Corynebacterium capitovis DSM 44611', 'Schaalia turicensis ACS-279-V-Col4', 'Thiomicrorhabdus arctica DSM 13458', 'Kineococcus radiotolerans SRS30216 = ATCC BAA-149', 'Bombus impatiens', 'Candidatus Glomeribacter gigasporarum BEG34', 'Nocardia veterana NBRC 100344', 'Anser brachyrhynchus', 'Pteropus vampyrus', 'Rhodococcus jostii RHA1', 'Exiguobacterium antarcticum B7', 'Citrobacter youngae ATCC 29220', 'Caldilinea aerophila DSM 14535 = NBRC 104270', 'Nitrosococcus halophilus Nc 4', 'Methylocapsa acidiphila B2', 'Frankliniella occidentalis', 'Leisingera methylohalidivorans DSM 14336', 'Olsenella uli DSM 7084', 'Phytomonas sp. isolate EM1', 'Phytomonas sp. isolate Hart1', 'Corynebacterium freneyi DNF00450', 'Acinetobacter parvus NIPH 1103', 'Acinetobacter gyllenbergii NIPH 230', 'Paraburkholderia fungorum', 'Ministeria vibrans', 'Actinoplanes sp. SE50/110', 'Ureaplasma parvum serovar 3 str. ATCC 27815', 'Selenomonas flueggei ATCC 43531', 'Selenomonas infelix ATCC 43532', 'Selenomonas noxia ATCC 43541', 'Paenibacillus daejeonensis DSM 15491', 'Nocardia cyriacigeorgica GUH-2', 'Geobacillus vulcani PSS1', 'Idiomarina loihiensis L2TR', 'Caenorhabditis brenneri', 'Bacillus endophyticus 2102', 'Zootermopsis nevadensis', 'Thermocrinis albus DSM 14484', 'Knoellia sinensis KCTC 19936', 'Mycoplasma haemocanis str. Illinois', 'Kocuria polaris', 'Atopobacter phocae ATCC BAA-285', 'Leuconostoc kimchii IMSNU 11154', 'Methylosinus sp. LW4', 'Weissella cibaria KACC 11862', 'Facklamia ignava CCUG 37419', 'Granulicatella elegans ATCC 700633', 'Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)', 'Candidatus Regiella insecticola LSR1', "Serratia symbiotica str. 'Cinara cedri'", 'Blastococcus saxobsidens DD2', 'Helicobacter cetorum MIT 00-7128', 'Olsenella profusa F0195', 'Sistotremastrum niveocremeum HHB9708', 'Isoptericola variabilis 225', 'Plicaturopsis crispa FD-325 SS-3', 'Teleopsis dalmanni', 'Anopheles culicifacies', 'Shimazuella kribbensis DSM 45090', 'Lachnobacterium bovis', 'Nicotiana cordifolia', 'Candidatus Mycoplasma haemolamae str. Purdue', 'Nocardiopsis kunsanensis DSM 44524', 'Cylindrospermum stagnale PCC 7417', 'Desulfitobacterium metallireducens DSM 15288', 'Zobellia uliginosa', 'Filifactor alocis ATCC 35896', 'Eubacterium sulci ATCC 35585', 'Diuraphis noxia', 'Sipha flava', 'Pogonomyrmex barbatus', 'Mobiluncus holmesii ATCC 35242', 'Leifsonia aquatica H1aii', 'Stegastes partitus', 'Methanothermobacter thermautotrophicus str. Delta H', 'Methanothermobacter marburgensis str. Marburg', 'Rathayibacter toxicus DSM 7488', 'Thermosynechococcus elongatus BP-1', 'Halorhabdus utahensis DSM 12940', 'Pseudoloma neurophilia', 'Salinibacter ruber DSM 13855', 'Streptomyces griseofuscus', 'Azovibrio restrictus DSM 23866', 'Azospira oryzae PS', 'Collinsella stercoris DSM 13279', 'Collinsella intestinalis DSM 13280', 'Agrobacterium albertimagni AOL15', 'Thiomicrospira cyclica ALM1', 'Limnospira indica PCC 8005', 'Paracoccus yeei ATCC BAA-599', 'Carnobacterium inhibens subsp. gilichinskyi', 'Lactobacillus iners AB-1', 'Magnaporthiopsis poae', 'Pyricularia grisea', 'Paraburkholderia phymatum STM815', 'Lactobacillus ingluviei str. Autruche 4', 'Sulfuricurvum kujiense DSM 16994', 'Lactobacillus kunkeei', 'Wallemia sebi', 'Streptococcus urinalis 2285-97', 'Phialocephala scopiformis', 'Marinitoga piezophila KA3', 'Streptococcus lutetiensis 033', 'Halonatronum saccharophilum DSM 13868', 'Gemella cuniculi DSM 15828', 'Sporothrix insectorum RCEF 264', 'Escovopsis weberi', 'Pseudomonas sp. MT-1', 'Treponema azotonutricium ZAS-9', 'Pseudoalteromonas ruthenica CP76', 'Bacteroides coprosuis DSM 18011', 'Afipia birgiae 34632', 'Xenophilus azovorans DSM 13620', 'Pseudopedobacter saltans DSM 12145', 'Chloroflexus aggregans DSM 9485', 'Lactobacillus suebicus DSM 5007 = KCTC 3549', 'Thioalkalivibrio thiocyanoxidans ARh 4', 'Burkholderia ambifaria AMMD', 'Burkholderia dolosa PC543', 'Sphingomonas melonis DAPP-PG 224', 'Corynebacterium efficiens YS-314', 'Desulforegula conservatrix Mb1Pa', 'Oceanicaulis alexandrii DSM 11625', 'Alysiella crassa DSM 2578', 'Conchiformibius steedae DSM 2580', 'Kozakia baliensis', 'Moniliophthora perniciosa FA553', 'Sporocytophaga myxococcoides', 'Nitrosomonas sp. AL212', 'Hungatella hathewayi DSM 13479', 'Turicibacter sanguinis PC909', 'Thiorhodospira sibirica ATCC 700588', 'Trametes pubescens', 'Enterococcus phoeniculicola ATCC BAA-412', 'Cellvibrio japonicus Ueda107', 'Bartonella bovis 91-4', 'Bacillus toyonensis BCT-7112', 'Gallibacterium genomosp. 1', 'Enterococcus moraviensis ATCC BAA-383', 'Enterococcus haemoperoxidus ATCC BAA-382', 'Streptococcus entericus DSM 14446', 'Methanothermococcus okinawensis IH1', 'Caulobacter vibrioides NA1000', 'Actinokineospora enzanensis DSM 44649', 'Acaryochloris marina MBIC11017', 'Anaeroglobus geminatus F0357', 'Tulasnella calospora MUT 4182', 'Cyanistes caeruleus', 'Alteromonadales bacterium TW-7', 'Flavobacteria bacterium BBFL7', 'Dysgonomonas gadei ATCC BAA-286', 'Corynebacterium imitans', 'Aphanomyces invadans', 'Jeotgalicoccus psychrophilus DSM 19085', 'Helicobacter winghamensis ATCC BAA-430', 'Leptomonas pyrrhocoris', 'Leptotrichia wadei F0279', 'Leptotrichia hofstadii F0254', 'Leptotrichia shahii DSM 19757', 'Leptotrichia goodfellowii F0264', 'Pseudomonas parafulva NBRC 16636 = DSM 17004', 'Pseudomonas cremoricolorata', 'Vigna radiata var. radiata', 'Phaeomoniella chlamydospora', 'Chromohalobacter salexigens DSM 3043', 'Hahella chejuensis KCTC 2396', 'Folsomia candida', 'Betta splendens', 'Cedecea davisae DSM 4568', 'Novosphingobium resinovorum', 'Trametes coccinea BRFM310', 'Diaporthe helianthi', 'Bifidobacterium scardovii', 'Terrapene carolina triunguis', 'Cedecea neteri', 'Enterobacter sp. MGH 2', 'Megamonas hypermegale DSM 1672', 'Providencia rustigianii DSM 4541', 'Trabulsiella guamensis ATCC 49490', 'Yokenella regensburgei ATCC 43003', 'Collimonas fungivorans Ter331', 'Roseibacterium elongatum DSM 19469', 'Embleya scabrispora DSM 41855', 'Paraburkholderia sacchari', 'Paenibacillus terrae HPL-003', 'Thalassiosira oceanica', 'Microbacterium gubbeenense DSM 15944', 'Nanoarchaeum equitans Kin4-M', 'Ignicoccus hospitalis KIN4/I', 'Corynebacterium casei LMG S-19264', 'Enterococcus gilvus ATCC BAA-350', 'Enterococcus pallens ATCC BAA-351', 'Sphingomonas wittichii RW1', 'Paenibacillus borealis', 'Acidithiobacillus ferrivorans SS3', 'Auricularia delicata', 'Thermodesulfobacterium hydrogeniphilum', 'Planococcus antarcticus DSM 14505', 'Anaeromyxobacter dehalogenans 2CP-C', 'Erythrobacter sp. SD-21', 'Amphiprion percula', 'Corynebacterium kroppenstedtii DSM 44385', 'Corynebacterium lipophiloflavum DSM 44291', 'Corynebacterium mastitidis DSM 44356', 'Corynebacterium camporealensis', 'Corynebacterium singulare', 'Beta vulgaris', 'Aspergillus nidulans FGSC A4', 'Thermococcus cleftensis', 'Wolbachia endosymbiont of Drosophila melanogaster', 'Dysgonomonas mossii DSM 22836', 'Algicola sagamiensis DSM 14643', 'Anabaena sp. PCC 7108', 'Phytophthora ramorum', 'Lactobacillus fuchuensis DSM 14340 = JCM 11249', 'Vulcanisaeta distributa DSM 14429', 'Blattabacterium sp. (Cryptocercus punctulatus) str. Cpu', 'Cupriavidus taiwanensis LMG 19424', 'Mycobacterium sp. MCS', 'Mycobacterium sp. JLS', 'Weissella koreensis KACC 15510', 'Prevotella copri DSM 18205', 'Bartonella schoenbuchensis m07a', 'Synechococcus sp. WH 8109', 'Synechococcus sp. WH 8016', 'Roseburia intestinalis L1-82', 'Thermobaculum terrenum ATCC BAA-798', 'Pseudoalteromonas translucida TAC125', 'Allofustis seminis DSM 15817', 'Ilyobacter polytropus DSM 2926', 'Anaerolinea thermophila UNI-1', 'Candidatus Ishikawaella capsulata Mpkobe', 'Marvinbryantia formatexigens DSM 14469', 'Laribacter hongkongensis HLHK9', 'Salinispora tropica CNB-440', 'Salinispora arenicola CNS-205', 'Legionella drancourtii LLAP12', 'Metarhizium guizhouense ARSEF 977', 'Gelidibacter mesophilus DSM 14095', 'Novosphingobium tardaugens NBRC 16725', 'Exiguobacterium undae DSM 14481', 'Corynebacterium aurimucosum ATCC 700975', 'Anaerotruncus colihominis DSM 17241', 'Saccharospirillum impatiens DSM 12546', 'Clostridium saccharobutylicum DSM 13864', 'Paenibacillus stellifer', 'Epichloe aotearoae', 'Staphylococcus pettenkoferi VCU012', 'Vibrio brasiliensis LMG 20546', 'Vibrio kanaloae 5S-149', 'Methanosarcina lacustris Z-7289', 'Sulfurihydrogenibium subterraneum DSM 15120', 'Halosimplex carlsbadense 2-9-1', 'Mycoplasma anatis 1340', 'Mycoplasma cynos C142', 'Tistrella mobilis KA081020-065', 'Mycoplasma ovis str. Michigan', 'Oceanobacillus picturae', 'Thermodesulfatator indicus DSM 15286', 'Rothia aeria F0184', 'Elizabethkingia miricola', 'Thermococcus sibiricus MM 739', 'Bradyrhizobium sp. th.b2', 'Meiothermus taiwanensis DSM 14542', 'Echeneis naucrates', 'Brachybacterium paraconglomeratum LC44', 'Methylobacter tundripaludum SV96', 'Gemmatimonas aurantiaca T-27', 'Gordonia sihwensis NBRC 108236', 'Ordospora colligata OC4', 'Allobaculum stercoricanis DSM 13633', 'Gordonia paraffinivorans NBRC 108238', 'Thermaerobacter subterraneus DSM 13965', 'Buceros rhinoceros', 'Nestor notabilis', 'Streptococcus sinensis', 'Pseudoalteromonas agarivorans S816', 'Beauveria bassiana', 'Halomonas halocynthiae DSM 14573', 'Lactobacillus malefermentans DSM 5705 = KCTC 3548', 'Python bivittatus', 'Coniochaeta ligniaria NRRL 30616', 'Anaerophaga thermohalophila DSM 12881', 'Pseudothermotoga lettingae TMO', 'Shuttleworthia satelles DSM 14600', 'Facklamia hominis ACS-120-V-Sch10', 'Leptospirillum ferriphilum ML-04', 'Pisolithus microcarpus 441', 'Acetobacter malorum', 'Clostridium colicanis 209318', 'Alicycliphilus denitrificans K601', 'Culicoides sonorensis', 'Sphingomonas elodea ATCC 31461', 'Rhizopogon vesiculosus', 'Cyanobium sp. PCC 7001', 'Robinsoniella peoriensis', 'Salinisphaera shabanensis E1L3A', 'Proteocatella sphenisci DSM 23131', 'Carnobacterium pleistocenium FTR1', 'Pseudopodoces humilis', 'Salarias fasciatus', 'Pyrobaculum calidifontis JCM 11548', 'Schaalia cardiffensis F0333', 'Cyanoderma ruficeps', 'Desulfococcus oleovorans Hxd3', 'Lactobacillus coleohominis 101-4-CHN', 'Pseudodesulfovibrio aespoeensis Aspo-2', 'Erwinia billingiae Eb661', 'Rubritepida flocculans DSM 14296', 'Kribbella flavida DSM 17836', 'Oceanobacillus iheyensis HTE831', 'Oryzias sinensis', 'Stemphylium lycopersici', 'Pseudo-nitzschia multistriata', 'Pseudomonas mediterranea CFBP 5447', 'Schaalia vaccimaxillae DSM 15804', 'Thermodesulfobium narugense DSM 14796', 'Thermoproteus uzoniensis 768-20', 'Crocinitomix catalasitica ATCC 23190', 'Varibaculum cambriense DORA_20', 'Knoellia subterranea KCTC 19937', 'Corallococcus coralloides DSM 2259', 'Desulfovibrio magneticus RS-1', 'Prevotella oryzae DSM 17970', 'Prevotella paludivivens DSM 17968 = JCM 13650', 'Paludibacter propionicigenes WB4', 'Chrysochloris asiatica', 'Fragilariopsis cylindrus CCMP1102', 'Xylanimonas cellulosilytica DSM 15894', 'Marinithermus hydrothermalis DSM 14884', 'Candidatus Baumannia cicadellinicola', 'Bartonella washoeensis Sb944nv', 'Thioalkalivibrio nitratireducens DSM 14787', 'Sneathia amnii', 'Oceanithermus profundus DSM 14977', 'Caldithrix abyssi DSM 13497', 'Methylocystis sp. SC2', 'Labrenzia aggregata IAM 12614', 'Megasphaera micronuciformis F0359', 'Acidaminococcus intestini RyC-MR95', 'Veillonella montpellierensis DNF00314', 'Chlamydotis macqueenii', 'Paracoccus zeaxanthinifaciens ATCC 21588', 'Pediococcus claussenii ATCC BAA-344', 'Thalassolituus oleivorans MIL-1', 'Thermococcus gammatolerans EJ3', 'Mitsuokella jalaludinii DSM 13811', 'Enterovibrio norvegicus FF-33', 'Leptosomus discolor', 'Egretta garzetta', 'Dermacoccus sp. Ellin185', 'Oleispira antarctica RB-8', 'Cetobacterium somerae ATCC BAA-474', 'Candidatus Tremblaya princeps PCIT', 'Paenibacillus graminis', 'Paenibacillus odorifer', 'Babesia ovata', 'Paenibacillus elgii B69', 'Prevotella marshii DSM 16973 = JCM 13450', 'Prevotella micans F0438', 'Bradyrhizobium sp. Ec3.3', 'Mycobacterium sp. KMS', 'Actinotignum urinale DSM 15805', 'Idiomarina baltica OS145', 'Vibrio coralliilyticus ATCC BAA-450', 'Desulfovibrio hydrothermalis AM13 = DSM 14728', 'Rhodococcus aetherivorans', 'Leifsonia rubra CMS 76R', 'Conexibacter woesei DSM 14684', 'Epilithonimonas tenax DSM 16811', 'Fluviicola taffensis DSM 16823', 'Corynebacterium atypicum', 'Plesiocystis pacifica SIR-1', 'Lynx pardinus', 'Chthoniobacter flavus Ellin428', 'Shewanella denitrificans OS217', 'Rhodoferax ferrireducens T118', 'Capsaspora owczarzaki ATCC 30864', 'Streptomyces niveus NCIMB 11891', 'Lactobacillus versmoldensis DSM 14857 = KCTC 3814', 'Athene cunicularia', 'Cardiobacterium valvarum F0432', 'Sphingomonas sp. ATCC 31555', 'Sinorhizobium americanum CCGM7', 'Chroomonas mesostigmatica CCMP1168', 'Haematobacter massiliensis', 'Synechococcus sp. PCC 7336', 'Synechococcus sp. PCC 6312', 'Thermococcus nautili', 'Gillisia limnaea DSM 15749', 'Caldimonas manganoxidans ATCC BAA-369', 'Microdochium bolleyi', 'Nocardioides sp. JS614', 'Caballeronia sordidicola', 'Bradyrhizobium sp. Ai1a-2', 'Porphyrobacter cryptus DSM 12079', 'Actinoplanes friuliensis DSM 7358', 'Deferribacter desulfuricans SSM1', 'Alkanindiges illinoisensis DSM 15370', 'Paraglaciecola mesophila KMM 241', 'Psychroflexus tropicus DSM 15496', 'Haemophilus aegyptius ATCC 11116', 'Streptococcus pasteurianus ATCC 43144', 'Candidatus Pelagibacter ubique HTCC7217', 'Anoxybacillus gonensis', 'Talaromyces verruculosus', 'Calidris pugnax', 'Candidatus Paraburkholderia kirkii UZHbot1', 'Coccidioides posadasii RMSCC 3488', 'Microbacterium paraoxydans 77MFTsu3.2', 'Methylocella silvestris BL2', 'Anopheles epiroticus', 'Nicotiana obtusifolia', 'Caldisphaera lagunensis DSM 15908', 'Pseudomonas poae RE*1-1-14', 'Strix occidentalis caurina', 'Lysinibacillus odysseyi 34hs-1 = NBRC 100172', 'Jaapia argillacea MUCL 33604', 'Punctularia strigosozonata', 'Sulfurimonas autotrophica DSM 16294', 'Actinobaculum massiliense ACS-171-V-Col2', 'Acinetobacter baylyi ADP1', 'Acinetobacter bouvetii DSM 14964 = CIP 107468', 'Acinetobacter gerneri', 'Acinetobacter tandoii', 'Acinetobacter tjernbergiae', 'Acinetobacter towneri', 'Tepidiphilus margaritifer DSM 15129', 'Longispora albida DSM 44784', 'Candidatus Blochmannia floridanus', 'Melampsora larici-populina 98AG31', 'Dickeya dadantii 3937', 'Dickeya zeae Ech586', 'Alicyclobacillus pomorum DSM 14955', 'Bacteroides massiliensis B84634 = Timone 84634 = DSM 17679 = JCM 13223', 'Roseomonas cervicalis ATCC 49957', 'Herminiimonas arsenicoxydans', 'Nitratireductor aquibiodomus NL21 = JCM 21793', 'Mastacembelus armatus', 'Novosphingobium pentaromativorans US6-1', 'Panicum hallii', 'Gymnopus luxurians FD-317 M1', 'Sulfurovum lithotrophicum', 'Bermanella marisrubri', 'Neptuniibacter caesariensis', 'Parvularcula bermudensis HTCC2503', 'Alkaliphilus metalliredigens QYMF', 'Puccinia triticina 1-1 BBBD Race 1', 'Amycolatopsis japonica', 'Amycolatopsis balhimycina FH 1894', 'Amycolatopsis vancoresmycina', 'Plasmodium coatneyi', 'Carnobacterium sp. 17-4', 'Fomitiporia mediterranea', 'Escherichia albertii KF1', 'Nocardia niigatensis NBRC 100131', 'Chaetomium thermophilum', "Candidatus Mycoplasma haemominutum 'Birmingham 1'", 'Marinobacter lipolyticus SM19', 'Afifella pfennigii DSM 17143', 'Corchorus capsularis', 'Nymphaea colorata', 'Thiorhodococcus drewsii AZ1', 'Sandarakinorhabdus limnophila DSM 17366', 'Parambassis ranga', 'Hanseniaspora opuntiae', 'Allokutzneria albata', 'Conchiformibius kuhniae DSM 17694', 'Accipiter nisus', 'Colwellia piezophila ATCC BAA-637', 'Mycobacterium sp. JS623', 'Exophiala mesophila', 'Halomonas campaniensis', 'Shewanella waksmanii ATCC BAA-643', 'Subdoligranulum variabile DSM 15176', 'Anaerofustis stercorihominis DSM 17244', 'Alistipes finegoldii DSM 17242', 'Komagataeibacter rhaeticus AF1', 'Exophiala oligosperma', 'Acaromyces ingoldii', 'Larimichthys crocea', 'Treponema caldarium DSM 7334', 'Erwinia sp. Ejp617', 'Thermomonas fusca DSM 15424', 'Roseovarius mucosus DSM 17069', 'Enhygromyxa salina', 'Dinoroseobacter shibae DFL 12 = DSM 16493', 'Pseudomonas rhizosphaerae', 'Polaromonas naphthalenivorans CJ2', 'Stenotrophomonas rhizophila', 'Bifidobacterium longum NCC2705', 'Spiroplasma chrysopicola DF-1', 'Spiroplasma culicicola AES-1', 'Spiroplasma diminutum CUAS-1', 'Spiroplasma sabaudiense Ar-1343', 'Spiroplasma syrphidicola EA-1', 'Clostridium carboxidivorans P7', 'Microvirga flocculans ATCC BAA-817', 'Marinospirillum insulare DSM 21763', 'Neomegalonema perideroedes DSM 15528', 'Fulvimarina pelagi HTCC2506', 'Anoplophora glabripennis', 'Bifidobacterium psychraerophilum', 'Bacillus vietnamensis', 'Dialister invisus DSM 15470', 'Aquilegia coerulea', 'Brachybacterium muris UCD-AY4', 'Micromonospora sp. ATCC 39149', 'Aeromicrobium marinum DSM 15272', 'Rhodanobacter fulvus Jip2', 'Gemmobacter nectariphilus DSM 15620', 'Bathymodiolus platifrons', 'Bacillus bataviensis LMG 21833', 'Bacillus vireti LMG 21834', 'Thalassospira xiamenensis M-5 = DSM 17429', 'Treponema putidum', 'Kordia algicida OT-1', 'Moniliophthora roreri', 'Mastigocladopsis repens PCC 10914', 'Synechococcus sp. RS9916', 'Synechococcus sp. RS9917', 'Polytolypa hystricis UAMH7299', 'Phaeobacter inhibens DSM 17395', 'Frankia elaeagni', 'Natrinema altunense', 'Kocuria marina', 'Phaeoacremonium minimum', 'Halomonas boliviensis LC1', 'Hymenobacter norwichensis DSM 15439', 'Exiguobacterium oxidotolerans JCM 12280', 'Methylorubrum populi BJ001', 'Buteo japonicus', 'Methanobrevibacter sp. AbM4', 'Pyrus x bretschneideri', 'Lottia gigantea', 'Geobacter bemidjiensis Bem', 'Geopsychrobacter electrodiphilus DSM 16401', 'Enhydrobacter aerosaccus SK60', 'Corynebacterium halotolerans YIM 70093 = DSM 44683', 'Erysiphe pulchra', 'Myotis davidii', 'Sulfitobacter indolifex HEL-45', 'Yaniella halotolerans DSM 15476', 'Paenibacillus sanguinis 2301083 = DSM 16941', 'Paenibacillus massiliensis 2301065 = DSM 16942', 'Fictibacillus gelatini DSM 15865', 'Comamonas aquatica NBRC 14918', 'Aestuariibacter salexigens DSM 15300', 'Salvia miltiorrhiza', 'Algoriphagus mannitolivorans DSM 15301', 'Rickettsia heilongjiangensis 054', 'Grosmannia clavigera kw1407', 'Bigelowiella natans', 'Corynebacterium ciconiae DSM 44920', 'Lactobacillus antri DSM 16041', 'Lactobacillus ultunensis DSM 16047', 'Paenibacillus lactis 154', 'Nocardia higoensis NBRC 100133', 'Nocardia pneumoniae NBRC 100136', 'Prevotella shahii DSM 15611 = JCM 12083', 'Prevotella salivae DSM 15606', 'Thermovibrio ammonificans HB-1', 'Arenibacter certesii DSM 19833', 'Flavobacterium frigoris PS1', 'Arsenicicoccus bolidensis DSM 15745', "Aster yellows witches'-broom phytoplasma AYWB", 'Streptococcus minor DSM 17118', 'Halobiforma lacisalsi AJ5', 'Aeropyrum camini SY1 = JCM 12091', 'Methylophaga aminisulfidivorans MP', 'Scardovia wiggsiae F0424', 'Lactobacillus rossiae DSM 15814', 'Saccharibacter floricola DSM 15669', 'Streptococcus devriesei DSM 19639', 'Beijerinckia mobilis', 'Desulfobulbus japonicus DSM 18378', 'Dyella japonica A8', 'Phanerochaete carnosa HHB-10118-sp', 'Belliella baltica DSM 15883', 'Effusibacillus pohliae DSM 22757', 'Halomonas alkaliantarctica', 'Synechococcus sp. CB0101', 'Acidovorax sp. JS42', 'Desulfitobacterium dichloroeliminans LMG P-21439', 'Candidatus Kinetoplastibacterium blastocrithidii (ex Strigomonas culicis)', 'Candidatus Midichloria mitochondrii IricVA', 'Corynebacterium caspium DSM 44850', 'Pseudoalteromonas sp. SM9913', 'Amanita thiersii Skay4041', 'Streptacidiphilus jiangxiensis', 'Alcanivorax sp. DG881', 'Marinobacter algicola DG893', 'Diplodia corticola', 'Chryseobacterium formosense', 'Candidatus Scalindua brodae', 'Lactobacillus kitasatonis DSM 16761 = JCM 1039', 'Oribacterium sinus F0268', 'Pseudomonas alkylphenolica', 'Pseudomonas psychrotolerans L19', 'Erythrobacter sp. NAP1', 'Lactobacillus vini DSM 20605', 'Akkermansia muciniphila ATCC BAA-835', 'Nocardiopsis valliformis DSM 45023', 'Nocardiopsis ganjiahuensis DSM 45031', 'Mycobacterium parascrofulaceum ATCC BAA-614', 'Pterocles gutturalis', 'Woodsholea maritima DSM 17123', 'Halobacillus dabanensis', 'Pseudonocardia dioxanivorans CB1190', 'Crinalium epipsammum PCC 9333', 'Helcococcus sueciensis DSM 17243', 'Amazona collaria', 'Ostreococcus lucimarinus CCE9901', 'Xenoturbella bocki', 'Acidilobus saccharovorans 345-15', 'Prevotella bergensis DSM 17361', 'Thioalkalivibrio thiocyanodenitrificans ARhD 1', 'Burkholderia sp. Ch1-1', 'Pseudomonas lutea', 'Methylohalobius crimeensis 10Ki', 'Klebsiella variicola UCI 18', 'Cynoglossus semilaevis', 'Thiocapsa marina 5811', 'Candidatus Paracaedimonas acanthamoebae', 'Candidatus Paracaedibacter symbiosus', 'Hoeflea phototrophica DFL-43', 'Nautilia profundicola AmH', 'Fictibacillus macauensis ZFHKF-1', 'Wallemia ichthyophaga', 'Yoonia vestfoldensis SKA53', "Acidomyces sp. 'richmondensis'", 'Enterococcus italicus DSM 15952', 'Bacillus bogoriensis ATCC BAA-922', 'Wolbachia endosymbiont of Cimex lectularius', 'Staphylococcus equorum subsp. equorum Mu2', 'Tupaia chinensis', 'Bacteroides cellulosilyticus WH2', 'Thermococcus sp. AM4', 'Serinicoccus marinus DSM 15273', 'Candidatus Jettenia caeni', 'Cupriavidus pinatubonensis JMP134', 'Mucispirillum schaedleri ASF457', 'Psychrobacter aquaticus CMS 56', 'Nocardia testacea NBRC 100365', 'Coccomyxa subellipsoidea', 'Cardinium endosymbiont cEper1 of Encarsia pergandiella', 'Deinococcus frigens DSM 12807', 'Deinococcus marmoris DSM 12784', 'Candidatus Blochmannia vafer str. BVAF', 'Candidatus Blochmannia chromaiodes str. 640', 'Pseudomonas syringae pv. tomato str. DC3000', 'Oceanicola granulosus HTCC2516', 'Robiginitalea biformata HTCC2501', 'Vibrio ezurae NBRC 102218', 'Saccharomyces boulardii (nom. inval.)', 'Clytia hemisphaerica', 'Mahella australiensis 50-1 BON', 'Paraburkholderia phenoliruptrix BR3459a', 'Natronolimnohabitans innermongolicus JCM 12255', 'Ethanoligenens harbinense YUAN-3', 'Owenweeksia hongkongensis DSM 17368', 'Verruconis gallopava', 'Streptomyces sp. C', 'Fonsecaea monophora', 'Solimonas variicoloris DSM 15731', 'Bacillus fordii DSM 16014 = CIP 108821', 'Streptococcus castoreus DSM 17536', 'Paeniglutamicibacter gangotriensis Lz1y', 'Arcobacter cibarius LMG 21996', 'Glycomyces arizonensis DSM 44726', 'Parvibaculum lavamentivorans DS-1', 'Glutamicibacter arilaitensis Re117', 'Gulosibacter molinativorax DSM 13485', 'Lentisphaera araneosa HTCC2155', 'Sphingomonas phyllosphaerae 5.2', 'Nocardia aobensis NBRC 100429', 'Nocardia concava NBRC 100430', 'Pleomorphomonas koreensis DSM 23070', 'Roseomonas gilardii subsp. rosea ATCC BAA-691', 'Streptococcus pseudopneumoniae IS7493', 'Otus sunia', 'Kitasatospora arboriphila', 'Corynebacterium resistens DSM 45100', 'Mycolicibacterium cosmeticum', 'Halomonas anticariensis FP35 = DSM 16096', 'Desulfatibacillum alkenivorans AK-01', 'Nocardia takedensis NBRC 100417', 'Dechloromonas aromatica RCB', 'Microbulbifer agarilyticus S89', 'Campylobacter insulaenigrae NCTC 12927', 'Nitrosomonas sp. Is79A3', 'Intestinibacter bartlettii DSM 16795', 'Paraburkholderia phytofirmans PsJN', 'Mycobacterium liflandii 128FXT', 'Cavenderia fasciculata', 'Thermosinus carboxydivorans Nor1', 'Pleomorphomonas oryzae DSM 16300', 'Kangiella koreensis DSM 16069', 'Kangiella aquimarina DSM 16071', 'Marinobacter daepoensis DSM 16072', 'Lysobacter concretionis Ko07 = DSM 16239', 'Acinetobacter beijerinckii CIP 110307', 'Jonesia quinghaiensis DSM 15701', 'Salipiger mucosus DSM 16094', 'Wolbachia endosymbiont of Culex quinquefasciatus Pel', 'Viridibacillus arenosi FSL R5-213', 'Crocosphaera watsonii WH 8501', 'Pneumocystis murina', 'Marinomonas ushuaiensis DSM 15871', 'Gordonia effusa NBRC 100432', 'Algoriphagus marincola DSM 16067', 'Botryobasidium botryosum', 'Capsella grandiflora', 'Oceanimonas smirnovii ATCC BAA-899', 'Acholeplasma equifetale ATCC 29724', 'Acholeplasma granularum ATCC 19168', 'Acholeplasma hippikon ATCC 29725', 'Trichormus variabilis ATCC 29413', 'Byssochlamys spectabilis No. 5', 'Salinimonas chungwhensis DSM 16280', 'Pontibacillus chungwhensis BH030062', 'Silanimonas lenta DSM 16282', 'Desulfurispora thermophila DSM 16022', 'Desulfallas alcoholivorax DSM 16058', 'Rhodopirellula baltica SH 1', 'Anoxybacillus tepidamans PS2', 'Methylovorus glucosetrophus SIP3-4', 'Pseudocohnilembus persalinus', 'Chryseobacterium antarcticum', 'Porphyromonas gingivicanis', 'Chelativorans sp. BNC1', 'Microbulbifer variabilis ATCC 700307', 'Thalassobacter stenotrophicus', 'Granulicoccus phenolivorans DSM 17626 = NBRC 107789 = JCM 15570', 'Neisseria bacilliformis ATCC BAA-1200', 'Lactobacillus kefiranofaciens ZW3', 'Paenibacillus wynnii', 'Nitratifractor salsuginis DSM 16511', 'Microbotryum intermedium', 'Streptococcus marimammalium DSM 18627', 'Sporolactobacillus terrae DSM 11697', 'Atopococcus tabaci DSM 17538', 'Bartonella rattimassiliensis 15908', 'Marinobacter sp. ELB17', 'Fangia hongkongensis FSC776 = DSM 21703', 'Methylomicrobium alcaliphilum 20Z', 'Shewanella sediminis HAW-EB3', 'Shewanella halifaxensis HAW-EB4', 'Flavobacterium antarcticum DSM 19726', 'Arthrobacter castelli DSM 16402', 'Nostoc punctiforme PCC 73102', 'Olleya marilimosa CAM030', 'Actinomyces dentalis DSM 19115', 'Hyaloperonospora arabidopsidis', 'Pontibacillus marinus BH030004 = DSM 16465', 'Candida orthopsilosis Co 90-125', 'Candida metapsilosis', 'Sphaerochaeta coccoides DSM 17374', 'Exiguobacterium marinum DSM 16307', 'Microbacterium oleivorans', 'Chlorobaculum parvum NCIB 8327', 'Limimaricola hongkongensis DSM 17492', 'Opitutaceae bacterium TAV1', 'Acidobacteriaceae bacterium TAA 166', 'Collimonas arenae', 'Aquimarina muelleri DSM 19832', 'Gramella echinicola DSM 19838', 'Novosphingopyxis baekryungensis DSM 16222', 'Agromyces italicus DSM 16388', 'Antrostomus carolinensis', 'Nocardiopsis baichengensis YIM 90130', 'Pochonia chlamydosporia 170', 'Azorhizobium doebereinerae UFLA1-100', 'Candidatus Amoebophilus asiaticus 5a2', 'Caenorhabditis japonica', 'Rozella allomycis CSF55', 'Porphyromonas uenonis 60-3', 'Prevotella multiformis DSM 16608', 'Nocardia jiangxiensis NBRC 101359', 'Sander lucioperca', 'Kosakonia radicincitans DSM 16656', 'Pseudoalteromonas sp. Bsw20308', 'Staphylococcus pseudintermedius ED99', 'Stackebrandtia nassauensis DSM 44728', 'Capitella teleta', 'Phenylobacterium zucineum HLK1', 'Streptomyces flavovariabilis', 'Alcanivorax dieselolei B5', 'Thioclava pacifica DSM 10166', 'Acetobacter nitrogenifigens DSM 23921 = LMG 23498', 'Streptomyces roseochromogenus subsp. oscitans DS 12.976', 'Streptomyces xylophagus', 'Streptomyces sviceus ATCC 29083', 'Streptomyces fulvoviolaceus', 'Streptomyces thermolilacinus SPC6', 'Micromonospora lupini str. Lupac 08', 'Hahella ganghwensis DSM 17046', 'Episyrphus balteatus', 'Alkaliflexus imshenetskii DSM 15055', 'Segniliparus rotundus DSM 44985', 'Segniliparus rugosus ATCC BAA-974', 'Hellea balneolensis DSM 19091', 'Haliea salexigens DSM 19537', 'Balneola vulgaris DSM 17893', 'Amycolatopsis rifamycinica', 'Bradyrhizobium sp. BTAi1', 'Kordiimonas gwangyangensis DSM 19435 = JCM 12864', 'Microbotryum lychnidis-dioicae p1A1 Lamole', 'Hungateiclostridium clariflavum DSM 19732', 'Microbotryum aff. violaceum TUB 011817', 'Bacteroides helcogenes P 36-108', 'Nocardia exalbida NBRC 100660', "Penicillium sp. 'occitanis'", 'Comamonas granuli NBRC 101663', 'Arthrobacter sp. FB24', 'Jannaschia sp. CCS1', 'Aminiphilus circumscriptus DSM 16581', 'Photorhabdus asymbiotica', 'Bartonella melophagi K-2C', 'Bacteroides salyersiae WAL 10018 = DSM 18765 = JCM 12988', 'Bacteroides nordii CL02T12C05', 'Acaricomes phytoseiuli DSM 14247', 'Erythrobacter vulgaris', 'Thermosediminibacter oceani DSM 16646', 'Ruegeria sp. TM1040', 'Dactylococcopsis salina PCC 8305', 'Flavonifractor plautii 1_3_50AFAA', 'Lysinibacillus massiliensis 4400831 = CIP 108448 = CCUG 49529', 'Martelella mediterranea DSM 17316', 'Haloquadratum walsbyi J07HQW2', 'Cyphellophora europaea', 'Desulfovibrio alkalitolerans DSM 16529', 'Agromyces subbeticus DSM 16689', 'Proteiniphilum acetatigenes DSM 18083', 'Rubellimicrobium thermophilum DSM 16684', 'Candidatus Hepatoplasma crinochetorum Av', 'Micromonas commoda', 'Polaromonas sp. JS666', 'Caldalkalibacillus thermarum TA2.A1', 'Patulibacter minatonensis DSM 18081', 'Frankia sp. EAN1pec', 'Frankia inefficax', 'Frankia saprophytica', 'Pseudoalteromonas spongiae UST010723-006', 'Denticeps clupeoides', 'Leptotrombidium deliense', 'Adhaeribacter aquaticus DSM 16391', 'Francisella orientalis str. Toba 04', 'Rhodococcus triatomae BKS 15-14', 'Glaciecola nitratireducens FR1064', 'Lachancea meyersii CBS 8951', 'Catellicoccus marimammalium M35/04/3', 'Bacillus lehensis G1', 'Roseburia hominis A2-183', 'Methanosaeta harundinacea 6Ac', 'Seriola lalandi dorsalis', 'Advenella mimigardefordensis DPN7', 'Corynebacterium tuscaniense DNF00037', 'Halobacillus kuroshimensis DSM 18393', 'Pundamilia nyererei', 'Lactobacillus apis', 'Lactobacillus harbinensis DSM 16991', 'Catenulispora acidiphila DSM 44928', 'Actinospica robiniae DSM 44927', 'Thauera sp. 27', 'Endozoicomonas elysicola', 'Pusillimonas noertemannii BS8', 'Marinimicrobium agarilyticum DSM 16975', 'Calidithermus timidus DSM 17022', 'Lactobacillus apodemi DSM 16634 = JCM 16172', 'Chryseobacterium vrystaatense', 'Aphis glycines', 'Gracilibacillus boraciitolerans JCM 21714', 'Sinocyclocheilus rhinocerous', 'Apteryx rowi', 'Bacillus boroniphilus JCM 21738', 'Dialister microaerophilus UPII 345-E', 'Chrysiogenes arsenatis DSM 11915', 'Persephonella marina EX-H1', 'Sulfurihydrogenibium azorense Az-Fu1', 'Candidatus Liberibacter americanus str. Sao Paulo', 'Deinococcus apachensis DSM 19763', 'Deinococcus maricopensis DSM 21211', 'Deinococcus pimensis DSM 21231', 'Bacteroides plebeius DSM 17135', 'Bacteroides coprocola DSM 17136', 'Bacteroides pyogenes JCM 10003', 'Neofusicoccum parvum', 'Prevotella multisaccharivorax DSM 17128', 'Advenella kashmirensis W13003', 'Deinococcus deserti VCD115', 'Modiolus philippinarum', 'Linnemannia elongata AG-77', 'Paraburkholderia terrae NBRC 100964', 'Thermococcus kodakarensis KOD1', 'Paraburkholderia mimosarum LMG 23256 = NBRC 106338', 'Flavobacterium indicum GPTSA100-9 = DSM 17447', 'Emticicia oligotrophica DSM 17448', 'Pseudomonas entomophila L48', 'Streptococcus massiliensis DSM 18628', 'Croceibacter atlanticus HTCC2559', 'Janibacter sp. HTCC2649', 'Dokdonia sp. MED134', 'Polaribacter sp. MED152', 'Maribacter sp. HTCC2170', 'Lyngbya sp. PCC 8106', 'Synechococcus sp. BL107', 'Bacillus sp. NRRL B-14911', 'Geobacter lovleyi SZ', 'Drechslerella stenobrocha 248', 'Nitrobacter sp. Nb-311A', 'Oceanicaulis sp. HTCC2633', 'Pseudooceanicola batsensis HTCC2597', 'Roseobacter sp. MED193', 'Roseovarius nubinhibens ISM', 'Roseovarius sp. 217', 'Sphingomonas sp. SKA58', 'Sulfitobacter sp. NAS-14.1', 'Rhodobacteraceae bacterium HTCC2083', 'Alteromonas mediterranea', 'Marinomonas sp. MED121', 'Pseudoalteromonas tunicata D2', 'Psychromonas sp. CNPT3', 'Vibrio sp. MED222', 'Prolixibacter bellariivorans ATCC BAA-1284', 'Mariprofundus ferrooxydans PV-1', 'Pseudoxanthomonas suwonensis 11-1', 'Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069', 'Belgica antarctica', 'Leadbetterella byssophila DSM 17132', 'Syntrophus aciditrophicus SB', 'Synechococcus sp. RCC307', 'Synechococcus sp. CC9902', 'Microbispora sp. ATCC PTA-5024', 'Rubrivivax benzoatilyticus JA2 = ATCC BAA-35', 'Kuraishia capsulata', 'Enterococcus caccae ATCC BAA-1240', 'Nostoc sp. PCC 7107', 'Mycolicibacterium rufum', 'Mycolicibacterium aromaticivorans JS19b1 = JCM 16368', 'Clostridium sulfidigenes', 'Pyricularia oryzae 70-15', 'Bradyrhizobium sp. WSM1743', 'Bradyrhizobium sp. WSM1253', 'Bradyrhizobium sp. WSM471', 'Nonlabens sediminis', 'Clostridium lundense DSM 17049', 'Formosa agariphila KMM 3901', 'Gordonia soli NBRC 108243', 'Pseudocercospora eumusae', 'Synechococcus sp. JA-3-3Ab', "Synechococcus sp. JA-2-3B'a(2-13)", 'Lepidothrix coronata', 'Pseudomonas moraviensis R28-S', 'Pseudomonas simiae', 'Wheat blue dwarf phytoplasma', 'Porphyromonas somerae DSM 23386', 'Sharpea azabuensis DSM 18934', 'Sphingomonas sp. BHC-A', 'Leptolyngbya valderiana BDU 20041', 'Paenibacillus sp. JDR-2', 'Bacillus infantis NRRL B-14911', 'Kwoniella bestiolae CBS 10118', 'Kwoniella dejecticola CBS 10117', 'Moelleriella libera RCEF 2490', 'Phytophthora kernoviae', 'Coxiella endosymbiont of Amblyomma americanum', 'Paraglaciecola psychrophila 170', 'Pseudozyma hubeiensis', 'Candidatus Accumulibacter phosphatis clade IIA str. UW-1', 'Bifidobacterium crudilactis', 'Syntrophorhabdus aromaticivorans UI', 'Nonlabens dokdonensis DSW-6', 'Parabacteroides goldsteinii dnLKV18', 'Alistipes onderdonkii WAL 8169 = DSM 19147', 'Alistipes shahii WAL 8301', 'Manacus vitellinus', 'Rhizoclosmatium globosum', 'Flavobacterium saliperosum S13', 'Bacteroides intestinalis DSM 17393', 'Amycolatopsis jejuensis', 'Nitrospira defluvii', 'Psychrobacter cryohalolentis K5', 'Kamptonema formosum PCC 6407', 'Sphingobium japonicum UT26S', 'Clostridium drakei', 'Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7', 'Candidatus Solibacter usitatus Ellin6076', 'Halococcus hamelinensis 100A6', 'Truepera radiovictrix DSM 17093', 'Exiguobacterium sibiricum 255-15', 'Hirsutella minnesotensis 3608', 'Alkalihalobacillus okhensis', 'Psychrobacter arcticus 273-4', 'Rickettsia tamurae', 'Ignisphaera aggregans DSM 17230', 'Methylobacterium oryzae CBMB20', 'Halococcus thailandensis JCM 13552', 'Thermovirga lienii DSM 17291', 'Candidatus Sulcia muelleri PSPU', 'Rhodonellum psychrophilum GCM71 = DSM 17998', 'Oenococcus kitaharae DSM 17330', 'Pyronema omphalodes', 'Chlorobium chlorochromatii CaD3', 'Gordonia sp. KTR9', 'Halorubrum ezzemoulense DSM 17463', 'Pseudodonghicola xiamenensis DSM 18339', 'Bacteroides finegoldii DSM 17565', 'Nitrosopumilus maritimus SCM1', 'Erwinia tasmaniensis Et1/99', 'Mycobacterium colombiense CECT 3035', 'Desulfosporosinus youngiae DSM 17734', 'Criblamydia sequanensis CRIB-18', 'Thermodesulfovibrio thiophilus DSM 17215', 'Tuberibacillus calidus DSM 17572', 'Spathaspora passalidarum NRRL Y-27907', 'Amorphus coralli DSM 19760', 'Desulfovibrio frigidus DSM 17176', 'Ascodesmis nigricans', 'Peptostreptococcus stomatis DSM 17678', 'Agrococcus lahaulensis DSM 17612', 'Methylophilaceae bacterium B1', 'Burkholderia oklahomensis', 'Thermococcus onnurineus NA1', 'Pyrococcus sp. NA2', 'Paenibacillus barengoltzii G22', 'Salipiger bermudensis HTCC2601', 'Flavobacterium soli DSM 19725', 'Kutzneria sp. 744', 'Podiceps cristatus', 'Geobacter pickeringii', 'Amycolatopsis benzoatilytica AK 16/65', 'Lysobacter daejeonensis GH1-9', 'Echinicola pacifica DSM 19836', 'Moraxella boevrei DSM 14165', 'Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896', 'Rhodanobacter spathiphylli B39', 'Streptomyces davaonensis JCM 4913', 'Exophiala xenobiotica', 'Streptacidiphilus oryzae TH49', 'Rhizobium favelukesii', 'Spironucleus salmonicida', 'Desulfovirgula thermocuniculi DSM 16036', 'Cercospora zeina', 'Psychrobacter sp. PRwf-1', 'Micavibrio aeruginosavorus ARL-13', 'Corynebacterium marinum DSM 44953', 'Flavobacterium daejeonense DSM 17708', 'Flavobacterium suncheonense GH29-5 = DSM 17707', 'Roseobacter sp. AzwK-3b', 'Alkalilimnicola ehrlichii MLHE-1', 'Oscillibacter valericigenes Sjm18-20', 'Salinispora pacifica CNT003', 'Geobacter uraniireducens Rf4', 'Xenorhabdus doucetiae', 'Shewanella sp. W3-18-1', 'Halostagnicola larsenii XH-48', 'Arenimonas malthae CC-JY-1', 'Niastella koreensis GR20-10', 'Streptomyces sp. Tu6071', 'Limnoperna fortunei', 'Alloscardovia criceti DSM 17774', 'Bifidobacterium tsurumiense', 'Micromonospora chokoriensis', 'Phocaeicola dorei', 'Lactobacillus parabrevis ATCC 53295', 'Cercospora berteroae', 'Psychromonas ingrahamii 37', 'Roseiflexus sp. RS-1', 'Microbacterium indicum DSM 19969', 'Acidovorax sp. KKS102', 'Methanoregula boonei 6A8', 'Streptomyces olindensis', 'Pseudomonas extremaustralis 14-3 substr. 14-3b', 'Shewanella loihica PV-4', 'Smaragdicoccus niigatensis DSM 44881 = NBRC 103563', 'Methylotenera mobilis 13', 'Bryobacter aggregatus MPL3', 'Zavarzinella formosa DSM 19928', 'Schlesneria paludicola DSM 18645', 'Leeuwenhoekiella blandensis MED217', 'Roseburia inulinivorans DSM 16841', 'Exiguobacterium sp. AT1b', 'Rubritalea marina DSM 17716', 'Tieghemostelium lacteum', 'Streptococcus pseudoporcinus SPIN 20026', 'Pseudarthrobacter phenanthrenivorans Sphe3', 'Streptomyces vietnamensis', 'Flavobacterium reichenbachii', 'Candidatus Protochlamydia amoebophila UWE25', 'Kaistia granuli DSM 23481', 'Prevotella stercorea DSM 18206', 'Ktedonobacter racemifer DSM 44963', 'Dyella ginsengisoli LA-4', 'Janibacter hoylei PVAS-1', 'Verminephrobacter eiseniae EF01-2', 'Granulibacter bethesdensis CGDNIH1', 'Endocarpon pusillum Z07020', 'Ferrimonas futtsuensis DSM 18154', 'Chryseobacterium caeni DSM 17710', 'Pelosinus fermentans DSM 17108', 'Frankia discariae', 'Belnapia moabensis DSM 16746', 'Paenibacillus sabinae T27', 'Ruania albidiflava DSM 18029', 'Caulobacter sp. K31', 'Haladaptatus paucihalophilus DX253', 'Yersinia similis', 'Phycicoccus jejuensis', 'Rhodobacterales bacterium HTCC2255', 'Pelusios castaneus', 'Blattabacterium sp. (Periplaneta americana) str. BPLAN', 'Blattabacterium sp. (Blatta orientalis) str. Tarazona', 'Rheinheimera perlucida DSM 18276', 'Paenibacillus terrigena DSM 21567', 'Mesonia mobilis DSM 19841', 'Haloterrigena limicola JCM 13563', 'Gallionella capsiferriformans ES-2', 'Arenimonas composti TR7-09 = DSM 18010', 'Flavobacterium filum DSM 17961', 'Brevundimonas aveniformis DSM 17977', 'Erwinia typographi', 'Bacteroides xylanisolvens XB1A', 'Rhodobacter sp. SW2', 'Fischerella thermalis PCC 7521', 'Bartonella tamiae Th239', 'Rivularia sp. PCC 7116', 'Campylobacter cuniculorum DSM 23162 = LMG 24588', 'Reinekea blandensis MED297', 'Janthinobacterium sp. Marseille', 'Pseudooceanicola nanhaiensis DSM 18065', 'Sphaeramia orbicularis', 'Natranaerobius thermophilus JW/NM-WN-LF', 'Haloplanus natans DSM 17983', 'Gordonia shandongensis DSM 45094', 'Olivibacter sitiensis DSM 17696', 'Zhouia amylolytica AD3', 'Paracoccus halophilus', 'Bacteroides barnesiae DSM 18169 = JCM 13652', 'Phocaeicola salanitronis DSM 18170', 'Thermobacillus composti KWC4', 'Methyloversatilis universalis FAM5', 'Novosphingobium nitrogenifigens DSM 19370', 'Cyanobacterium aponinum PCC 10605', 'Streptomyces bingchenggensis BCW-1', 'Vibrio sinaloensis DSM 21326', 'Propithecus coquereli', 'Aciduliprofundum boonei T469', 'Paenibacillus fonticola DSM 21315', 'Niabella aurantiaca DSM 17617', 'Pseudomonas protegens CHA0', 'Cohnella laeviribosi DSM 21336', 'Lactobacillus namurensis str. Chizuka 01', 'Streptococcus ictaluri 707-05', 'Hydrogenobaculum sp. Y04AAS1', 'Lachancea thermotolerans', 'Amycolatopsis nigrescens CSC17Ta-90', 'Algiphilus aromaticivorans DG1253', 'Verrucomicrobiae bacterium DG1235', 'Erythrobacter sp. JL475', 'Ornithinimicrobium pekingense DSM 21552', 'Bacillus aidingensis DSM 18341', 'Cycloclasticus sp. P1', 'Pseudophaeobacter arcticus DSM 23566', 'Thermophagus xiamenensis', 'Paraburkholderia ferrariae NBRC 106233', 'Prevotella timonensis 4401737 = DSM 22865 = JCM 15640', 'Methanobacterium arcticum', 'Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)', 'Moraxella bovoculi 237', 'Bacteroides coprophilus DSM 18228 = JCM 13818', 'Nitratiruptor sp. SB155-2', 'Sulfurovum sp. NBC37-1', 'Halovivax ruber XH-70', 'Halopiger xanaduensis SH-6', 'Parabacteroides johnsonii CL02T12C29', 'Cupriavidus sp. amp6', 'Natronorubrum sulfidifaciens JCM 14089', 'Rhodobacteraceae bacterium HTCC2150', 'Labrenzia alexandrii DFL-11', 'Algoriphagus machipongonensis', 'Bartonella australis Aust/NH1', 'Roseobacter sp. SK209-2-6', 'Hydnomerulius pinastri MD-312', 'Stachybotrys chlorohalonata IBT 40285', 'Wenxinia marina DSM 24838', 'Lactobacillus farraginis DSM 18382 = JCM 14108', 'Lactobacillus parafarraginis F0439', 'Echinicola vietnamensis DSM 17526', 'Actinocatenispora sera', 'Ehrlichia sp. HF', 'Vibrio sp. 16', 'Roseobacter sp. GAI101', 'Roseobacter sp. CCS2', 'Pedobacter sp. BAL39', 'Flavobacteria bacterium BAL38', 'Brevundimonas sp. BAL3', 'Stenotrophomonas sp. SKA14', 'Flavobacteriales bacterium ALC-1', 'Roseovarius sp. TM1035', 'Lysobacter defluvii IMMIB APB-9 = DSM 18482', 'Alicyclobacillus macrosporangiidus CPP55', 'Alicyclobacillus contaminans DSM 17975', 'Paraburkholderia nodosa DSM 21604', 'Sphingomonas jaspsi DSM 18422', 'Deinococcus misasensis DSM 22328', 'Methylophaga thiooxydans DMS010', 'Perlucidibaca piscinae DSM 21586', 'Terriglobus roseus DSM 18391', 'Uliginosibacterium gangwonense DSM 18521', 'Halalkalibacillus halophilus DSM 18494', 'Mesoflavibacter zeaxanthinifaciens S86', 'Gracilibacillus lacisalsi DSM 19029', 'Pestalotiopsis fici', 'Congregibacter litoralis KT71', 'Porphyromonas crevioricanis', 'Bhargavaea cecembensis DSE10', 'Cylindrobasidium torrendii FP15055 ss-10', 'Lactobacillus ceti DSM 22408', 'Coraliomargarita akajimensis DSM 45221', 'Bartonella rochalimae ATCC BAA-1498', 'Cyanothece sp. PCC 7425', 'Gilvimarinus chinensis DSM 19667', 'Brachybacterium phenoliresistens', 'Aspergillus ruber CBS 135680', 'Acinetobacter brisouii ANC 4119', 'Aestuariimicrobium kwangyangense DSM 21549', 'Thioalkalivibrio sp. K90mix', 'Lactobacillus hayakitensis DSM 18933 = JCM 14209', 'Andreprevotia chitinilytica DSM 18519', 'Sphingomonas sanxanigenens DSM 19645 = NX02', 'Marmoricola aequoreus', 'Lachnospiraceae bacterium 28-4', 'Lachnospiraceae bacterium 3-1', 'Lachnospiraceae bacterium A2', 'Lachnospiraceae bacterium A4', 'Barnesiella viscericola DSM 18177', 'Segetibacter koreensis DSM 18137', 'Proteiniclasticum ruminis DSM 24773', 'Agrilactobacillus composti DSM 18527 = JCM 14202', 'Helicobacter macacae MIT 99-5501', 'Trichoderma gamsii', 'Zunongwangia profunda SM-A87', 'Desulfocurvus vexinensis DSM 17965', 'Thermoanaerobacter sp. X514', 'Enterobacter sp. 638', 'Streptococcus merionis DSM 19192', 'Pontibacter korlensis', 'Marinomonas sp. MWYL1', 'Amphimedon queenslandica', 'Wohlfahrtiimonas chitiniclastica DSM 18708', 'Corynebacterium ureicelerivorans', 'Aureimonas ureilytica DSM 18598 = NBRC 106430', 'Candidatus Riesia pediculicola USDA', 'Actinomycetospora chiangmaiensis DSM 45062', 'Haloferax mucosum ATCC BAA-1512', 'Sphingobacterium sp. PM2-P1-29', 'Virgibacillus sp. SK37', 'Shewanella piezotolerans WP3', 'Maritimibacter alkaliphilus HTCC2654', 'Nonomuraea coxensis DSM 45129', 'Anaeromyxobacter sp. Fw109-5', 'Marinobacterium litorale DSM 23545', 'Geminicoccus roseus DSM 18922', 'Alicyclobacillus acidocaldarius subsp. acidocaldarius Tc-4-1', 'Leisingera daeponensis DSM 23529', 'Streptacidiphilus rugosus AM-16', 'Bacillus sp. m3-13', 'Natrinema sp. J7-2', 'Sphingomonas astaxanthinifaciens DSM 22298', 'Stegodyphus mimosarum', 'Prevotella pleuritidis JCM 14110', 'Streptomyces xiamenensis', 'Bacillus coahuilensis m4-4', 'Nocardioidaceae bacterium Broad-1', 'Clostridiisalibacter paucivorans DSM 22131', 'Treponema pedis str. T A4', 'Blastobotrys adeninivorans', 'Periophthalmus magnuspinnatus', 'Coprococcus comes ATCC 27758', 'Gordonia malaquae NBRC 108250', 'Gramella forsetii KT0803', 'Halogeometricum pallidum JCM 14848', 'Clostridium sp. SS2/1', 'Clostridium sp. M62/1', 'Clostridium sp. L2-50', 'Chryseobacterium daeguense DSM 19388', 'Entamoeba nuttalli P19', 'Paracoccus sp. TRP', 'Intrasporangium oryzae NRRL B-24470', 'Desulfotomaculum hydrothermale Lam5 = DSM 18033', 'Mycetohabitans rhizoxinica HKI 454', 'Candidatus Vesicomyosocius okutanii', 'Solimonas soli DSM 21787', 'Cronobacter turicensis z3032', 'Halalkalicoccus jeotgali B3', 'Halorubrum halophilum', 'Caldicellulosiruptor hydrothermalis 108', 'Caldicellulosiruptor kronotskyensis 2002', 'Lysobacter dokdonensis DS-58', 'Planococcus donghaensis MPA1U2', 'Actinopolyspora erythraea', 'Pseudoxanthomonas spadix BD-a59', 'Solimonas flava DSM 18980', 'Nodosilinea nodulosa PCC 7104', 'Rhodanobacter thiooxydans LCS2', 'Natronomonas moolapensis 8.8.11', 'Burkholderia sp. KJ006', 'Penicillium antarcticum', 'Selenomonas bovis DSM 23594', 'Notospermus geniculatus', 'Neptunomonas japonica DSM 18939', 'Methanosarcina horonobensis HB-1 = JCM 15518', 'Blautia wexlerae DSM 19850', 'Salinicoccus albus DSM 19776', 'Nevskia soli DSM 19509', 'Prevotella amnii CRIS 21A-A', 'Alloscardovia omnicolens DSM 21503', 'Yersinia massiliensis CCUG 53443', 'Microvirga lupini', 'Lactobacillus equicursoris DSM 19284 = JCM 14600 = CIP 110162', 'Diplodia seriata', 'Methanolobus psychrophilus R15', 'Paraburkholderia bryophila 376MFSha3.1', 'Sphingobium ummariense RL-3', 'Sulfitobacter donghicola DSW-25 = KCTC 12864 = JCM 14565', 'Chryseobacterium oranimense G311', 'Chryseobacterium halperniae', 'Chryseobacterium luteum', 'Stenoxybacter acetivorans DSM 19021', 'Mucilaginibacter paludis DSM 18603', 'Basidiobolus meristosporus CBS 931.73', 'Elusimicrobium minutum Pei191', 'Rhizobium sp. IRBG74', 'Helicobacter japonicus', 'Calidris pygmaea', 'Thiomonas arsenitoxydans', 'Methylobacterium sp. 4-46', 'Flavobacterium subsaxonicum WB 4.1-42 = DSM 21790', 'Algoriphagus vanfongensis DSM 17529', 'Nocardia rhamnosiphila', 'Bacillus chagannorensis DSM 18086', 'Salsuginibacillus kocurii DSM 18087', 'Humibacter albus DSM 18994', 'Desulfurivibrio alkaliphilus AHT 2', 'Dethiobacter alkaliphilus AHT 1', 'Moritella dasanensis ArB 0140', 'Candidatus Riesia pediculischaeffi PTSU', 'Jonquetella anthropi E3_33 E1', 'Dactylellina haptotyla', 'Halorhabdus tiamatea SARL4B', 'Baudoinia compniacensis', 'Spirosoma luteum DSM 19990', 'Spirosoma spitsbergense DSM 19989', 'Paenibacillus ginsengihumi DSM 21568', 'Kazachstania africana CBS 2517', 'Deinococcus peraridilitoris DSM 19664', 'Nocardioides halotolerans DSM 19273', 'Streptococcus sp. C150', 'Idiomarina salinarum', 'Fibularhizoctonia sp. CBS 109695', 'Sulfurihydrogenibium sp. YO3AOP1', 'Streptacidiphilus jeojiense', 'Robiginitomaculum antarcticum DSM 21748', 'Brucella sp. UK1/97', 'Brucella sp. F23/97', 'Brucella sp. F96/2', 'Brucella sp. UK40/99', 'Brucella sp. F8/99', 'Brucella sp. F5/99', 'Megamonas funiformis YIT 11815', 'Sutterella parvirubra YIT 11816', 'Ruminococcus gauvreauii DSM 19829', 'Streptococcus henryi DSM 19005', 'Streptococcus caballi DSM 19004', 'Candidatus Pelagibacter sp. HTCC7211', 'Pseudovibrio sp. JE062', 'Rhodobacterales bacterium Y4I', 'Ruegeria sp. R11', 'Prevotella maculosa DSM 19339 = JCM 15638', 'Promicromonospora kroppenstedtii DSM 19349', 'Pseudomonas sp. Chol1', 'Gouania willdenowi', 'Corynebacterium timonense 5401744', 'Corynebacterium massiliense DSM 45435', 'Hofstenia miamia', 'Knoellia aerolata DSM 18566', 'Geobacter sp. M18', 'Geobacter sp. M21', 'Bradyrhizobium sp. Cp5.3', 'Brucella microti CCM 4915', 'Sporolactobacillus vineae DSM 21990 = SL153', 'Maribacter forsetii DSM 18668', 'Gryllotalpicola ginsengisoli DSM 22003', 'Rickettsia endosymbiont of Ixodes scapularis', 'Psychromonas ossibalaenae ATCC BAA-1528', 'Reyranella massiliensis 521', 'Leptobrachium leishanense', 'Chryseobacterium soli', 'Adlercreutzia equolifaciens DSM 19450', 'Eudoraea adriatica DSM 19308', 'Niabella soli DSM 19437', 'Anaeromyxobacter sp. K', 'Epichloe gansuensis', 'Simiduia agarivorans SA1 = DSM 21679', 'Rhizobium selenitireducens ATCC BAA-1503', 'Microbacterium profundi', 'Propionibacterium sp. 5_U_42AFAA', 'Veillonella sp. 6_1_27', 'Rudanella lutea DSM 19387', 'Microbacterium luticocti DSM 19459', 'Streptomyces scopuliridis RB72', 'Pseudoclavibacter soli DSM 23366', 'Amphritea japonica ATCC BAA-1530', 'Neovison vison', 'Roseomonas aerilata DSM 19363', 'Desulfarculus baarsii DSM 2075', 'Kwoniella pini CBS 10737', 'Bdellovibrio exovorus JSS', 'Haladaptatus cibarius D43', 'Henriciella marina DSM 19595', 'Joostella marina DSM 19592', 'Halomonas lutea DSM 23508', 'Paraprevotella clara YIT 11840', 'Paraprevotella xylaniphila YIT 11841', 'Kiloniella laminariae DSM 19542', 'Chthonomonas calidirosea T49', 'Gracilimonas tropica DSM 19535', 'Spongiibacter tropicus DSM 19543', 'Glaciecola sp. HTCC2999', 'Chryseobacterium gregarium DSM 19109', 'Xanthomonas campestris pv. vesicatoria str. 85-10', 'Bizionia argentinensis JUB59', 'Saccharibacillus sacchari DSM 19268', 'Candidatus Cloacimonas acidaminovorans str. Evry', 'Streptococcus plurextorum DSM 22810', 'Rhizoctonia solani AG-8 WAC10335', 'Bacteroides sp. 1_1_30', 'Bacteroides sp. 3_1_23', 'Bacteroides sp. 3_1_33FAA', 'Bacteroides sp. 3_2_5', 'Bacteroides sp. 4_1_36', 'Bacteroides sp. 4_3_47FAA', 'Bacteroides sp. 9_1_42FAA', 'Clostridium sp. 7_2_43FAA', 'Desulfovibrio sp. 3_1_syn3', 'Escherichia sp. 1_1_43', 'Escherichia sp. 4_1_40B', 'Eubacterium sp. 3_1_31', 'Micromonospora sp. M42', 'Ruminococcus sp. 5_1_39BFAA', 'Synergistes sp. 3_1_syn1', 'Veillonella sp. 3_1_44', 'Clostridiales bacterium 1_7_47FAA', 'Erysipelotrichaceae bacterium 2_2_44A', 'Elioraea tepidiphila DSM 17972', 'Chloracidobacterium thermophilum B', 'Planomicrobium glaciei CHR43', 'Saccharibacillus kuerlensis DSM 22868', 'Kribbella catacumbae DSM 19601', 'Komagataella phaffii GS115', 'Ogataea polymorpha NCYC 495 leu1.1', 'Lactobacillus nodensis DSM 19682 = JCM 14932 = NBRC 107160', 'Actinomyces massiliensis F0489', 'Alkaliphilus oremlandii OhILAs', 'Babesia sp. Xinjiang', 'Pontibacillus yanchengensis Y32', 'Paxillus rubicundulus Ve08.2h10', 'Veillonella magna DSM 19857', 'Hemiselmis andersenii', 'Streptomyces sp. Mg1', 'Streptomyces sp. SPB074', 'Acinetobacter sp. Ver3', 'Singulisphaera acidiphila DSM 18658', 'Ilumatobacter coccineus YM16-304', 'Lachnoanaerobaculum saburreum F0468', 'Rhodobacteraceae bacterium KLH11', 'Sistotremastrum suecicum HHB10207 ss-3', 'Bacteroides sp. 1_1_14', 'Bacteroides sp. 2_1_22', 'Bacteroides sp. 2_1_33B', 'Bacteroides sp. 2_2_4', 'Parabacteroides sp. 20_3', 'Bacteroides sp. 3_1_19', 'Bacteroides sp. 3_1_40A', 'Coprobacillus sp. 8_2_54BFAA', 'Streptococcus sp. 2_1_36FAA', 'Burkholderiales bacterium 1_1_47', 'Erysipelotrichaceae bacterium 6_1_45', 'Prevotella histicola JCM 15637 = DNF00424', 'Cladophialophora yegresii', 'Gracilibacillus halophilus YIM-C55.5', 'Salinimicrobium terrae DSM 17865', 'Pantoea vagans C9-1', 'Gordonibacter pamelaeae 7-10-1-b', 'Geobacillus sp. WCH70', 'Dasania marina DSM 21967', 'Bifidobacterium bombi DSM 19703', 'Haloplasma contractile SSD-17B', 'Candidatus Desulforudis audaxviator MP104C', 'Nitratireductor basaltis', 'Nitrosococcus watsonii C-113', 'Colletotrichum gloeosporioides', 'Methanosphaerula palustris E1-9c', 'Pedobacter borealis DSM 19626', 'Pseudohaliea rubra DSM 19751', 'Leisingera aquimarina DSM 24565', 'Modestobacter marinus', 'Bacteroides graminisolvens DSM 19988 = JCM 15093', 'Aliiglaciecola lipolytica E3', 'Calditerrivibrio nitroreducens DSM 19672', 'Verrucomicrobia bacterium LP2A', 'Haematomicrobium sanguinis DSM 21259', 'Brevibacterium ravenspurgense 5401308 = CCUG 53855', 'Gluconobacter morbifer G707', 'Commensalibacter intestini A911', 'Myroides profundi', 'Bartonella rattaustraliani AUST/NH4', 'Lactobacillus otakiensis DSM 19908 = JCM 15040', 'Lactobacillus kisonensis F0435', 'Paenibacillus sp. Y412MC10', 'Galeopterus variegatus', 'Oscillatoria nigro-viridis PCC 7112', 'Burkholderia lata', 'Lactobacillus fabifermentans T30PCM01', 'Cystoisospora suis', 'Geoalkalibacter subterraneus', 'Paenibacillus riograndensis SBR5', 'Sphingobium sp. YBL2', 'Pelosinus sp. UFO1', 'Dialister succinatiphilus YIT 11850', 'Barnesiella intestinihominis YIT 11860', 'Parasutterella excrementihominis YIT 11859', 'Acinetobacter soli', 'Aequorivita capsosiphonis DSM 23843', 'Shewanella marina JCM 15074', 'Corynebacterium ulceribovis DSM 45146', 'Flavobacteria bacterium MS024-2A', 'Serratia sp. SCBI', 'Campylobacter peloridis LMG 23910', 'Desulfonatronospira thiodismutans ASO3-1', 'Halarchaeum acidiphilum MH1-52-1', 'Mesorhizobium metallidurans STM 2683', 'Corynebacterium sputi DSM 45148', 'Marinobacter sp. BSs20148', 'Litoreibacter arenae DSM 19593', 'Leucobacter chironomi DSM 19883', 'Brachymonas chironomi DSM 19884', 'Megamonas rupellensis DSM 19944', 'Bacillus velezensis FZB42', 'Dyadobacter alkalitolerans DSM 23607', 'Rhizobium alamii', 'Chryseobacterium palustre DSM 21579', 'Psychrobacter sp. TB15', 'Arthrobacter sp. TB 23', 'Spirosoma panaciterrae DSM 21099', 'Thermoanaerobacter pseudethanolicus ATCC 33223', 'Thauera sp. 63', 'Campylobacter subantarcticus LMG 24377', 'Candidatus Nitrososphaera gargensis Ga9.2', 'Brevibacillus panacihumi W25', 'Arenimonas oryziterrae DSM 21050 = YC6267', 'Flavobacterium rivuli WB 3.3-2 = DSM 21788', 'Borreliella finlandensis', 'Candidatus Korarchaeum cryptofilum OPF8', 'Tepidanaerobacter acetatoxydans Re1', 'Metarhizium brunneum ARSEF 3297', 'Streptomyces avicenniae', 'Glaciibacter superstes DSM 21135', 'Citreicella sp. SE45', 'Porphyromonas bennonis DSM 23058 = JCM 16335', 'Thermodesulfatator atlanticus DSM 21156', 'Butyricicoccus pullicaecorum 1.2', 'Thalassospira profundimaris WP0211', 'Deinococcus gobiensis I-0', 'Eggerthella sp. YY7918', 'Streptococcus porci DSM 23759', 'Aeromonas diversa CDC 2478-85', 'Salisaeta longa DSM 21114', 'Flavobacterium sasangense DSM 21067', 'Kushneria aurantia DSM 21353', 'Jejuia pallidilutea', 'Haloterrigena salina JCM 13891', 'Novosphingobium acidiphilum DSM 19966', 'Chromera velia CCMP2878', 'Rheinheimera sp. A13L', 'Leisingera caerulea DSM 24564', 'Cinara cedri', 'Peptoniphilus duerdenii ATCC BAA-1640', 'Cloacibacillus evryensis DSM 19522', 'Bradyrhizobium genosp. SA-4 str. CB756', 'Pedobacter sp. V48', 'Oceanimonas sp. GK1', 'Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2', 'Methylacidiphilum infernorum V4', 'Vibrio azureus NBRC 104587', 'Dictyoglomus turgidum DSM 6724', 'Caloramator australicus RC3', 'Lacticigenium naphtae DSM 19658', 'Prevotella falsenii DSM 22864 = JCM 15124', 'Nesterenkonia alba DSM 19423', 'Muricauda lutaonensis', 'Providencia burhodogranariea DSM 19968', 'Providencia sneebia DSM 19967', 'Jeotgalicoccus marinus DSM 19772', 'Pontibacillus litoralis JSM 072002', 'Pontibacillus halophilus JSM 076056 = DSM 19796', 'Pantoea sp. aB', 'Citromicrobium sp. JLT1363', 'Bifidobacterium mongoliense DSM 21395', 'Lactobacillus sucicola DSM 21376 = JCM 15457', 'Alcanivorax hongdengensis A-11-3', 'Deinococcus aquatilis DSM 23025', 'Elaphomyces granulatus', 'Ectothiorhodospira sp. PHS-1', 'Brucella sp. NVSL 07-0026', 'Brucella sp. 83/13', 'Acinetobacter sp. NIPH 817', 'Pseudomonas caeni DSM 24390', 'Sphingobium lactosutens DS20', 'Trichophyton mentagrophytes', 'Marinobacter santoriniensis NKSG1', 'Acinetobacter sp. ATCC 27244', 'Thiothrix lacustris DSM 21227', 'Haloglycomyces albus DSM 45210', 'Oceanibaculum indicum P24', 'Listeria marthii FSL S4-120', 'Thecamonas trahens', 'Rhodoluna lacicola', 'Pelagibacterium halotolerans B2', 'Flavobacteriaceae bacterium 3519-10', 'Actinopolymorpha alba DSM 45243', 'Mesorhizobium australicum WSM2073', 'Psychrobacter lutiphocae DSM 21542', 'Rudaea cellulosilytica DSM 22992', 'Thermus islandicus DSM 21543', 'Corynebacterium lubricantis DSM 45231', 'Peronospora effusa', 'Actinoplanes subtropicus', 'Geobacillus sp. Y412MC61', 'Actinomyces johnsonii F0510', 'Butyricimonas synergistica DSM 23225', 'Thioalkalivibrio sp. AKL11', 'Thioalkalivibrio sp. ALJ24', 'Alishewanella jeotgali KCTC 22429', 'Paraoerskovia marina DSM 21750', 'Sporothrix brasiliensis 5110', 'Hydrogenobaculum sp. 3684', 'Hydrogenobaculum sp. HO', 'Hydrogenobaculum sp. SN', 'Mycobacterium vulneris', 'Phycisphaera mikurensis NBRC 102666', 'Pseudogulbenkiania ferrooxidans 2002', 'Geobacillus sp. Y412MC52', 'Pseudonocardia acaciae DSM 45401', 'Aromatoleum aromaticum EbN1', 'Caldicoprobacter oshimai DSM 21659', 'Sediminimonas qiaohouensis DSM 21189', 'Salinarimonas rosea DSM 21201', 'Erysipelotrichaceae bacterium 5_2_54FAA', 'Ruminococcaceae bacterium D16', 'Cryptococcus gattii VGIII', 'Dehalogenimonas lykanthroporepellens BL-DC-9', 'Pseudomonas pelagia CL-AP6', 'Vibrio breoganii 1C10', 'Alishewanella agri BL06', 'Cobetia crustatorum', 'Halomonas jeotgali Hwa', 'Photobacterium leiognathi lrivu.4.1', 'Chlorella variabilis', 'Thiomonas sp. CB2', 'Flavobacterium chungangense LMG 26729', 'Galbibacter marinus', 'Staphylococcus massiliensis S46', 'Novosphingobium sp. Rr 2-17', 'Bacteroides sp. D1', 'Bacteroides sp. D2', 'Clostridium sp. D5', 'Coprobacillus sp. D7', 'Candidatus Liberibacter solanacearum CLso-ZC1', 'Propionibacterium acidifaciens DSM 21887', 'Corynebacterium freiburgense DSM 45254', 'Chryseobacterium piperi', 'Lentibacillus jeotgali', 'Salinicoccus carnicancri Crm', 'Aeromonas lacus', 'Aureobasidium namibiae CBS 147.97', 'Lysinibacillus sinduriensis BLB-1 = JCM 15800', 'Aliagarivorans taiwanensis DSM 22990', 'Prevotella sp. C561', 'Streptococcus sp. C300', 'Streptococcus sp. M143', 'Streptococcus sp. M334', 'Acidianus hospitalis W1', 'Salinisphaera hydrothermalis C41B8', 'Parabacteroides sp. D13', 'Scedosporium apiospermum', 'Geoglobus acetivorans', "Saccharomycetaceae sp. 'Ashbya aceri'", 'Metarhizium robertsii ARSEF 23', 'Dickeya poaceiphila', 'Cladophialophora immunda', 'Pseudoalteromonas lipolytica SCSIO 04301', 'Methanocella paludicola SANAE', 'Ochrobactrum rhizosphaerae SJY1', 'Psychrobacter sp. G', 'Encephalitozoon romaleae SJ-2008', 'Absidia idahoensis var. thermophila', 'Thermoanaerobacter sp. X513', 'Francisella salina', 'Candidatus Hodgkinia cicadicola Dsem', 'Pandoraea oxalativorans', 'Bacillus gaemokensis', 'Bacillus manliponensis', 'Parabacteroides gordonii MS-1 = DSM 23371', 'Pseudomonas taeanensis MS-3', 'Corynebacterium maris DSM 45190', 'Phialocephala subalpina', 'Polynucleobacter necessarius STIR1', 'Polynucleobacter asymbioticus QLW-P1DMWA-1', 'Streptomyces iranensis', 'Indibacter alkaliphilus LW1', 'Enterorhabdus mucosicola DSM 19490', 'Bacillus cytotoxicus NVH 391-98', 'Geobacillus sp. Y4.1MC1', 'Thermococcus paralvinellae', 'Rubidibacter lacunae KORDI 51-2', 'Thermoanaerobacter mathranii subsp. mathranii str. A3', 'Synechococcus sp. KORDI-49', 'Synechococcus sp. KORDI-52', 'Bacteroides sp. D20', 'Bacteroides sp. D22', 'Nematocida parisii', 'Oceanobacillus manasiensis', 'Terribacillus aidingensis', 'Myripristis murdjan', 'Pseudomonas chlororaphis', 'Rhizophagus irregularis', 'Patulibacter americanus DSM 16676', 'Kazachstania naganishii', 'Brevundimonas naejangsanensis', 'Prevotella fusca JCM 17724', 'Prevotella scopos JCM 17725', 'Alteromonas australica', 'Methylacidiphilum fumariolicum SolV', 'Streptomyces sp. SPB78', 'Streptomyces sp. AA4', 'Ignavibacterium album JCM 16511', 'Roseivivax isoporae LMG 25204', 'Piliocolobus tephrosceles', 'Pantoea sp. At-9b', 'Pantoea sp. Sc1', 'Mesorhizobium opportunistum WSM2075', 'Allofrancisella guangzhouensis', 'Rhodopirellula sp. SWK7', 'Prevotella aurantiaca JCM 15754', 'Desulfovibrio sp. U5L', 'Brenneria sp. EniD312', 'Corynebacterium pyruviciproducens ATCC BAA-1742', 'Fibroporia radiculosa', 'Meiothermus rufus DSM 22234', 'Neisseria wadsworthii 9715', 'Neisseria shayeganii 871', 'Dinoponera quadriceps', 'Asaia platycodi SF2.1', 'Harpegnathos saltator', 'Arenibacter algicola', 'Polycyclovorans algicola TG408', 'Methylocystis sp. ATCC 49242', 'Blattabacterium sp. (Blattella germanica) str. Bge', 'Bacteroides clarus YIT 12056', 'Bacteroides fluxus YIT 12057', 'Bacteroides oleiciplenus YIT 12058', 'Alistipes indistinctus YIT 12060', 'Odoribacter laneus YIT 12061', 'Slackia piriformis YIT 12062', 'Collinsella tanakaei YIT 12063', 'Succinatimonas hippei YIT 12066', 'Phascolarctobacterium succinatutens YIT 12067', 'Sphingobium sp. SYK-6', 'Sphingomonas sp. Mn802worker', 'Tomitella biformata AHU 1821', 'Thiorhodovibrio sp. 970', 'Saccharomonospora marina XMU15', 'Acinetobacter rudis CIP 110305', 'Thalassobium sp. R2A62', 'Prevotella saccharolytica F0055', 'Bifidobacterium bohemicum DSM 22767', 'Bifidobacterium actinocoloniiforme DSM 22766', 'Pyramidobacter piscolens W5455', 'Acidobacteriaceae bacterium KBS 146', 'Hoyosella subflava DQS3-9A1', 'Lactobacillus florum 2F', 'Burkholderia sp. CCGE1001', 'Burkholderia sp. CCGE1003', 'Clostridium sp. DL-VIII', 'Neisseria sp. oral taxon 014 str. F0314', 'Tatumella morbirosei', 'Silicibacter sp. TrichCH4B', 'Methanocaldococcus sp. FS406-22', 'Streptomyces sp. e14', 'Enterocytozoon hepatopenaei', 'Plasmodium gaboni', 'Methylobacterium sp. MB200', 'Micromonospora sp. L5', 'Cesiribacter andamanensis AMV16', 'Clostridium sp. ATCC BAA-442', 'Actinomyces sp. oral taxon 848 str. F0332', 'Acetomicrobium hydrogeniformans ATCC BAA-1850', 'Anaerostipes hadrus DSM 3319', 'Actinoplanes sp. N902-109', 'Sulfuricella denitrificans skB26', 'Fibrella aestuarina BUZ 2', 'Aurantimonas manganoxydans SI85-9A1', 'Kosmotoga olearia TBF 19.5.1', 'Actinomyces sp. oral taxon 180 str. F0310', 'Fretibacterium fastidiosum', 'Oribacterium sp. oral taxon 078 str. F0262', 'Bacteroidetes oral taxon 274 str. F0058', 'Peptoniphilus sp. oral taxon 386 str. F0131', 'Paenibacillus sp. oral taxon 786 str. D14', 'Prevotella sp. oral taxon 299 str. F0039', 'Prevotella sp. oral taxon 317 str. F0108', 'Actinomyces sp. oral taxon 849 str. F0330', 'Albugo laibachii', 'Prevotella sp. oral taxon 472 str. F0295', 'Pseudogymnoascus destructans 20631-21', 'Pandoraea vervacti', 'Halanaerobium hydrogeniformans', 'Ruminococcus sp. SR1/5', 'Flavobacterium beibuense F44-8', 'Candidatus Koribacter versatilis Ellin345', 'Ralstonia sp. 5_2_56FAA', 'Lachnospiraceae bacterium 1_1_57FAA', 'Lachnospiraceae bacterium 2_1_58FAA', 'Lachnospiraceae bacterium 6_1_63FAA', 'Lachnospiraceae bacterium 5_1_57FAA', 'Lachnospiraceae bacterium 3_1_57FAA_CT1', 'Lachnospiraceae bacterium 7_1_58FAA', 'Lachnospiraceae bacterium 9_1_43BFAA', 'Lachnospiraceae bacterium 5_1_63FAA', 'Pseudomonas sp. H2', 'Lachnospiraceae bacterium 1_4_56FAA', 'Lachnospiraceae bacterium 6_1_37FAA', 'Erysipelotrichaceae bacterium 21_3', 'Erysipelotrichaceae bacterium 3_1_53', 'Parabacteroides sp. D25', 'Porphyromonas sp. 31_2', 'Paraburkholderia acidipaludis NBRC 101816', 'Olsenella sp. oral taxon 809 str. F0356', 'Brachybacterium squillarum M-6-3', "Candidatus Parvarchaeum acidiphilum ARMAN-4_'5-way FS'", "Candidatus Parvarchaeum acidophilus ARMAN-5_'5-way FS'", 'Fibrisoma limi BUZ 3', 'Methylocapsa aurea', 'Leucobacter salsicius M1-8', 'Borreliella bavariensis PBi', 'Bacillus oceanisediminis 2691', 'Dietzia alimentaria 72', 'Campylobacter sp. 10_1_50', 'Clostridium sp. 7_3_54FAA', 'Coprobacillus sp. 3_3_56FAA', 'Desulfovibrio sp. 6_1_46AFAA', 'Eggerthella sp. 1_3_56FAA', 'Klebsiella sp. 4_1_44FAA', 'Neisseria sp. GT4A_CT1', 'Tannerella sp. 6_1_58FAA_CT1', 'Lachnospiraceae bacterium 3_1_46FAA', 'Lachnospiraceae bacterium 8_1_57FAA', 'Subdoligranulum sp. 4_3_54A2FAA', 'Bacillus sp. 7_6_55CFAA_CT2', 'Bacillus sp. BT1B_CT2', 'Bacillus sp. 2_A_57_CT2', 'Aquimarina macrocephali JAMB N27', 'Afipia sp. 1NLS2', 'Rhodanobacter denitrificans', 'Bacillus sp. 1NLA3E', 'Raphidiopsis brookii D9', 'Thelohanellus kitauei', 'Geminocystis herdmanii PCC 6308', 'Paenibacillus pini JCM 16418', 'Candidatus Profftella armatura', 'Microvirga aerilata', 'Candidatus Uzinura diaspidicola str. ASNER', 'Candidatus Methylomirabilis oxyfera', 'Leptotrichia sp. oral taxon 225 str. F0581', 'Alloprevotella rava F0323', 'Propionibacterium sp. oral taxon 192 str. F0372', 'Selenomonas artemidis F0399', 'Veillonella sp. oral taxon 158 str. F0412', 'Veillonella sp. oral taxon 780 str. F0422', 'Enterorhabdus caecimuris B7', 'Bacteroides sartorii dnLKV3', 'Microbacterium yannicii PS01', 'Cardinium endosymbiont cBtQ1 of Bemisia tabaci', 'Aciduliprofundum sp. MAR08-339', 'Candidatus Babela massiliensis', 'Bacteroides faecis MAJ27', 'Vibrio sp. RC586', 'Lachancea nothofagi', 'Fervidicoccus fontis Kam940', 'Sphingomonas sp. PR090111-T3T-6A', 'Pseudomonas sp. S9', 'Lichtheimia ramosa', 'Oribacterium sp. NK2B42', 'Colletotrichum fructicola Nara gc5', 'Rhizobium vignae', 'Geobacillus sp. C56-T3', 'Fonticula alba', 'Caldisericum exile AZM16c01', 'Vibrio atlanticus LGP32', 'Enterobacteriaceae bacterium strain FGI 57', 'Halogranum salarium B-1', 'Bilophila sp. 4_1_30', "Marssonina brunnea f. sp. 'multigermtubi' MB_m1", 'Virgibacillus alimentarius', 'Megasphaera genomosp. type_1 str. 28L', 'Vibrio caribbeanicus ATCC BAA-2122', 'Vibrio sp. N418', 'Novosphingobium sp. PP1Y', 'Saccharomyces arboricola H-6', 'Capnocytophaga sp. oral taxon 329 str. F0087', 'Actinomyces sp. oral taxon 171 str. F0337', 'Colletotrichum chlorophyti', 'Colletotrichum tofieldiae', 'Bradyrhizobiaceae bacterium SG-6C', 'Frankia sp. QA3', 'Actinomyces sp. oral taxon 178 str. F0338', 'Capnocytophaga sp. oral taxon 338 str. F0234', 'Colletotrichum fioriniae', 'Streptomyces sp. GXT6', 'Actinomyces sp. oral taxon 170 str. F0386', 'Actinomyces sp. oral taxon 172 str. F0311', 'Actinomyces sp. oral taxon 175 str. F0384', 'Actinomyces sp. oral taxon 181 str. F0379', 'Actinomyces sp. oral taxon 448 str. F0400', 'Aggregatibacter sp. oral taxon 458 str. W10330', 'Atopobium sp. oral taxon 199 str. F0494', 'Atopobium sp. oral taxon 810 str. F0209', 'Capnocytophaga sp. oral taxon 324 str. F0483', 'Capnocytophaga sp. oral taxon 326 str. F0382', 'Capnocytophaga sp. oral taxon 332 str. F0381', 'Capnocytophaga sp. oral taxon 336 str. F0502', 'Capnocytophaga sp. oral taxon 380 str. F0488', 'Fusobacterium sp. oral taxon 370 str. F0437', 'Leptotrichia sp. oral taxon 215 str. W9775', 'Microbacterium sp. oral taxon 186 str. F0373', 'Neisseria sp. oral taxon 020 str. F0370', 'Oribacterium sp. oral taxon 108 str. F0425', 'Peptoniphilus sp. oral taxon 375 str. F0436', 'Porphyromonas sp. oral taxon 278 str. W7784', 'Prevotella sp. oral taxon 306 str. F0472', 'Prevotella sp. oral taxon 473 str. F0040', 'Selenomonas sp. oral taxon 137 str. F0430', 'Selenomonas sp. oral taxon 138 str. F0429', 'Selenomonas sp. oral taxon 149 str. 67H29BP', 'Streptococcus sp. oral taxon 056 str. F0418', 'Streptococcus sp. oral taxon 058 str. F0407', 'Streptococcus sp. oral taxon 071 str. 73H25AP', 'Actinobaculum sp. oral taxon 183 str. F0552', 'Lachnospiraceae bacterium oral taxon 082 str. F0431', 'Lachnospiraceae oral taxon 107 str. F0167', 'Parvimonas sp. oral taxon 393 str. F0440', 'Candidatus Atelocyanobacterium thalassa isolate SIO64986', 'Alteromonas naphthalenivorans', 'Ensifer sojae CCBAU 05684', 'Caldicellulosiruptor obsidiansis OB47', 'Hyphopichia burtonii NRRL Y-1933', 'Hyphomicrobium sp. MC1', 'Plasmodium sp. DRC-Itaito', 'Nitratireductor indicus C115', 'Acidovorax ebreus TPSY', 'Vibrio genomosp. F10 str. ZF-129', 'Anncaliia algerae PRA109', 'Leptothrix ochracea L12', 'Rahnella sp. Y9602', 'Delftia sp. Cs1-4', 'Melanaphis sacchari', 'Collinsella sp. 4_8_47FAA', 'Lachnospiraceae bacterium 2_1_46FAA', 'Sphingobacterium sp. 21', 'Methylocystis sp. SB2', 'Ahrensia sp. R2A130', 'Roseibium sp. TrichSKD4', 'Sphingomonas sp. MM-1', 'Olleya sp. VCSM12', 'Mobilicoccus pelagius NBRC 104925', 'Aspergillus fumigatus Af293', 'Oceanobacillus kimchii X50', 'Azoarcus sp. KH32C', 'Pseudogulbenkiania sp. NH8B', 'Thioalkalivibrio sp. ALSr1', 'Sulfuritalea hydrogenivorans sk43H', 'Klebsiella sp. MS 92-3', 'Coprococcus sp. ART55/1', 'Halobacterium sp. DL1', 'Escherichia sp. TW09308', 'Winogradskyella sp. PG-2', 'Photobacterium aphoticum', 'Methylophaga nitratireducenticrescens', 'Methylophaga frappieri', 'Clostridium sp. BNL1100', 'Bacillus sp. WP8', 'Acinetobacter indicus CIP 110367', 'Burkholderia insecticola', 'Burkholderia sp. RPE67', 'Sporosarcina newyorkensis 2681', 'Massilia consociata', 'Bifidobacterium callitrichos DSM 23973', 'Bifidobacterium stellenboschense', 'Bifidobacterium biavatii DSM 23969', 'Siansivirga zeaxanthinifaciens CC-SAMT-1', 'Haemophilus sp. oral taxon 851 str. F0397', 'Paraburkholderia bannensis NBRC 103871', 'Moraxella macacae 0408225', 'Pyrenochaeta sp. DS3sAY3a', 'Stagonospora sp. SRC1lsM3a', 'Vibrio jasicida MWB 21', 'Citreicella sp. 357', 'Candidatus Puniceispirillum marinum IMCC1322', 'Serratia sp. AS12', 'Serratia sp. AS13', 'Sinorhizobium sp. CCBAU 05631', 'Opitutaceae bacterium TAV5', 'Burkholderiaceae bacterium PBA', 'Nesterenkonia sp. F', 'Sugiyamaella lignohabitans', 'Peptoanaerobacter stomatis', 'Stomatobaculum longum', 'Kipferlia bialata', 'Fonsecaea nubica', 'Cryptosporidium ubiquitum', 'Trichoderma parareesei', 'Caenispirillum salinarum AK4', 'Agrobacterium sp. H13-3', 'Gemmatirosa kalamazoonesis', 'Streptomyces sp. SirexAA-E', 'Thermincola potens JR', 'Burkholderiales bacterium JOSHI_001', 'Microvirga lotononidis', 'Oscillatoriales cyanobacterium C42_A2020_001', 'Schizosaccharomyces cryophilus', 'Methanothermobacter sp. CaT2', 'Chloroflexus sp. Y-396-1', 'Methanobacterium paludis', 'Ogataea angusta', 'Terriglobus saanensis SP1PR4', 'Bacteroides stercorirosoris JCM 17103', 'Lactobacillus pasteurii DSM 23907 = CRBIP 24.76', 'Celeribacter baekdonensis B30', 'Mycolicibacter sinensis', 'Peptoniphilus sp. 1-1', 'Methyloferula stellata AR4', 'Ruminococcus sp. NK3A76', 'Clostridiales bacterium NK3B98', 'Erysipelotrichaceae bacterium NK3D112', 'Lachnospiraceae bacterium NK4A136', 'Lachnospiraceae bacterium NK4A144', 'Lachnospiraceae bacterium NK4A179', 'Methanobacterium lacus', 'Chryseobacterium sp. StRB126', 'Pseudodesulfovibrio piezophilus C1TLV30', 'Cutaneotrichosporon oleaginosum', 'Plasmodium sp. gorilla clade G2', 'Fulvivirga imtechensis AK7', 'Methanoregula formicica SMSP', 'Schleiferia thermophila str. Yellowstone', 'Candidatus Zinderia insecticola CARI', 'Mageeibacillus indolicus UPII9-5', 'Fukomys damarensis', 'Desulfosporosinus acidiphilus SJ4', 'Methylovorus sp. MP688', 'Candidatus Nanosalina sp. J07AB43', 'Candidatus Nanosalinarum sp. J07AB56', 'Plautia stali symbiont', 'Nonlabens ulvanivorans', 'Phytopythium vexans DAOM BR484', 'Clostridium sp. HGF2', 'Alistipes sp. HGB5', 'Fusarium sp. FOSC 3-a', 'Actinokineospora spheciospongiae', 'SAR116 cluster alpha proteobacterium HIMB100', 'Pseudovibrio sp. FO-BEG1', 'Caldanaerobacter subterraneus subsp. tengcongensis MB4', 'Mycolicibacterium iranicum UM_TJL', 'Desulfosporosinus sp. OT', 'Knoellia flava TL1', 'Kangiella geojedonensis', 'Rhynchosporium commune', 'Rhynchosporium agropyri', 'Asinibacterium sp. OR53', 'Balearica regulorum', 'Synechocystis sp. PCC 7509', 'Bartonella florencae', 'Pseudomonas brassicacearum', 'Nonlabens marinus S1-08', 'Serratia sp. M24T3', 'Desulfosarcina sp. BuS5', 'Aminobacter sp. J41', 'Bacillus sp. J33', 'Bacillus sp. J37', 'Chelativorans sp. J32', 'Paenibacillus sp. J14', 'Paracoccus sp. J39', 'Luteimonas sp. J29', 'Nocardioides sp. J54', 'Rhizopus delemar', 'Mogibacterium sp. CM50', 'Desulfurispirillum indicum S5', 'Marinomonas posidonica IVIA-Po-181', 'Actinomyces sp. ICM47', 'Atopobium sp. BS2', 'Selenomonas sp. FOBRC6', 'Selenomonas sp. FOBRC9', 'Shuttleworthia sp. MSX8B', 'Streptococcus sp. CM6', 'Veillonella sp. AS16', 'Lachnoanaerobaculum sp. OBRC5-5', 'Lachnoanaerobaculum sp. MSX33', 'Casaltella massiliensis', 'Fenollaria massiliensis', 'Levyella massiliensis', 'Anaerococcus provencensis', 'Bacteroidetes bacterium SCGC AAA027-N21', 'Granulicella mallensis MP5ACTX8', 'Granulicella tundricola MP5ACTX9', 'Desulfovibrio sp. X2', 'Burkholderia sp. WSM2230', 'Hippea jasoniae', 'Hippea sp. KM1', 'Arcobacter sp. L', 'Gordonia neofelifaecis NRRL B-59395', 'Diplocarpon rosae', 'Salpingoeca rosetta', 'Arenimonas metalli CF5-1', 'Paraburkholderia dilworthii', 'Fusarium proliferatum', 'Palaeococcus pacificus DY20341', 'Bacillus sp. 17376', 'Fonsecaea multimorphosa CBS 102226', 'Leuconostoc sp. C2', 'Deinococcus wulumuqiensis R12', 'Aquimarina agarivorans', 'Morus notabilis', 'Ruegeria conchae', 'Lacinutrix sp. 5H-3-7-4', 'Glaciecola sp. 4H-3-7+YE-5', 'Dokdonia sp. 4H-3-7-5', 'Bifidobacterium reuteri DSM 23975', 'Heterobasidion irregulare', 'Mycoplasma parvum str. Indiana', 'Staphylococcus argenteus M21126', 'Vulcanisaeta moutnovskia 768-28', 'Ruegeria halocynthiae', 'Gillisia sp. CAL575', 'Staphylococcus agnetis', 'Lebetimonas sp. JS170', 'Polymorphum gilvum SL003B-26A1', 'Vibrio sp. HENC-03', 'Erosia sp. biolep03', 'Candidatus Kinetoplastibacterium desouzaii TCC079E', 'Candidatus Kinetoplastibacterium galatii TCC219', 'Candidatus Kinetoplastibacterium oncopeltii TCC290E', 'Desmospora sp. 8437', 'Porphyromonas sp. KLE 1280', 'Streptomyces himastatinicus ATCC 53653', 'Halomonas sp. TD01', 'Methylophaga lonarensis MPL', 'Selenomonas sp. F0473', 'Streptococcus sp. F0441', 'Streptococcus sp. F0442', 'Sedimentitalea nanhaiensis DSM 24252', 'Megasphaera sp. UPII 135-E', 'Cryobacterium roopkundense', 'Daldinia sp. EC12', 'Hypoxylon sp. CI-4A', 'Psychrobacter sp. 1501(2011)', 'Leisingera sp. ANG1', 'Candidatus Pelagibacter sp. IMCC9063', 'Verrucosispora maris AB-18-032', 'Fimbriimonas ginsengisoli Gsoil 348', 'Ogataea parapolymorpha DL-1', 'Metallosphaera cuprina Ar-4', 'Listeria weihenstephanensis FSL R9-0317', 'Defluviitoga tunisiensis', 'Candidatus Nitrosarchaeum limnium SFB1', 'Sphingomonas sp. S17', 'Pusillimonas sp. T7-7', 'Pyrococcus yayanosii CH1', 'Candidatus Tremblaya phenacola PAVE', 'Exophiala sideris', 'Nannospalax galili', 'Endozoicomonas montiporae', 'Pseudomonas sp. StFLB209', 'Acinetobacter sp. P8-3-8', 'Sphingomonas sp. KC8', 'Caloramator sp. ALD01', 'Campylobacter volucris LMG 24379', 'Corynebacterium nuruki S6-4', 'Bacillus timonensis', 'Brevibacterium senegalense', 'Kurthia sp. Dielmo', 'Kurthia massiliensis', 'Kurthia senegalensis', 'Exophiala aquamarina CBS 119918', 'Marinobacter adhaerens HP15', 'Thioalkalivibrio sulfidiphilus HL-EbGr7', 'Nitrososphaera viennensis EN76', 'Paenibacillus sp. HW567', 'Legionella massiliensis', 'Deferrisoma camini S3R1', 'Dehalobacter sp. FTH1', 'Idiomarina sp. A28L', 'Bradyrhizobium sp. WSM2793', 'Bradyrhizobium sp. WSM3983', 'Mesorhizobium sp. WSM3224', 'Mesorhizobium sp. WSM3626', 'Bradyrhizobium sp. ARR65', 'Drosophila rhopaloa', 'Ensifer sp. WSM1721', 'Candidatus Arthromitus sp. SFB-rat-Yit', 'Wickerhamomyces ciferrii', 'Aureobasidium subglaciale EXF-2481', 'Clostridium sp. SY8519', 'Rhizobium sp. IBUN', 'Ochrovirga pacifica', 'Thermococcus sp. 4557', 'Acidiphilium sp. PM', 'Demequina mangrovi', 'Citricoccus sp. CH26A', 'Oceaniovalibus guishaninsula JLT2003', 'Aminicenantes bacterium SCGC AAA252-A02', 'Zymoseptoria brevis', 'Zymoseptoria tritici', 'Candidatus Moranella endobia PCIT', 'Paracoccidioides lutzii', 'Anditalea andensis', 'Paenibacillus sp. Aloe-11', 'Verticillium alfalfae VaMs.102', 'Acetobacteraceae bacterium AT-5844', 'Thermoplasmatales archaeon BRNA1', 'Methylotenera versatilis 301', 'Psychrobacter sp. TB67', 'Grimontia indica', 'Nocardia sp. BMG51109', 'Ensifer sp. BR816', 'Azospirillum baldaniorum', 'Amycolatopsis halophila YIM 93223', 'Aspergillus luchuensis IFO 4308', 'Halonotius sp. J07HN4', 'Bacillus sp. NSP22.2', 'Tetrapisispora blattae', 'Caballeronia grimmiae', 'Lachancea dasiensis CBS 10888', 'Porticoccus hydrocarbonoclasticus MCTG13d', 'Armillaria solidipes', 'Pantoea rwandensis', 'Thiolapillus brandeum', 'Acetobacter okinawensis JCM 25146', 'Staphylococcus sp. HGB0015', 'Paenisporosarcina sp. HGH0030', 'Streptomyces sp. HGB0020', 'Parabacteroides sp. HGS0025', 'Bacteroides sp. HPS0048', 'Coprococcus sp. HPP0074', 'Coprococcus sp. HPP0048', 'Serinicoccus profundi MCCC 1A05965', 'Haemophilus sputorum CCUG 13788', 'Paenibacillus sp. HGH0039', 'Corynebacterium sp. HFH0082', 'Rhizobium mesoamericanum STM3625', 'Leucobacter chromiiresistens JG 31', 'Citrobacter sp. S-77', 'Saccharomyces eubayanus', 'Candidatus Aquiluna sp. IMCC13023', 'Hepatospora eriocheir', 'Enterospora canceri', 'Aquimarina agarilytica ZC1', 'Bartonella sp. DB5-6', 'Streptococcus sp. SK140', 'Streptococcus sp. SK643', 'Methylobacterium sp. GXF4', 'Arthrobacter sp. PAO19', 'Burkholderia sp. YI23', 'Coprobacter fastidiosus NSB1', 'Limnohabitans sp. Rim28', 'Limnohabitans sp. Rim47', 'Arthrobacter sp. MA-N2', 'Paracoccus sp. N5', 'Methylopila sp. M107', 'Methylobacterium sp. 10', 'Methylobacterium sp. 77', 'Methylophilaceae bacterium 11', 'Pyrobaculum ferrireducens', 'Actinomyces sp. ICM39', 'Clostridium sp. MSTE9', 'Rickettsia philipii str. 364D', 'Paenirhodobacter enshiensis', 'Penicillium rubens', 'Thermus sp. CCB_US3_UF1', 'Metallosphaera yellowstonensis MK1', 'Atopobium sp. BV3Ac4', 'Propionimicrobium sp. BV2F7', 'Peptoniphilus sp. BV3C26', 'Coriobacteriaceae bacterium BV3Ac1', 'Megasphaera sp. BV3C16-1', 'Psychrobacter sp. PAMC 21119', 'Sphingomonas sp. PAMC 26605', 'Sphingomonas sp. PAMC 26617', 'Methylophilus sp. 5', 'Arthrobacter sp. 31Y', 'Hoeflea sp. 108', 'Vibrio sp. EJY3', 'Elizabethkingia anophelis NUHP1', 'Brevibacillus massiliensis', 'Actinomyces sp. ph3', 'Halomonas sp. GFAJ-1', 'Arthrobacter sp. Rue61a', 'Rhizobium grahamii CCGE 502', 'Sphingopyxis sp. LC363', 'Methylopila sp. 73B', 'Mycobacterium sp. 141', 'Actinomadura flavalba DSM 45200', 'Corynebacterium doosanense CAU 212 = DSM 45436', 'Gordonia kroppenstedtii DSM 45133', 'Fodinicurvata fenggangensis DSM 21160', 'Fodinicurvata sediminis DSM 21159', 'Halomonas zhanjiangensis DSM 21076', 'Hirschia maritima DSM 19733', 'Pedobacter oryzae DSM 19973', 'Ponticaulis koreensis DSM 19734', 'Rubellimicrobium mesophilum DSM 19309', 'Thiomicrorhabdus sp. Kp2', 'Gonapodya prolifera JEL478', 'SAR86 cluster bacterium SAR86A', 'SAR86 cluster bacterium SAR86B', 'Magnetococcus marinus MC-1', 'Treponema sp. JC4', 'Pseudomonas sp. P179', 'Limimaricola cinnabarinus LL-001', 'Bosea sp. 117', 'Bradyrhizobium sp. DOA9', 'Paenibacillus beijingensis', 'Bacillus sp. JS', 'Paraglaciecola arctica BSs20135', 'Weissella oryzae SG25', 'Marine Group I thaumarchaeote SCGC AB-629-I23', 'Nitrospina sp. AB-629-B18', 'Dehalobacter sp. CF', 'Sphaerochaeta globosa str. Buddy', 'Sphaerochaeta pleomorpha str. Grapes', 'Flavobacterium sp. 83', 'Methylobacterium sp. 88A', 'Xanthobacter sp. 126', 'Arthrobacter sp. 35W', 'Bacillus sp. 37MA', 'Rhizobium sp. CCGE 510', 'Melioribacter roseus P3M-2', 'Alkalihalobacillus ligniniphilus', 'Cellvibrio sp. BR', 'Klebsiella michiganensis E718', 'Nocardiopsis sp. CNT312', 'Streptomyces sp. CNH099', 'Saccharomonospora sp. CNQ490', 'Xanthomarina gelatinilytica', 'Endozoicomonas numazuensis', 'Clostridium arbusti SL206', 'Mycobacterium paraintracellulare', 'Lactobacillus curieae', 'Pseudomassariella vexata', 'Homolaphlyctis polyrhiza', 'Novosphingobium sp. AP12', 'Sphingobium sp. AP49', 'Rhizobium sp. CF080', 'Rhizobium sp. CF122', 'Flavobacterium sp. CF136', 'Herbaspirillum sp. CF444', 'Pseudomonas sp. GM21', 'Herbaspirillum sp. YR522', 'Phyllobacterium sp. YR531', 'Tritrichomonas foetus', 'Acinetobacter sp. CIP 101934', 'Acinetobacter sp. CIP 101966', 'Acinetobacter sp. CIP 102082', 'Acinetobacter sp. CIP 102129', 'Acinetobacter sp. CIP 102136', 'Acinetobacter sp. CIP 102143', 'Acinetobacter sp. CIP 102159', 'Acinetobacter sp. CIP 102529', 'Acinetobacter sp. CIP 102637', 'Acinetobacter sp. CIP 51.11', 'Acinetobacter sp. CIP 53.82', 'Acinetobacter sp. CIP 56.2', 'Acinetobacter sp. CIP 64.7', 'Acinetobacter sp. CIP A162', 'Lysinibacillus varians', 'Dehalobacter sp. DCA', 'Ornithinibacillus scapharcae TW25', 'Achromobacter arsenitoxydans SY8', 'Acinetobacter oleivorans DR1', 'Geminisphaera colitermitum TAV2', 'Pseudomonas furukawaii', 'Arthrobacter sp. 9MFCol3.1', 'Leifsonia sp. 109', 'Tsukamurella sp. 1534', 'Arthrobacter sp. 161MFSha2.1', 'Arthrobacter sp. 162MFSha1.1', 'Microbacterium sp. 292MF', 'Nematocida sp. 1 ERTm2', 'Streptomyces sp. LaPpAH-108', 'Streptomyces sp. MspMP-M5', 'Moorea producens 3L', 'Streptococcus sp. I-G2', 'Streptococcus sp. I-P16', 'Streptomyces sp. HmicA12', 'Tumebacillus flagellatus', 'Streptomyces sp. LaPpAH-95', 'Streptomyces sp. Amel2xE9', 'Streptomyces sp. ATexAB-D23', 'Streptomyces sp. BoleA5', 'Streptomyces sp. PsTaAH-124', 'Streptomyces sp. FxanaC1', 'Mycobacterium sp. 155', 'Thermotoga sp. Cell2', 'Thermotoga sp. 2812B', 'Arthrobacter sp. 135MFCol5.1', 'Thioalkalivibrio sp. ALJT', 'Thioalkalivibrio sp. ALD1', 'Thioalkalivibrio sp. ALMg11', 'Thioalkalivibrio sp. ALE31', 'Thiomonas sp. FB-Cd', 'Prevotella sp. 10(H)', 'Desulfurobacterium sp. TC5-1', 'Persephonella sp. IF05-L8', 'Persephonella sp. KM09-Lau-8', 'Kosakonia sacchari SP1', 'Thioalkalivibrio sp. ALJ7', 'Thioalkalivibrio sp. ALJ11', 'Thioalkalivibrio sp. ALJ16', "Leptospirillum sp. Group II 'C75'", 'Ustilaginoidea virens', 'Bordetella sp. FB-8', 'Nocardia sp. BMG111209', 'Brucella sp. 63/311', 'Ruminococcus bicirculans', 'Candidatus Nasuia deltocephalinicola str. NAS-ALF', 'Euryhalocaulis caribicus', 'Streptococcus sp. ACC21', 'Ruminococcus champanellensis 18P13 = JCM 17042', 'Pseudomonas donghuensis', 'Clostridium sp. 12(A)', 'Cronobacter condimenti 1330', 'Richelia intracellularis HH01', 'Imtechella halotolerans K1', 'Methylotenera sp. 73s', 'Sulfurovum sp. AR', 'Enterobacter sp. R4-368', 'Halomonas xinjiangensis', 'Draconibacterium orientale', 'Xanthobacteraceae bacterium 501b', 'Mycobacterium sp. MOTT36Y', 'Mycobacterium sp. H4Y', 'Streptomyces pratensis ATCC 33331', 'Bacillus sp. 123MFChir2', 'Nocardia sp. CNY236', 'Streptomyces sp. CNT372', 'Streptomyces sp. CNY243', 'Brucella sp. F5/06', 'Brucella sp. 56/94', 'Citrobacter sp. KTE30', 'Escherichia sp. KTE114', 'Citrobacter sp. KTE151', 'Escherichia sp. KTE11', 'Escherichia sp. KTE31', 'Citrobacter sp. KTE32', 'Vitrella brassicaformis CCMP3155', 'Rhodobacteraceae bacterium PD-2', 'Streptomyces sp. 142MFCol3.1', 'Streptomyces sp. 351MFTsu5.1', 'Streptomyces sp. 303MFCol5.2', 'Nocardia sp. 348MFTsu5.1', 'Mycobacterium sp. 360MFTsu5.1', 'Terracoccus sp. 273MFTsu3.1', 'Oxytricha trifallax', 'Sulfurimonas hongkongensis', 'Catenovulum agarivorans DS-2', 'Fischerella sp. PCC 9431', 'Fischerella sp. PCC 9605', 'Geitlerinema sp. PCC 7407', 'Gloeocapsa sp. PCC 7428', 'Microcoleus sp. PCC 7113', 'Oscillatoria sp. PCC 10802', 'Chamaesiphon minutus PCC 6605', 'Synechococcus sp. PCC 7502', 'Leptolyngbya sp. PCC 6406', 'Colletotrichum sublineola', 'Fischerella sp. PCC 9339', 'Sphingopyxis sp. MC1', 'Herbaspirillum sp. GW103', 'Methanocella conradii HZ254', 'Methanocella arvoryzae MRE50', 'Peptoniphilus rhinitidis 1-13', 'Sulfurimonas gotlandica GD1', 'Agrobacterium fabrum str. C58', 'Alcanivorax nanhaiticus', 'Microbacterium sp. C448', 'Komagataeibacter medellinensis NBRC 3288', 'Halomonas huangheensis', 'Bacillus xiamenensis', 'Bacillus zhangzhouensis', 'Arenitalea lutea', 'Candidatus Photodesmus blepharus', 'Mycoplasma feriruminatoris', 'Pseudomonas sp. M47T1', 'Cladophialophora psammophila', 'Deinococcus swuensis', 'Escherichia sp. KTE52', 'Klebsiella sp. KTE92', 'Escherichia sp. KTE96', 'Escherichia sp. KTE159', 'Myroides injenensis M09-0166', 'Pyrococcus sp. ST04', 'Mesotoga prima MesG1.Ag.4.2', 'Thioclava dalianensis', 'Blattabacterium sp. (Blaberus giganteus)', 'Rhodovulum sp. PH10', 'Flavobacterium sp. ACAM 123', 'Burkholderia sp. lig30', 'Lactobacillus hokkaidonensis JCM 18461', 'Snodgrassella alvi', 'Gilliamella apicola', 'Corvus moneduloides', 'Clostridium sp. Maddingley MBC34-26', 'Paenibacillus sp. OSY-SE', 'Mangrovimonas yunxiaonensis', 'Arthrobacter sp. M2012083', 'Janthinobacterium sp. HH01', 'Thermogladius calderae 1633', 'Anaerovibrio sp. RM50', 'Ruminobacter sp. RM87', 'Bacteriovorax sp. Seq25_V', 'Bacteriovorax sp. BAL6_X', 'Flavobacterium sp. F52', 'Lactobacillus oryzae JCM 18671', 'Halopiger salifodinae', 'Achlya hypogyna', 'Lactobacillus hominis DSM 23910 = CRBIP 24.179', 'Geobacter daltonii FRC-32', 'Acidaminococcus sp. HPA0509', 'Actinomyces sp. HPA0247', 'Corynebacterium sp. KPL1814', 'Corynebacterium sp. KPL1817', 'Corynebacterium sp. KPL1818', 'Corynebacterium sp. KPL1821', 'Corynebacterium sp. KPL1824', 'Corynebacterium sp. KPL1855', 'Corynebacterium sp. KPL1856', 'Corynebacterium sp. KPL1857', 'Corynebacterium sp. KPL1859', 'Corynebacterium sp. KPL1860', 'Dermabacter sp. HFH0086', 'Propionibacterium sp. HGH0353', 'Propionibacterium sp. KPL1838', 'Propionibacterium sp. KPL1844', 'Propionibacterium sp. KPL1852', 'Pseudomonas sp. HPB0071', 'Streptococcus sp. HPH0090', 'Streptomyces sp. HPH0547', 'Veillonella sp. HPA0037', 'Corynebacterium sp. KPL1986', 'Corynebacterium sp. KPL1989', 'Corynebacterium sp. KPL1995', 'Corynebacterium sp. KPL1996', 'Corynebacterium sp. KPL1998', 'Corynebacterium sp. KPL2004', 'Propionibacterium sp. KPL2005', 'Propionibacterium sp. KPL2009', 'Streptomyces sp. CNR698', 'Novosphingobium sp. MBES04', 'Pseudomonas sp. Lz4W', 'Gallaecimonas xiamenensis 3-C-1', 'Idiomarina xiamenensis 10-D-4', 'Sphingobium sp. C100', 'Hyphomonas sp. L-53-1-40', 'Pseudomonas sp. UW4', 'Marinomonas profundimaris', 'Celeribacter indicus', 'Commensalibacter sp. MX01', 'Colletotrichum orchidophilum', 'Streptomyces sp. AA0539', 'Gemmata massiliana', 'Pseudoxanthomonas sp. GW2', 'Chelatococcus sp. GW1', 'Dyadobacter tibetensis Y620-1', 'Enterobacteriaceae bacterium B14', 'Acidocella sp. MX-AZ02', 'Diaporthe ampelina', 'Thermus tengchongensis YIM 77401', 'Amphibacillus jilinensis Y1', 'Clostridium bornimense', 'Acinetobacter sp. NIPH 542', 'Acinetobacter sp. NIPH 298', 'Acinetobacter sp. CIP 64.2', 'Acinetobacter sp. NIPH 1847', 'Acinetobacter sp. NIPH 3623', 'Acinetobacter sp. CIP 110321', 'Acinetobacter sp. CIP 70.18', 'Acinetobacter sp. ANC 3880', 'Acinetobacter sp. NIPH 1867', 'Acinetobacter sp. ANC 4105', 'Acinetobacter sp. NIPH 284', 'Acinetobacter sp. ANC 3862', 'Acinetobacter sp. NIPH 2168', 'Acinetobacter sp. ANC 3929', 'Acinetobacter sp. NIPH 2100', 'Acinetobacter sp. NIPH 713', 'Acinetobacter sp. NIPH 899', 'Acinetobacter sp. NIPH 236', 'Acinetobacter sp. NIPH 758', 'Acinetobacter sp. ANC 3789', 'Cupriavidus sp. BIS7', 'Roseomonas sp. B5', 'Xylona heveae TC161', 'Octadecabacter antarcticus 307', 'Streptomyces sp. GBA 94-10', 'Brucella inopinata BO1', 'Lactobacillus mellifer', 'Lactobacillus kullabergensis', 'Lactobacillus helsingborgensis', 'Lactobacillus kimbladii', 'Lactobacillus melliventris', 'Lactobacillus mellis', 'Acinetobacter nectaris CIP 110549', 'Actinomyces sp. S4-C9', 'Arcanobacterium sp. S3PF19', 'Peptostreptococcus sp. MV1', 'Methanobacterium sp. Maddingley MBC34', 'Altibacter lentus', 'Corynebacterium humireducens NBRC 106098 = DSM 45392', 'Enterobacteriaceae bacterium LSJC7', 'Mangrovibacter sp. MFB070', 'Pantoea sp. A4', 'Dickeya sp. DW 0440', 'Oscillibacter sp. KLE 1728', 'Oscillibacter sp. KLE 1745', 'Blautia sp. KLE 1732', 'Clostridium sp. KLE 1755', 'Streptomyces rapamycinicus NRRL 5491', 'Actinomyces sp. oral taxon 877 str. F0543', 'Capnocytophaga sp. oral taxon 863 str. F0517', 'Leptotrichia sp. oral taxon 879 str. F0557', 'Prevotella sp. F0091', 'Paenibacillus sp. FSL H7-689', 'Paenibacillus sp. FSL R7-277', 'Leptolyngbya sp. KIOST-1', 'Sphingobacterium deserti', 'Flavobacterium sp. WG21', 'Cupriavidus sp. GA3-3', 'Alkalibacterium sp. AK22', 'Candidatus Nitrosopumilus sediminis', 'Salimicrobium jeotgali', 'Bradyrhizobium sp. DFCI-1', 'Flaviramulus ichthyoenteri Th78', 'Lachancea sp. CBS 6924', 'Lachancea mirantina', 'Paenisporosarcina sp. TG-14', 'Nitratireductor pacificus pht-3B', 'Thermotoga sp. Mc24', 'Lactobacillus shenzhenensis LY-73', 'Clohesyomyces aquaticus', 'Desulfuromonas sp. TF', 'Corynebacterium ihumii', 'Megasphaera massiliensis', 'Nesterenkonia massiliensis', 'Nosocomiicoccus massiliensis', 'Enorma timonensis', 'Desulfobacula sp. TS', 'Clostridiales bacterium VE202-13', 'Clostridiales bacterium VE202-18', 'Clostridiales bacterium VE202-09', 'Clostridiales bacterium VE202-08', 'Clostridiales bacterium VE202-14', 'Clostridiales bacterium VE202-21', 'Marinobacterium sp. AK27', 'Geobacillus sp. GHH01', 'Chryseobacterium sp. JM1', 'Chryseobacterium sp. FH1', 'Staphylococcus sp. E463', 'Pacificimonas flava', 'Gayadomonas joobiniege G7', 'Ralstonia sp. AU12-08', 'Eubacterium sp. 14-2', 'Lachnospiraceae bacterium M18-1', 'Lachnospiraceae bacterium MD335', 'Firmicutes bacterium M10-2', 'Oscillibacter sp. 1-3', 'Dorea sp. 5-2', 'Lachnospiraceae bacterium MD308', 'Lachnospiraceae bacterium 10-1', 'Parabacteroides sp. ASF519', 'Anaerotruncus sp. G3(2012)', 'Candidatus Pantoea carbekii', 'Haloquadratum sp. J07HQX50', 'Halonotius sp. J07HN6', 'Halorubrum sp. J07HR59', 'Sodalis praecaptivus', 'Dokdonia sp. PRO95', 'Bacillus massiliogorillae', 'Luteimonas huabeiensis HB2', 'Campylobacter iguaniorum', 'Magnetospirillum caucaseum', 'Mariniradius saccharolyticus AK6', 'Lachancea lanzarotensis', 'Borreliella chilensis', 'Nocardiopsis potens DSM 45234', 'Rhizobium sp. 2MFCol3.1', 'Halobacillus sp. BAB-2008', 'Paramicrosporidium saccamoebae', 'Arsenophonus endosymbiont str. Hangzhou of Nilaparvata lugens', 'Microbacterium sp. UCD-TDU', 'Parvularcula oceani', 'Blastomonas sp. AAP53', 'Sandarakinorhabdus sp. AAP62', 'Porphyrobacter sp. AAP82', 'Candidatus Sulfuricurvum sp. RIFRC-1', 'Imhoffiella purpurea', 'Gillisia sp. Hel_I_29', 'Maribacter sp. Hel_I_7', 'Polaribacter sp. Hel1_85', 'Polaribacter sp. Hel_I_88', 'Muricauda sp. MAR_2010_75', 'Salegentibacter sp. Hel_I_6', 'Pseudomonas sp. FGI182', "Leptospirillum sp. Group IV 'UBA BS'", 'Streptomyces sp. 769', 'Phascolarctobacterium sp. CAG:207', 'Phascolarctobacterium sp. CAG:266', 'Oscillibacter ruminantium GH1', 'Edwardsiella piscicida C07-087', 'Candidatus Endolissoclinum faulkneri L2', 'Pseudomonas sp. URMO17WK12:I8', 'Streptomyces sp. PAMC 26508', 'Nafulsella turpanensis ZLM-10', 'Lysinibacillus manganicus DSM 26584', 'Thioalkalivibrio sp. ALE6', 'Thioalkalivibrio sp. ALE19', 'Thioalkalivibrio sp. AKL19', 'Frischella perrara', 'Sediminibacterium sp. C3', 'Acidobacteriaceae bacterium KBS 83', 'Acidobacteriaceae bacterium KBS 89', 'Pantoea sp. IMH', 'Pseudomonas sp. G5(2012)', 'Peptoniphilus timonensis JC401', 'Rhodococcus sp. AW25M09', 'Acidovorax sp. MR-S7', 'Thioalkalivibrio sp. ALR17-21', 'Flavobacterium sp. KJJ', 'Pedobacter sp. R20-19', 'Megasphaera sp. NM10', 'Liberibacter crescens BT-1', 'Mycobacterium sp. VKM Ac-1817D', 'Paenibacillus antibioticophila', 'Candidatus Hepatobacter penaei', 'Acidovorax sp. JHL-9', 'Escherichia sp. KTE172', 'Hippea alviniae EP5-r', 'Synechococcus sp. KORDI-100', 'Gorillibacterium massiliense', 'Butyrivibrio sp. AE2015', 'Butyrivibrio sp. VCD2006', 'Butyrivibrio sp. AE3009', 'Butyrivibrio sp. XPD2006', 'Butyrivibrio sp. FC2001', 'Butyrivibrio sp. AE3006', 'Prevotella sp. AGR2160', 'Butyrivibrio sp. WCD3002', 'Butyrivibrio sp. VCB2006', 'Butyrivibrio sp. LC3010', 'Butyrivibrio sp. WCD2001', 'Butyrivibrio sp. XBB1001', 'Butyrivibrio sp. NC3005', 'Butyrivibrio sp. MC2013', 'Meira miltonrushii', 'Hyphomonas pacifica', 'Hyphomonas sp. CY54-11-8', 'Hyphomonas beringensis', 'Hyphomonas chukchiensis', 'Hyphomonas atlantica', 'Asticcacaulis sp. AC460', 'Asticcacaulis sp. AC402', 'Asticcacaulis sp. AC466', 'Frankia sp. Iso899', 'Tolumonas lignilytica', 'Nocardioides sp. Iso805N', 'Paenibacillus sp. A9', 'Planktomarina temperata RCA23', 'Actinomyces sp. S6-Spd3', 'Tissierellia bacterium S7-1-4', 'Prevotella sp. S7-1-8', 'Pandoraea sp. SD6-2', 'Brachyspira hampsonii 30446', 'Mesorhizobium sp. L2C084A000', 'Mesorhizobium sp. LNJC398B00', 'Prevotella sp. S7 MS 2', 'Bacillus massiliosenegalensis JC6', 'Achromobacter insuavis AXX-A', 'Arcticibacter svalbardensis MN12-7', 'Streptomyces sp. CNT318', 'Streptomyces sp. TAA040', 'Anaerococcus senegalensis JC48', 'Alistipes senegalensis JC50', 'Actinomyces timonensis DSM 23838', 'Nitrosospira lacus', 'Magnetospira sp. QH-2', 'Streptomyces sp. TAA204', 'Candidatus Methanomethylophilus alvus Mx1201', 'Dietzia sp. UCD-THP', 'Kocuria sp. UCD-OTCP', 'Leucobacter sp. UCD-THU', 'Halopiger djelfimassiliensis', 'Halopiger goleimassiliensis', 'Pseudomonas sp. ATCC 13867', 'Photobacterium gaetbulicola Gung47', 'Thermodesulfobacterium geofontis OPF15', 'Parageobacillus genomosp. 1', 'Aquimarina pacifica', 'Mesorhizobium sp. STM 4661', 'Intestinimonas butyriciproducens', 'Myxococcus hansupus', 'Afipia sp. OHSU_I-C4', 'Bradyrhizobium sp. OHSU_III', 'Psychrobacter sp. JCM 18900', 'Mesorhizobium sp. URHA0056', 'Microbacterium sp. URHA0036', 'Marmoricola sp. URHB0036', 'Mycobacterium sp. URHD0025', 'Alteromonas sp. ALT199', 'Bradyrhizobium sp. URHA0002', 'Streptomyces sp. TAA486', 'Methanocaldococcus bathoardescens', 'Caldisalinibacter kiritimatiensis', 'Cellulomonas sp. KRMCY2', 'Clostridium sp. ASBs410', 'Geovibrio sp. L21-Ace-BES', 'Microbacterium sp. KROCY2', 'Oceanicola sp. HL-35', 'Marinobacter nanhaiticus D15-8W', 'Sporosarcina sp. EUR3 2.2.2', 'Alcanivorax pacificus W11-5', 'Termitomyces sp. J132', 'Streptomyces hokutonensis', 'Desulfohalovibrio reitneri', 'Salinispira pacifica', 'Arthrobacter sp. Br18', 'Arthrobacter sp. H14', 'Thermocrinis sp. GBS', 'Aureispira sp. CCB-QB1', 'Peniophora sp. CONT', 'Perkinsela sp. CCAP 1560/4', 'Streptococcus sp. HSISM1', 'Streptococcus sp. HSISB1', 'Streptococcus sp. HSISS1', 'Streptococcus sp. HSISS2', 'Streptococcus sp. HSISS3', 'Enterococcus sp. HSIEG1', 'Blattabacterium sp. (Nauphoeta cinerea)', 'Archaeoglobus sulfaticallidus PM70-1', 'Aquimarina atlantica', 'Thioclava atlantica', 'Candidatus Mycoplasma girerdii', 'Mesorhizobium sp. NBIMC_P2-C3', 'Clostridiales bacterium oral taxon 876 str. F0540', 'Mitsuokella sp. oral taxon 131 str. W9106', 'Peptostreptococcaceae bacterium oral taxon 113 str. W5053', 'Selenomonas sp. oral taxon 892 str. F0426', 'Rhodococcus defluvii', 'Mycobacterium sp. TKK-01-0059', 'Serratia sp. FS14', 'Prolemur simus', 'Thermoactinomyces daqus', 'Enterobacter sp. MGH 1', 'Enterobacter sp. MGH 3', 'Enterobacter sp. MGH 6', 'Enterobacter sp. MGH 7', 'Enterobacter sp. MGH 10', 'Enterobacter sp. MGH 15', 'Enterobacter sp. MGH 22', 'Enterobacter sp. MGH 23', 'Enterobacter sp. MGH 24', 'Enterobacter sp. MGH 25', 'Enterobacter sp. MGH 33', 'Enterobacter sp. MGH 37', 'Enterobacter sp. MGH 38', 'Enterobacter sp. BWH 37', 'Enterobacter sp. BIDMC 26', 'Enterobacter sp. BIDMC 27', 'Enterobacter sp. BIDMC 28', 'Enterobacter sp. BIDMC 29', 'Enterobacter sp. BIDMC 30', 'Novosphingobium lindaniclasticum LE124', 'Cycloclasticus zancles 78-ME', 'Thermus caliditerrae', 'Auricularia subglabra TFB-10046 SS5', 'Sphingobium baderi LL03', 'Candidatus Saccharimonas aalborgensis', 'Salinarchaeum sp. Harcht-Bsk1', 'Bifidobacterium moukalabense DSM 27321', 'Tepidicaulis marinus', 'Spiribacter salinus M19-40', 'Spiribacter curvatus', 'Sphingobium bisphenolivorans', 'Polaribacter sp. Hel1_33_49', 'Calothrix sp. 336/3', 'Bacillus sp. UNC438CL73TsuS30', 'Luminiphilus syltensis NOR5-1B', 'Flavobacterium enshiense DK69', 'Brucella sp. 04-5288', 'Sulfitobacter geojensis', 'Sulfitobacter noctilucicola', 'Sulfitobacter noctilucae', 'Saccharibacter sp. AM169', 'Epichloe mollis', 'Winogradskyella psychrotolerans RS-3', 'Halomonas sp. A3H3', 'Bacillus sp. EB01', 'Paucisalibacillus sp. EB02', 'Bacillus ndiopicus', 'Bacillus dielmoensis', 'Anaerosalibacter massiliensis', 'Bacteroides neonati', 'Pseudoalteromonas piratica', 'Arthrobacter sp. AK-YN10', 'Cyclobacterium qasimii M12-11B', 'Synechococcus sp. UTEX 2973', 'Thioclava indica', 'Bacteriovorax sp. BSW11_IV', 'Peptoniphilus mikwangii', 'Roseovarius sp. MCTG156(2b)', 'Arcobacter sp. AF1028', 'Arcobacter lanthieri', 'Bradyrhizobium diazoefficiens USDA 110', 'Rhodococcus sp. PML026', 'Hymenobacter sp. APR13', 'Batrachochytrium salamandrivorans', 'Lutibaculum baratangense AMV1', 'Thermofilum adornatum', 'Zygosaccharomyces parabailii', 'Rhodobacteraceae bacterium HIMB11', 'Fonsecaea erecta', 'Mycobacterium sp. UM_WGJ', 'Mycobacterium sp. UM_WWY', 'Firmicutes bacterium ASF500', 'Dyella jiangningensis', 'Gemmatimonas phototrophica', 'Desulfonauticus sp. A7A', 'Sphingomonas sp. FUKUSWIS1', 'Methanobacterium sp. MB1', 'Spirosoma radiotolerans', 'Streptomyces sp. URHA0041', 'Geodermatophilaceae bacterium URHB0048', 'Mesorhizobium sp. URHC0008', 'Cellulomonas sp. URHE0023', 'Bradyrhizobium sp. URHD0069', 'Blastococcus sp. URHD0036', 'Halomonas sp. 23_GOM-1509m', 'Sulfitobacter sp. 20_GPM-1509m', 'Intrasporangiaceae bacterium URHB0013', 'Ahrensia sp. 13_GOM-1096m', 'Tenacibaculum sp. 47A_GOM-205m', 'Mycobacterium sp. URHB0044', 'Alcanivorax sp. 43B_GOM-46m', 'Solirubrobacterales bacterium URHD0059', 'Dongia sp. URHE0060', 'Geodermatophilaceae bacterium URHA0031', 'Rhodospirillales bacterium URHD0088', 'Paenibacillus darwinianus', 'Streptomycetaceae bacterium MP113-05', 'Aliihoeflea sp. 2WW', 'Brevibacterium sp. VCM10', 'Caulobacteraceae bacterium PMMR1', 'Sporosarcina sp. D27', 'Thermogemmatispora carboxidivorans', 'Thermorudis peleae', 'Acidobacterium ailaaui', 'Methyloceanibacter caenitepidi', 'Francisella sp. W12-1067', 'Lysobacter arseniciresistens ZS79', 'Hymenobacter sp. DG25B', 'Leptolyngbya sp. Heron Island J', 'Exiguobacterium chiriqhucha RW-2', 'Sphingobacterium paucimobilis HER1398', 'Methylophilus sp. OH31', 'Staphylococcus sp. M0480', 'Clostridium sp. Ade.TY', 'Pseudogymnoascus sp. VKM F-3808', 'Kalmanozyma brasiliensis', 'Prevotella sp. HUN102', 'Eubacterium sp. AB3007', 'Flavimarina sp. Hel_I_48', 'Leeuwenhoekiella sp. MAR_2009_132', 'Sediminibacter sp. Hel_I_10', 'Ruminococcaceae bacterium AE2021', 'Lachnospiraceae bacterium AC2031', 'Bifidobacterium sp. 7101', 'Bifidobacterium sp. A11', 'Candidatus Saccharibacteria bacterium RAAC3_TM7_1', 'Thermosynechococcus sp. NK55a', 'Paenibacillus sp. MAEPY2', 'Haloferula sp. BvORR071', 'Verrucomicrobium sp. BvORR034', 'Marinobacter sp. ES-1', 'Leucobacter sp. PH1c', 'Serratia sp. H1n', 'Alcanivorax sp. P2S70', 'Halomonas sp. PBN3', 'Candidatus Micropelagos thuwalensis', 'Exiguobacterium sp. MH3', 'Ophiocordyceps australis', 'Bacteroidales bacterium CF', 'Flavobacterium limnosediminis JC2902', 'Sulfitobacter pseudonitzschiae', 'Streptomyces sp. A02', 'Verrucomicrobium sp. BvORR106', 'Corynebacterium glyciniphilum AJ 3170', 'Candidatus Methanomassiliicoccus intestinalis Issoire-Mx1', 'Synechococcus sp. NKBG15041c', 'Betaproteobacteria bacterium MOLA814', 'Bacillus sp. MB2021', 'Butyrivibrio sp. FCS014', 'Butyrivibrio sp. MC2021', 'Prevotella sp. MA2016', 'Oribacterium sp. FC2011', 'Pseudobutyrivibrio sp. LB2011', 'Lachnospiraceae bacterium AC2028', 'Lachnospiraceae bacterium AC3007', 'Lachnospiraceae bacterium MA2020', 'Lachnospiraceae bacterium MC2017', 'Youngiibacter fragilis 232.1', 'Candidatus Tachikawaea gelatinosa', 'Candidatus Nitrosopelagicus brevis', 'Bacteroides sp. Ga6A2', 'Treponema sp. C6A8', 'Oribacterium sp. P6A1', 'Prevotella sp. P6B1', 'Pseudobutyrivibrio sp. MD2005', 'Ruminococcus sp. FC2018', 'Selenomonas sp. ND2010', 'Serratia sp. DD3', 'Shinella sp. DD12', 'Lachnospiraceae bacterium C6A11', 'Lachnospiraceae bacterium FE2018', 'Lachnospiraceae bacterium MD2004', 'Lachnospiraceae bacterium NC2004', 'Lachnospiraceae bacterium ND2006', 'Lachnospiraceae bacterium P6A3', 'Lachnospiraceae bacterium P6B14', 'Lachnospiraceae bacterium V9D3004', 'Lachnospiraceae bacterium YSB2008', 'Propionibacteriaceae bacterium P6A17', 'Ruminococcaceae bacterium AB4001', 'Methyloglobulus morosus KoM1', 'Rhizobiales bacterium YIM 77505', 'Gammaproteobacteria bacterium MOLA455', 'Corynebacterium jeddahense', 'Clostridium saudiense', 'Pseudomonas sp. TKP', 'Candidatus Walczuchella monophlebidarum', 'Marinobacter sp. MCTG268', 'Halomonas sp. TG39a', 'Oceanicola sp. MCTG156(1a)', 'Gloeobacter kilaueensis JS1', 'Defluviimonas sp. 20V17', 'Streptococcus sp. VT 162', 'Pseudogymnoascus sp. VKM F-3775', 'Pseudogymnoascus sp. VKM F-4246', 'Pseudogymnoascus sp. VKM F-4281 (FW-2241)', 'Pseudogymnoascus sp. VKM F-4513 (FW-928)', 'Pseudogymnoascus sp. VKM F-4514 (FW-929)', 'Pseudogymnoascus sp. VKM F-4515 (FW-2607)', 'Pseudogymnoascus sp. VKM F-4516 (FW-969)', 'Pseudogymnoascus sp. VKM F-4517 (FW-2822)', 'Pseudogymnoascus sp. VKM F-103', 'Pseudogymnoascus sp. VKM F-4518 (FW-2643)', 'Pseudogymnoascus sp. VKM F-4519 (FW-2642)', 'Pseudogymnoascus sp. VKM F-4520 (FW-2644)', 'Marinobacter similis', 'Marinobacter salarius', 'Kurthia huakuii LAM0618', 'Bacillus sp. SJS', 'Hyphomicrobium nitrativorans NL23', 'Candidatus Entotheonella factor', 'Candidatus Entotheonella gemina', 'Afipia sp. P52-10', 'Geobacillus icigianus', 'Candidatus Halobonum tyrrellensis G22', 'Mannheimia sp. USDA-ARS-USMARC-1261', 'Mucinivorans hirudinis', 'Methanosarcina sp. Kolksee', 'Methanosarcina sp. MTP4', 'Methanosarcina sp. WH1', 'Methanosarcina sp. WWM596', 'Acinetobacter bohemicus ANC 3994', 'Alcanivorax sp. 97CO-5', 'Candidatus Symbiobacter mobilis CR', 'Pseudogymnoascus sp. VKM F-3557', 'Citrobacter sp. MGH 55', 'Pseudomonas sp. BAY1663', 'Talaromyces atroroseus', 'Clostridium sp. K25', 'Aquimarina megaterium XH134', 'Candidatus Protochlamydia massiliensis', 'Candidatus Rubidus massiliensis', 'Xylella taiwanensis', 'Gynuella sunshinyii YC6258', 'Sciscionella sp. SE31', 'Hymenobacter swuensis DY53', 'Bacillus sp. Pc3', 'Campylobacter corcagiensis', 'Halobellus rufus', 'Arthrobacter sp. UNC362MFTsu5.1', 'Mycobacterium sp. UNC280MFTsu5.1', 'Caulobacter sp. UNC358MFTsu5.1', 'Clostridium sp. KNHs205', 'Microbacterium sp. UNCCL10', 'Paenibacillus sp. UNC451MF', 'Phyllobacterium sp. UNC302MFCol5.2', 'Rhodococcus sp. UNC23MFCrub1.1', 'Rhodococcus sp. UNC363MFTsu5.1', 'Sphingomonas sp. UNC305MFCol5.2', 'Thermus amyloliquefaciens', 'Bacillus sp. TS-2', 'Microbacterium sp. MRS-1', 'Microbacterium sp. Cr-K32', 'Microbacterium sp. Cr-K20', 'Pseudomonas sp. RL', 'Chryseobacterium hispalense DSM 25574', 'Microbulbifer sp. HZ11', 'Candidatus Accumulibacter sp. BA-93', 'Cellulomonas sp. HZM', 'Chlamydia avium 10DC88', 'Chlamydia gallinacea 08-1274/3', 'Halapricum salinum', 'Caballeronia jiangsuensis', 'Serpentinomonas raichei', 'Serpentinomonas mccroryi', 'Candidatus Phaeomarinobacter ectocarpi', 'Lachnospiraceae bacterium AC2029', 'Candidatus Nitrososphaera evergladensis SR1', 'Geomicrobium sp. JCM 19037', 'Geomicrobium sp. JCM 19038', 'Bacillus sp. JCM 19046', 'Paraphaeosphaeria sporulosa', 'Weeksella massiliensis', 'Haemophilus massiliensis', 'Neobacillus jeddahensis', 'Jeotgalicoccus saudimassiliensis', 'Metalysinibacillus saudimassiliensis', 'Actibacterium atlanticum', 'Pseudooceanicola atlanticus', 'Pseudoalteromonas sp. SCSIO_11900', 'Virgibacillus massiliensis', 'Oceanobacillus jeddahense', 'Brucella papionis', 'Klebsiella quasipneumoniae subsp. quasipneumoniae UCICRE 14', 'Actinosporangium sp. NRRL B-3428', 'Glycomyces sp. NRRL B-16210', 'Saccharothrix sp. NRRL B-16314', 'Streptomyces sp. NRRL F-2580', 'Streptomyces sp. NRRL F-2890', 'Streptomyces sp. NRRL F-5008', 'Streptomyces sp. NRRL F-5053', 'Streptomyces sp. NRRL F-5065', 'Streptomyces sp. NRRL F-5123', 'Streptomyces sp. NRRL F-5126', 'Streptomyces sp. NRRL F-5135', 'Streptomyces sp. NRRL F-525', 'Streptomyces sp. NRRL F-5630', 'Streptomyces sp. NRRL F-6677', 'Streptomyces sp. NRRL S-118', 'Streptomyces sp. NRRL S-149', 'Streptomyces sp. NRRL S-1777', 'Streptomyces sp. NRRL S-237', 'Streptomyces sp. NRRL S-337', 'Streptomyces sp. NRRL S-340', 'Streptomyces sp. NRRL S-37', 'Streptomyces sp. NRRL S-474', 'Streptomyces sp. NRRL S-646', 'Streptomyces sp. NRRL S-87', 'Streptomyces sp. NRRL S-920', 'Streptomyces sp. NRRL WC-3626', 'Streptomyces sp. NRRL WC-3742', 'Streptomyces sp. NRRL WC-3773', 'Micromonospora parva', 'Aeromicrobium massiliense JC14', 'Peptoniphilus grossensis ph5', 'Peptoniphilus senegalensis JC140', "Oceanobacillus massiliensis str. N'diop", 'Paenibacillus senegalensis JC66', 'Clostridium senegalense JC122', 'Cellulomonas massiliensis JC225', 'Noviherbaspirillum massiliense JC206', 'Timonella senegalensis JC301', 'Burkholderia sp. 2002721687', 'Bacillus massilioanorexius AP8', 'Bartonella senegalensis OS02', 'Holdemania massiliensis AP2', 'Thioalkalivibrio sp. HK1', 'Burkholderiales bacterium GJ-E10', 'Lacinutrix jangbogonensis', 'Rhodovulum sp. NI22', 'Kineothrix alysoides', 'Alistipes ihumii AP11', 'Candidatus Stoquefichus massiliensis AP9', 'Clostridium ihumii AP5', 'Candidatus Blastococcus massiliensis AP3', 'Streptomyces sp. Tu 6176', 'Sphingomonas sp. RIT328', 'Pseudomonas sp. RIT357', 'Prochlorococcus sp. scB241_528O2', 'Prochlorococcus sp. scB245a_520K10', 'Talaromyces cellulolyticus', 'Basilea psittacipulmonis DSM 24701', 'Falsirhodobacter sp. alg1', 'Burkholderia sp. K24', 'Enorma massiliensis phI', 'Kallipyga massiliensis ph2', 'Senegalimassilia anaerobia JC110', 'Lysinibacillus sp. BF-4', 'Mizugakiibacter sediminis', 'Deinococcus phoenicis', 'Streptomyces sp. NRRL B-24720', 'Peptostreptococcaceae bacterium VA2', 'Halomonas sp. HL-48', 'Marinobacter sp. HL-58', 'Oceanicaulis sp. HL-87', 'Porphyrobacter sp. HL-46', 'Curtobacterium sp. S6', 'Spirochaeta lutea', 'Pantoea sp. PSNIH2', 'Pantoea sp. PSNIH1', 'Psychroserpens jangbogonensis', 'Exiguobacterium sp. AB2', 'Rhodoferax saidenbachensis ED16', 'Cadophora sp. DSE1049', 'Selenomonas sp. AE3005', 'Ferriphaselus sp. R-1', 'Ghiorsea bivora', 'Mitosporidium daphniae', 'Martelella endophytica', 'Candidatus Sodalis pierantonius str. SOPE', 'Clostridium sp. HMP27', 'Desulfosporosinus sp. HMP52', 'Corynebacterium sp. ATCC 6931', 'Pseudomonas sp. Ant30-3', 'Deinococcus sp. RL', 'Trichoderma guizhouense', 'Flavobacterium gilvum', 'Flavobacterium seoulense', 'Gammaproteobacteria bacterium MFB021', 'Arthrobacter sp. PAMC 25486', 'Mesoaciditoga lauensis cd-1655R = DSM 25116', 'Pseudomonas sp. WCS374', 'Penicillium cf. griseofulvum UFMGCB 6741', 'Candidatus Evansia muelleri', 'Cyanobium sp. CACIAM 14', 'Listeriaceae bacterium FSL A5-0209', 'Prochlorococcus sp. MIT 0601', 'Prochlorococcus sp. MIT 0602', 'Prochlorococcus sp. MIT 0701', 'Bacillus rubiinfantis', 'Clostridium sp. CL-6', 'Clostridium sp. CL-2', 'Bacillus andreraoultii', 'Pseudomonas saudiphocaensis', 'Clostridium amazonitimonense', 'Candidatus Moduliflexus flocculans', 'Candidatus Vecturithrix granuli', 'Paenibacillus sp. TCA20', 'Rhizobium sp. YR295', 'Rhizobium sp. YR519', 'Chryseobacterium sp. CF284', 'Rhizobium sp. CF097', 'Rhizobium sp. CF394', 'Rhizobium sp. OK494', 'Luteibacter sp. 9143', 'Luteibacter sp. 9135', 'Massilia sp. 9096', 'Burkholderia sp. 9120', 'Campylobacter sp. RM16704', 'Paenibacillus tyrfis', 'Prochlorococcus sp. MIT 0604', 'Prochlorococcus sp. MIT 0801', 'Oribacterium parvum ACB8', 'Oribacterium asaccharolyticum ACB7', 'Alistipes inops', 'Devosia sp. LC5', 'Methylotenera sp. L2L1', 'Pseudomonas sp. AAC', 'Sphingopyxis sp. LC81', 'Bosea sp. LC85', 'Massilia sp. LC238', 'Veillonella seminalis ACS-216-V-Col6b', 'Polaromonas sp. CG9_12', 'Halomonas sp. KO116', 'Chitinivibrio alkaliphilus ACht1', 'Blochmannia endosymbiont of Polyrhachis (Hedomyrma) turneri', 'Blochmannia endosymbiont of Camponotus (Colobopsis) obliquus', 'Candidatus Schmidhempelia bombi str. Bimp', 'Thermococcus eurythermalis', 'Flavobacterium sp. Fl', 'Butyrivibrio sp. AE3004', 'Rachicladosporium antarcticum', 'Jeotgalibacillus malaysiensis', 'Candidatus Arthromitus sp. SFB-mouse-NL', 'Acinetobacter sp. HR7', 'Pseudorhizobium pelagicum', 'Candidatus Nitrosopumilus koreensis AR1', 'Bosea sp. UNC402CLCol', 'Ruminococcus sp. HUN007', 'Sphingopyxis fribergensis', 'Porphyromonas sp. COT-239 OH1446', 'Porphyromonas sp. COT-290 OH860', 'Shewanella mangrovi', 'Idiomarina atlantica', 'Vibrio sp. ER1A', 'Porphyromonadaceae bacterium COT-184 OH4590', 'Anopheles coluzzii', 'Oscillibacter sp. ER4', 'Candidatus Thermochlorobacteriaceae bacterium GBChlB', 'Chloroflexus sp. MS-G', 'Sphingobium sp. ba1', 'Ceraceosorus guamensis', 'Pseudomonas sp. ML96', 'Serratia sp. Ag1', 'Planococcus sp. PAMC 21323', 'Rickettsiales bacterium Ac37b', 'Thalassospira australica', 'Acinetobacter seifertii', 'Palleronia rufa', 'Coriobacteriaceae bacterium 68-1-3', 'Torrubiella hemipterigena', 'Achromobacter sp. RTa', 'Rhizobium sp. YS-1r', 'Devosia sp. 17-2-E-8', 'Thalassotalea sp. ND16A', 'Paenibacillus sp. FSL P4-0081', 'Paenibacillus sp. FSL R5-0345', 'Paenibacillus sp. FSL R5-0912', 'Paenibacillus sp. FSL R7-0273', 'Paenibacillus sp. FSL R7-0331', 'Paenibacillus sp. FSL H7-0357', 'Paenibacillus sp. FSL H7-0737', 'Sphingopyxis sp. MWB1', 'Sulfurospirillum sp. SCADC', 'Sulfuricurvum sp. MLSB', 'Alteromonas sp. LOR', 'Micromonospora sp. HK10', 'Aquabacterium sp. NJ1', 'Sphingobacterium sp. ML3W', 'Treponema sp. OMZ 838', 'Deinococcus sp. YIM 77859', 'Clostridium sp. KNHs214', 'Myxosarcina sp. GI1', 'Candidatus Izimaplasma sp. HR1', 'Candidatus Izimaplasma sp. HR2', 'Oleiagrimonas soli', 'Lactobacillus sp. wkB10', 'Lactobacillus sp. wkB8', 'Sphingomonas sp. 35-24ZXX', 'Hoeflea sp. BAL378', 'Francisella sp. FSC1006', 'Helicobacter sp. MIT 11-5569', 'Campylobacter sp. MIT 97-5078', 'Sphingomonas taxi', 'Sphingomonas sp. 37zxx', 'Sphingobacteriaceae bacterium DW12', 'Thermofilum uzonense', 'Listeria booriae', 'Caenorhabditis tropicalis', 'Fermentimonas caenicola', 'Rhodococcus sp. B7740', 'Shewanella sp. ECSMB14101', 'Sulfurospirillum sp. MES', 'Rugosibacter aromaticivorans', 'Bacillus sp. X1(2014)', 'Paenibacillus sp. IHBB 10380', 'Paracoccus sp. PAMC 22219', 'Phaeobacter sp. S60', 'Jaminaea rosea', 'Bacillus sp. BH072', 'Bacillus sp. YP1', 'Candidatus Methanoplasma termitum', 'Dickeya undicola', 'Nitrosopumilus adriaticus', 'Pseudomonas sp. HMSC05H02', 'Neisseria sp. HMSC06F02', 'Candidatus Methylopumilus planktonicus', 'Nitrosopumilus piranensis', 'Fusobacterium hwasookii ChDC F128', 'Myroides sp. A21', 'Agrobacterium arsenijevicii', 'Pseudomonas sp. 10B238', 'Haloarcula sp. CBA1115', 'Enterobacteriaceae bacterium ATCC 29904', 'Candidatus Nitrosotenuis cloacae', 'Halanaeroarchaeum sulfurireducens', 'Sinocyclocheilus anshuiensis', 'Candidatus Filomicrobium marinum', 'Sphingomonas hengshuiensis', 'Pseudomonas sp. MRSN12121', 'Vibrio sp. S234-5', 'Psychromicrobium lacuslunae', 'Bacillus sp. LM 4-2', 'Sulfuricella sp. T08', 'Verrucomicrobia bacterium IMCC26134', 'Chania multitudinisentens RB-25', 'Bacillus paralicheniformis ATCC 9945a', 'Metarhizium rileyi RCEF 4871', 'Metarhizium majus ARSEF 297', 'Blattabacterium cuenoti BPAA', 'Lachancea quebecensis', 'Emmonsia sp. CAC-2015a', 'Blastomyces percursus', 'Phialophora attinorum', 'Violaceomyces palustris', 'Paramormyrops kingsleyae', 'Blastomyces gilchristii SLH14081', 'Pseudomicrostroma glucosiphilum', 'Wallemia mellicola CBS 633.66', 'Baudoinia panamericana UAMH 10762', 'Leucoagaricus sp. SymC.cos', 'Pezoloma ericae', 'Neocallimastix californiae', 'Piromyces finnis', 'Anaeromyces robustus', 'Mesorhizobium erdmanii USDA 3471', 'Nematocida displodere', 'Enterobacter roggenkampii EC_38VIM1', 'Edwardsiella anguillarum ET080813', 'Gopherus evgoodei', 'Dacryopinax primogenitus', 'Cryptococcus gattii VGII LA55', 'Cryptococcus gattii VGIV IND107', 'Amphiamblys sp. WSBS2006', 'Carlito syrichta', 'Pseudocercospora fijiensis CIRAD86', 'Testicularia cyperi', 'Xanthomonas cannabis pv. phaseoli', 'Planoprotostelium fungivorum', 'Fortiea contorta PCC 7126', 'Pectobacterium parmentieri WPP163', 'Geobacillus genomosp. 3', 'Bifiguratus adelaidae', 'Emergomyces pasteurianus Ep9510', 'Dinothrombium tinctorium', 'Rachicladosporium sp. CCFEE 5018', 'Xanthomonas phaseoli pv. phaseoli', 'Cordyceps sp. RAO-2017', 'Ophiocordyceps camponoti-rufipedis', 'Ooceraea biroi', 'Malassezia vespertilionis', 'Coniella lustricola', 'Globisporangium ultimum DAOM BR144', 'Blastomyces silverae', 'Mesorhizobium japonicum MAFF 303099', 'Rutstroemia sp. NJR-2017a WRK4', 'Rutstroemia sp. NJR-2017a BVV2', 'Rutstroemia sp. NJR-2017a BBW', 'Cervus hanglu yarkandensis', 'Lactobacillus paragasseri JV-V03', 'Photorhabdus laumondii subsp. laumondii TTO1', 'Pyrrhoderma noxium', 'Hondaea fermentalgiana', 'Yamadazyma tenuis ATCC 10573', 'Hyaloscypha bicolor E', 'Hyaloscypha variabilis F', 'Nothophytophthora sp. Chile5', 'Strigops habroptila', 'Fusarium odoratissimum NRRL 54006', 'Gloeothece citriformis PCC 7424', 'Gloeothece verrucosa PCC 7822', 'Crocosphaera subtropica ATCC 51142', 'Crocosphaera chwakensis CCY0110', 'Rippkaea orientalis PCC 8802', 'Thermothielavioides terrestris NRRL 8126', 'Podospora anserina S mat+', 'Dacryopinax sp. DJM 731 SSP-1', 'Akanthomyces lecanii RCEF 1005', 'Fusarium vanettenii 77-13-4']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', consistency_score_threshold: Fraction = 0.5, filter_consistency_score: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the PhylomeDB database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

param map_to_organism

organism name or NCBI taxon ID of the target species for ortholog mapping.

type map_to_organism

str or int

param map_from_organism

organism name or NCBI taxon ID of the input genes’ source species.

type map_from_organism

str or int

param gene_id_type

the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

type gene_id_type

str or ‘auto’ (default=’auto’)

` :param consistency_score_threshold: the minimum consistency score required for an ortholog mapping to be considered valid. Consistency scores are calculated by PhylomeDB and represent the confidence of the ortholog mapping. setting consistency_score_threshold to 0 will keep all mappings. You can read more about PhylomeDB consistency score on the PhylomeDB website: orthology.phylomedb.org/help

type consistency_score_threshold

float between 0 and 1 (default=0.5)

param filter_consistency_score

if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest consistency score.

type filter_consistency_score

bool (default=True)

param non_unique_mode

How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

type non_unique_mode

‘first’, ‘last’, ‘random’, or ‘none’ (default=’first’)

param remove_unmapped_genes

if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

type remove_unmapped_genes

bool (default=False)

type inplace

bool (default=True)

param inplace

If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

return

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

non_categorical_enrichment(attributes: Union[List[str], str, List[int], int, Literal['all']] = None, alpha: Fraction = 0.05, parametric_test: bool = False, biotype: Union[str, List[str], Literal['all']] = 'all', background_genes: Union[Set[str], Filter, FeatureSet] = None, attr_ref_path: Union[str, Path, Literal['predefined']] = 'predefined', biotype_ref_path: Union[str, Path, Literal['predefined']] = 'predefined', plot_log_scale: bool = True, plot_style: Literal['interleaved', 'overlap'] = 'overlap', n_bins: PositiveInt = 50, save_csv: bool = False, fname=None, return_fig: bool = False, gui_mode: bool = False) → Union[DataFrame, Tuple[DataFrame, List[Figure]]]

Calculates enrichment and depletion of the FeatureSet for user-defined non-categorical attributes against a background set using either a one-sample T-test or Sign test. The attributes are drawn from an Attribute Reference Table. The background set is determined by either the input variable ‘background_genes’, or by the input variable ‘biotype’ and a Biotype Reference Table. P-values are corrected for multiple comparisons using the Benjamini–Hochberg step-up procedure (original FDR method).

Parameters

• attributes (str, int, iterable (list, tuple, set, etc) of str/int, or 'all'.) – An iterable of attribute names or attribute numbers (according to their order in the Attribute Reference Table). If ‘all’, all of the attributes in the Attribute Reference Table will be used. If None, a manual input prompt will be raised.

• alpha (float between 0 and 1 (default=0.05)) – Indicates the FDR threshold for significance.

• parametric_test (bool (default=False)) – if True, performs a parametric statistical test (one-sample t-test). If False (default), performs a non-parametric statistical test (sign test).

• biotype (str specifying a specific biotype, list/set of strings each specifying a biotype, or 'all' (default='protein_coding')) – determines the background genes by their biotype. Requires specifying a Biotype Reference Table. ‘all’ will include all genomic features in the reference table, ‘protein_coding’ will include only protein-coding genes from the reference table, etc. Cannot be specified together with ‘background_genes’.

• background_genes (set of feature indices, filtering.Filter object, or enrichment.FeatureSet object (default=None)) – a set of specific feature indices to be used as background genes. Cannot be specified together with ‘biotype’.

• attr_ref_path (str or pathlib.Path (default='predefined')) – the path of the Attribute Reference Table from which user-defined attributes will be drawn.

• biotype_ref_path (str or pathlib.Path (default='predefined')) – the path of the Biotype Reference Table. Will be used to generate background set if ‘biotype’ is specified.

• plot_log_scale (bool (default=True)) – if True (default), the Y-axis of the enrichment plot will be logarithmic. Otherwise, the Y-axis of the enrichment plot will be linear.

• plot_style ('overlap' or 'interleaved' (default='overlap')) – ‘interleaved’ will plot an interleaved histogram. ‘overlap’ will plot a semi-transparent histogram where the obsreved and expected are overlapping.

• n_bins (int larger than 0 (default=50)) – the number of bins to display in the enrichment plot histograms

• save_csv (bool (default=False)) – If True, will save the results to a .csv file, under the name specified in ‘fname’.

• fname (str or pathlib.Path (default=None)) – The full path and name of the file to which to save the results. For example: ‘C:/dir/file’. No ‘.csv’ suffix is required. If None (default), fname will be requested in a manual prompt.

• return_fig (bool (default=False)) – if True, returns a matplotlib Figure object in addition to the results DataFrame.

Return type

pd.DataFrame (default) or Tuple[pd.DataFrame, matplotlib.figure.Figure]

Returns

a pandas DataFrame with the indicated attribute names as rows/index; and a matplotlib Figure, if ‘return_figure’ is set to True.

Example plot of non_categorical_enrichment(plot_style`=’overlap’)

Example plot of non_categorical_enrichment(plot_style=’interleaved’)

pop()

Remove and return an arbitrary set element. Raises KeyError if the set is empty.

remove()

Remove an element from a set; it must be a member.

If the element is not a member, raise a KeyError.

save_txt(fname: Union[str, Path])

Save the list of features in the FeatureSet object under the specified filename and path.

Parameters

fname (str or pathlib.Path) – full filename/path for the output file. Can include the ‘.txt’ suffix but doesn’t have to.

set_name

name of the FeatureSet

symmetric_difference(other: Union[set, FeatureSet]) → FeatureSet

Calculates the set symmetric difference of the indices from two FeatureSet objects (the indices that appear in EXACTLY ONE of the FeatureSet objects, and not both/neither). A-symmetric difference-B is equivalent to (A-difference-B)-union-(B-difference-A).

Parameters

other (FeatureSet, RankedSet or set) – A second object against which the current object will be compared.

Returns

a new FeatureSet with elements in either this FeatureSet or the other object, but not both.

Return type

FeatureSet

Examples

>>> from rnalysis import enrichment
>>> en = enrichment.FeatureSet({'WBGene00000001','WBGene00000002','WBGene00000006'}, 'set name')
>>> en2 = enrichment.FeatureSet({'WBGene00000004','WBGene00000001'})
>>> en.symmetric_difference(en2)
>>> print(en)
FeatureSet: set name
{'WBGene00000002', 'WBGene00000006', 'WBGene00000004'}

symmetric_difference_update()

Update a set with the symmetric difference of itself and another.

translate_gene_ids(translate_to: Union[str, Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']], translate_from: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', remove_unmapped_genes: bool = False, inplace: bool = True) → FeatureSet

Translates gene names/IDs from one type to another. Mapping is done using the UniProtKB Gene ID Mapping service. You can choose to optionally drop from the table all rows that failed to be translated.

Parameters

• translate_to (str) – the gene ID type to translate gene names/IDs to. For example: UniProtKB, Ensembl, Wormbase.

• translate_from (str or 'auto' (default='auto')) – the gene ID type to translate gene names/IDs from. For example: UniProtKB, Ensembl, Wormbase. If translate_from=’auto’, RNAlysis will attempt to automatically determine the gene ID type of the features in the table.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be translated will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

Returns

returns a new and translated FeatureSet.

union(*others: Union[set, FeatureSet]) → FeatureSet

Calculates the set union of the indices from multiple FeatureSet objects (the indices that exist in at least one of the FeatureSet objects).

Parameters

others (FeatureSet or set) – The objects against which the current object will be compared.

Returns

a new FeatureSet with elements from this FeatureSet and all other objects.

Return type

FeatureSet

Examples

>>> from rnalysis import enrichment
>>> en = enrichment.FeatureSet({'WBGene00000004','WBGene00000005','WBGene00000006'}, 'set name')
>>> en2 = enrichment.FeatureSet({'WBGene00000004','WBGene00000001'})
>>> s = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> en.union(s, en2)
>>> print(en)
FeatureSet: set name
{'WBGene00000003', 'WBGene00000004', 'WBGene00000001', 'WBGene00000002', 'WBGene00000006', 'WBGene00000005'}

update()

Update a set with the union of itself and others.

user_defined_enrichment(attributes: Union[List[str], str, List[int], int, Literal['all']], statistical_test: Literal['fisher', 'hypergeometric', 'randomization'] = 'fisher', alpha: Fraction = 0.05, biotype: Union[str, List[str], Literal['all']] = 'all', background_genes: Union[Set[str], Filter, FeatureSet] = None, attr_ref_path: Union[str, Path, Literal['predefined']] = 'predefined', biotype_ref_path: Union[str, Path, Literal['predefined']] = 'predefined', exclude_unannotated_genes: bool = True, return_nonsignificant: bool = True, save_csv: bool = False, fname=None, return_fig: bool = False, plot_horizontal: bool = True, show_expected: bool = False, plot_style: Literal['bar', 'lollipop'] = 'bar', randomization_reps: PositiveInt = 10000, random_seed: Optional[int] = None, parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False) → Union[DataFrame, Tuple[DataFrame, Figure]]

Calculates enrichment and depletion of the FeatureSet for user-defined attributes against a background set. The attributes are drawn from an Attribute Reference Table. The background set is determined by either the input variable ‘background_genes’, or by the input variable ‘biotype’ and a Biotype Reference Table. P-values are corrected for multiple comparisons using the Benjamini–Hochberg step-up procedure (original FDR method). In plots, for the clarity of display, complete depletion (linear enrichment score = 0) appears with the smallest value in the scale.

Parameters

• attributes (str, int, iterable (list, tuple, set, etc) of str/int, or 'all'.) – An iterable of attribute names or attribute numbers (according to their order in the Attribute Reference Table). If ‘all’, all of the attributes in the Attribute Reference Table will be used. If None, a manual input prompt will be raised.

• statistical_test ('fisher', 'hypergeometric' or 'randomization' (default='fisher')) – determines the statistical test to be used for enrichment analysis. Note that some propagation methods support only some of the available statistical tests.

• alpha (float between 0 and 1 (default=0.05)) – Indicates the FDR threshold for significance.

• attr_ref_path (str or pathlib.Path (default='predefined')) – the path of the Attribute Reference Table from which user-defined attributes will be drawn.

• biotype_ref_path (str or pathlib.Path (default='predefined')) – the path of the Biotype Reference Table. Will be used to generate background set if ‘biotype’ is specified.

• biotype (str specifying a specific biotype, list/set of strings each specifying a biotype, or 'all' (default='protein_coding')) – determines the background genes by their biotype. Requires specifying a Biotype Reference Table. ‘all’ will include all genomic features in the reference table, ‘protein_coding’ will include only protein-coding genes from the reference table, etc. Cannot be specified together with ‘background_genes’.

• background_genes (set of feature indices, filtering.Filter object, or enrichment.FeatureSet object (default=None)) – a set of specific feature indices to be used as background genes. Cannot be specified together with ‘biotype’.

• exclude_unannotated_genes (bool (deafult=True)) – if True, genes that have no annotation associated with them will be excluded from the enrichment analysis. This is the recommended practice for enrichment analysis, since keeping unannotated genes in the analysis increases the chance of discovering spurious enrichment results.

• return_nonsignificant (bool (default=True)) – if True (default), the results DataFrame will include all tested attributes - both significant and non-significant ones. If False, only significant attributes will be returned.

• save_csv (bool (default=False)) – If True, will save the results to a .csv file, under the name specified in ‘fname’.

• fname (str or pathlib.Path (default=None)) – The full path and name of the file to which to save the results. For example: ‘C:/dir/file’. No ‘.csv’ suffix is required. If None (default), fname will be requested in a manual prompt.

• return_fig (bool (default=False)) – if True, returns a matplotlib Figure object in addition to the results DataFrame.

• plot_horizontal (bool (default=True)) – if True, results will be plotted with a horizontal bar plot. Otherwise, results will be plotted with a vertical plot.

• show_expected (bool (default=False)) – if True, the observed/expected values will be shown on the plot.

• plot_style ('bar' or 'lollipop' (default='bar')) – style for the plot. Either ‘bar’ for a bar plot or ‘lollipop’ for a lollipop plot in which the lollipop size indicates the size of the observed gene set.

• randomization_reps (int larger than 0 (default=10000)) – if using a randomization test, determine how many randomization repititions to run. Otherwise, this parameter will not affect the analysis.

• parallel_backend (Literal[PARALLEL_BACKENDS] (default='loky')) – Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise.

Return type

pd.DataFrame (default) or Tuple[pd.DataFrame, matplotlib.figure.Figure]

Returns

a pandas DataFrame with the indicated attribute names as rows/index; and a matplotlib Figure, if ‘return_figure’ is set to True.

Example plot of user_defined_enrichment()

Example plot of user_defined_enrichment(plot_horizontal = False)

class rnalysis.enrichment.RankedSet(ranked_genes: Union[Filter, List[str], Tuple[str], ndarray], set_name: str = '')

Bases: FeatureSet

Receives a ranked gene set, sorted by any biologically-meaningful value (expression level, fold-change, etc) and preforms various enrichment analyses on them. ALl functions that can be applied to FeatureSet objects can also be applied to RankedSet objects.

_inplace(func, func_kwargs, inplace: bool, **update_kwargs)

Executes the user’s choice whether to filter in-place or create a new instance of the FeatureSet object.

_set_ops(others: Union[set, FeatureSet], op: function)

Performs a given set operation on self and on another object (FeatureSet or set). :type others: FeatureSet or set :param others: Other object to perform set operation with. :type: op: Callable (set.union, set.intersection, set.difference or set.symmetric difference) :param op: The set operation to be performed. :return: A set resulting from the set operation.

add()

Add an element to a set.

This has no effect if the element is already present.

biotypes_from_gtf(gtf_path: Union[str, Path], attribute_name: Union[Literal['biotype', 'gene_biotype', 'transcript_biotype', 'gene_type', 'transcript_type'], str] = 'gene_biotype', feature_type: Literal['gene', 'transcript'] = 'gene') → DataFrame

Returns a DataFrame describing the biotypes in the table and their count. The data about feature biotypes is drawn from a GTF (Gene transfer format) file supplied by the user.

Parameters

• gtf_path (str or Path) – Path to your GTF (Gene transfer format) file. The file should match the type of gene names/IDs you use in your table, and should contain an attribute describing biotype.

• attribute_name (str (default='gene_biotype')) – name of the attribute in your GTF file that describes feature biotype.

• feature_type ('gene' or 'transcript' (default='gene')) – determined whether the features/rows in your data table describe individual genes or transcripts.

:param long_format:if True, returns a short-form DataFrame, which states the biotypes in the Filter object and their count. Otherwise, returns a long-form DataFrame, which also provides descriptive statistics of each column per biotype. :rtype: pandas.DataFrame :returns: a pandas DataFrame showing the number of values belonging to each biotype, as well as additional descriptive statistics of format==’long’.

biotypes_from_ref_table(ref: Union[str, Path, Literal['predefined']] = 'predefined')

Returns a DataFrame describing the biotypes in the gene set and their count.

Parameters

ref (str or pathlib.Path (default='predefined')) – Path of the reference file used to determine biotype. Default is the path predefined in the settings file.

Examples

>>> from rnalysis import enrichment, filtering
>>> d = filtering.Filter("tests/test_files/test_deseq.csv")
>>> en = enrichment.FeatureSet(d)
>>> en.biotypes(ref='tests/biotype_ref_table_for_tests.csv')
                gene
biotype
protein_coding    26
pseudogene         1
unknown            1

change_set_name(new_name: str)

Change the ‘set_name’ of a FeatureSet to a new name.

Parameters

new_name (str) – the new set name

clear()

Remove all elements from this set.

copy()

Return a shallow copy of a set.

difference(*others: Union[set, FeatureSet]) → FeatureSet

Calculates the set difference of the indices from multiple FeatureSet objects (the indices that appear in the first FeatureSet object but NOT in the other objects).

Parameters

others (FeatureSet, RankedSet or set) – The objects against which the current object will be compared.

Returns

a new FeatureSet with elements in this FeatureSet that are not in the other objects.

Return type

FeatureSet

Examples

>>> from rnalysis import enrichment
>>> en = enrichment.FeatureSet({'WBGene00000001','WBGene00000002','WBGene00000006'}, 'set name')
>>> s = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> en2 = enrichment.FeatureSet({'WBGene00000004','WBGene00000001'})
>>> en.difference(s, en2)
>>> print(en)
FeatureSet: set name
{'WBGene00000006'}

difference_update()

Remove all elements of another set from this set.

discard()

Remove an element from a set if it is a member.

Unlike set.remove(), the discard() method does not raise an exception when an element is missing from the set.

filter_biotype_from_gtf(gtf_path: Union[str, Path], biotype: Union[Literal['protein_coding', 'pseudogene', 'lincRNA', 'miRNA', 'ncRNA', 'piRNA', 'rRNA', 'snoRNA', 'snRNA', 'tRNA'], str, List[str]] = 'protein_coding', attribute_name: Union[Literal['biotype', 'gene_biotype', 'transcript_biotype', 'gene_type', 'transcript_type'], str] = 'gene_biotype', feature_type: Literal['gene', 'transcript'] = 'gene', opposite: bool = False, inplace: bool = True)

Filters out all features that do not match the indicated biotype/biotypes (for example: ‘protein_coding’, ‘ncRNA’, etc). The data about feature biotypes is drawn from a GTF (Gene transfer format) file supplied by the user.

Parameters

• gtf_path (str or Path) – Path to your GTF (Gene transfer format) file. The file should match the type of gene names/IDs you use in your table, and should contain an attribute describing biotype.

• biotype (str or list of strings) – the biotypes which will not be filtered out.

• attribute_name (str (default='gene_biotype')) – name of the attribute in your GTF file that describes feature biotype.

• feature_type ('gene' or 'transcript' (default='gene')) – determined whether the features/rows in your data table describe individual genes or transcripts.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

filter_biotype_from_ref_table(biotype: Union[Literal['protein_coding', 'pseudogene', 'lincRNA', 'miRNA', 'ncRNA', 'piRNA', 'rRNA', 'snoRNA', 'snRNA', 'tRNA'], str, List[str]] = 'protein_coding', ref: Union[str, Path, Literal['predefined']] = 'predefined', opposite: bool = False, inplace: bool = True)

Filters out all features that do not match the indicated biotype/biotypes (for example: ‘protein_coding’, ‘ncRNA’, etc). The data about feature biotypes is drawn from a Biotype Reference Table supplied by the user.

Parameters

• biotype (string or list of strings) – the biotypes which will not be filtered out.

• ref – Name of the biotype reference file used to determine biotypes. Default is the path defined by the user in the settings.yaml file.

• opposite (bool) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

filter_by_attribute(attributes: Union[str, List[str]] = None, mode: Literal['union', 'intersection'] = 'union', ref: Union[str, Path, Literal['predefined']] = 'predefined', opposite: bool = False, inplace: bool = True)

Filters features according to user-defined attributes from an Attribute Reference Table. When multiple attributes are given, filtering can be done in ‘union’ mode (where features that belong to at least one attribute are not filtered out), or in ‘intersection’ mode (where only features that belong to ALL attributes are not filtered out). To learn more about user-defined attributes and Attribute Reference Tables, read the user guide.

Parameters

• attributes (string or list of strings, which are column titles in the user-defined Attribute Reference Table.) – attributes to filter by.

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

• ref (str or pathlib.Path (default='predefined')) – filename/path of the attribute reference table to be used as reference.

• opposite (bool (default=False)) – If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

If ‘inplace’ is False, returns a new and filtered instance of the Filter object.

filter_by_go_annotations(go_ids: Union[str, List[str]], mode: Literal['union', 'intersection'] = 'union', organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', propagate_annotations: bool = True, evidence_types: Union[Literal['any', 'experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = 'any', excluded_evidence_types: Union[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = (), databases: Union[str, Iterable[str]] = 'any', excluded_databases: Union[str, Iterable[str]] = (), qualifiers: Union[Literal['any', 'not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'any', excluded_qualifiers: Union[Literal['not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'not', opposite: bool = False, inplace: bool = True)

Filters genes according to GO annotations, keeping only genes that are annotated with a specific GO term. When multiple GO terms are given, filtering can be done in ‘union’ mode (where genes that belong to at least one GO term are not filtered out), or in ‘intersection’ mode (where only genes that belong to ALL GO terms are not filtered out).

Parameters

• go_ids (str or list of str) –

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

param organism: organism name or NCBI taxon ID for which the function will fetch GO annotations. :type organism: str or int :param gene_id_type: the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping :type gene_id_type: str or ‘auto’ (default=’auto’) :param propagate_annotations: determines the propagation method of GO annotations. ‘no’ does not propagate annotations at all; ‘classic’ propagates all annotations up to the DAG tree’s root; ‘elim’ terminates propagation at nodes which show significant enrichment; ‘weight’ performs propagation in a weighted manner based on the significance of children nodes relatively to their parents; and ‘allm’ uses a combination of all proopagation methods. To read more about the propagation methods, see Alexa et al: https://pubmed.ncbi.nlm.nih.gov/16606683/ :type propagate_annotations: ‘classic’, ‘elim’, ‘weight’, ‘all.m’, or ‘no’ (default=’elim’) :param evidence_types: only annotations with the specified evidence types will be included in the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/ :type evidence_types: str, Iterable of str, ‘experimental’, ‘phylogenetic’ ,’computational’, ‘author’, ‘curator’, ‘electronic’, or ‘any’ (default=’any’) :param excluded_evidence_types: annotations with the specified evidence types will be excluded from the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/ :type excluded_evidence_types: str, Iterable of str, ‘experimental’, ‘phylogenetic’ ,’computational’, ‘author’, ‘curator’, ‘electronic’, or None (default=None) :param databases: only annotations from the specified databases will be included in the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type databases: str, Iterable of str, or ‘any’ (default) :param excluded_databases: annotations from the specified databases will be excluded from the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type excluded_databases: str, Iterable of str, or None (default) :param qualifiers: only annotations with the speficied qualifiers will be included in the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type qualifiers: str, Iterable of str, or ‘any’ (default) :param excluded_qualifiers: annotations with the speficied qualifiers will be excluded from the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type excluded_qualifiers: str, Iterable of str, or None (default=’not’) :type opposite: bool (default=False) :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current FeatureSet object. If False, the function will return a new FeatureSet instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new, filtered instance of the FeatureSet object.

filter_by_kegg_annotations(kegg_ids: Union[str, List[str]], mode: Literal['union', 'intersection'] = 'union', organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', opposite: bool = False, inplace: bool = True)

Filters genes according to KEGG pathways, keeping only genes that belong to specific KEGG pathway. When multiple KEGG IDs are given, filtering can be done in ‘union’ mode (where genes that belong to at least one pathway are not filtered out), or in ‘intersection’ mode (where only genes that belong to ALL pathways are not filtered out).

Parameters

• kegg_ids (str or list of str) – the KEGG pathway IDs according to which the table will be filtered. An example for a legal KEGG pathway ID would be ‘path:cel04020’ for the C. elegans calcium signaling pathway.

• mode ('union' or 'intersection'.) – If ‘union’, filters out every genomic feature that does not belong to one or more of the indicated attributes. If ‘intersection’, filters out every genomic feature that does not belong to ALL of the indicated attributes.

param organism: organism name or NCBI taxon ID for which the function will fetch GO annotations. :type organism: str or int :param gene_id_type: the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping :type gene_id_type: str or ‘auto’ (default=’auto’) :type opposite: bool (default=False) :param opposite: If True, the output of the filtering will be the OPPOSITE of the specified (instead of filtering out X, the function will filter out anything BUT X). If False (default), the function will filter as expected. :type inplace: bool (default=True) :param inplace: If True (default), filtering will be applied to the current FeatureSet object. If False, the function will return a new Filter instance and the current instance will not be affected. :return: If ‘inplace’ is False, returns a new, filtered instance of the FeatureSet object.

find_paralogs_ensembl(organism: Union[Literal['auto'], str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_percent_identity: bool = True)

Find paralogs within the same species using the Ensembl database.

Parameters

• organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_percent_identity (bool (default=True)) – if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest percent_identity score.

Returns

DataFrame describing all discovered paralog mappings.

find_paralogs_panther(organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto')

Find paralogs within the same species using the PantherDB database.

Parameters

• organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

Returns

DataFrame describing all discovered paralog mappings.

gene_set

go_enrichment(organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', alpha: Fraction = 0.05, statistical_test: Literal['fisher', 'hypergeometric', 'randomization'] = 'fisher', biotype: Union[str, List[str], Literal['all']] = 'all', background_genes: Union[Set[str], Filter, FeatureSet] = None, biotype_ref_path: Union[str, Path, Literal['predefined']] = 'predefined', propagate_annotations: Literal['classic', 'elim', 'weight', 'all.m', 'no'] = 'elim', aspects: Union[Literal['any', 'biological_process', 'cellular_component', 'molecular_function'], Iterable[Literal['biological_process', 'cellular_component', 'molecular_function']]] = 'any', evidence_types: Union[Literal['any', 'experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = 'any', excluded_evidence_types: Union[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = (), databases: Union[str, Iterable[str], Literal['any']] = 'any', excluded_databases: Union[str, Iterable[str]] = (), qualifiers: Union[Literal['any', 'not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'any', excluded_qualifiers: Union[Literal['not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'not', exclude_unannotated_genes: bool = True, return_nonsignificant: bool = False, save_csv: bool = False, fname=None, return_fig: bool = False, plot_horizontal: bool = True, show_expected: bool = False, plot_style: Literal['bar', 'lollipop'] = 'bar', plot_ontology_graph: bool = True, ontology_graph_format: Literal['pdf', 'png', 'svg', 'none'] = 'none', randomization_reps: PositiveInt = 10000, random_seed: Optional[int] = None, parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False) → Union[DataFrame, Tuple[DataFrame, Figure]]

Calculates enrichment and depletion of the FeatureSet for Gene Ontology (GO) terms against a background set. The GO terms and annotations are drawn via the GO Solr search engine GOlr, using the search terms defined by the user. The background set is determined by either the input variable ‘background_genes’, or by the input variable ‘biotype’ and a Biotype Reference Table. P-values are corrected for multiple comparisons using the Benjamini–Hochberg step-up procedure (original FDR method). In plots, for the clarity of display, complete depletion (linear enrichment score = 0) appears with the smallest value in the scale.

Parameters

• organism (str or int) – organism name or NCBI taxon ID for which the function will fetch GO annotations.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the GOLR server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• alpha (float between 0 and 1 (default=0.05)) – Indicates the FDR threshold for significance.

• statistical_test ('fisher', 'hypergeometric' or 'randomization' (default='fisher')) – determines the statistical test to be used for enrichment analysis. Note that some propagation methods support only some of the available statistical tests.

• biotype (str specifying a specific biotype, list/set of strings each specifying a biotype, or 'all'. Default 'protein_coding'.) – determines the background genes by their biotype. Requires specifying a Biotype Reference Table. ‘all’ will include all genomic features in the reference table, ‘protein_coding’ will include only protein-coding genes from the reference table, etc. Cannot be specified together with ‘background_genes’.

• background_genes (set of feature indices, filtering.Filter object, or enrichment.FeatureSet object) – a set of specific feature indices to be used as background genes. Cannot be specified together with ‘biotype’.

• biotype_ref_path (str or pathlib.Path (default='predefined')) – the path of the Biotype Reference Table. Will be used to generate background set if ‘biotype’ is specified.

• propagate_annotations ('classic', 'elim', 'weight', 'all.m', or 'no' (default='elim')) – determines the propagation method of GO annotations. ‘no’ does not propagate annotations at all; ‘classic’ propagates all annotations up to the DAG tree’s root; ‘elim’ terminates propagation at nodes which show significant enrichment; ‘weight’ performs propagation in a weighted manner based on the significance of children nodes relatively to their parents; and ‘allm’ uses a combination of all proopagation methods. To read more about the propagation methods, see Alexa et al: https://pubmed.ncbi.nlm.nih.gov/16606683/

• aspects (str, Iterable of str, 'biological_process', 'molecular_function', 'cellular_component', or 'any' (default='any')) – only annotations from the specified GO aspects will be included in the analysis. Legal aspects are ‘biological_process’ (P), ‘molecular_function’ (F), and ‘cellular_component’ (C).

• evidence_types (str, Iterable of str, 'experimental', 'phylogenetic' ,'computational', 'author', 'curator', 'electronic', or 'any' (default='any')) – only annotations with the specified evidence types will be included in the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/

• excluded_evidence_types (str, Iterable of str, 'experimental', 'phylogenetic' ,'computational', 'author', 'curator', 'electronic', or None (default=None)) – annotations with the specified evidence types will be excluded from the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/

• databases – only annotations from the specified databases will be included in the analysis. For a full list of legal databases see the GO Consortium website:

http://amigo.geneontology.org/xrefs :type databases: str, Iterable of str, or ‘any’ (default) :param excluded_databases: annotations from the specified databases will be excluded from the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type excluded_databases: str, Iterable of str, or None (default) :param qualifiers: only annotations with the speficied qualifiers will be included in the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type qualifiers: str, Iterable of str, or ‘any’ (default) :param excluded_qualifiers: annotations with the speficied qualifiers will be excluded from the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type excluded_qualifiers: str, Iterable of str, or None (default=’not’) :param exclude_unannotated_genes: if True, genes that have no annotation associated with them will be excluded from the enrichment analysis. This is the recommended practice for enrichment analysis, since keeping unannotated genes in the analysis increases the chance of discovering spurious enrichment results. :type exclude_unannotated_genes: bool (deafult=True) :param return_nonsignificant: if True, the results DataFrame will include all tested GO terms - both significant and non-significant terms. If False (default), only significant GO terms will be returned. :type return_nonsignificant: bool (default=False) :type save_csv: bool, default False :param save_csv: If True, will save the results to a .csv file, under the name specified in ‘fname’. :type fname: str or pathlib.Path :param fname: The full path and name of the file to which to save the results. For example: ‘C:/dir/file’. No ‘.csv’ suffix is required. If None (default), fname will be requested in a manual prompt. :type return_fig: bool (default=False) :param return_fig: if True, returns a matplotlib Figure object in addition to the results DataFrame. :type plot_ontology_graph: bool (default=True) :param plot_ontology_graph: if True, will generate an ontology graph depicting the significant GO terms and their parent nodes. :type ontology_graph_format: ‘pdf’, ‘png’, ‘svg’, or ‘none’ (default=’none’) :param ontology_graph_format: if ontology_graph_format is not ‘none’, the ontology graph will additonally be generated in the specified file format. :type plot_horizontal: bool (default=True) :param plot_horizontal: if True, results will be plotted with a horizontal bar plot. Otherwise, results will be plotted with a vertical plot. :param show_expected: if True, the observed/expected values will be shown on the plot. :type show_expected: bool (default=False) :param plot_style: style for the plot. Either ‘bar’ for a bar plot or ‘lollipop’ for a lollipop plot in which the lollipop size indicates the size of the observed gene set. :type plot_style: ‘bar’ or ‘lollipop’ (default=’bar’) :type random_seed: non-negative integer (default=None) :type random_seed: if using a randomization test, determine the random seed used to initialize the pseudorandom generator for the randomization test. By default it is picked at random, but you can set it to a particular integer to get consistents results over multiple runs. If not using a randomization test, this parameter will not affect the analysis. :param randomization_reps: if using a randomization test, determine how many randomization repititions to run. Otherwise, this parameter will not affect the analysis. :type randomization_reps: int larger than 0 (default=10000) :type parallel_backend: Literal[PARALLEL_BACKENDS] (default=’loky’) :param parallel_backend: Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise. :rtype: pd.DataFrame (default) or Tuple[pd.DataFrame, matplotlib.figure.Figure] :return: a pandas DataFrame with GO terms as rows/index; and a matplotlib Figure, if ‘return_figure’ is set to True.

Example plot of go_enrichment(plot_ontology_graph=True)

Example plot of go_enrichment()

Example plot of go_enrichment(plot_horizontal = False)

intersection(*others: Union[set, FeatureSet]) → FeatureSet

Calculates the set intersection of the indices from multiple FeatureSet objects (the indices that exist in ALL of the FeatureSet objects).

Parameters

others (FeatureSet, RankedSet or set) – The objects against which the current object will be compared.

Returns

a new FeatureSet with elements common to this FeatureSet and all other objects.

Return type

FeatureSet

Examples

>>> from rnalysis import enrichment
>>> en = enrichment.FeatureSet({'WBGene00000001','WBGene00000002','WBGene00000006'}, 'set name')
>>> s = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> en2 = enrichment.FeatureSet({'WBGene00000004','WBGene00000001'})
>>> en.intersection(s, en2)
>>> print(en)
FeatureSet: set name
{'WBGene00000001'}

intersection_update()

Update a set with the intersection of itself and another.

isdisjoint()

Return True if two sets have a null intersection.

issubset()

Report whether another set contains this set.

issuperset()

Report whether this set contains another set.

kegg_enrichment(organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', alpha: Fraction = 0.05, statistical_test: Literal['fisher', 'hypergeometric', 'randomization'] = 'fisher', biotype: Union[str, List[str], Literal['all']] = 'all', background_genes: Union[Set[str], Filter, FeatureSet] = None, biotype_ref_path: Union[str, Path, Literal['predefined']] = 'predefined', exclude_unannotated_genes: bool = True, return_nonsignificant: bool = False, save_csv: bool = False, fname=None, return_fig: bool = False, plot_horizontal: bool = True, show_expected: bool = False, plot_style: Literal['bar', 'lollipop'] = 'bar', plot_pathway_graphs: bool = True, pathway_graphs_format: Literal['pdf', 'png', 'svg', 'none'] = 'none', randomization_reps: PositiveInt = 10000, random_seed: Optional[int] = None, parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False) → Union[DataFrame, Tuple[DataFrame, Figure]]

Calculates enrichment and depletion of the FeatureSet for Kyoto Encyclopedia of Genes and Genomes (KEGG) curated pathways against a background set. The background set is determined by either the input variable ‘background_genes’, or by the input variable ‘biotype’ and a Biotype Reference Table. P-values are corrected for multiple comparisons using the Benjamini–Hochberg step-up procedure (original FDR method). In plots, for the clarity of display, complete depletion (linear enrichment score = 0) appears with the smallest value in the scale.

Parameters

• organism (str or int) – organism name or NCBI taxon ID for which the function will fetch GO annotations.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• alpha (float between 0 and 1 (default=0.05)) – Indicates the FDR threshold for significance.

• statistical_test ('fisher', 'hypergeometric' or 'randomization' (default='fisher')) – determines the statistical test to be used for enrichment analysis. Note that some propagation methods support only some of the available statistical tests.

• biotype (str specifying a specific biotype, list/set of strings each specifying a biotype, or 'all'. Default 'protein_coding'.) – determines the background genes by their biotype. Requires specifying a Biotype Reference Table. ‘all’ will include all genomic features in the reference table, ‘protein_coding’ will include only protein-coding genes from the reference table, etc. Cannot be specified together with ‘background_genes’.

• background_genes (set of feature indices, filtering.Filter object, or enrichment.FeatureSet object) – a set of specific feature indices to be used as background genes. Cannot be specified together with ‘biotype’.

• biotype_ref_path (str or pathlib.Path (default='predefined')) – the path of the Biotype Reference Table. Will be used to generate background set if ‘biotype’ is specified.

• exclude_unannotated_genes (bool (deafult=True)) – if True, genes that have no annotation associated with them will be excluded from the enrichment analysis. This is the recommended practice for enrichment analysis, since keeping unannotated genes in the analysis increases the chance of discovering spurious enrichment results.

• return_nonsignificant (bool (default=False)) – if True, the results DataFrame will include all tested pathways - both significant and non-significant ones. If False (default), only significant pathways will be returned.

• save_csv (bool, default False) – If True, will save the results to a .csv file, under the name specified in ‘fname’.

• fname (str or pathlib.Path) – The full path and name of the file to which to save the results. For example: ‘C:/dir/file’. No ‘.csv’ suffix is required. If None (default), fname will be requested in a manual prompt.

• return_fig (bool (default=False)) – if True, returns a matplotlib Figure object in addition to the results DataFrame.

• plot_horizontal (bool (default=True)) – if True, results will be plotted with a horizontal bar plot. Otherwise, results will be plotted with a vertical plot.

• show_expected (bool (default=False)) – if True, the observed/expected values will be shown on the plot.

• plot_style ('bar' or 'lollipop' (default='bar')) – style for the plot. Either ‘bar’ for a bar plot or ‘lollipop’ for a lollipop plot in which the lollipop size indicates the size of the observed gene set.

• plot_pathway_graphs (bool (default=True)) – if True, will generate pathway graphs depicting the significant KEGG pathways.

• pathway_graphs_format ('pdf', 'png', 'svg', or None (default=None)) – if pathway_graphs_format is not ‘none’, the pathway graphs will additonally be generated in the specified file format.

• randomization_reps (int larger than 0 (default=10000)) – if using a randomization test, determine how many randomization repititions to run. Otherwise, this parameter will not affect the analysis.

• parallel_backend (Literal[PARALLEL_BACKENDS] (default='loky')) – Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise.

Return type

pd.DataFrame (default) or Tuple[pd.DataFrame, matplotlib.figure.Figure]

Returns

a pandas DataFrame with the indicated pathway names as rows/index; and a matplotlib Figure, if ‘return_figure’ is set to True.

Example plot of kegg_enrichment()

Example plot of kegg_enrichment(plot_horizontal = False)

map_orthologs_ensembl(map_to_organism: Union[str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']], map_from_organism: Union[Literal['auto'], str, int, Literal['Acanthochromis polyacanthus', 'Accipiter nisus', 'Ailuropoda melanoleuca', 'Amazona collaria', 'Amphilophus citrinellus', 'Amphiprion ocellaris', 'Amphiprion percula', 'Anabas testudineus', 'Anas platyrhynchos', 'Anas platyrhynchos platyrhynchos', 'Anas zonorhyncha', 'Anolis carolinensis', 'Anser brachyrhynchus', 'Anser cygnoides', 'Aotus nancymaae', 'Apteryx haastii', 'Apteryx owenii', 'Apteryx rowi', 'Aquila chrysaetos chrysaetos', 'Astatotilapia calliptera', 'Astyanax mexicanus', 'Astyanax mexicanus pachon', 'Athene cunicularia', 'Balaenoptera musculus', 'Betta splendens', 'Bison bison bison', 'Bos grunniens', 'Bos indicus hybrid', 'Bos mutus', 'Bos taurus', 'Bos taurus hybrid', 'Bubo bubo', 'Buteo japonicus', 'Caenorhabditis elegans', 'Cairina moschata domestica', 'Calidris pugnax', 'Calidris pygmaea', 'Callithrix jacchus', 'Callorhinchus milii', 'Camarhynchus parvulus', 'Camelus dromedarius', 'Canis lupus dingo', 'Canis lupus familiaris', 'Canis lupus familiarisbasenji', 'Canis lupus familiarisboxer', 'Canis lupus familiarisgreatdane', 'Canis lupus familiarisgsd', 'Capra hircus', 'Capra hircus blackbengal', 'Carassius auratus', 'Carlito syrichta', 'Castor canadensis', 'Catagonus wagneri', 'Catharus ustulatus', 'Cavia aperea', 'Cavia porcellus', 'Cebus imitator', 'Cercocebus atys', 'Cervus hanglu yarkandensis', 'Chelonoidis abingdonii', 'Chelydra serpentina', 'Chinchilla lanigera', 'Chlorocebus sabaeus', 'Choloepus hoffmanni', 'Chrysemys picta bellii', 'Chrysolophus pictus', 'Ciona intestinalis', 'Ciona savignyi', 'Clupea harengus', 'Colobus angolensis palliatus', 'Corvus moneduloides', 'Cottoperca gobio', 'Coturnix japonica', 'Cricetulus griseus chok1gshd', 'Cricetulus griseus crigri', 'Cricetulus griseus picr', 'Crocodylus porosus', 'Cyanistes caeruleus', 'Cyclopterus lumpus', 'Cynoglossus semilaevis', 'Cyprinodon variegatus', 'Cyprinus carpio carpio', 'Cyprinus carpio germanmirror', 'Cyprinus carpio hebaored', 'Cyprinus carpio huanghe', 'Danio rerio', 'Dasypus novemcinctus', 'Delphinapterus leucas', 'Denticeps clupeoides', 'Dicentrarchus labrax', 'Dipodomys ordii', 'Dromaius novaehollandiae', 'Drosophila melanogaster', 'Echeneis naucrates', 'Echinops telfairi', 'Electrophorus electricus', 'Eptatretus burgeri', 'Equus asinus', 'Equus caballus', 'Erinaceus europaeus', 'Erpetoichthys calabaricus', 'Erythrura gouldiae', 'Esox lucius', 'Falco tinnunculus', 'Felis catus', 'Ficedula albicollis', 'Fukomys damarensis', 'Fundulus heteroclitus', 'Gadus morhua', 'Gallus gallus', 'Gallus gallus gca000002315v5', 'Gallus gallus gca016700215v2', 'Gambusia affinis', 'Gasterosteus aculeatus', 'Geospiza fortis', 'Gopherus agassizii', 'Gopherus evgoodei', 'Gorilla gorilla', 'Gouania willdenowi', 'Haplochromis burtoni', 'Heterocephalus glaber female', 'Heterocephalus glaber male', 'Hippocampus comes', 'Homo sapiens', 'Hucho hucho', 'Ictalurus punctatus', 'Ictidomys tridecemlineatus', 'Jaculus jaculus', 'Junco hyemalis', 'Kryptolebias marmoratus', 'Labrus bergylta', 'Larimichthys crocea', 'Lates calcarifer', 'Laticauda laticaudata', 'Latimeria chalumnae', 'Lepidothrix coronata', 'Lepisosteus oculatus', 'Leptobrachium leishanense', 'Lonchura striata domestica', 'Loxodonta africana', 'Lynx canadensis', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Malurus cyaneus samueli', 'Manacus vitellinus', 'Mandrillus leucophaeus', 'Marmota marmota marmota', 'Mastacembelus armatus', 'Maylandia zebra', 'Meleagris gallopavo', 'Melopsittacus undulatus', 'Meriones unguiculatus', 'Mesocricetus auratus', 'Microcebus murinus', 'Microtus ochrogaster', 'Mola mola', 'Monodelphis domestica', 'Monodon monoceros', 'Monopterus albus', 'Moschus moschiferus', 'Mus caroli', 'Mus musculus', 'Mus musculus 129s1svimj', 'Mus musculus aj', 'Mus musculus akrj', 'Mus musculus balbcj', 'Mus musculus c3hhej', 'Mus musculus c57bl6nj', 'Mus musculus casteij', 'Mus musculus cbaj', 'Mus musculus dba2j', 'Mus musculus fvbnj', 'Mus musculus lpj', 'Mus musculus nodshiltj', 'Mus musculus nzohlltj', 'Mus musculus pwkphj', 'Mus musculus wsbeij', 'Mus pahari', 'Mus spicilegus', 'Mus spretus', 'Mustela putorius furo', 'Myotis lucifugus', 'Myripristis murdjan', 'Naja naja', 'Nannospalax galili', 'Neogobius melanostomus', 'Neolamprologus brichardi', 'Neovison vison', 'Nomascus leucogenys', 'Notamacropus eugenii', 'Notechis scutatus', 'Nothobranchius furzeri', 'Nothoprocta perdicaria', 'Numida meleagris', 'Ochotona princeps', 'Octodon degus', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Oncorhynchus tshawytscha', 'Oreochromis aureus', 'Oreochromis niloticus', 'Ornithorhynchus anatinus', 'Oryctolagus cuniculus', 'Oryzias javanicus', 'Oryzias latipes', 'Oryzias latipes hni', 'Oryzias latipes hsok', 'Oryzias melastigma', 'Oryzias sinensis', 'Otolemur garnettii', 'Otus sunia', 'Ovis aries', 'Ovis aries rambouillet', 'Pan paniscus', 'Pan troglodytes', 'Panthera leo', 'Panthera pardus', 'Panthera tigris altaica', 'Papio anubis', 'Parambassis ranga', 'Paramormyrops kingsleyae', 'Parus major', 'Pavo cristatus', 'Pelodiscus sinensis', 'Pelusios castaneus', 'Periophthalmus magnuspinnatus', 'Peromyscus maniculatus bairdii', 'Petromyzon marinus', 'Phascolarctos cinereus', 'Phasianus colchicus', 'Phocoena sinus', 'Physeter catodon', 'Piliocolobus tephrosceles', 'Podarcis muralis', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Poecilia reticulata', 'Pogona vitticeps', 'Pongo abelii', 'Procavia capensis', 'Prolemur simus', 'Propithecus coquereli', 'Pseudonaja textilis', 'Pteropus vampyrus', 'Pundamilia nyererei', 'Pygocentrus nattereri', 'Rattus norvegicus', 'Rattus norvegicus shrspbbbutx', 'Rattus norvegicus shrutx', 'Rattus norvegicus wkybbb', 'Rhinolophus ferrumequinum', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Saccharomyces cerevisiae', 'Saimiri boliviensis boliviensis', 'Salarias fasciatus', 'Salmo salar', 'Salmo trutta', 'Salvator merianae', 'Sander lucioperca', 'Sarcophilus harrisii', 'Sciurus vulgaris', 'Scleropages formosus', 'Scophthalmus maximus', 'Serinus canaria', 'Seriola dumerili', 'Seriola lalandi dorsalis', 'Sinocyclocheilus anshuiensis', 'Sinocyclocheilus grahami', 'Sinocyclocheilus rhinocerous', 'Sorex araneus', 'Sparus aurata', 'Spermophilus dauricus', 'Sphaeramia orbicularis', 'Sphenodon punctatus', 'Stachyris ruficeps', 'Stegastes partitus', 'Strigops habroptila', 'Strix occidentalis caurina', 'Struthio camelus australis', 'Suricata suricatta', 'Sus scrofa', 'Sus scrofa bamei', 'Sus scrofa berkshire', 'Sus scrofa hampshire', 'Sus scrofa jinhua', 'Sus scrofa landrace', 'Sus scrofa largewhite', 'Sus scrofa meishan', 'Sus scrofa pietrain', 'Sus scrofa rongchang', 'Sus scrofa tibetan', 'Sus scrofa usmarc', 'Sus scrofa wuzhishan', 'Taeniopygia guttata', 'Takifugu rubripes', 'Terrapene carolina triunguis', 'Tetraodon nigroviridis', 'Theropithecus gelada', 'Tupaia belangeri', 'Tursiops truncatus', 'Urocitellus parryii', 'Ursus americanus', 'Ursus maritimus', 'Ursus thibetanus thibetanus', 'Varanus komodoensis', 'Vicugna pacos', 'Vombatus ursinus', 'Vulpes vulpes', 'Xenopus tropicalis', 'Xiphophorus couchianus', 'Xiphophorus maculatus', 'Zalophus californianus', 'Zonotrichia albicollis', 'Zosterops lateralis melanops']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_percent_identity: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the Ensembl database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_percent_identity (bool (default=True)) – if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest percent_identity score.

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_orthoinspector(map_to_organism: Union[str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']], map_from_organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the OrthoInspector database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_panther(map_to_organism: Union[str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']], map_from_organism: Union[Literal['auto'], str, int, Literal['Amborella trichopoda', 'Anolis carolinensis', 'Anopheles gambiae', 'Aquifex aeolicus', 'Arabidopsis thaliana', 'Ashbya gossypii', 'Bacillus cereus', 'Bacillus subtilis', 'Bacteroides thetaiotaomicron', 'Batrachochytrium dendrobatidis', 'Bos taurus', 'Brachypodium distachyon', 'Bradyrhizobium diazoefficiens', 'Branchiostoma floridae', 'Brassica napus', 'Brassica rapa subsp. pekinensis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Candida albicans', 'Canis lupus familiaris', 'Capsicum annuum', 'Chlamydia trachomatis', 'Chlamydomonas reinhardtii', 'Chloroflexus aurantiacus', 'Ciona intestinalis', 'Citrus sinensis', 'Clostridium botulinum', 'Coxiella burnetii', 'Cryptococcus neoformans', 'Cucumis sativus', 'Danio rerio', 'Daphnia pulex', 'Deinococcus radiodurans', 'Dictyoglomus turgidum', 'Dictyostelium discoideum', 'Dictyostelium purpureum', 'Drosophila melanogaster', 'Emericella nidulans', 'Entamoeba histolytica', 'Equus caballus', 'Erythranthe guttata', 'Escherichia coli', 'Eucalyptus grandis', 'Felis catus', 'Fusobacterium nucleatum', 'Gallus gallus', 'Geobacter sulfurreducens', 'Giardia intestinalis', 'Gloeobacter violaceus', 'Glycine max', 'Gorilla gorilla gorilla', 'Gossypium hirsutum', 'Haemophilus influenzae', 'Halobacterium salinarum', 'Helianthus annuus', 'Helicobacter pylori', 'Homo sapiens', 'Hordeum vulgare subsp. vulgare', 'Ixodes scapularis', 'Juglans regia', 'Klebsormidium nitens', 'Korarchaeum cryptofilum', 'Lactuca sativa', 'Leishmania major', 'Leptospira interrogans', 'Listeria monocytogenes', 'Macaca mulatta', 'Manihot esculenta', 'Marchantia polymorpha', 'Medicago truncatula', 'Methanocaldococcus jannaschii', 'Methanosarcina acetivorans', 'Monodelphis domestica', 'Monosiga brevicollis', 'Mus musculus', 'Musa acuminata subsp. malaccensis', 'Mycobacterium tuberculosis', 'Neisseria meningitidis serogroup b', 'Nelumbo nucifera', 'Nematostella vectensis', 'Neosartorya fumigata', 'Neurospora crassa', 'Nicotiana tabacum', 'Nitrosopumilus maritimus', 'Ornithorhynchus anatinus', 'Oryza sativa', 'Oryzias latipes', 'Pan troglodytes', 'Paramecium tetraurelia', 'Phaeosphaeria nodorum', 'Physcomitrella patens', 'Phytophthora ramorum', 'Plasmodium falciparum', 'Populus trichocarpa', 'Pristionchus pacificus', 'Prunus persica', 'Pseudomonas aeruginosa', 'Puccinia graminis', 'Pyrobaculum aerophilum', 'Rattus norvegicus', 'Rhodopirellula baltica', 'Ricinus communis', 'Saccharomyces cerevisiae', 'Salmonella typhimurium', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces pombe', 'Sclerotinia sclerotiorum', 'Selaginella moellendorffii', 'Setaria italica', 'Shewanella oneidensis', 'Solanum lycopersicum', 'Solanum tuberosum', 'Sorghum bicolor', 'Spinacia oleracea', 'Staphylococcus aureus', 'Streptococcus pneumoniae', 'Streptomyces coelicolor', 'Strongylocentrotus purpuratus', 'Sulfolobus solfataricus', 'Sus scrofa', 'Synechocystis', 'Thalassiosira pseudonana', 'Theobroma cacao', 'Thermococcus kodakaraensis', 'Thermodesulfovibrio yellowstonii', 'Thermotoga maritima', 'Tribolium castaneum', 'Trichomonas vaginalis', 'Trichoplax adhaerens', 'Triticum aestivum', 'Trypanosoma brucei', 'Ustilago maydis', 'Vibrio cholerae', 'Vitis vinifera', 'Xanthomonas campestris', 'Xenopus tropicalis', 'Yarrowia lipolytica', 'Yersinia pestis', 'Zea mays', 'Zostera marina', 'helobdella robusta', 'lepisosteus oculatus', 'mycoplasma genitalium']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', filter_least_diverged: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the PantherDB database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

Parameters

• map_to_organism (str or int) – organism name or NCBI taxon ID of the target species for ortholog mapping.

• map_from_organism (str or int) – organism name or NCBI taxon ID of the input genes’ source species.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• filter_least_diverged (bool (default=True)) – if True (default), RNAlysis will only fetch ortholog mappings that were flagged as a ‘least diverged ortholog’ on the PantherDB database. You can read more about this flag on the PantherDB website: https://www.pantherdb.org/genes/

• non_unique_mode ('first', 'last', 'random', or 'none' (default='first')) – How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

• inplace (bool (default=True)) – If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

Returns

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

map_orthologs_phylomedb(map_to_organism: Union[str, int, Literal['Azorhizobium caulinodans ORS 571', 'Buchnera aphidicola str. G002 (Myzus persicae)', 'Cellulomonas gilvus ATCC 13127', 'Dictyoglomus thermophilum H-6-12', 'Methylophilus methylotrophus DSM 46235 = ATCC 53528', 'Pelobacter carbinolicus DSM 2380', 'Shewanella putrefaciens CN-32', 'Myxococcus fulvus HW-1', 'Myxococcus xanthus DK 1622', 'Stigmatella aurantiaca DW4/3-1', 'Cystobacter fuscus DSM 2262', 'Chondromyces apiculatus DSM 436', 'Sorangium cellulosum So0157-2', 'Vitreoscilla stercoraria DSM 513', 'Herpetosiphon aurantiacus DSM 785', 'Simonsiella muelleri ATCC 29453', 'Hyphomonas jannaschiana VP2', 'Flectobacillus major DSM 103', 'Cyclobacterium marinum DSM 745', 'Runella slithyformis DSM 19594', 'Spirosoma linguale DSM 74', 'Rubinisphaera brasiliensis DSM 5305', 'Planctopirus limnophila DSM 3776', 'Gimesia maris DSM 8797', 'Blastopirellula marina DSM 3645', 'Pirellula staleyi DSM 6068', 'Isosphaera pallida ATCC 43644', 'Methylocystis parvus OBBP', 'Borreliella burgdorferi B31', 'Borrelia hermsii DAH', 'Borrelia parkeri SLO', 'Borrelia turicatae 91E135', 'Borrelia anserina BA2', 'Sediminispirochaeta bajacaliforniensis DSM 16054', 'Spirochaeta thermophila DSM 6192', 'Treponema denticola ATCC 35405', 'Brachyspira hyodysenteriae WA1', 'Treponema pallidum subsp. pallidum str. Nichols', 'Treponema phagedenis F0421', 'Treponema bryantii NK4A124', 'Treponema saccharophilum DSM 2985', 'Treponema succinifaciens DSM 2489', "Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'", 'Leptospira interrogans serovar Lai str. 56601', 'Leptospira borgpetersenii serovar Hardjo-bovis str. L550', 'Leptospirillum ferrooxidans C2-3', 'Leptonema illini DSM 21528', 'Novispirillum itersonii subsp. itersonii ATCC 12639', 'Aquaspirillum serpens DSM 68', 'Azospirillum sp. B510', 'Campylobacter coli 76339', 'Campylobacter fetus subsp. venerealis NCTC 10354', 'Campylobacter jejuni subsp. jejuni 414', 'Campylobacter concisus 13826', 'Campylobacter curvus 525.92', 'Campylobacter lari RM2100', 'Campylobacter rectus RM3267', 'Campylobacter showae CSUNSWCD', 'Campylobacter sputorum biovar sputorum', 'Helicobacter pylori 26695', 'Helicobacter acinonychis str. Sheeba', 'Helicobacter cinaedi CCUG 18818 = ATCC BAA-847', 'Helicobacter felis ATCC 49179', 'Helicobacter fennelliae MRY12-0050', 'Helicobacter mustelae 12198', 'Pseudoalteromonas haloplanktis ATCC 14393', 'Brucella abortus 2308', 'Brucella ovis ATCC 25840', 'Elizabethkingia meningoseptica ATCC 13253 = NBRC 12535', 'Flavobacterium aquatile LMG 4008 = ATCC 11947', 'Empedobacter brevis NBRC 14943 = ATCC 43319', 'Chryseobacterium gleum ATCC 35910', 'Psychroflexus gondwanensis ACAM 44', 'Chryseobacterium indologenes NBRC 14944', 'Myroides odoratus DSM 2801', 'Sphingobacterium spiritivorum ATCC 33861', 'Francisella cf. tularensis subsp. novicida 3523', 'Paracoccus denitrificans PD1222', 'Thermus aquaticus Y51MC23', 'Thermus thermophilus HB8', 'Meiothermus ruber DSM 1279', 'Xanthobacter autotrophicus Py2', 'Comamonas testosteroni KF-1', 'Pseudomonas aeruginosa PAO1', 'Pseudoalteromonas atlantica T6c', 'Burkholderia cepacia', 'Brevundimonas diminuta 470-4', 'Pseudomonas fluorescens NCIMB 11764', 'Pseudomonas fragi B25', 'Pseudomonas mendocina NK-01', 'Pseudomonas pseudoalcaligenes AD6', 'Pseudomonas putida KT2440', 'Ralstonia solanacearum GMI1000', 'Pseudomonas stutzeri MF28', 'Pseudomonas syringae pv. syringae B728a', 'Ralstonia pickettii DTP0602', 'Burkholderia glumae BGR1', 'Xanthomonas campestris pv. campestris', 'Xanthomonas translucens DAR61454', 'Xanthomonas citri pv. citri str. 306', 'Xanthomonas oryzae pv. oryzae PXO99A', 'Azotobacter chroococcum NCIMB 8003', 'Azotobacter vinelandii DJ', 'Agrobacterium radiobacter K84', 'Agrobacterium rhizogenes', 'Agrobacterium vitis S4', 'Bradyrhizobium japonicum', 'Sinorhizobium fredii USDA 257', 'Mesorhizobium loti CJ3sym', 'Sinorhizobium meliloti 1021', 'Rhizobium leguminosarum bv. viciae GB30', 'Rhizobium tropici CIAT 899', 'Neorhizobium galegae bv. orientalis str. HAMBI 540', 'Methylobacillus flagellatus KT', 'Methylobacillus glycogenes JCM 2850', 'Methylorubrum extorquens AM1', 'Methylococcus capsulatus str. Bath', 'Methylomonas methanica MC09', 'Methylosinus trichosporium OB3b', 'Acetobacter aceti ATCC 23746', 'Komagataeibacter hansenii ATCC 23769', 'Acetobacter pasteurianus 3P3', 'Gluconobacter oxydans H24', 'Legionella pneumophila str. Paris', 'Legionella hackeliae', 'Legionella longbeachae NSW150', 'Tatlockia micdadei', 'Fluoribacter dumoffii NY 23', 'Acinetobacter baumannii', 'Acinetobacter calcoaceticus ANC 3680', 'Moraxella catarrhalis O35E', 'Neisseria cinerea ATCC 14685', 'Neisseria flavescens NRL30031/H210', 'Neisseria gonorrhoeae NCCP11945', 'Neisseria lactamica 020-06', 'Neisseria meningitidis MC58', 'Neisseria mucosa ATCC 25996', 'Neisseria polysaccharea ATCC 43768', 'Neisseria sicca ATCC 29256', 'Neisseria elongata subsp. glycolytica ATCC 29315', 'Neisseria macacae ATCC 33926', 'Thermomicrobium roseum DSM 5159', 'Kingella denitrificans ATCC 33394', 'Kingella kingae ATCC 23330', 'Kingella oralis ATCC 51147', 'Alcaligenes faecalis', 'Bordetella bronchiseptica RB50', 'Bordetella parapertussis Bpp5', 'Bordetella pertussis Tohama I', 'Bordetella avium 197N', 'Acidiphilium angustum ATCC 35903', 'Acidiphilium cryptum JF-5', 'Acidocella facilis ATCC 35904', 'Ochrobactrum anthropi ATCC 49188', 'Polaribacter irgensii 23-P', 'Beijerinckia indica subsp. indica ATCC 9039', 'Chromobacterium violaceum ATCC 12472', 'Eikenella corrodens ATCC 23834', 'Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821', 'Citrobacter koseri ATCC BAA-895', 'Citrobacter freundii MGH 56', 'Klebsiella aerogenes KCTC 2190', 'Pantoea agglomerans', 'Enterobacter cloacae subsp. cloacae ATCC 13047', 'Erwinia amylovora CFBP1430', 'Pantoea ananatis LMG 20103', 'Pectobacterium carotovorum subsp. carotovorum PC1', 'Dickeya chrysanthemi Ech1591', 'Escherichia coli K-12', 'Shimwellia blattae DSM 4481 = NBRC 105725', 'Escherichia fergusonii B253', 'Atlantibacter hermannii NBRC 105704', 'Pseudescherichia vulneris NBRC 102420', 'Hafnia alvei FB1', 'Klebsiella oxytoca', 'Klebsiella pneumoniae', 'Morganella morganii subsp. morganii KT', 'Proteus mirabilis HI4320', 'Proteus vulgaris', 'Providencia rettgeri DSM 1131', 'Providencia stuartii ATCC 25827', 'Serratia liquefaciens ATCC 27592', 'Serratia marcescens subsp. marcescens Db11', 'Serratia odorifera DSM 4582', 'Shigella boydii CDC 3083-94', 'Shigella dysenteriae 1617', 'Shigella flexneri 2a str. 301', 'Shigella sonnei Ss046', 'Xenorhabdus nematophila ATCC 19061', 'Yersinia enterocolitica LC20', 'Yersinia intermedia ATCC 29909', 'Yersinia pestis CO92', 'Yersinia pseudotuberculosis', 'Edwardsiella tarda ATCC 15947 = NBRC 105688', 'Aeromonas hydrophila subsp. hydrophila ATCC 7966', 'Aeromonas salmonicida subsp. salmonicida A449', 'Aeromonas media WS', 'Aeromonas veronii B565', 'Photobacterium phosphoreum ANT-2200', 'Photobacterium angustum S14', 'Vibrio alginolyticus NBRC 15630 = ATCC 17749', 'Vibrio cholerae O395', 'Aliivibrio fischeri ES114', 'Vibrio parahaemolyticus RIMD 2210633', 'Vibrio proteolyticus NBRC 13287', 'Vibrio vulnificus', 'Grimontia hollisae CIP 101886', 'Vibrio mimicus MB451', 'Vibrio campbellii ATCC BAA-1116', 'Vibrio diazotrophicus NBRC 103148', 'Plesiomonas shigelloides 302-73', 'Aggregatibacter actinomycetemcomitans HK1651', 'Actinobacillus pleuropneumoniae serovar 1 str. 4074', 'Actinobacillus suis H91-0380', 'Actinobacillus capsulatus DSM 19761', 'Actinobacillus equuli subsp. equuli', 'Actinobacillus ureae ATCC 25976', 'Haemophilus haemolyticus M21639', 'Haemophilus influenzae Rd KW20', 'Avibacterium paragallinarum 221', 'Haemophilus parainfluenzae T3T1', 'Histophilus somni 129PT', 'Aggregatibacter aphrophilus NJ8700', 'Haemophilus paraphrohaemolyticus HK411', 'Glaesserella parasuis ZJ0906', 'Aggregatibacter segnis ATCC 33393', 'Pasteurella multocida', 'Gallibacterium anatis UMN179', 'Pasteurella bettyae CCUG 2042', 'Pasteurella dagmatis ATCC 43325', 'Rodentibacter pneumotropicus', 'Anaplasma centrale str. Israel', 'Anaplasma marginale str. St. Maries', 'Bartonella bacilliformis KC583', 'Coxiella burnetii RSA 493', 'Ehrlichia ruminantium str. Welgevonden', 'Rickettsia conorii str. Malish 7', 'Rickettsia prowazekii str. Madrid E', 'Rickettsia rickettsii str. Iowa', 'Orientia tsutsugamushi str. Boryong', 'Rickettsia typhi str. Wilmington', 'Rickettsia akari str. Hartford', 'Rickettsia australis str. Cutlack', 'Rickettsia canadensis str. McKiel', 'Bartonella quintana str. Toulouse', 'Bartonella elizabethae F9251 = ATCC 49927', 'Chlamydia trachomatis D/UW-3/CX', 'Bacteroides fragilis 3_1_12', 'Bacteroides thetaiotaomicron VPI-5482', 'Bacteroides uniformis ATCC 8492', 'Bacteroides vulgatus ATCC 8482', 'Parabacteroides distasonis ATCC 8503', 'Campylobacter gracilis RM3268', 'Sebaldella termitidis ATCC 33386', 'Campylobacter ureolyticus', 'Butyrivibrio fibrisolvens ND3005', 'Fibrobacter succinogenes subsp. succinogenes S85', 'Porphyromonas gingivalis ATCC 33277', 'Prevotella ruminicola 23', 'Prevotella loescheii DSM 19665 = JCM 12249 = ATCC 15930', 'Wolinella succinogenes DSM 1740', 'Oxalobacter formigenes HOxBLS', 'Fusobacterium gonidiaformans ATCC 25563', 'Fusobacterium mortiferum ATCC 9817', 'Fusobacterium nucleatum subsp. nucleatum ATCC 25586', 'Fusobacterium perfoetens ATCC 29250', 'Faecalibacterium prausnitzii A2-165', 'Fusobacterium russii ATCC 25533', 'Fusobacterium varium ATCC 27725', 'Fusobacterium necrophorum subsp. funduliforme ATCC 51357', 'Fusobacterium periodonticum ATCC 33693', 'Fusobacterium ulcerans ATCC 49185', 'Syntrophomonas wolfei subsp. wolfei str. Goettingen G311', 'Dichelobacter nodosus VCS1703A', 'Desulfocurvibacter africanus subsp. africanus str. Walvis Bay', 'Desulfovibrio desulfuricans ND132', 'Desulfovibrio fructosivorans JJ', 'Desulfovibrio gigas DSM 1382 = ATCC 19364', 'Desulfovibrio salexigens DSM 2638', 'Desulfovibrio vulgaris str. Hildenborough', 'Thermodesulfobacterium thermophilum DSM 1276', 'Desulfovibrio longus DSM 6739', 'Desulfobulbus propionicus DSM 2032', 'Desulfococcus multivorans DSM 2059', 'Desulfomicrobium baculatum DSM 4028', 'Desulfovibrio piger ATCC 29098', 'Acidaminococcus fermentans DSM 20731', 'Megasphaera elsdenii DSM 20460', 'Nitrobacter hamburgensis X14', 'Nitrobacter winogradskyi Nb-255', 'Nitrosomonas europaea ATCC 19718', 'Nitrosomonas eutropha C91', 'Acidithiobacillus ferrooxidans ATCC 23270', 'Starkeya novella DSM 506', 'Thiomonas intermedia K12', 'Halothiobacillus neapolitanus c2', 'Thermithiobacillus tepidarius DSM 3134', 'Acidithiobacillus thiooxidans ATCC 19377', 'Thiobacillus thioparus DSM 505', 'Thiomicrospira pelophila DSM 1534', 'Hydrogenobacter thermophilus TK-6', 'Ehrlichia canis str. Jake', 'Ehrlichia chaffeensis str. Arkansas', 'Anaplasma phagocytophilum str. HZ', 'Neorickettsia risticii str. Illinois', 'Neorickettsia sennetsu str. Miyayama', 'Bdellovibrio bacteriovorus HD100', 'Herbaspirillum seropedicae SmR1', 'Selenomonas ruminantium AB3002', 'Cellulophaga lytica DSM 7489', 'Saccharicrinis fermentans DSM 9555 = JCM 21142', 'Pedobacter heparinus DSM 2366', 'Cytophaga hutchinsonii ATCC 33406', 'Flavobacterium johnsoniae UW101', 'Marinilabilia salmonicolor JCM 21150', 'Flavobacterium hydatis', 'Solitalea canadensis DSM 3403', 'Flavobacterium columnare ATCC 49512', 'Bernardetia litoralis DSM 6794', 'Marivirga tractuosa DSM 4126', 'Saprospira grandis str. Lewin', 'Weeksella virosa DSM 16922', 'Bergeyella zoohelcum ATCC 43767', 'Capnocytophaga gingivalis ATCC 33624', 'Capnocytophaga ochracea F0287', 'Capnocytophaga sputigena ATCC 33612', 'Beggiatoa alba B18LD', 'Microscilla marina ATCC 23134', 'Thiothrix nivea DSM 5205', 'Afipia clevelandensis ATCC 49720', 'Afipia felis ATCC 53690', 'Erythrobacter longus', 'Allochromatium vinosum DSM 180', 'Halorhodospira halochloris str. A', 'Halorhodospira halophila SL1', 'Rhodobacter capsulatus SB 1003', 'Rhodobacter sphaeroides 2.4.1', 'Rhodomicrobium vannielii ATCC 17100', 'Rhodopseudomonas palustris CGA009', 'Phaeospirillum fulvum MGU-K5', 'Phaeospirillum molischianum DSM 120', 'Pararhodospirillum photometricum DSM 122', 'Rhodospirillum rubrum ATCC 11170', 'Rhodovibrio salinarum DSM 9154', 'Chlorobium limicola DSM 245', 'Chlorobium phaeovibrioides DSM 265', 'Chlorobium phaeobacteroides DSM 266', 'Chlorobaculum tepidum TLS', 'Pelodictyon luteolum DSM 273', 'Prosthecochloris aestuarii DSM 271', 'Chloroflexus aurantiacus J-10-fl', 'Chlorogloeopsis fritschii PCC 6912', 'Microcystis aeruginosa NIES-843', 'Synechocystis sp. PCC 6714', 'Synechocystis sp. PCC 6803 substr. Kazusa', 'Planktothrix agardhii NIVA-CYA 126/8', 'Anabaena cylindrica PCC 7122', 'Leptolyngbya boryana PCC 6306', 'Tolypothrix sp. PCC 7601', 'Trichodesmium erythraeum IMS101', 'Prochlorococcus marinus str. AS9601', 'Prochlorothrix hollandica PCC 9006 = CALU 1027', 'Nitrosococcus oceani ATCC 19707', 'Nitrosospira multiformis ATCC 25196', 'Leuconostoc gelidum subsp. gasicomitatum LMG 18811', 'Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293', 'Leuconostoc lactis', 'Oenococcus oeni PSU-1', 'Weissella paramesenteroides ATCC 33313', 'Leuconostoc fallax KCTC 3537', 'Leuconostoc carnosum JB16', 'Pediococcus acidilactici DSM 20284', 'Pediococcus pentosaceus ATCC 25745', 'Finegoldia magna ATCC 53516', 'Peptostreptococcus anaerobius VPI 4330 = DSM 2949', 'Ruminococcus albus 8', 'Ruminococcus flavefaciens FD-1', 'Micrococcus luteus NCTC 2665', 'Dermacoccus nishinomiyaensis', 'Kytococcus sedentarius DSM 20547', 'Staphylococcus aureus subsp. aureus Mu50', 'Staphylococcus carnosus subsp. carnosus TM300', 'Staphylococcus epidermidis RP62A', 'Staphylococcus haemolyticus JCSC1435', 'Staphylococcus hyicus', 'Staphylococcus intermedius NCTC 11048', 'Staphylococcus simulans UMC-CNS-990', 'Staphylococcus xylosus', 'Staphylococcus hominis SK119', 'Staphylococcus warneri L37603', 'Staphylococcus sciuri subsp. sciuri Z8', 'Deinococcus radiodurans R1', 'Streptococcus gordonii str. Challis substr. CH1', 'Streptococcus oralis subsp. tigurinus AZ_3a', 'Streptococcus salivarius 57.I', 'Streptococcus sanguinis SK1057', 'Streptococcus suis R61', 'Streptococcus thermophilus LMG 18311', 'Streptococcus mutans UA159', 'Streptococcus sobrinus W1703', 'Streptococcus agalactiae LMG 14747', 'Streptococcus pneumoniae R6', 'Streptococcus pyogenes', 'Streptococcus downei F0415', 'Streptococcus parasanguinis ATCC 903', 'Blautia hansenii DSM 20583', 'Faecalicoccus pleomorphus DSM 20574', 'Streptococcus anginosus DORA_7', 'Streptococcus canis FSL Z3-227', 'Streptococcus criceti HS-6', 'Streptococcus dysgalactiae subsp. equisimilis AC-2713', 'Streptococcus equinus ATCC 9812', 'Streptococcus equi subsp. zooepidemicus', 'Streptococcus intermedius B196', 'Streptococcus macacae NCTC 11558', 'Streptococcus porcinus str. Jelinkova 176', 'Streptococcus ratti FA-1 = DSM 20564', 'Streptococcus vestibularis F0396', 'Streptococcus ferus DSM 20646', 'Streptococcus iniae', 'Streptococcus parauberis NCFD 2020', 'Streptococcus uberis 0140J', 'Enterococcus faecalis V583', 'Enterococcus faecium C68', 'Enterococcus gallinarum EG2', 'Enterococcus hirae ATCC 9790', 'Enterococcus columbae DSM 7374 = ATCC 51263', 'Enterococcus sulfureus ATCC 49903', 'Lactococcus lactis subsp. cremoris SK11', 'Lactococcus garvieae DCC43', 'Lactococcus piscium MKFS47', 'Lactococcus raffinolactis 4877', 'Aerococcus urinae ACS-120-V-Col10a', 'Aerococcus viridans ATCC 11563 = CCUG 4311', 'Gemella haemolysans M341', 'Atopobium minutum 10063974', 'Atopobium parvulum DSM 20469', 'Atopobium rimae ATCC 49626', 'Bacillus amyloliquefaciens Y2', 'Aneurinibacillus aneurinilyticus ATCC 12856', 'Bacillus anthracis str. Ames', 'Brevibacillus brevis X23', 'Bacillus cereus', 'Bacillus coagulans 36D1', 'Bacillus firmus DS1', 'Bacillus licheniformis DSM 13 = ATCC 14580', 'Bacillus megaterium QM B1551', 'Bacillus mycoides KBAB4', 'Paenibacillus polymyxa SC2', 'Bacillus psychrosaccharolyticus ATCC 23296', 'Bacillus pumilus SAFR-032', 'Bacillus sp. (in: Bacteria)', 'Bacillus akibai JCM 9157', 'Bacillus cellulosilyticus DSM 2522', 'Lysinibacillus sphaericus OT4b.31', 'Bacillus subtilis subsp. subtilis str. 168', 'Parageobacillus thermoglucosidasius C56-YS93', 'Bacillus thuringiensis serovar kurstaki', 'Bacillus alcalophilus ATCC 27647 = CGMCC 1.3604', 'Amphibacillus xylanus NBRC 15112', 'Alicyclobacillus acidoterrestris ATCC 49025', 'Bacillus atrophaeus 1942', 'Geobacillus kaustophilus HTA426', 'Paenibacillus larvae subsp. larvae DSM 25430', 'Brevibacillus laterosporus DSM 25', 'Bacillus methanolicus PB1', 'Peribacillus simplex BA2H3', 'Bacillus smithii 7_3_47FAA', 'Virgibacillus halodenitrificans 1806', 'Clostridium acetobutylicum ATCC 824', 'Paraclostridium bifermentans WYM', 'Clostridium botulinum A2 str. Kyoto', 'Clostridium butyricum E4 str. BoNT E BL5262', 'Clostridium cellulovorans 743B', 'Clostridioides difficile', 'Ruminiclostridium josui JCM 17888', 'Clostridium pasteurianum BC1', 'Clostridium perfringens ATCC 13124', 'Paeniclostridium sordellii VPI 9048', 'Clostridium sp. ATCC 29733', 'Clostridium sporogenes PA 3679', 'Thermoclostridium stercorarium subsp. stercorarium DSM 8532', 'Acetoanaerobium sticklandii', 'Clostridium tetani 12124569', 'Hungateiclostridium thermocellum ATCC 27405', 'Thermoanaerobacter thermohydrosulfuricus WC1', 'Thermoanaerobacterium thermosaccharolyticum DSM 571', 'Clostridium tyrobutyricum DSM 2637 = ATCC 25755 = JCM 11008', 'Clostridium beijerinckii NCIMB 8052', 'Ruminiclostridium cellulolyticum H10', 'Moorella thermoacetica ATCC 39073', 'Clostridium cadaveris AGR2141', 'Clostridium kluyveri DSM 555', 'Clostridium ljungdahlii DSM 13528', 'Clostridioides mangenotii TR', 'Clostridium novyi B str. NCTC 9691', 'Erysipelatoclostridium ramosum DSM 1402', 'Clostridium scatologenes', 'Clostridium tetanomorphum DSM 665', 'Gottschalkia acidurici 9a', 'Peptoclostridium litorale DSM 5388', 'Clostridium baratii str. Sullivan', 'Desulfosporosinus orientis DSM 765', 'Desulfotomaculum ruminis DSM 2154', 'Desulfotomaculum nigrificans DSM 574', 'Halobacillus halophilus DSM 2266', 'Sporosarcina ureae DSM 2281', 'Leifsonia xyli subsp. cynodontis DSM 46306', 'Lactobacillus acidophilus 30SC', 'Lactobacillus brevis ATCC 367', 'Lactobacillus buchneri ATCC 11577', 'Lactobacillus casei BL23', 'Weissella confusa LBAE C39-2', 'Lactobacillus delbrueckii subsp. bulgaricus 2038', 'Lactobacillus helveticus CNRZ32', 'Lactobacillus hilgardii DSM 20176 = ATCC 8290', 'Lactobacillus pentosus KCA1', 'Lactobacillus plantarum WCFS1', 'Lactobacillus gasseri ATCC 33323 = JCM 1131', 'Lactobacillus paracasei subsp. paracasei ATCC 25302', 'Lactobacillus reuteri 100-23', 'Lactobacillus sakei subsp. sakei 23K', 'Lactobacillus amylovorus GRL 1112', 'Lactobacillus animalis', 'Lactobacillus coryniformis subsp. coryniformis KCTC 3167 = DSM 20001', 'Lactobacillus farciminis KCTC 3681 = DSM 20184', 'Lactobacillus fermentum IFO 3956', 'Lactobacillus fructivorans KCTC 3543 = DSM 20203', 'Weissella halotolerans DSM 20190', 'Lactobacillus murinus ASF361', 'Lactobacillus ruminis ATCC 27782', 'Lactobacillus salivarius UCC118', 'Lactobacillus sanfranciscensis TMW 1.1304', 'Kandleria vitulina MC3001', 'Fructobacillus fructosus KCTC 3544', 'Lactobacillus oris F0423', 'Lactobacillus vaginalis DSM 5837 = ATCC 49540', 'Listeria ivanovii subsp. londoniensis', 'Listeria monocytogenes EGD-e', 'Listeria seeligeri serovar 1/2b str. SLCC3954', 'Listeria grayi DSM 20601', 'Listeria innocua Clip11262', 'Listeria welshimeri serovar 6b str. SLCC5334', 'Renibacterium salmoninarum ATCC 33209', 'Erysipelothrix rhusiopathiae str. Fujisawa', 'Alloiococcus otitis ATCC 51267', 'Actinomyces naeslundii str. Howell 279', 'Actinomyces viscosus C505', 'Actinomyces israelii DSM 43320', 'Schaalia odontolytica ATCC 17982', 'Trueperella pyogenes TP8', 'Arthrobacter globiformis NBRC 12137', 'Bifidobacterium adolescentis', 'Bifidobacterium bifidum NCIMB 41171', 'Bifidobacterium angulatum DSM 20098 = JCM 7096', 'Bifidobacterium asteroides PRL2011', 'Bifidobacterium breve UCC2003', 'Bifidobacterium catenulatum DSM 16992 = JCM 1194 = LMG 11043', 'Bifidobacterium coryneforme', 'Bifidobacterium cuniculi', 'Bifidobacterium dentium Bd1', 'Bifidobacterium indicum LMG 11587 = DSM 20214', 'Bifidobacterium magnum', 'Bifidobacterium minimum', 'Bifidobacterium pseudolongum subsp. globosum', 'Corynebacterium ammoniagenes DSM 20306', 'Brevibacterium linens BL2', 'Cellulomonas fimi ATCC 484', 'Cellulosimicrobium cellulans J36', 'Cellulomonas flavigena DSM 20109', 'Oerskovia turbata', 'Corynebacterium diphtheriae PW8', 'Corynebacterium glutamicum', 'Corynebacterium pseudotuberculosis', 'Corynebacterium callunae DSM 20147', 'Corynebacterium variabile DSM 44702', 'Peptoclostridium acidaminophilum DSM 3953', 'Holdemanella biformis DSM 3989', 'Eubacterium limosum KIST612', 'Thermodesulfobacterium commune DSM 2178', 'Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1', 'Cutibacterium acnes KPA171202', 'Acidipropionibacterium acidipropionici ATCC 4875', 'Acidipropionibacterium jensenii DSM 20535', 'Pseudopropionibacterium propionicum F0230a', 'Acidipropionibacterium thoenii DSM 20276', 'Mycobacterium avium subsp. avium', 'Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841', 'Mycobacterium intracellulare ATCC 13950', 'Mycobacterium kansasii 732', 'Mycobacterium leprae TN', 'Mycolicibacterium phlei RIVM601174', 'Mycolicibacterium smegmatis MC2 155', 'Mycobacterium tuberculosis H37Rv', 'Mycobacteroides chelonae', 'Mycobacterium marinum M', 'Mycobacterium asiaticum DSM 44297', 'Mycolicibacterium neoaurum VKM Ac-1815D', 'Mycolicibacterium thermoresistibile ATCC 19527', 'Mycolicibacterium chubuense NBB4', 'Mycolicibacterium farcinogenes', 'Mycolicibacterium gilvum PYR-GCK', 'Mycobacterium ulcerans Agy99', 'Mycolicibacterium vaccae ATCC 25954', 'Amycolatopsis methanolica 239', 'Nocardia otitidiscaviarum NBRC 14405', 'Nocardia asteroides NBRC 15531', 'Rhodococcus fascians', 'Rhodococcus rhodochrous ATCC 21198', 'Rhodococcus ruber Chol-4', 'Rhodococcus erythropolis PR4', 'Saccharopolyspora erythraea NRRL 2338', 'Actinopolyspora halophila DSM 43834', 'Saccharomonospora viridis DSM 43017', 'Frankia alni ACN14a', 'Geodermatophilus obscurus DSM 43160', 'Actinoplanes missouriensis 431', 'Actinoplanes utahensis', 'Streptomyces albus subsp. albus', 'Kitasatospora aureofaciens', 'Streptomyces bikiniensis', 'Streptomyces coelicolor A3(2)', 'Streptomyces fradiae', 'Streptomyces glaucescens', 'Streptomyces griseus subsp. griseus NBRC 13350', 'Streptomyces hygroscopicus subsp. jinggangensis 5008', 'Streptomyces lividans 1326', 'Streptomyces scabiei 87.22', 'Streptomyces viridochromogenes DSM 40736', 'Streptomyces halstedii', 'Streptomyces purpureus KA281', 'Streptomyces sclerotialus', 'Streptomyces virginiae', 'Streptomyces cellulosae', 'Streptomyces chartreusis NRRL 12338', 'Actinomadura atramentaria DSM 43919', 'Actinomadura madurae LIID-AJ290', 'Microtetraspora glauca', 'Streptosporangium roseum DSM 43021', 'Streptosporangium amethystogenes', 'Thermobispora bispora DSM 43833', 'Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111', 'Nocardiopsis prasina DSM 43845', 'Thermomonospora curvata DSM 43183', 'Thermobifida fusca YX', 'Microbacterium testaceum StLB037', 'Curtobacterium flaccumfaciens UCD-AKU', 'Tropheryma whipplei str. Twist', 'Pimelobacter simplex', 'Rothia dentocariosa ATCC 17931', 'Mobiluncus curtisii ATCC 43063', 'Mobiluncus mulieris 28-1', 'Gordonia bronchialis DSM 43247', 'Gordonia terrae', 'Sphaerobacter thermophilus DSM 20745', 'Tsukamurella paurometabola DSM 20162', 'Kitasatospora setae KM-6054', 'Pseudonocardia autotrophica', 'Mycoplasma arginini 7264', 'Mycoplasma capricolum subsp. capricolum ATCC 27343', 'Mycoplasma gallisepticum', 'Mycoplasma genitalium G37', 'Mycoplasma hominis', 'Mycoplasma hyopneumoniae J', 'Mycoplasma hyorhinis SK76', 'Mycoplasma mycoides subsp. mycoides SC str. PG1', 'Mycoplasma pneumoniae', 'Mycoplasma leachii PG50', 'Mycoplasma pulmonis', 'Mycoplasma synoviae 53', 'Mycoplasma agalactiae PG2', 'Mycoplasma arthritidis 158L3-1', 'Mycoplasma bovigenitalium 51080', 'Mycoplasmopsis californica', 'Mycoplasma fermentans PG18', 'Mycoplasma iowae 695', 'Mycoplasma mobile', 'Mycoplasma putrefaciens Mput9231', 'Mycoplasma flocculare ATCC 27399', 'Ureaplasma urealyticum serovar 7 str. ATCC 27819', 'Spiroplasma melliferum IPMB4A', 'Spiroplasma apis B31', 'Spiroplasma mirum ATCC 29335', 'Spiroplasma taiwanense CT-1', 'Acholeplasma laidlawii PG-8A', 'Acholeplasma modicum ATCC 29102', 'Mesoplasma florum L1', 'Methanobrevibacter smithii ATCC 35061', 'Methanohalophilus mahii DSM 5219', 'Methanothermus fervidus DSM 2088', 'Methanothermococcus thermolithotrophicus DSM 2095', 'Methanococcus vannielii SB', 'Methanococcus voltae A3', 'Methanotorris igneus Kol 5', 'Methanocaldococcus jannaschii DSM 2661', 'Methanoculleus marisnigri JR1', 'Methanofollis liminatans DSM 4140', 'Methanospirillum hungatei JF-1', 'Methanomicrobium mobile BP', 'Methanosarcina barkeri str. Fusaro', 'Methanosarcina mazei Go1', 'Methanosarcina thermophila TM-1', 'Methanosarcina acetivorans C2A', 'Methanosarcina vacuolata Z-761', 'Methanothrix soehngenii GP6', 'Methanothrix thermoacetophila PT', 'Methanococcoides methylutens MM1', 'Archaeoglobus fulgidus DSM 4304', 'Haloarcula marismortui ATCC 43049', 'Halobacterium salinarum NRC-1', 'Haloferax volcanii DS2', 'Halorubrum lacusprofundi ATCC 49239', 'Halorubrum saccharovorum DSM 1137', 'Halococcus morrhuae DSM 1307', 'Haloferax mediterranei ATCC 33500', 'Natronomonas pharaonis DSM 2160', 'Pyrococcus furiosus DSM 3638', 'Thermococcus litoralis DSM 5473', 'Thermofilum pendens Hrk 5', 'Thermoproteus tenax Kra 1', 'Desulfurococcus mucosus DSM 2162', 'Pyrobaculum islandicum DSM 4184', 'Staphylothermus marinus F1', 'Sulfolobus acidocaldarius DSM 639', 'Saccharolobus solfataricus P2', 'Desulfobacter curvatus DSM 3379', 'Desulfobacter postgatei 2ac9', 'Desulfobacterium autotrophicum HRM2', 'Thermoplasma acidophilum DSM 1728', 'Methanoplanus limicola DSM 2279', 'Methanosphaera stadtmanae DSM 3091', 'Methanopyrus kandleri AV19', 'Methanohalobium evestigatum Z-7303', 'Thermoanaerobacter kivui', 'Halanaerobium praevalens DSM 2228', 'Thermotoga maritima MSB8', 'Thermotoga neapolitana DSM 4359', 'Solemya velum gill symbiont', 'Haliscomenobacter hydrossis DSM 1100', 'Flexistipes sinusarabici DSM 4947', 'Desulfomonile tiedjei DSM 6799', 'Xylella fastidiosa 9a5c', 'Acetonema longum DSM 6540', 'Sporomusa ovata DSM 2662', 'Thermosipho africanus TCF52B', 'Fervidobacterium islandicum', 'Fervidobacterium nodosum Rt17-B1', 'Teredinibacter turnerae T7901', 'Roseobacter denitrificans OCh 114', 'Gardnerella vaginalis 6119V5', 'Citrus sinensis', 'Cardiobacterium hominis ATCC 15826', 'Hirschia baltica ATCC 49814', 'Symbiobacterium thermophilum IAM 14863', 'Verrucomicrobium spinosum DSM 4136 = JCM 18804', 'Marinobacter hydrocarbonoclasticus VT8', 'Halomonas elongata DSM 2581', 'Carnobacterium divergens DSM 20623', 'Carnobacterium gallinarum DSM 4847', 'Carnobacterium mobile DSM 4848', 'Carnobacterium maltaromaticum LMA28', 'Carnobacterium funditum DSM 5970', 'Synergistes jonesii', 'Chondrus crispus', 'Phaeodactylum tricornutum', 'Ectocarpus siliculosus', 'Cryptomonas paramecium', 'Emiliania huxleyi', 'Symbiodinium microadriaticum', 'Chlamydomonas reinhardtii', 'Volvox carteri', 'Auxenochlorella protothecoides', 'Marchantia polymorpha', 'Physcomitrium patens', 'Cannabis sativa', 'Actinidia chinensis var. chinensis', 'Theobroma cacao', 'Carica papaya', 'Citrullus lanatus', 'Cucumis melo', 'Cucumis sativus', 'Populus trichocarpa', 'Arabidopsis thaliana', 'Brassica napus', 'Brassica rapa', 'Brassica oleracea', 'Malus domestica', 'Prunus dulcis', 'Prunus persica', 'Cajanus cajan', 'Cicer arietinum', 'Glycine max', 'Glycine soja', 'Lupinus angustifolius', 'Medicago truncatula', 'Phaseolus vulgaris', 'Vigna angularis', 'Manihot esculenta', 'Ricinus communis', 'Linum usitatissimum', 'Daucus carota subsp. sativus', 'Capsicum annuum', 'Solanum lycopersicum', 'Nicotiana sylvestris', 'Nicotiana tabacum', 'Nicotiana tomentosiformis', 'Nicotiana benthamiana', 'Solanum commersonii', 'Solanum tuberosum', 'Olea europaea', 'Erythranthe guttata', 'Sesamum indicum', 'Helianthus annuus', 'Cynara cardunculus var. scolymus', 'Nelumbo nucifera', 'Hordeum vulgare', 'Oryza longistaminata', 'Oryza rufipogon', 'Oryza sativa Japonica Group', 'Oryza brachyantha', 'Oryza nivara', 'Oryza punctata', 'Oryza glaberrima', 'Setaria italica', 'Setaria viridis', 'Sorghum bicolor', 'Triticum aestivum', 'Triticum turgidum subsp. durum', 'Triticum urartu', 'Zea mays', 'Ananas comosus', 'Musa acuminata', 'Pneumocystis carinii', 'Plasmopara halstedii', 'Phytophthora infestans', 'Phytophthora nicotianae', 'Phytophthora parasitica', 'Phytophthora megakarya', 'Phytophthora palmivora var. palmivora', 'Phycomyces blakesleeanus', 'Schizosaccharomyces pombe 972h-', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces octosporus', 'Cyberlindnera jadinii', 'Pichia kudriavzevii', 'Kluyveromyces marxianus DMKU3-1042', 'Lachancea waltii', 'Pachysolen tannophilus NRRL Y-2460', 'Millerozyma farinosa', 'Komagataella pastoris', 'Scheffersomyces stipitis', 'Pichia membranifaciens NRRL Y-2026', 'Wickerhamomyces anomalus', 'Meyerozyma guilliermondii', 'Saccharomyces bayanus', 'Saccharomyces cerevisiae S288C', 'Lachancea kluyveri', 'Torulaspora delbrueckii CBS 1146', 'Yarrowia lipolytica CLIB122', 'Zygosaccharomyces bailii CLIB 213', 'Lachancea fermentati', 'Zygosaccharomyces rouxii', 'Debaryomyces hansenii', 'Kockovaella imperatae', 'Brettanomyces bruxellensis', 'Taphrina deformans PYCC 5710', 'Bipolaris maydis', 'Bipolaris zeicola', 'Leptosphaeria maculans', 'Histoplasma capsulatum', 'Blastomyces dermatitidis', 'Acremonium chrysogenum ATCC 11550', 'Aspergillus aculeatus', 'Aspergillus clavatus', 'Aspergillus flavus', 'Aspergillus niger', 'Aspergillus oryzae', 'Penicillium camemberti', 'Penicillium chrysogenum', 'Penicillium roqueforti', 'Amorphotheca resinae ATCC 22711', 'Ascosphaera apis ARSEF 7405', 'Claviceps purpurea 20.1', 'Epichloe typhina E8', 'Cryphonectria parasitica', 'Fusarium fujikuroi', 'Neurospora crassa OR74A', 'Sordaria macrospora k-hell', 'Ophiostoma ulmi', 'Sclerotinia sclerotiorum 1980 UF-70', 'Cryptococcus neoformans var. neoformans JEC21', 'Cryptococcus depauperatus CBS 7841', 'Tremella mesenterica', 'Exidia glandulosa HHB12029', 'Ustilago maydis 521', 'Microbotryum violaceum', 'Tilletiaria anomala UBC 951', 'Rhodotorula toruloides', 'Puccinia graminis f. sp. tritici CRL 75-36-700-3', 'Phanerochaete chrysosporium', 'Pleurotus ostreatus var. ostreatus', 'Trametes versicolor FP-101664 SS1', 'Schizophyllum commune', 'Agaricus bisporus', 'Coprinopsis cinerea', 'Lentinula edodes', 'Suillus luteus UH-Slu-Lm8-n1', 'Ascochyta rabiei', 'Colletotrichum orbiculare', 'Candida albicans SC5314', 'Candida maltosa', 'Candida parapsilosis', 'Diutina rugosa', 'Candida tropicalis', 'Coccidioides immitis', 'Fusarium oxysporum', 'Fusarium culmorum CS7071', 'Fusarium graminearum', 'Metarhizium anisopliae ARSEF 549', 'Rhodotorula glutinis', 'Trichoderma harzianum', 'Trichoderma longibrachiatum ATCC 18648', 'Trichophyton rubrum', 'Aureobasidium pullulans EXF-150', 'Alternaria alternata', 'Phialophora americana', 'Saitoella complicata NRRL Y-17804', 'Cryptococcus wingfieldii CBS 7118', 'Grifola frondosa', 'Laetiporus sulphureus 93-53', 'Trametes cinnabarina', 'Leishmania braziliensis MHOM/BR/75/M2904', 'Leishmania donovani BPK282A1', 'Leishmania major', 'Leishmania mexicana MHOM/GT/2001/U1103', 'Leishmania infantum JPCM5', 'Leishmania panamensis', 'Leptomonas seymouri', 'Leishmania tarentolae', 'Trypanosoma brucei brucei', 'Trypanosoma cruzi', 'Trypanosoma equiperdum', 'Trypanosoma rangeli SC58', 'Trichomonas vaginalis', 'Giardia lamblia ATCC 50803', 'Acanthamoeba castellanii str. Neff', 'Entamoeba histolytica', 'Naegleria gruberi', 'Dictyostelium purpureum', 'Eimeria acervulina', 'Eimeria tenella', 'Eimeria maxima', 'Cryptosporidium parvum Iowa II', 'Cryptosporidium muris', 'Toxoplasma gondii ME49', 'Plasmodium berghei', 'Plasmodium chabaudi', 'Plasmodium cynomolgi strain B', 'Plasmodium falciparum 3D7', 'Plasmodium gallinaceum', 'Plasmodium knowlesi strain H', 'Plasmodium reichenowi', 'Plasmodium vivax Sal-1', 'Plasmodium fragile', 'Plasmodium malariae', 'Plasmodium vinckei', 'Plasmodium yoelii yoelii', 'Babesia bovis T2Bo', 'Babesia bigemina', 'Theileria equi', 'Theileria annulata', 'Theileria parva', 'Paramecium tetraurelia', 'Tetrahymena thermophila', 'Ichthyophthirius multifiliis', 'Stylonychia lemnae', 'Stentor coeruleus', 'Exophiala dermatitidis', 'Encephalitozoon cuniculi', 'Hydra vulgaris', 'Schistosoma japonicum', 'Schistosoma mansoni', 'Schistosoma haematobium', 'Echinococcus multilocularis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Ascaris suum', 'Brugia malayi', 'Onchocerca volvulus', 'Meloidogyne hapla', 'Bursaphelenchus xylophilus', 'Trichinella spiralis', 'Helobdella robusta', 'Aplysia californica', 'Biomphalaria glabrata', 'Crassostrea virginica', 'Mizuhopecten yessoensis', 'Daphnia pulex', 'Tigriopus californicus', 'Ixodes scapularis', 'Blattella germanica', 'Acyrthosiphon pisum', 'Bemisia tabaci', 'Tribolium castaneum', 'Bombyx mori', 'Aedes aegypti', 'Aedes albopictus', 'Anopheles gambiae', 'Anopheles albimanus', 'Anopheles dirus', 'Anopheles arabiensis', 'Culex pipiens', 'Culex quinquefasciatus', 'Lutzomyia longipalpis', 'Loa loa', 'Ceratitis capitata', 'Drosophila ananassae', 'Drosophila erecta', 'Drosophila grimshawi', 'Drosophila melanogaster', 'Drosophila mojavensis', 'Drosophila persimilis', 'Drosophila pseudoobscura pseudoobscura', 'Drosophila sechellia', 'Drosophila simulans', 'Drosophila virilis', 'Drosophila yakuba', 'Drosophila willistoni', 'Drosophila saltans', 'Musca domestica', 'Lucilia cuprina', 'Glossina morsitans morsitans', 'Glossina austeni', 'Glossina fuscipes fuscipes', 'Glossina palpalis gambiensis', 'Glossina pallidipes', 'Nasonia vitripennis', 'Apis mellifera', 'Lingula anatina', 'Strongylocentrotus purpuratus', 'Ciona intestinalis', 'Branchiostoma floridae', 'Branchiostoma lanceolatum', 'Petromyzon marinus', 'Eptatretus burgeri', 'Callorhinchus milii', 'Latimeria chalumnae', 'Lepisosteus oculatus', 'Clupea harengus', 'Danio rerio', 'Carassius auratus', 'Cyprinus carpio', 'Astyanax mexicanus', 'Ictalurus punctatus', 'Electrophorus electricus', 'Esox lucius', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Salmo salar', 'Salmo trutta', 'Gadus morhua', 'Fundulus heteroclitus', 'Poecilia reticulata', 'Xiphophorus maculatus', 'Oryzias latipes', 'Cyclopterus lumpus', 'Oreochromis niloticus', 'Haplochromis burtoni', 'Astatotilapia calliptera', 'Sparus aurata', 'Lates calcarifer', 'Xenopus tropicalis', 'Chelonia mydas', 'Chelydra serpentina', 'Chrysemys picta', 'Alligator mississippiensis', 'Crocodylus porosus', 'Sphenodon punctatus', 'Laticauda laticaudata', 'Notechis scutatus', 'Pseudonaja textilis', 'Dromaius novaehollandiae', 'Struthio camelus', 'Apteryx haastii', 'Apteryx owenii', 'Anas platyrhynchos', 'Anser cygnoides', 'Cairina moschata domestica', 'Chaetura pelagica', 'Columba livia', 'Falco peregrinus', 'Aquila chrysaetos chrysaetos', 'Haliaeetus albicilla', 'Numida meleagris', 'Gallus gallus', 'Pavo cristatus', 'Phasianus colchicus', 'Chrysolophus pictus', 'Meleagris gallopavo', 'Serinus canaria', 'Parus major', 'Phalacrocorax carbo', 'Phoenicopterus ruber ruber', 'Aptenodytes forsteri', 'Pygoscelis adeliae', 'Calypte anna', 'Ornithorhynchus anatinus', 'Sarcophilus harrisii', 'Notamacropus eugenii', 'Choloepus hoffmanni', 'Dasypus novemcinctus', 'Erinaceus europaeus', 'Echinops telfairi', 'Pteropus alecto', 'Callithrix jacchus', 'Cercocebus atys', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Papio anubis', 'Theropithecus gelada', 'Mandrillus leucophaeus', 'Gorilla gorilla gorilla', 'Pan paniscus', 'Pan troglodytes', 'Pongo abelii', 'Homo sapiens', 'Canis lupus familiaris', 'Vulpes vulpes', 'Ursus thibetanus thibetanus', 'Ursus americanus', 'Ailuropoda melanoleuca', 'Mustela putorius', 'Felis catus', 'Panthera leo', 'Panthera onca', 'Panthera pardus', 'Panthera tigris', 'Zalophus californianus', 'Odobenus rosmarus', 'Leptonychotes weddellii', 'Orcinus orca', 'Tursiops truncatus', 'Delphinapterus leucas', 'Physeter catodon', 'Balaenoptera acutorostrata', 'Balaenoptera musculus', 'Trichechus manatus', 'Loxodonta africana', 'Equus asinus asinus', 'Equus caballus', 'Procavia capensis', 'Orycteropus afer', 'Sus scrofa', 'Camelus dromedarius', 'Bison bison bison', 'Bos taurus', 'Capra hircus', 'Ovis aries', 'Ochotona princeps', 'Oryctolagus cuniculus', 'Marmota marmota marmota', 'Urocitellus parryii', 'Dipodomys ordii', 'Cricetulus griseus', 'Mesocricetus auratus', 'Peromyscus maniculatus', 'Meriones unguiculatus', 'Mus caroli', 'Mus musculus', 'Mus pahari', 'Mus spretus', 'Mus spicilegus', 'Rattus norvegicus', 'Cavia porcellus', 'Octodon degus', 'Heterocephalus glaber', 'Saccoglossus kowalevskii', 'Trichoplax adhaerens', 'Sagitta elegans', 'Atta cephalotes', 'Blastocystis hominis', 'Danaus plexippus', 'Lynx lynx', 'Melopsittacus undulatus', 'Myzus persicae', 'Rhodnius prolixus', 'Tilletia caries', 'Tilletia controversa', 'Amborella trichopoda', 'Anaerobiospirillum succiniciproducens DSM 6400', 'Arthrobotrys oligospora ATCC 24927', 'Burkholderia mallei ATCC 23344', 'Dicentrarchus labrax', 'Monodelphis domestica', 'Parastagonospora nodorum SN15', 'Solenopsis invicta', 'Sphingomonas paucimobilis', 'Sphingobium yanoikuyae', 'Syncephalastrum racemosum', 'Pelodiscus sinensis', 'Utricularia gibba', 'Natrialba magadii ATCC 43099', 'Pyrobaculum aerophilum str. IM2', 'Brachypodium distachyon', 'Naumovozyma castellii', 'Naumovozyma dairenensis CBS 421', 'Saccharomyces paradoxus', 'Saccharomyces pastorianus Weihenstephan 34/70', 'Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993', 'Penicillium expansum', 'Verticillium dahliae VdLs.17', 'Schizopora paradoxa', 'Puccinia coronata var. avenae f. sp. avenae', 'Puccinia sorghi', 'Puccinia striiformis', 'Saimiri boliviensis', 'Erpetoichthys calabaricus', 'Mnemiopsis leidyi', 'Encephalitozoon hellem ATCC 50504', 'Nosema bombycis CQ1', 'Strigomonas culicis', 'Bifidobacterium animalis subsp. lactis BB-12', 'Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505', 'Lysinibacillus fusiformis ZC1', 'Staphylococcus lugdunensis HKU09-01', 'Streptococcus mitis B6', 'Lactobacillus curvatus CRL 705', 'Saccharopolyspora rectivirgula', 'Acidothermus cellulolyticus 11B', 'Lachnospira multipara ATCC 19207', 'Rubrivivax gelatinosus IL144', 'Nostoc sp. PCC 7524', 'Campylobacter upsaliensis RM3195', 'Legionella anisa str. Linanisette', 'Legionella sainthelensi ATCC 35248 = DSM 19231', 'Acinetobacter lwoffii SH145', 'Neisseria weaveri LMG 5135', 'Burkholderia gladioli BSR3', 'Mesorhizobium huakuii 7653R', "Alteromonas macleodii str. 'Black Sea 11'", 'Francisella philomiragia subsp. philomiragia ATCC 25017', 'Bacteroides eggerthii DSM 20697', 'Tannerella forsythia 92A2', 'Porphyromonas levii DSM 23370', 'Porphyromonas macacae', 'Bacteroides ovatus ATCC 8483', 'Alistipes putredinis DSM 17216', 'Odoribacter splanchnicus DSM 20712', 'Porphyromonas asaccharolytica DSM 20707', 'Porphyromonas endodontalis ATCC 35406', 'Prevotella bivia DNF00188', 'Prevotella buccae ATCC 33574', 'Prevotella buccalis ATCC 35310', 'Prevotella corporis DSM 18810 = JCM 8529', 'Prevotella denticola F0289', 'Prevotella disiens JCM 6334 = ATCC 29426', 'Prevotella intermedia 17', 'Prevotella melaninogenica ATCC 25845', 'Prevotella nigrescens ATCC 33563', 'Prevotella oralis ATCC 33269', 'Prevotella oris C735', 'Prevotella oulorum JCM 14966', 'Prevotella veroralis F0319', 'Rikenella microfusus DSM 15922', 'Cronobacter sakazakii ATCC BAA-894', 'Serratia proteamaculans 568', 'Yersinia kristensenii', 'Vibrio metschnikovii CIP 69.14', 'Vibrio nigripulchritudo SOn1', 'Vibrio orientalis CIP 102891 = ATCC 33934', 'Candidatus Photodesmus katoptron', 'Acetohalobium arabaticum DSM 5501', 'Capnocytophaga canimorsus Cc5', 'Capnocytophaga cynodegmi DSM 19736', 'Arcobacter butzleri RM4018', 'Arcobacter nitrofigilis DSM 7299', 'Sphingomonas parapaucimobilis NBRC 15100', 'Desulfobacula toluolica Tol2', 'Mycoplasma penetrans', 'Colwellia psychrerythraea', 'Carnobacterium alterfunditum DSM 5972', 'Geobacter metallireducens GS-15', 'Ornithobacterium rhinotracheale DSM 15997', 'Cobetia marina', 'Thermodesulfovibrio yellowstonii DSM 11347', 'Arcanobacterium haemolyticum DSM 20595', 'Anolis carolinensis', 'Herbidospora cretacea', 'Clavibacter michiganensis subsp. sepedonicus', 'Komagataeibacter xylinus E25', 'Neisseria subflava NJ9703', 'Burkholderia pseudomallei K96243', 'Tarenaya hassleriana', 'Talaromyces stipitatus ATCC 10500', 'Talaromyces islandicus', 'Allomyces macrogynus', 'Elephantulus edwardii', 'Cyprinodon variegatus', 'Thermoanaerobacterium saccharolyticum JW/SL-YS485', 'Salmonella enterica subsp. enterica serovar Typhimurium str. LT2', 'Mycoplasma bovis PG45', 'Kluyveromyces lactis', 'Alternaria brassicicola', 'Drosophila eugracilis', 'Drosophila takahashii', 'Phlebotomus papatasi', 'Panthera uncia', 'Ursus maritimus', 'Eptesicus fuscus', 'Vombatus ursinus', 'Mytilus galloprovincialis', 'Crassostrea gigas', 'Neospora caninum', 'Haloarcula japonica DSM 6131', 'Natronococcus occultus SP4', 'Methanococcoides burtonii DSM 6242', 'Pyrococcus abyssi GE5', 'Streptomyces cattleya NRRL 8057 = DSM 46488', 'Streptomyces griseoluteus', 'Paenarthrobacter nicotinovorans 231Sha2.1M6', 'Corynebacterium otitidis ATCC 51513', 'Thermoanaerobacter brockii subsp. finnii Ako-1', 'Thermoanaerobacterium xylanolyticum LX-11', 'Ruminiclostridium cellobioparum subsp. termitidis CT1112', 'Cellulosilyticum lentocellum DSM 5427', 'Tyzzerella nexilis DSM 1787', 'Ruminiclostridium papyrosolvens DSM 2782', 'Clostridium paraputrificum AGR2156', 'Staphylococcus caprae M23864:W1', 'Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292', 'Staphylococcus capitis C87', 'Gemella morbillorum M424', 'Dolosigranulum pigrum ATCC 51524', 'Microlunatus phosphovorus NM-1', 'Helicobacter canis NCTC 12740', 'Legionella oakridgensis ATCC 33761 = DSM 21215', 'Acinetobacter haemolyticus MTCC 9819', 'Psychrobacter phenylpyruvicus DSM 7000 = NBRC 102152', 'Pseudomonas savastanoi pv. phaseolicola 1448A', 'Xanthomonas albilineans GPE PC73', 'Bradyrhizobium elkanii WSM2783', 'Rhizobium etli CIAT 652', 'Rhizobium leucaenae USDA 9039', 'Brucella melitensis bv. 1 str. 16M', 'Brucella neotomae 5K33', 'Brucella suis 1330', 'Veillonella parvula DSM 2008', 'Pectobacterium atrosepticum SCRI1043', 'Yersinia aldovae ATCC 35236', 'Yersinia frederiksenii ATCC 33641', 'Yersinia rohdei', 'Yersinia ruckeri', 'Vibrio furnissii NCTC 11218', 'Vibrio navarrensis', 'Vibrio splendidus ZS-139', 'Vibrio tubiashii ATCC 19109', 'Mycoplasma haemofelis Ohio2', 'Turneriella parva DSM 21527', 'Borreliella afzelii PKo', 'Borreliella garinii BgVir', 'Borrelia crocidurae DOU', 'Cytophaga aurantiaca DSM 3654', 'Flavobacterium succinicans LMG 10402', 'Pelobacter propionicus DSM 2379', 'Lawsonia intracellularis PHE/MN1-00', 'Rhodothermus marinus DSM 4252', 'Acholeplasma axanthum ATCC 25176', 'Mycoplasma canadense', 'Mycoplasma canis PG 14', 'Mycoplasma meleagridis', 'Mycoplasma ovipneumoniae 14811', 'Taylorella equigenitalis MCE9', 'Janthinobacterium lividum', 'Dioscorea cayenensis subsp. rotundata', 'Gossypium raimondii', 'Vitis vinifera', 'Lipomyces starkeyi NRRL Y-11557', 'Lachancea cidri', 'Hanseniaspora uvarum DSM 2768', 'Penicillium vulpinum', 'Gaeumannomyces graminis', 'Trichoderma virens', 'Neurospora discreta FGSC 8579', 'Laccaria bicolor', 'Calocera cornea HHB12733', 'Rhodotorula graminis WP1', 'Sporothrix schenckii', 'Tolypocladium inflatum', 'Phytophthora cactorum', 'Drosophila elegans', 'Drosophila emarginata', 'Drosophila ficusphila', 'Drosophila kikkawai', 'Drosophila neocordata', 'Drosophila prosaltans', 'Drosophila sturtevanti', 'Anopheles merus', 'Anopheles stephensi', 'Bombus terrestris', 'Opisthocomus hoazin', 'Fulmarus glacialis', 'Bubo bubo', 'Nothoprocta perdicaria', 'Tinamus major', 'Bos grunniens', 'Bos indicus x Bos taurus', 'Vicugna pacos', 'Microcebus murinus', 'Otolemur garnettii', 'Oryzias melastigma', 'Takifugu rubripes', 'Caenorhabditis remanei', 'Perkinsus marinus ATCC 50983', 'Enterocytozoon bieneusi H348', 'Colletotrichum graminicola M1.001', 'Caldicellulosiruptor bescii DSM 6725', 'Halothermothrix orenii H 168', 'Amycolatopsis orientalis DSM 40040 = KCTC 9412', 'Amycolatopsis lurida NRRL 2430', 'Absiella dolichum DSM 3991', 'Eggerthia catenaformis OT 569 = DSM 20559', 'Methylobacterium radiotolerans JCM 2831', 'Helicobacter hepaticus ATCC 51449', 'Synechococcus elongatus', 'Synechococcus sp. PCC 7002', 'Synechococcus sp. WH 7803', 'Calothrix sp. PCC 6303', 'Calothrix sp. PCC 7103', 'Tetranychus urticae', 'Xiphophorus couchianus', 'Neolamprologus brichardi', 'Desulfurella acetivorans A63', 'Winkia neuii subsp. neuii DSM 8576', 'Cutibacterium avidum 44067', 'Cutibacterium granulosum TM11', 'Propionimicrobium lymphophilum ACS-093-V-SCH5', 'Sporolactobacillus laevolacticus DSM 442', 'Anaerococcus hydrogenalis DSM 7454', 'Peptoniphilus indolicus ATCC 29427', 'Peptoniphilus lacrimalis 315-B', 'Anaerococcus lactolyticus ATCC 51172', 'Parvimonas micra ATCC 33270', 'Anaerococcus prevotii DSM 20548', 'Blautia producta', 'Anaerococcus tetradius ATCC 35098', 'Anaerococcus vaginalis ATCC 51170', 'Coprococcus eutactus ATCC 27759', 'Bartonella doshiae NCTC 12862 = ATCC 700133', 'Bartonella grahamii as4aup', 'Bartonella taylorii 8TBB', 'Bartonella vinsonii subsp. arupensis Pm136co', 'Candidatus Kinetoplastibacterium crithidii TCC036E', 'Acidithiobacillus caldus ATCC 51756', 'Gloeobacter violaceus PCC 7421', 'Acidobacterium capsulatum ATCC 51196', 'Entamoeba invadens IP1', 'Eremothecium gossypii ATCC 10895', 'Aspergillus terreus', 'Uncinocarpus reesii 1704', 'Purpureocillium lilacinum', 'Gambusia affinis', 'Coriobacterium glomerans PW2', 'Catenuloplanes japonicus', 'Brevibacterium casei S18', 'Streptomyces galbus', 'Streptomyces avermitilis MA-4680 = NBRC 14893', 'Bifidobacterium thermophilum', 'Actinopolyspora mortivallis DSM 44261', 'Amycolatopsis mediterranei U32', 'Anoxybacillus flavithermus subsp. yunnanensis str. E13', 'Geobacillus thermodenitrificans NG80-2', 'Geobacillus thermoleovorans CCB_US3_UF5', 'Kyrpidia tusciae DSM 2912', 'Enterococcus avium ATCC 14025', 'Acetobacterium woodii DSM 1030', 'Lactobacillus johnsonii NCC 533', 'Leuconostoc citreum KM20', 'Leuconostoc pseudomesenteroides 4882', 'Melissococcus plutonius ATCC 35311', 'Rickettsia amblyommatis str. GAT-30V', 'Rickettsia bellii OSU 85-389', 'Rickettsia montanensis str. OSU 85-930', 'Rickettsia rhipicephali str. 3-7-female6-CWPP', 'Neorickettsia helminthoeca str. Oregon', 'Gluconacetobacter diazotrophicus PA1 5', 'Paracoccus aminophilus JCM 7686', 'Paracoccus versutus', 'Azospirillum halopraeferens DSM 3675', 'Rhodospirillum centenum SW', 'Candidatus Liberibacter asiaticus str. gxpsy', 'Leptothrix cholodnii SP-6', 'Rahnella aquatilis CIP 78.65 = ATCC 33071', 'Variovorax paradoxus 110B', 'Riemerella anatipestifer RA-GD', 'Pedobacter antarcticus 4BY', 'Pelodictyon phaeoclathratiforme BU-1', 'Sphaerotilus natans subsp. natans DSM 6575', 'Streptobacillus moniliformis DSM 12112', 'Lotus japonicus', 'Mixia osmundae', 'Blumeria graminis', 'Trichophyton tonsurans', 'Trichophyton violaceum', 'Conidiobolus coronatus NRRL 28638', 'Strongyloides ratti', 'Anopheles melas', 'Anopheles quadriannulatus', 'Heliconius melpomene plesseni', 'Chinchilla lanigera', 'Thalassiosira pseudonana', 'Nosema apis BRL 01', 'Eubacterium brachy ATCC 33089', 'Eubacterium nodatum ATCC 33099', 'Daphnia magna', 'Geobacter sulfurreducens PCA', 'Stomoxys calcitrans', 'Streptomyces griseoflavus Tu4000', 'Streptomyces mobaraensis NBRC 13819 = DSM 40847', 'Acholeplasma oculi', 'Naja naja', 'Heliobacterium modesticaldum Ice1', 'Citrobacter amalonaticus', 'Epichloe festucae', 'Macrophomina phaseolina MS6', 'Sporichthya polymorpha DSM 43042', 'Dactylosporangium aurantiacum', 'Corynebacterium kutscheri', 'Corynebacterium pilosum DSM 20521', 'Bifidobacterium choerinum', "Peanut witches'-broom phytoplasma NTU2011", 'Coprothermobacter proteolyticus DSM 5265', 'Rickettsia africae ESF-5', 'Rickettsia helvetica C9P9', 'Rickettsia japonica YH', 'Rickettsia massiliae str. AZT80', 'Rickettsia parkeri str. Portsmouth', 'Rickettsia sibirica 246', 'Rickettsia slovaca str. D-CWPP', 'Ehrlichia muris AS145', 'Nitrococcus mobilis Nb-231', 'Nitrosospira briensis C-128', 'Nitrospina gracilis 3/211', 'Rhodovulum sulfidophilum DSM 1374', 'Bordetella holmesii ATCC 51541', 'Helicobacter heilmannii ASB1.4', 'Helicobacter pullorum MIT 98-5489', 'Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933', 'Hungateiclostridium cellulolyticum CD2', 'Bilophila wadsworthia ATCC 49260', 'Holophaga foetida DSM 6591', 'Bacillus thermoamylovorans', 'Ipomoea triloba', 'Cyberlindnera fabianii', 'Vanderwaltozyma polyspora DSM 70294', 'Fusarium poae', 'Cantharellus cibarius var. cibarius', 'Ganoderma sinense ZZ0214-1', 'Mucor circinelloides', 'Megaselia scalaris', 'Pelecanus crispus', 'Plasmodium ovale curtisi', 'Globisporangium irregulare', 'Aspergillus fischeri NRRL 181', 'Penicillium coprophilum', 'Penicillium digitatum', 'Dermabacter hominis 1368', 'Clostridium saccharoperbutylacetonicum N1-4(HMT)', 'Pseudomonas cichorii JBC1', 'Gaeumannomyces tritici', 'Mycobacteroides abscessus', 'Mycobacterium genavense ATCC 51234', 'Mycolicibacterium rhodesiae JS60', 'Gordonia aichiensis NBRC 108223', 'Gordonia amarae NBRC 15530', 'Gordonia sputi NBRC 100414', 'Clostridium celatum DSM 1785', 'Clostridium intestinale URNW', 'Desulfitobacterium dehalogenans ATCC 51507', 'Brucella canis ATCC 23365', 'Thiobacillus denitrificans DSM 12475', 'Paraburkholderia xenovorans LB400', 'Porphyromonas cangingivalis', 'Porphyromonas canoris', 'Clavispora lusitaniae', 'Lodderomyces elongisporus', 'Glossina brevipalpis', 'Kryptolebias marmoratus', 'Suricata suricatta', 'Gavia stellata', 'Aotus nancymaae', 'Nocardia brasiliensis ATCC 700358', 'Nocardia brevicatena NBRC 12119', 'Nocardia carnea NBRC 14403', 'Nocardia farcinica IFM 10152', 'Nocardia nova SH22a', 'Nocardia transvalensis NBRC 15921', 'Tupaia belangeri', 'Plasmodiophora brassicae', 'Helicobacter bilis ATCC 43879', 'Pisolithus tinctorius Marx 270', 'Laceyella sacchari 1-1', 'Marichromatium purpuratum 984', 'Cavia aperea', 'Thermus scotoductus SA-01', 'Octopus bimaculoides', 'Clostridium algidicarnis', 'Aegilops tauschii', 'Candidatus Phytoplasma mali AT', 'Talaromyces marneffei ATCC 18224', 'Enterococcus casseliflavus EC20', 'Cryptococcus gattii EJB2', 'Heterorhabditis bacteriophora', 'Rhytidhysteron rufulum', 'Rhodococcus opacus', 'Methanosarcina siciliae C2J', 'Chaetomium globosum', 'Rhynchosporium secalis', 'Corynebacterium accolens ATCC 49725', 'Corynebacterium genitalium ATCC 33030', 'Corynebacterium jeikeium K411', 'Photobacterium damselae subsp. damselae CIP 102761', 'Streptomyces pristinaespiralis ATCC 25486', 'Corynebacterium pseudogenitalium ATCC 33035', 'Corynebacterium vitaeruminis DSM 20294', 'Gluconobacter frateurii NBRC 103465', 'Rhodococcus rhodnii LMG 5362', 'Shewanella algae JCM 14758', 'Bartonella henselae str. Houston-1', 'Erysipelothrix tonsillarum DSM 14972', 'Eragrostis curvula', 'Phascolarctos cinereus', 'Alligator sinensis', 'Panicum virgatum', 'Gopherus agassizii', 'Neolentinus lepideus HHB14362 ss-1', 'Micromonas pusilla', 'Fraxinus excelsior', 'Acholeplasma palmae J233', 'Methanococcus maripaludis C6', 'Tuber melanosporum Mel28', 'Faecalitalea cylindroides ATCC 27803', 'Agathobaculum desmolans ATCC 43058', 'Dorea formicigenerans 4_6_53AFAA', 'Anaerobutyricum hallii DSM 3353', 'Eubacterium ramulus ATCC 29099', 'Eubacterium ventriosum ATCC 27560', 'Eubacterium xylanophilum ATCC 35991', 'Mesorhizobium ciceri biovar biserrulae WSM1271', 'Cellvibrio mixtus subsp. mixtus J3-8', 'Methanosalsum zhilinae DSM 4017', 'Mayetiola destructor', 'Hydrogenovibrio crunogenus XCL-2', 'Sulfurimonas denitrificans DSM 1251', 'Blattabacterium sp. (Mastotermes darwiniensis) str. MADAR', 'Methylomicrobium album BG8', 'Veillonella atypica KON', 'Veillonella dispar ATCC 17748', 'Corynebacterium glucuronolyticum ATCC 51867', 'Erythrobacter litoralis HTCC2594', 'Legionella moravica DSM 19234', 'Hypsizygus marmoreus', 'Helcococcus kunzii ATCC 51366', 'Bipolaris victoriae FI3', 'Neurospora tetrasperma', 'Oligotropha carboxidovorans OM5', 'Oryza glumipatula', 'Oryza meridionalis', 'Monodon monoceros', 'Lonchura striata domestica', 'Fusarium avenaceum', 'Acinetobacter johnsonii SH046', 'Acinetobacter junii', 'Acinetobacter radioresistens SH164', 'Junco hyemalis', 'Aliivibrio salmonicida LFI1238', 'Penicillium italicum', 'Nosema ceranae BRL01', 'Streptomyces nodosus', 'Stenotrophomonas maltophilia K279a', 'Fonsecaea pedrosoi CBS 271.37', 'Acinetobacter sp. CIP-A165', 'Daedalea quercina L-15889', 'Fistulina hepatica ATCC 64428', 'Fomitopsis pinicola', 'Stereum hirsutum', 'Ruminococcus bromii L2-63', 'Ruminococcus callidus ATCC 27760', 'Blautia obeum ATCC 29174', 'Leptotrichia buccalis C-1013-b', 'Sutterella wadsworthensis HGA0223', 'Botrytis cinerea', 'Sporobolomyces roseus IAM 13481', 'Actinosynnema mirum DSM 43827', 'Lentzea albidocapillata', 'Xenorhabdus bovienii SS-2004', 'Xenorhabdus poinarii G6', 'Claviceps paspali', 'Claviceps fusiformis', 'Balansia obtecta', 'Thioploca ingrica', 'Borrelia duttonii Ly', 'Rhopalosiphum padi', 'Saccharomonospora azurea SZMC 14600', 'Saccharomonospora cyanea NA-134', 'Saccharomonospora glauca K62', 'Aspergillus carbonarius ITEM 5010', 'Elsinoe australis', 'Penicilliopsis zonata CBS 506.65', 'Ewingella americana ATCC 33852', 'Anopheles atroparvus', 'Seriola dumerili', 'Lomentospora prolificans', 'Bathycoccus prasinos', 'Candidatus Microthrix parvicella RN1', 'Amanita muscaria Koide BX008', 'Porphyromonas catoniae F0037', 'Enterococcus saccharolyticus subsp. saccharolyticus ATCC 43076', 'Drosophila bipectinata', 'Pneumocystis jirovecii SE8', 'Ureaplasma diversum NCTC 246', 'Phocoena sinus', 'Prunus avium', 'Streptomyces acidiscabies 84-104', 'Tuber magnatum', 'Tuber borchii', 'Desulfovibrio termitidis HI1', 'Sorex araneus', 'Rubrobacter radiotolerans', 'Phoenix dactylifera', 'Aciculosporium take MAFF-241224', 'Candida dubliniensis', 'Vittaforma corneae ATCC 50505', 'Halobacteroides halobius DSM 5150', 'Roseobacter litoralis Och 149', 'Lichtheimia corymbifera', 'Desulfofundulus thermocisternus DSM 10259', 'Pygocentrus nattereri', 'Halomonas salina', 'Streptomyces collinus Tu 365', 'Gelatoporia subvermispora B', 'Epichloe amarillans E57', 'Corynebacterium argentoratense DSM 44202', 'Ammonifex degensii KC4', 'Staphylococcus lentus F1142', 'Rickettsia felis URRWXCal2', 'Methanococcus aeolicus Nankai-3', 'Anopheles christyi', 'Tilletia indica', 'Sulfolobus islandicus REY15A', 'Rhopalosiphum maidis', 'Anopheles darlingi', 'Ictidomys tridecemlineatus', 'Capronia epimyces', 'Capronia coronata', 'Pseudomonas alcaligenes NBRC 14159', 'Butyrivibrio proteoclasticus P6B7', 'Prauserella rugosa', 'Kutzneria albida DSM 43870', 'Cathartes aura', 'Zosterops lateralis melanops', 'Halanaerobium saccharolyticum subsp. saccharolyticum DSM 6643', 'Pseudoalteromonas citrea DSM 8771', 'Pseudoalteromonas luteoviolacea B = ATCC 29581', 'Pseudoalteromonas rubra DSM 6842', 'Paenarthrobacter aurescens TC1', 'Brachybacterium faecium DSM 4810', 'Jonesia denitrificans DSM 20603', 'Rothia mucilaginosa DY-18', 'Metallosphaera sedula DSM 5348', 'Monopterus albus', 'Streptomyces wedmorensis', 'Corynebacterium amycolatum SK46', 'Rhodococcus hoagii 103S', 'Corynebacterium matruchotii ATCC 14266', 'Corynebacterium propinquum DSM 44285', 'Corynebacterium striatum ATCC 6940', 'Corynebacterium urealyticum DSM 7109', 'Tolumonas auensis DSM 9187', 'Johnsonella ignava ATCC 51276', 'Catonella morbi ATCC 51271', 'Caldicellulosiruptor saccharolyticus DSM 8903', 'Enterococcus cecorum DSM 20682 = ATCC 43198', 'Enterococcus dispar ATCC 51266', 'Ferrimonas balearica DSM 9799', 'Aureococcus anophagefferens', 'Streptomyces megasporus', 'Trichomonascus ciferrii', 'Paenibacillus alvei TS-15', 'Paenibacillus durus', 'Paenibacillus macerans', 'Bradyrhizobium oligotrophicum S58', 'Caldanaerobius polysaccharolyticus DSM 13641', 'Erythrura gouldiae', 'Zonotrichia albicollis', 'Eimeria mitis', 'Borrelia persica No12', 'Borrelia recurrentis A1', 'Natronococcus amylolyticus DSM 10524', 'Nitrosomonas cryotolerans ATCC 49181', 'Sulfurospirillum barnesii SES-3', 'Geothrix fermentans DSM 14018', 'Dictyostelium discoideum', 'Natronobacterium gregoryi SP2', 'Legionella fairfieldensis ATCC 49588', 'Legionella lansingensis DSM 19556 = ATCC 49751', 'Legionella shakespearei DSM 23087', 'Bipolaris sorokiniana', 'Pyrenophora tritici-repentis Pt-1C-BFP', 'Cyanidioschyzon merolae', 'Tolypocladium capitatum', 'Capnocytophaga granulosa ATCC 51502', 'Leucothrix mucor DSM 2157', 'Eremothecium cymbalariae', 'Eremothecium sinecaudum', 'Nematostella vectensis', 'Mycoplasma conjunctivae HRC/581', 'Mycoplasma bovoculi M165/69', 'Mycoplasma alkalescens 14918', 'Brevibacillus borstelensis 3096-7', 'Wickerhamiella sorbophila', 'Babjeviella inositovora NRRL Y-12698', 'Streptococcus cristatus AS 1.3089', 'Vibrio scophthalmi LMG 19158', 'Desulfohalobium retbaense DSM 5692', 'Nadsonia fulvescens', 'Butyrivibrio crossotus DSM 2876', 'Staphylococcus pasteuri SP1', 'Granulicatella adiacens ATCC 49175', 'Abiotrophia defectiva ATCC 49176', 'Staphylococcus chromogenes MU 970', 'Pseudobutyrivibrio ruminis CF1b', 'Anabaena sp. 90', 'Weissella hellenica', 'Pseudomonas avellanae BPIC 631', 'Mycolicibacterium hassiacum DSM 44199', 'Thermoanaerobacter wiegelii Rt8.B1', 'Spirochaeta africana DSM 8902', 'Sphingobium chlorophenolicum', 'Reticulomyxa filosa', 'Orenia marismortui DSM 5156', 'Parabacteroides merdae ATCC 43184', 'Bacteroides stercoris ATCC 43183', 'Thermosipho melanesiensis BI429', 'Suhomyces tanzawaensis', 'Aureobasidium melanogenum', 'Pseudomonas nitroreducens HBP1', 'Entamoeba dispar', 'Cenarchaeum symbiosum A', 'Dethiosulfovibrio peptidovorans DSM 11002', 'Desulfovibrio bastinii DSM 16055', 'Massilia timonae CCUG 45783', 'Neogobius melanostomus', 'Armillaria gallica', 'Armillaria ostoyae', 'Borrelia miyamotoi LB-2001', 'Rickettsia peacockii str. Rustic', 'Lautropia mirabilis ATCC 51599', 'Bacteroides caccae ATCC 43185', 'Mycoplasma alligatoris A21JP2', 'Lactobacillus rhamnosus GG', 'Streptomyces olivaceus', 'Bibersteinia trehalosi USDA-ARS-USMARC-189', 'Atkinsonella hypoxylon', 'Streptomyces sulphureus DSM 40104', 'Streptomyces lydicus', 'Lactobacillus crispatus ST1', 'Epichloe baconii ATCC 200745', 'Mycobacterium triplex', 'Micromonospora aurantiaca ATCC 27029', 'Pseudomonas amygdali pv. mori str. 301020', 'Pseudomonas corrugata CFBP 5454', 'Pseudomonas fulva 12-X', 'Pseudomonas synxantha BG33R', 'Pseudomonas luteola XLDN4-9', 'Serratia fonticola AU-AP2C', 'Vibrio cyclitrophicus FF75', 'Oreochromis aureus', 'Hyphomicrobium zavarzinii ATCC 27496', 'Acinetobacter pittii PHEA-2', 'Xanthomonas fragariae LMG 25863', 'Neolecta irregularis DAH-3', 'Penicillium freii', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Orchesella cincta', 'Geospiza fortis', 'Novosphingobium aromaticivorans DSM 12444', 'Sporisorium scitamineum', 'Candidatus Arthromitus sp. SFB-mouse-Japan', 'Kineosporia aurantiaca JCM 3230', 'Marinobacterium stanieri S30', 'Psychroserpens burtonensis DSM 12212', 'Rubrobacter xylanophilus DSM 9941', 'Desulfitobacterium hafniense Y51', 'Coffea canephora', 'Nicotiana attenuata', 'Holospora obtusa F1', 'Mycoplasma crocodyli MP145', 'Rhizobium sullae WSM1592', 'Thermoplasma volcanium GSS1', 'Charadrius vociferus', 'Pinctada fucata', 'Arabis alpina', 'Helicobacter trogontum', 'Actinobacillus minor NM305', 'Eubacterium saphenum ATCC 49989', 'Catagonus wagneri', 'Treponema maltophilum ATCC 51939', 'Ureibacillus thermosphaericus str. Thermo-BF', 'Syntrophobotulus glycolicus DSM 8271', 'Wigglesworthia glossinidia endosymbiont of Glossina morsitans morsitans (Yale colony)', 'Kluyvera ascorbata ATCC 33433', 'Eimeria brunetti', 'Eimeria praecox', 'Jaculus jaculus', 'Castor canadensis', 'Mycoplasma auris 15026', 'Mycoplasma yeatsii 13926', 'Trichoderma reesei', 'Ciona savignyi', 'Spraguea lophii 42_110', 'Haloarcula hispanica ATCC 33960', 'Kluyveromyces dobzhanskii CBS 2104', 'Nakaseomyces delphensis', 'Nakaseomyces bacillisporus', 'Tetragenococcus halophilus NBRC 12172', 'Tortispora caseinolytica', 'Meiothermus silvanus DSM 9946', 'Calidithermus chliarophilus DSM 9957', 'Acinetobacter venetianus RAG-1 = CIP 110063', 'Mitsuokella multacida DSM 20544', 'Prevotella dentalis DSM 3688', 'Lactobacillus gallinarum DSM 10532 = JCM 2011', 'Sarcoptes scabiei', 'Plasmodium inui San Antonio 1', 'Brachyspira pilosicoli 95/1000', 'Erysiphe necator', 'Sulfitobacter sp. EE-36', 'Sagittula stellata E-37', 'Haliaeetus leucocephalus', 'Bartonella alsatica IBS 382', 'Caldicellulosiruptor kristjanssonii I77R1B', 'Caldicellulosiruptor lactoaceticus 6A', 'Schaalia georgiae DSM 6843', 'Scophthalmus maximus', 'Desulfonatronovibrio hydrogenovorans DSM 9292', 'Desulfospira joergensenii DSM 10085', 'Enterococcus durans ATCC 6056', 'Enterococcus mundtii QU 25', 'Intrasporangium calvum DSM 43043', 'Brevibacterium mcbrellneri ATCC 49030', 'Hamadaea tsunoensis DSM 44101', 'Hyphomicrobium denitrificans 1NES1', 'Pseudomonas coronafaciens pv. oryzae str. 1_6', 'Pseudomonas resinovorans NBRC 106553', 'Xanthomonas axonopodis pv. vasculorum', 'Treponema lecithinolyticum ATCC 700332', 'Treponema socranskii subsp. socranskii VPI DR56BR1116 = ATCC 35536', 'Thermobrachium celere DSM 8682', 'Thermodesulfobacterium hveragerdense DSM 12571', 'Gordonia hirsuta DSM 44140 = NBRC 16056', 'Treponema paraluiscuniculi Cuniculi A', 'Nocardiopsis alba ATCC BAA-2165', 'Blautia hydrogenotrophica DSM 10507', 'Nakamurella multipartita DSM 44233', 'Mycolicibacterium mageritense DSM 44476 = CIP 104973', 'Pyrenophora teres', 'Sulfobacillus acidophilus TPY', 'Acidimicrobium ferrooxidans DSM 10331', 'Hanseniaspora valbyensis NRRL Y-1626', 'Octadecabacter arcticus 238', 'Pyrococcus horikoshii OT3', 'Peptoniphilus harei ACS-146-V-Sch2b', 'Pseudonocardia asaccharolytica DSM 44247 = NBRC 16224', 'Thermococcus zilligii AN1', 'Methanolacinia petrolearia DSM 11571', 'Pristionchus pacificus', 'Colobus angolensis palliatus', 'Ascoidea rubescens DSM 1968', 'Hyperthermus butylicus DSM 5456', 'Pyrolobus fumarii 1A', 'Thermosphaera aggregans DSM 11486', 'Ferroglobus placidus DSM 10642', 'Raoultella ornithinolytica B6', 'Chroococcidiopsis thermalis PCC 7203', 'Pleurocapsa sp. PCC 7327', 'Spirulina subsalsa PCC 9445', 'Mesitornis unicolor', 'Cariama cristata', 'Eurypyga helias', 'Streptomyces venezuelae ATCC 10712', 'Salmonella bongori N268-08', 'Streptococcus thoraltensis DSM 12221', 'Deinococcus proteolyticus MRP', 'Sciurus vulgaris', 'Flavobacterium branchiophilum FL-15', 'Epichloe elymi E56', 'Caldicellulosiruptor owensensis OL', 'Sediminispirochaeta smaragdinae DSM 11293', 'Pectobacterium betavasculorum', 'Ruegeria lacuscaerulensis ITI-1157', 'Thermonema rossianum DSM 10300', 'Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628', 'Pistacia vera', 'Magnetospirillum gryphiswaldense MSR-1 v2', 'Guillardia theta', 'Actinomyces graevenitzii C83', 'Dehalobacter restrictus DSM 9455', 'Vibrio anguillarum', 'Cuculus canorus', 'Thermococcus barophilus MP', 'Malurus cyaneus samueli', 'Streptomyces toyocaensis', 'Tyto alba', 'Hanseniaspora guilliermondii', 'Hanseniaspora osmophila', 'Bartonella clarridgeiae 73', 'Xanthomonas arboricola pv. celebensis', 'Xanthomonas cassavae CFBP 4642', 'Xanthomonas hortorum pv. carotae str. M081', 'Xanthomonas sacchari', 'Xanthomonas campestris pv. musacearum NCPPB 4379', 'Xanthomonas vesicatoria ATCC 35937', 'Protomyces lactucaedebilis', 'Aeropyrum pernix K1', 'Cottoperca gobio', 'Labrus bergylta', 'Rhizobium gallicum bv. gallicum R602sp', 'Rhizobium giardinii bv. giardinii H152', 'Eubacterium infirmum F0142', 'Glaciecola punicea ACAM 611', 'Shewanella frigidimarina NCIMB 400', 'Helicobacter bizzozeronii CIII-1', 'Afipia broomeae ATCC 49717', 'Thermus oshimai JL-2', 'Psychroflexus torquis ATCC 700755', 'Lactobacillus zeae DSM 20178 = KCTC 3804', 'Acanthisitta chloris', 'Mycoplasma suis str. Illinois', 'Apaloderma vittatum', 'Colius striatus', 'Merops nubicus', 'Trifolium pratense', 'Sulfurospirillum arcachonense DSM 9755', 'Rhizobium mongolense USDA 1844', 'Halomicrobium mukohataei DSM 12286', 'Enterococcus asini ATCC 700915', 'Fragaria vesca subsp. vesca', 'Burkholderia thailandensis MSMB43', 'Daktulosphaira vitifoliae', 'Spirillospora albida', 'Desulfofundulus kuznetsovii DSM 6115', 'Desulfofarcimen acetoxidans DSM 771', 'Desulfovibrio alaskensis G20', 'Treponema medium ATCC 700293', 'Archaeoglobus veneficus SNP6', 'Rhizopus microsporus', 'Streptomyces celluloflavus', 'Kitasatospora azatica KCTC 9699', 'Kitasatospora mediocidica KCTC 9733', 'Debaryomyces fabryi', 'Encephalitozoon intestinalis ATCC 50506', 'Trichoderma citrinoviride', 'Tilletiopsis washingtonensis', 'Rickettsiella grylli', 'Streptococcus macedonicus ACA-DC 198', 'Myotis lucifugus', 'Rhinolophus ferrumequinum', 'Actinotignum schaalii FB123-CNA-2', 'Pantholops hodgsonii', 'Corynespora cassiicola Philippines', 'Cellulophaga algicola DSM 14237', 'Desulfotomaculum reducens MI-1', 'Helicobacter rodentium ATCC 700285', 'Arabidopsis lyrata', 'Taeniopygia guttata', 'Candidatus Phytoplasma australiense', 'Alcanivorax borkumensis SK2', 'Angomonas deanei', 'Sphingomonas echinoides ATCC 14820', 'Paenibacillus alginolyticus DSM 5050 = NBRC 15375', 'Paenibacillus curdlanolyticus YK9', 'Paenibacillus peoriae KCTC 3763', 'Ficedula albicollis', 'Cyanobium gracile PCC 6307', 'Synechococcus sp. WH 7805', 'Prevotella pallens ATCC 700821', 'Penicillium polonicum', 'Penicillium solitum', 'Penicillium nalgiovense', 'Shewanella violacea DSS12', 'Shewanella amazonensis SB2B', 'Shewanella sp. MR-4', 'Shewanella sp. MR-7', 'Lactobacillus paraplantarum', 'Burkholderia vietnamiensis G4', 'Chlorocebus sabaeus', 'Halogeometricum borinquense DSM 11551', 'Phaeobacter gallaeciensis DSM 26640', 'Desulfobacca acetoxidans DSM 11109', 'Saccharopolyspora spinosa NRRL 18395', 'Sanguibacter keddieii DSM 10542', 'Shewanella woodyi ATCC 51908', 'Holdemania filiformis DSM 12042', 'Monilinia laxa', 'Varanus komodoensis', 'Ophiostoma piceae', 'Lynx canadensis', 'Dehalococcoides mccartyi 195', 'Coniosporium apollinis', 'Corynebacterium durum F0235', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Paenibacillus mucilaginosus KNP414', 'Acholeplasma brassicae', 'Enterobacter asburiae LF7a', 'Lelliottia amnigena CHS 78', 'Pluralibacter gergoviae', 'Amphilophus citrinellus', 'Nomascus leucogenys', 'Natronorubrum bangense JCM 10635', 'Hucho hucho', 'Borreliella valaisiana Tom4006', 'Acidiphilium multivorum AIU301', 'Haloterrigena turkmenica DSM 5511', 'Shewanella baltica OS117', 'Anopheles funestus', 'Saccharum spontaneum', 'Natronorubrum tibetense GA33', 'Calocera viscosa TUFC12733', 'Zobellia galactanivorans', 'Aquifex aeolicus VF5', 'Melanopsichium pennsylvanicum 4', 'Trichophyton benhamiae', 'Nannizzia gypsea CBS 118893', 'Microsporum canis CBS 113480', 'Trichophyton verrucosum', 'Trichophyton equinum', 'Desulfovibrio oxyclinae DSM 11498', 'Trichoderma atroviride', "Sodalis glossinidius str. 'morsitans'", 'Hydrogenovibrio kuenenii DSM 12350', 'Sideroxydans lithotrophicus ES-1', 'Demetria terragena DSM 11295', 'Nevskia ramosa DSM 11499', 'Bacillus pseudomycoides DSM 12442', 'Anabas testudineus', 'Desulfurobacterium thermolithotrophum DSM 11699', 'Podarcis muralis', 'Coleofasciculus chthonoplastes PCC 7420', 'Carnimonas nigrificans ATCC BAA-78', 'Dothistroma septosporum', 'Synechococcus sp. CC9311', 'Rhizopus oryzae', 'Mortierella alpina ATCC 32222', 'Lobosporangium transversale', 'Natrialba asiatica DSM 12278', 'Tetragenococcus muriaticus DSM 15685', 'Borreliella bissettii DN127', 'Terasakiella pusilla DSM 6293', 'Marinospirillum minutulum DSM 6287', 'Alcanivorax jadensis T9', 'Corynebacterium ulcerans BR-AD22', 'Pythium aphanidermatum DAOM BR444', 'Halothece sp. PCC 7418', 'Mycoplasma wenyonii str. Massachusetts', 'Oryza barthii', 'Actinoalloteichus cyanogriseus', 'Meiothermus cerbereus DSM 11376', 'Sulfurospirillum deleyianum DSM 6946', 'Desulfocapsa sulfexigens DSM 10523', 'Serendipita indica', 'Erwinia tracheiphila PSU-1', 'Pseudomonas knackmussii B13', 'Wolbachia sp. wRi', 'Lachnoclostridium phytofermentans ISDg', 'Gleimia europaea ACS-120-V-Col10b', 'Komagataeibacter intermedius AF2', 'Pantoea stewartii', 'Streptomyces niger', 'Streptomyces violens', 'Papilio xuthus', 'Streptomyces roseoverticillatus', 'Sulfurospirillum multivorans DSM 12446', 'Streptomyces afghaniensis 772', 'Streptomyces atroolivaceus', 'Streptomyces bicolor', 'Streptomyces catenulae', 'Streptomyces griseorubens', 'Trypanosoma theileri', 'Streptomyces alboflavus', 'Streptomyces aureocirculatus', 'Streptomyces filamentosus NRRL 15998', 'Streptomyces flavidovirens DSM 40150', 'Streptomyces lavenduligriseus', 'Streptomyces mutabilis', 'Kitasatospora purpeofusca', 'Streptomyces resistomycificus', 'Streptomyces varsoviensis', 'Rheinheimera baltica DSM 14885', 'Streptomyces viridosporus ATCC 14672', 'Phytophthora sojae', 'Methanocaldococcus infernus ME', 'Edwardsiella ictaluri 93-146', 'Citrobacter farmeri GTC 1319', 'Citrobacter rodentium ICC168', 'Citrobacter sedlakii NBRC 105722', 'Actinobacillus succinogenes 130Z', 'Lentzea aerocolonigenes', 'Streptomyces cyaneogriseus subsp. noncyanogenus', 'Streptomyces durhamensis', 'Streptomyces flavochromogenes', 'Streptomyces fulvissimus DSM 40593', 'Streptomyces griseoaurantiacus M045', 'Streptomyces iakyrus', 'Streptomyces katrae', 'Streptomyces pyridomyceticus', 'Streptomyces violaceusniger Tu 4113', 'Moschus moschiferus', 'Streptomyces albulus', 'Sphaerobolus stellatus SS14', 'Scleroderma citrinum Foug A', 'Rasamsonia emersonii CBS 393.64', 'Theileria orientalis', 'Streptococcus peroris ATCC 700780', 'Streptococcus infantis SK970', 'Deinococcus geothermalis DSM 11300', 'Anopheles farauti', 'Synechococcus sp. WH 5701', 'Enterobacter cancerogenus ATCC 35316', 'Dickeya paradisiaca Ech703', 'Aquamicrobium defluvii', 'Gasterosteus aculeatus', 'Microplitis demolitor', 'Pseudomonas sp. VLB120', 'Chara braunii', 'Caulobacter henricii', 'Petrotoga mobilis SJ95', 'Natrinema pellirubrum DSM 15624', 'Natrinema pallidum DSM 3751', 'Treponema vincentii ATCC 35580', 'Penicillium oxalicum 114-2', 'Selenomonas sputigena ATCC 35185', 'Trichophyton soudanense CBS 452.61', 'Macrococcus caseolyticus JCSC5402', 'Ostreococcus tauri', 'Edhazardia aedis USNM 41457', 'Pyrobaculum neutrophilum V24Sta', 'Pseudomonas plecoglossicida NB2011', 'Nodularia spumigena CCY9414', 'Shewanella oneidensis MR-1', 'Shewanella pealeana ATCC 700345', 'Flexithrix dorotheae DSM 6795', 'Lewinella cohaerens DSM 23179', 'Lewinella persica DSM 23188', 'Eucalyptus grandis', 'Paxillus involutus ATCC 200175', 'Staphylococcus vitulinus F1028', 'Vibrio halioticoli NBRC 102217', 'Mesorhizobium amorphae CCNWGS0123', 'Enterococcus malodoratus ATCC 43197', 'Enterococcus raffinosus ATCC 49464', 'Tolypocladium ophioglossoides CBS 100239', 'Lonsdalea quercina subsp. quercina', 'Waddlia chondrophila WSU 86-1044', 'Naematelia encephala', 'Hypholoma sublateritium FD-334 SS-4', 'Kocuria rhizophila P7-4', 'Bos mutus', 'Sphaeroforma arctica JP610', 'Thielaviopsis punctulata', 'Lepeophtheirus salmonis', 'Citromicrobium bathyomarinum JL354', 'Ophiocordyceps sinensis', 'Trachipleistophora hominis', 'Bacillus mojavensis RO-H-1 = KCTC 3706', 'Drosophila austrosaltans', 'Drosophila lusaltans', 'Drosophila milleri', 'Nannochloropsis gaditana CCMP526', 'Achromobacter piechaudii HLE', 'Sporisorium reilianum', 'Boechera stricta', 'Eutrema salsugineum', 'Dechloromonas agitata is5', 'Streptomyces seoulensis', 'Thiocystis violascens DSM 198', 'Emmonsia crescens UAMH 3008', 'Cordyceps militaris', 'Piromyces sp. E2', 'Methanocaldococcus vulcanius M7', 'Thermaerobacter marianensis DSM 12885', 'Photobacterium profundum SS9', 'Brevundimonas bacteroides DSM 4726', 'Brevundimonas subvibrioides ATCC 15264', 'Maricaulis maris MCS10', 'Hyphomonas polymorpha PS728', 'Sulfitobacter guttiformis KCTC 32187', 'Thraustotheca clavata', 'Rosa chinensis', 'Stachybotrys chartarum IBT 7711', 'Pseudomonas balearica DSM 6083', 'Anopheles maculatus', 'Anopheles sinensis', 'Oncorhynchus tshawytscha', 'Paraburkholderia caribensis MBA4', 'Saccharomonospora xinjiangensis XJ-54', 'Sinocyclocheilus grahami', 'Pseudomonas mandelii PD30', 'Castellaniella defragrans 65Phen', 'Anas zonorhyncha', 'Thermocrinis ruber DSM 12173', 'Mycolicibacterium tusciae JS617', 'Mannheimia haemolytica M42548', 'Thauera linaloolentis 47Lol = DSM 12138', 'Thauera terpenica 58Eu', 'Alloprevotella tannerae ATCC 51259', 'Prevotella enoeca JCM 12259', 'Vibrio rumoiensis 1S-45', 'Campylobacter hominis ATCC BAA-381', 'Cellulophaga baltica 13', 'Mycetocola saprophilus', 'Streptomyces vitaminophilus DSM 41686', 'Sinorhizobium arboris LMG 14919', 'Pseudomonas monteilii SB3078', 'Malassezia globosa CBS 7966', 'Malassezia sympodialis ATCC 42132', 'Myroides odoratimimus H1bi', 'Solibacillus silvestris StLB046', 'Streptococcus constellatus subsp. pharyngis SK1060 = CCUG 46377', 'Hebeloma cylindrosporum h7', 'Caldivirga maquilingensis IC-167', 'Asticcacaulis biprosthecum C19', 'Sphingobium herbicidovorans NBRC 16415', 'Malassezia pachydermatis', 'Cylindrospermopsis raciborskii CS-505', 'Wolbachia endosymbiont of Drosophila simulans wNo', 'Rosellinia necatrix', 'Sclerotinia borealis F-4128', 'Dendroctonus ponderosae', 'Plasmodium gonderi', 'Leersia perrieri', 'Bifidobacterium subtile', 'Prevotella albensis DSM 11370 = JCM 12258', 'Succinispira mobilis DSM 6222', 'Oidiodendron maius', 'Parascardovia denticolens DSM 10105 = JCM 12538', 'Scardovia inopinata F0304', 'Pseudomonas mosselii SJ10', 'Mycobacterium canettii CIPT 140070017', 'Bifidobacterium gallicum DSM 20093 = LMG 11596', 'Bifidobacterium gallinarum', 'Bifidobacterium merycicum', 'Bifidobacterium ruminantium', 'Streptomyces somaliensis DSM 40738', 'Pectobacterium odoriferum', 'Neonectria ditissima', 'Bifidobacterium pullorum DSM 20433', 'Rhizobium undicola ORS 992 = ATCC 700741', 'Thermothelomyces thermophilus', 'Asticcacaulis excentricus CB 48', 'Podila verticillata', 'Desulfosporosinus meridiei DSM 13257', 'Chitinophaga pinensis DSM 2588', 'Epichloe brachyelytri', 'Microtus ochrogaster', 'Cimex lectularius', 'Bacillus clausii KSM-K16', 'Bacillus pseudofirmus OF4', 'Erwinia pyrifoliae Ep1/96', 'Coniophora puteana', 'Piloderma croceum F 1598', 'Thioflavicoccus mobilis 8321', 'Aphis gossypii', 'Haliangium ochraceum DSM 14365', 'Wolbachia endosymbiont strain TRS of Brugia malayi', 'Aliivibrio wodanis', 'Moritella viscosa', 'Delftia acidovorans SPH-1', 'Acidovorax avenae subsp. avenae ATCC 19860', 'Acidovorax citrulli AAC00-1', 'Cryptosporangium arvum DSM 44712', 'Hylemonella gracilis str. Niagara R', 'Simplicispira psychrophila DSM 11588', 'Colletotrichum higginsianum', 'Acanthochromis polyacanthus', 'Amphiprion ocellaris', 'Treponema brennaborense DSM 12168', 'Hyphomonas adhaerens MHS-3', 'Hyphomonas johnsonii MHS-2', 'Hyphomonas neptunium ATCC 15444', 'Hyphomonas oceanitis SCH89', 'Wolfiporia cocos MD-104 SS10', 'Desulfovibrio alcoholivorans DSM 5433', 'Parageobacillus caldoxylosilyticus CIC9', 'Aminomonas paucivorans DSM 12260', 'Desulfovibrio aminophilus DSM 12254', 'Thermanaerovibrio acidaminovorans DSM 6589', 'Aminobacterium mobile DSM 12262', 'Aminobacterium colombiense DSM 12261', 'Frateuria aurantia DSM 6220', 'Monosiga brevicollis', 'Kitasatospora cheerisanensis KCTC 2395', 'Vagococcus lutrae LBD1', 'Arabidopsis halleri subsp. gemmifera', 'Capsella rubella', 'Picrophilus torridus DSM 9790', 'Atopobium vaginae DSM 15829', 'Centipeda periodontii DSM 2778', 'Phlebiopsis gigantea 11061_1 CR5-6', 'Facklamia languida CCUG 37842', 'Paracoccus pantotrophus J46', 'Anaerovibrio lipolyticus LB2005', 'Anaeroarcus burkinensis DSM 6283', 'Trichosporon asahii', 'Pseudanabaena sp. PCC 7367', 'Streptococcus ovis DSM 16829', 'Pythium arrhenomanes ATCC 12531', 'Buttiauxella agrestis ATCC 33320', 'Budvicia aquatica DSM 5075 = ATCC 35567', 'Leminorella grimontii ATCC 33999 = DSM 5078', 'Tatumella ptyseos ATCC 33301', 'Serratia grimesii', 'Serratia plymuthica', 'Methanocaldococcus fervens AG86', 'Sulfitobacter mediterraneus', 'Prevotella brevis P6B11', 'Gordonia rhizosphera NBRC 16068', 'Myxococcus stipitatus DSM 14675', 'Linepithema humile', 'Parachlamydia acanthamoebae UV-7', 'Chlamydia psittaci 10_1398_11', 'Chlamydia abortus S26/3', 'Chlamydia felis Fe/C-56', 'Chlamydia caviae GPIC', 'Chlamydia pneumoniae TW-183', 'Chlamydia suis MD56', 'Chlamydia muridarum str. Nigg', 'Simkania negevensis Z', 'Leclercia adecarboxylata ATCC 23216 = NBRC 102595', 'Lactobacillus amylolyticus DSM 11664', 'Succinimonas amylolytica DSM 2873', 'Succinivibrio dextrinosolvens H5', 'Methanobrevibacter ruminantium M1', 'Trypanosoma conorhini', 'Methanocorpusculum labreanum Z', 'Methanoculleus bourgensis MS2', 'Clostridium autoethanogenum DSM 10061', 'Clostridium haemolyticum NCTC 9693', 'Gordonia alkanivorans NBRC 16433', 'Slackia exigua ATCC 700122', 'Slackia heliotrinireducens DSM 20476', 'Eggerthella lenta DSM 2243', 'Gemella sanguinis M325', 'Gemella bergeri ATCC 700627', 'Archaeoglobus profundus DSM 5631', 'Magnetospirillum magneticum AMB-1', 'Cryptobacterium curtum DSM 15641', 'Brachyspira intermedia PWS/A', 'Brachyspira murdochii DSM 12563', 'Hippea maritima DSM 10411', 'Lysobacter antibioticus', 'Synechococcus sp. WH 8102', 'Taylorella asinigenitalis MCE3', 'Gordonia polyisoprenivorans VH2', 'Staphylothermus hellenicus DSM 12710', 'Candidatus Odyssella thessalonicensis L13', 'Anthracocystis flocculosa', 'Moesziomyces antarcticus', 'Moesziomyces aphidis DSM 70725', 'Beutenbergia cavernae DSM 12333', 'Desulfotalea psychrophila LSv54', 'Corvus brachyrhynchos', 'Pseudarthrobacter chlorophenolicus A6', 'Clogmia albipunctata', 'Mannheimia varigena USDA-ARS-USMARC-1296', 'Plasmodium relictum', 'Thauera sp. MZ1T', 'Citrus clementina', 'Triticum dicoccoides', 'Achromobacter xylosoxidans A8', 'Bartonella tribocorum CIP 105476', 'Thermacetogenium phaeum DSM 12270', 'Sphaerulina musiva', 'Serpula lacrymans', 'Chlamydia pecorum E58', 'Cladophialophora carrionii', 'Rhinocladiella mackenziei CBS 650.93', 'Arenibacter latericius DSM 15913', 'Syntrophothermus lipocalidus DSM 12680', 'Phaseolibacter flectens ATCC 12775', 'Saccharophagus degradans 2-40', 'Mycoplasma dispar', 'Bacillus flexus T6186-2', 'Bacillus halodurans C-125', 'Propionispira raffinosivorans DSM 20765', 'Camarhynchus parvulus', 'Facklamia sourekii ATCC 700629', 'Burkholderia multivorans ATCC 17616', 'Selaginella moellendorffii', 'Treponema primitia ZAS-2', 'Eremococcus coleocola DSM 15696', 'Thermus igniterrae ATCC 700962', 'Thermus antranikianii DSM 12462', 'Dorea longicatena AGR2136', 'Cyclospora cayetanensis', 'Megaselia abdita', 'Caulobacter segnis ATCC 21756', 'Ceratocystis platani', 'Borreliella spielmanii A14S', 'Streptomyces yeochonensis CN732', 'Gordonia amicalis CCMA-559', 'Corynebacterium terpenotabidum Y-11', 'Ruegeria pomeroyi DSS-3', 'Laccaria amethystina LaAM-08-1', 'Bubalus bubalis', 'Cladophialophora bantiana CBS 173.52', 'Moraxella caprae DSM 19149', 'Oligella ureolytica DSM 18253', 'Oligella urethralis DNF00040', 'Absidia repens', 'Camelina sativa', 'Moritella marina ATCC 15381', 'Hydrogenovibrio sp. Milos-T1', 'Thiomicrorhabdus sp. Milos-T2', 'Enterovibrio calviensis 1F-211', 'Polistes canadensis', 'Synechococcus sp. PCC 7335', 'Aspergillus udagawae', 'Candidatus Paracaedibacter acanthamoebae', 'Mucor ambiguus', 'Candidatus Portiera aleyrodidarum BT-QVLC', 'Exophiala spinifera', 'Hortaea werneckii', 'Catharus ustulatus', 'Bartonella koehlerae C-29', 'Thiomicrospira aerophila AL3', 'Metarhizium album ARSEF 1941', 'Metarhizium acridum CQMa 102', 'Herbaspirillum frisingense GSF30', 'Fischerella muscicola PCC 7414', 'Ketogulonicigenium vulgare WSH-001', 'Pandoraea apista', 'Pandoraea pnomenusa', 'Pandoraea pulmonicola', 'Pandoraea sputorum', 'Pseudaminobacter salicylatoxidans KCT001', 'Edwardsiella hoshinae NBRC 105699 = ATCC 33379', 'Fervidobacterium pennivorans DSM 9078', 'Exserohilum turcicum', 'Roseivivax halodurans JCM 10272', 'Myzus cerasi', 'Thermotoga petrophila RKU-1', 'Thermotoga naphthophila RKU-10', 'Coturnix japonica', 'Cryptosporidium meleagridis', 'Thermicanus aegyptius DSM 12793', 'Shewanella sp. ANA-3', 'Rhizophagus clarus', 'Ramlibacter tataouinensis TTB310', 'Tolypocladium paradoxum', 'Mola mola', 'Dyadobacter fermentans DSM 18053', 'Bordetella petrii', 'Ochrobactrum intermedium LMG 3301', 'Besnoitia besnoiti', 'Desulfurococcus amylolyticus 1221n', 'Gavialis gangeticus', 'Helicobacter pametensis ATCC 51478', 'Burkholderia cenocepacia J2315', 'Pseudomonas sp. M1', 'Legionella fallonii LLAP-10', 'Flavobacterium psychrophilum JIP02/86', 'Salvator merianae', 'Lactobacillus hamsteri DSM 5661 = JCM 6256', 'Halobacteriovorax marinus SJ', 'Eutypa lata', 'Phaethon lepturus', 'Lactobacillus sp. ASF360', 'Clostridium sp. MD294', 'Eubacterium plexicaudatum ASF492', 'Ferroplasma acidarmanus fer1', 'Acetomicrobium mobile DSM 13181', 'Lactobacillus mucosae LM1', 'Periconia macrospinosa', 'Bacillus sp. OxB-1', 'Drechmeria coniospora', 'Mycolicibacterium septicum DSM 44393', 'Phlebia centrifuga', 'Pyrobaculum oguniense TE7', 'Hammondia hammondi', 'Flavobacterium frigidarium DSM 17623', 'Calothrix sp. PCC 7507', 'Spermophilus dauricus', 'Tetraodon nigroviridis', 'Austwickia chelonae NBRC 105200', 'Onion yellows phytoplasma', 'Chloroherpeton thalassium ATCC 35110', 'Verticillium longisporum', 'Madurella mycetomatis', 'Falco tinnunculus', 'Wolbachia endosymbiont of Onchocerca ochengi', 'Fusarium pseudograminearum CS3096', 'Choanephora cucurbitarum', 'Hesseltinella vesiculosa', 'Bipolaris oryzae', 'Methanomethylovorans hollandica DSM 15978', 'Trichoderma asperellum CBS 433.97', 'Saprolegnia parasitica CBS 223.65', 'Aequorivita sublithincola DSM 14238', 'Trichophyton interdigitale H6', 'Candidatus Blochmannia pennsylvanicus str. BPEN', 'Burkholderia ubonensis MSMB22', 'Tetrasphaera elongata Lp2', 'Glarea lozoyensis ATCC 20868', 'Prunus mume', 'Stanieria cyanosphaera PCC 7437', 'Xenococcus sp. PCC 7305', 'Leptolyngbya sp. PCC 7375', 'Desulfallas gibsoniae DSM 7213', 'Solobacterium moorei DSM 22971', 'Gloeocapsa sp. PCC 73106', 'Cyanobacterium stanieri PCC 7202', 'Streptococcus infantarius subsp. infantarius CJ18', 'Proteus penneri ATCC 35198', 'Streptococcus didelphis DSM 15616', 'Acromyrmex echinatior', 'Vavraia culicis subsp. floridensis', 'Gleimia coleocanis DSM 15436', 'Actinomyces urogenitalis DSM 15434', 'Nostoc sp. PCC 7120 = FACHB-418', 'Pogona vitticeps', 'Saccharothrix espanaensis DSM 44229', 'Saccharothrix syringae', 'Riemerella columbina DSM 16469', 'Rhodococcus pyridinivorans SB3094', 'Bordetella hinzii ATCC 51730', 'Oscillochloris trichoides DG-6', 'Penicillium brasilianum', 'Postia placenta Mad-698-R', 'Gloeophyllum trabeum', 'Camponotus floridanus', 'Serratia sp. ATCC 39006', 'Helicobacter suis HS1', 'Cryptococcus amylolentus', 'Adineta vaga', 'Nothobranchius furzeri', 'Ralstonia mannitolilytica', 'Streptacidiphilus neutrinimicus', 'Streptacidiphilus carbonis', 'Streptacidiphilus albus', 'Desulfohalotomaculum alkaliphilum DSM 12257', 'Valsa mali var. pyri', 'Methylibium petroleiphilum PM1', 'Epicoccum nigrum', 'Cryptotermes secundus', 'Anaerostipes caccae DSM 14662', 'Leucosporidium creatinivorum', 'Frankia casuarinae', 'Thermoanaerobacter siderophilus SR4', 'Maylandia zebra', 'Pseudoflavonifractor capillosus ATCC 29799', 'Cupriavidus necator H16', 'Ensifer adhaerens OV14', 'Acinetobacter bereziniae', 'Acinetobacter guillouiae NIPH 991', 'Acinetobacter sp. RUH2624', 'Chelonoidis abingdonii', 'Tenacibaculum maritimum NCIMB 2154', 'Methylosinus sp. LW3', 'Methylosinus sp. PW1', 'Opitutus terrae PB90-1', 'Thermanaerovibrio velox DSM 12556', 'Thermoanaerobacter italicus Ab9', 'Corynebacterium falsenii DSM 44353', 'Coprothermobacter platensis DSM 11748', 'Acinetobacter ursingii DSM 16037 = CIP 107286', 'Acinetobacter schindleri NIPH 900', 'Rickettsia monacensis', 'Hippocampus comes', 'Anaerovorax odorimutans DSM 5092', 'Leptotrichia trevisanii DSM 22070', 'Varroa destructor', 'Myotis brandtii', 'Galerina marginata CBS 339.88', 'Spizellomyces punctatus', 'Lactobacillus jensenii 115-3-CHN', 'Batrachochytrium dendrobatidis JAM81', 'Catenaria anguillulae PL171', 'Serendipita vermifera MAFF 305830', 'Nocardioides sp. CF8', 'Sinorhizobium medicae WSM419', 'Gregarina niphandrodes', 'Pelotomaculum thermopropionicum SI', 'Mycolicibacterium vanbaalenii PYR-1', 'Synechococcus sp. CC9605', 'Synechococcus sp. CC9616', 'Eragrostis tef', 'Porphyromonas gulae', 'Muricauda ruestringensis DSM 13258', 'Bartonella birtlesii E11', 'Kineosphaera limosa NBRC 100340', 'Leptolyngbya sp. PCC 7376', 'Sulfurisphaera tokodaii str. 7', 'Ignatzschineria larvae DSM 13226', 'Aphanomyces astaci', 'Saprolegnia diclina', 'Anopheles minimus', 'Ramularia collo-cygni', 'Enterococcus villorum ATCC 700913', 'Streptococcus australis ATCC 700641', 'Pseudocercospora musae', 'Pseudoramibacter alactolyticus ATCC 23263', 'Melitaea cinxia', 'Bradyrhizobium sp. Tv2a-2', 'Scleropages formosus', 'Actinoplanes globisporus DSM 43857', 'Tetrapisispora phaffii CBS 4417', 'Geoglobus ahangari', 'Dichomitus squalens LYAD-421 SS1', 'Candidatus Carsonella ruddii DC', 'Cordyceps fumosorosea ARSEF 2679', 'Saccharomyces kudriavzevii', 'Saccharomyces mikatae', 'Bradyrhizobium sp. ORS 278', 'Methylobacterium nodulans ORS 2060', 'Alkaliphilus transvaalensis ATCC 700919', 'Streptococcus orisratti DSM 15617', 'Streptomyces auratus AGR0001', 'Mycoplasmopsis columbinum SF7', 'Phoronis australis', 'Globisporangium iwayamae', 'Coprococcus catus GD/7', 'Lactobacillus psittaci DSM 15354', 'Cryptosporidium andersoni', 'Tilletia walkeri', 'Fusarium verticillioides', 'Sphingopyxis alaskensis RB2256', 'Denitrovibrio acetiphilus DSM 12809', 'Pleurocapsa sp. PCC 7319', 'Pseudanabaena sp. PCC 6802', 'Picoides pubescens', 'Beauveria brongniartii RCEF 3172', 'Oscillatoria acuminata PCC 6304', 'Arthrospira platensis NIES-39', 'Nicotiana noctiflora var. noctiflora', 'Bulleidia extructa W1219', 'Lipotes vexillifer', 'Cupriavidus metallidurans CH34', 'Pseudothermotoga thermarum DSM 5069', 'Syntrophobacter fumaroxidans MPOB', 'Microcoleus vaginatus FGP-2', 'Bacillus sonorensis L12', 'Marinomonas mediterranea MMB-1', 'Ustilago hordei Uh4857-4', 'Brucella pinnipedialis B2/94', 'Brucella ceti M644/93/1', 'Roseiflexus castenholzii DSM 13941', 'Ferrimicrobium acidiphilum DSM 19497', 'Helicocarpus griseus UAMH5409', 'Schaalia suimastitidis DSM 15538', 'Pediculus humanus corporis', 'Pyrobaculum arsenaticum DSM 13514', 'Sphingobium xenophagum QYY', 'Tauraco erythrolophus', 'Pannonibacter phragmitetus DSM 14782', 'Photobacterium sp. SKA34', 'Paracoccidioides brasiliensis', 'Diaphorina citri', 'Pseudomonas psychrophila HA-4', 'Cercospora beticola', 'Alicyclobacillus herbarius DSM 13609', 'Oryzias javanicus', 'Helicobacter canadensis MIT 98-5491', 'Bordetella trematum', 'Nocardiopsis xinjiangensis YIM 90004', 'Thiolinea disciformis DSM 14473', 'Thiofilum flexile DSM 14609', 'Drosophila biarmipes', 'Halodesulfovibrio aestuarii DSM 10141', 'Providencia alcalifaciens DSM 30120', 'Thermotoga sp. RQ7', 'Thermotoga sp. RQ2', 'Strigamia maritima', 'Nipponia nippon', 'Catelliglobosispora koreensis DSM 44566', 'Drosophila santomea', 'Phytophthora lateralis MPF4', 'Arthrospira maxima CS-328', 'Carboxydothermus hydrogenoformans Z-2901', 'Halobiforma nitratireducens JCM 10879', 'Galdieria sulphuraria', 'Corynebacterium capitovis DSM 44611', 'Schaalia turicensis ACS-279-V-Col4', 'Thiomicrorhabdus arctica DSM 13458', 'Kineococcus radiotolerans SRS30216 = ATCC BAA-149', 'Bombus impatiens', 'Candidatus Glomeribacter gigasporarum BEG34', 'Nocardia veterana NBRC 100344', 'Anser brachyrhynchus', 'Pteropus vampyrus', 'Rhodococcus jostii RHA1', 'Exiguobacterium antarcticum B7', 'Citrobacter youngae ATCC 29220', 'Caldilinea aerophila DSM 14535 = NBRC 104270', 'Nitrosococcus halophilus Nc 4', 'Methylocapsa acidiphila B2', 'Frankliniella occidentalis', 'Leisingera methylohalidivorans DSM 14336', 'Olsenella uli DSM 7084', 'Phytomonas sp. isolate EM1', 'Phytomonas sp. isolate Hart1', 'Corynebacterium freneyi DNF00450', 'Acinetobacter parvus NIPH 1103', 'Acinetobacter gyllenbergii NIPH 230', 'Paraburkholderia fungorum', 'Ministeria vibrans', 'Actinoplanes sp. SE50/110', 'Ureaplasma parvum serovar 3 str. ATCC 27815', 'Selenomonas flueggei ATCC 43531', 'Selenomonas infelix ATCC 43532', 'Selenomonas noxia ATCC 43541', 'Paenibacillus daejeonensis DSM 15491', 'Nocardia cyriacigeorgica GUH-2', 'Geobacillus vulcani PSS1', 'Idiomarina loihiensis L2TR', 'Caenorhabditis brenneri', 'Bacillus endophyticus 2102', 'Zootermopsis nevadensis', 'Thermocrinis albus DSM 14484', 'Knoellia sinensis KCTC 19936', 'Mycoplasma haemocanis str. Illinois', 'Kocuria polaris', 'Atopobacter phocae ATCC BAA-285', 'Leuconostoc kimchii IMSNU 11154', 'Methylosinus sp. LW4', 'Weissella cibaria KACC 11862', 'Facklamia ignava CCUG 37419', 'Granulicatella elegans ATCC 700633', 'Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)', 'Candidatus Regiella insecticola LSR1', "Serratia symbiotica str. 'Cinara cedri'", 'Blastococcus saxobsidens DD2', 'Helicobacter cetorum MIT 00-7128', 'Olsenella profusa F0195', 'Sistotremastrum niveocremeum HHB9708', 'Isoptericola variabilis 225', 'Plicaturopsis crispa FD-325 SS-3', 'Teleopsis dalmanni', 'Anopheles culicifacies', 'Shimazuella kribbensis DSM 45090', 'Lachnobacterium bovis', 'Nicotiana cordifolia', 'Candidatus Mycoplasma haemolamae str. Purdue', 'Nocardiopsis kunsanensis DSM 44524', 'Cylindrospermum stagnale PCC 7417', 'Desulfitobacterium metallireducens DSM 15288', 'Zobellia uliginosa', 'Filifactor alocis ATCC 35896', 'Eubacterium sulci ATCC 35585', 'Diuraphis noxia', 'Sipha flava', 'Pogonomyrmex barbatus', 'Mobiluncus holmesii ATCC 35242', 'Leifsonia aquatica H1aii', 'Stegastes partitus', 'Methanothermobacter thermautotrophicus str. Delta H', 'Methanothermobacter marburgensis str. Marburg', 'Rathayibacter toxicus DSM 7488', 'Thermosynechococcus elongatus BP-1', 'Halorhabdus utahensis DSM 12940', 'Pseudoloma neurophilia', 'Salinibacter ruber DSM 13855', 'Streptomyces griseofuscus', 'Azovibrio restrictus DSM 23866', 'Azospira oryzae PS', 'Collinsella stercoris DSM 13279', 'Collinsella intestinalis DSM 13280', 'Agrobacterium albertimagni AOL15', 'Thiomicrospira cyclica ALM1', 'Limnospira indica PCC 8005', 'Paracoccus yeei ATCC BAA-599', 'Carnobacterium inhibens subsp. gilichinskyi', 'Lactobacillus iners AB-1', 'Magnaporthiopsis poae', 'Pyricularia grisea', 'Paraburkholderia phymatum STM815', 'Lactobacillus ingluviei str. Autruche 4', 'Sulfuricurvum kujiense DSM 16994', 'Lactobacillus kunkeei', 'Wallemia sebi', 'Streptococcus urinalis 2285-97', 'Phialocephala scopiformis', 'Marinitoga piezophila KA3', 'Streptococcus lutetiensis 033', 'Halonatronum saccharophilum DSM 13868', 'Gemella cuniculi DSM 15828', 'Sporothrix insectorum RCEF 264', 'Escovopsis weberi', 'Pseudomonas sp. MT-1', 'Treponema azotonutricium ZAS-9', 'Pseudoalteromonas ruthenica CP76', 'Bacteroides coprosuis DSM 18011', 'Afipia birgiae 34632', 'Xenophilus azovorans DSM 13620', 'Pseudopedobacter saltans DSM 12145', 'Chloroflexus aggregans DSM 9485', 'Lactobacillus suebicus DSM 5007 = KCTC 3549', 'Thioalkalivibrio thiocyanoxidans ARh 4', 'Burkholderia ambifaria AMMD', 'Burkholderia dolosa PC543', 'Sphingomonas melonis DAPP-PG 224', 'Corynebacterium efficiens YS-314', 'Desulforegula conservatrix Mb1Pa', 'Oceanicaulis alexandrii DSM 11625', 'Alysiella crassa DSM 2578', 'Conchiformibius steedae DSM 2580', 'Kozakia baliensis', 'Moniliophthora perniciosa FA553', 'Sporocytophaga myxococcoides', 'Nitrosomonas sp. AL212', 'Hungatella hathewayi DSM 13479', 'Turicibacter sanguinis PC909', 'Thiorhodospira sibirica ATCC 700588', 'Trametes pubescens', 'Enterococcus phoeniculicola ATCC BAA-412', 'Cellvibrio japonicus Ueda107', 'Bartonella bovis 91-4', 'Bacillus toyonensis BCT-7112', 'Gallibacterium genomosp. 1', 'Enterococcus moraviensis ATCC BAA-383', 'Enterococcus haemoperoxidus ATCC BAA-382', 'Streptococcus entericus DSM 14446', 'Methanothermococcus okinawensis IH1', 'Caulobacter vibrioides NA1000', 'Actinokineospora enzanensis DSM 44649', 'Acaryochloris marina MBIC11017', 'Anaeroglobus geminatus F0357', 'Tulasnella calospora MUT 4182', 'Cyanistes caeruleus', 'Alteromonadales bacterium TW-7', 'Flavobacteria bacterium BBFL7', 'Dysgonomonas gadei ATCC BAA-286', 'Corynebacterium imitans', 'Aphanomyces invadans', 'Jeotgalicoccus psychrophilus DSM 19085', 'Helicobacter winghamensis ATCC BAA-430', 'Leptomonas pyrrhocoris', 'Leptotrichia wadei F0279', 'Leptotrichia hofstadii F0254', 'Leptotrichia shahii DSM 19757', 'Leptotrichia goodfellowii F0264', 'Pseudomonas parafulva NBRC 16636 = DSM 17004', 'Pseudomonas cremoricolorata', 'Vigna radiata var. radiata', 'Phaeomoniella chlamydospora', 'Chromohalobacter salexigens DSM 3043', 'Hahella chejuensis KCTC 2396', 'Folsomia candida', 'Betta splendens', 'Cedecea davisae DSM 4568', 'Novosphingobium resinovorum', 'Trametes coccinea BRFM310', 'Diaporthe helianthi', 'Bifidobacterium scardovii', 'Terrapene carolina triunguis', 'Cedecea neteri', 'Enterobacter sp. MGH 2', 'Megamonas hypermegale DSM 1672', 'Providencia rustigianii DSM 4541', 'Trabulsiella guamensis ATCC 49490', 'Yokenella regensburgei ATCC 43003', 'Collimonas fungivorans Ter331', 'Roseibacterium elongatum DSM 19469', 'Embleya scabrispora DSM 41855', 'Paraburkholderia sacchari', 'Paenibacillus terrae HPL-003', 'Thalassiosira oceanica', 'Microbacterium gubbeenense DSM 15944', 'Nanoarchaeum equitans Kin4-M', 'Ignicoccus hospitalis KIN4/I', 'Corynebacterium casei LMG S-19264', 'Enterococcus gilvus ATCC BAA-350', 'Enterococcus pallens ATCC BAA-351', 'Sphingomonas wittichii RW1', 'Paenibacillus borealis', 'Acidithiobacillus ferrivorans SS3', 'Auricularia delicata', 'Thermodesulfobacterium hydrogeniphilum', 'Planococcus antarcticus DSM 14505', 'Anaeromyxobacter dehalogenans 2CP-C', 'Erythrobacter sp. SD-21', 'Amphiprion percula', 'Corynebacterium kroppenstedtii DSM 44385', 'Corynebacterium lipophiloflavum DSM 44291', 'Corynebacterium mastitidis DSM 44356', 'Corynebacterium camporealensis', 'Corynebacterium singulare', 'Beta vulgaris', 'Aspergillus nidulans FGSC A4', 'Thermococcus cleftensis', 'Wolbachia endosymbiont of Drosophila melanogaster', 'Dysgonomonas mossii DSM 22836', 'Algicola sagamiensis DSM 14643', 'Anabaena sp. PCC 7108', 'Phytophthora ramorum', 'Lactobacillus fuchuensis DSM 14340 = JCM 11249', 'Vulcanisaeta distributa DSM 14429', 'Blattabacterium sp. (Cryptocercus punctulatus) str. Cpu', 'Cupriavidus taiwanensis LMG 19424', 'Mycobacterium sp. MCS', 'Mycobacterium sp. JLS', 'Weissella koreensis KACC 15510', 'Prevotella copri DSM 18205', 'Bartonella schoenbuchensis m07a', 'Synechococcus sp. WH 8109', 'Synechococcus sp. WH 8016', 'Roseburia intestinalis L1-82', 'Thermobaculum terrenum ATCC BAA-798', 'Pseudoalteromonas translucida TAC125', 'Allofustis seminis DSM 15817', 'Ilyobacter polytropus DSM 2926', 'Anaerolinea thermophila UNI-1', 'Candidatus Ishikawaella capsulata Mpkobe', 'Marvinbryantia formatexigens DSM 14469', 'Laribacter hongkongensis HLHK9', 'Salinispora tropica CNB-440', 'Salinispora arenicola CNS-205', 'Legionella drancourtii LLAP12', 'Metarhizium guizhouense ARSEF 977', 'Gelidibacter mesophilus DSM 14095', 'Novosphingobium tardaugens NBRC 16725', 'Exiguobacterium undae DSM 14481', 'Corynebacterium aurimucosum ATCC 700975', 'Anaerotruncus colihominis DSM 17241', 'Saccharospirillum impatiens DSM 12546', 'Clostridium saccharobutylicum DSM 13864', 'Paenibacillus stellifer', 'Epichloe aotearoae', 'Staphylococcus pettenkoferi VCU012', 'Vibrio brasiliensis LMG 20546', 'Vibrio kanaloae 5S-149', 'Methanosarcina lacustris Z-7289', 'Sulfurihydrogenibium subterraneum DSM 15120', 'Halosimplex carlsbadense 2-9-1', 'Mycoplasma anatis 1340', 'Mycoplasma cynos C142', 'Tistrella mobilis KA081020-065', 'Mycoplasma ovis str. Michigan', 'Oceanobacillus picturae', 'Thermodesulfatator indicus DSM 15286', 'Rothia aeria F0184', 'Elizabethkingia miricola', 'Thermococcus sibiricus MM 739', 'Bradyrhizobium sp. th.b2', 'Meiothermus taiwanensis DSM 14542', 'Echeneis naucrates', 'Brachybacterium paraconglomeratum LC44', 'Methylobacter tundripaludum SV96', 'Gemmatimonas aurantiaca T-27', 'Gordonia sihwensis NBRC 108236', 'Ordospora colligata OC4', 'Allobaculum stercoricanis DSM 13633', 'Gordonia paraffinivorans NBRC 108238', 'Thermaerobacter subterraneus DSM 13965', 'Buceros rhinoceros', 'Nestor notabilis', 'Streptococcus sinensis', 'Pseudoalteromonas agarivorans S816', 'Beauveria bassiana', 'Halomonas halocynthiae DSM 14573', 'Lactobacillus malefermentans DSM 5705 = KCTC 3548', 'Python bivittatus', 'Coniochaeta ligniaria NRRL 30616', 'Anaerophaga thermohalophila DSM 12881', 'Pseudothermotoga lettingae TMO', 'Shuttleworthia satelles DSM 14600', 'Facklamia hominis ACS-120-V-Sch10', 'Leptospirillum ferriphilum ML-04', 'Pisolithus microcarpus 441', 'Acetobacter malorum', 'Clostridium colicanis 209318', 'Alicycliphilus denitrificans K601', 'Culicoides sonorensis', 'Sphingomonas elodea ATCC 31461', 'Rhizopogon vesiculosus', 'Cyanobium sp. PCC 7001', 'Robinsoniella peoriensis', 'Salinisphaera shabanensis E1L3A', 'Proteocatella sphenisci DSM 23131', 'Carnobacterium pleistocenium FTR1', 'Pseudopodoces humilis', 'Salarias fasciatus', 'Pyrobaculum calidifontis JCM 11548', 'Schaalia cardiffensis F0333', 'Cyanoderma ruficeps', 'Desulfococcus oleovorans Hxd3', 'Lactobacillus coleohominis 101-4-CHN', 'Pseudodesulfovibrio aespoeensis Aspo-2', 'Erwinia billingiae Eb661', 'Rubritepida flocculans DSM 14296', 'Kribbella flavida DSM 17836', 'Oceanobacillus iheyensis HTE831', 'Oryzias sinensis', 'Stemphylium lycopersici', 'Pseudo-nitzschia multistriata', 'Pseudomonas mediterranea CFBP 5447', 'Schaalia vaccimaxillae DSM 15804', 'Thermodesulfobium narugense DSM 14796', 'Thermoproteus uzoniensis 768-20', 'Crocinitomix catalasitica ATCC 23190', 'Varibaculum cambriense DORA_20', 'Knoellia subterranea KCTC 19937', 'Corallococcus coralloides DSM 2259', 'Desulfovibrio magneticus RS-1', 'Prevotella oryzae DSM 17970', 'Prevotella paludivivens DSM 17968 = JCM 13650', 'Paludibacter propionicigenes WB4', 'Chrysochloris asiatica', 'Fragilariopsis cylindrus CCMP1102', 'Xylanimonas cellulosilytica DSM 15894', 'Marinithermus hydrothermalis DSM 14884', 'Candidatus Baumannia cicadellinicola', 'Bartonella washoeensis Sb944nv', 'Thioalkalivibrio nitratireducens DSM 14787', 'Sneathia amnii', 'Oceanithermus profundus DSM 14977', 'Caldithrix abyssi DSM 13497', 'Methylocystis sp. SC2', 'Labrenzia aggregata IAM 12614', 'Megasphaera micronuciformis F0359', 'Acidaminococcus intestini RyC-MR95', 'Veillonella montpellierensis DNF00314', 'Chlamydotis macqueenii', 'Paracoccus zeaxanthinifaciens ATCC 21588', 'Pediococcus claussenii ATCC BAA-344', 'Thalassolituus oleivorans MIL-1', 'Thermococcus gammatolerans EJ3', 'Mitsuokella jalaludinii DSM 13811', 'Enterovibrio norvegicus FF-33', 'Leptosomus discolor', 'Egretta garzetta', 'Dermacoccus sp. Ellin185', 'Oleispira antarctica RB-8', 'Cetobacterium somerae ATCC BAA-474', 'Candidatus Tremblaya princeps PCIT', 'Paenibacillus graminis', 'Paenibacillus odorifer', 'Babesia ovata', 'Paenibacillus elgii B69', 'Prevotella marshii DSM 16973 = JCM 13450', 'Prevotella micans F0438', 'Bradyrhizobium sp. Ec3.3', 'Mycobacterium sp. KMS', 'Actinotignum urinale DSM 15805', 'Idiomarina baltica OS145', 'Vibrio coralliilyticus ATCC BAA-450', 'Desulfovibrio hydrothermalis AM13 = DSM 14728', 'Rhodococcus aetherivorans', 'Leifsonia rubra CMS 76R', 'Conexibacter woesei DSM 14684', 'Epilithonimonas tenax DSM 16811', 'Fluviicola taffensis DSM 16823', 'Corynebacterium atypicum', 'Plesiocystis pacifica SIR-1', 'Lynx pardinus', 'Chthoniobacter flavus Ellin428', 'Shewanella denitrificans OS217', 'Rhodoferax ferrireducens T118', 'Capsaspora owczarzaki ATCC 30864', 'Streptomyces niveus NCIMB 11891', 'Lactobacillus versmoldensis DSM 14857 = KCTC 3814', 'Athene cunicularia', 'Cardiobacterium valvarum F0432', 'Sphingomonas sp. ATCC 31555', 'Sinorhizobium americanum CCGM7', 'Chroomonas mesostigmatica CCMP1168', 'Haematobacter massiliensis', 'Synechococcus sp. PCC 7336', 'Synechococcus sp. PCC 6312', 'Thermococcus nautili', 'Gillisia limnaea DSM 15749', 'Caldimonas manganoxidans ATCC BAA-369', 'Microdochium bolleyi', 'Nocardioides sp. JS614', 'Caballeronia sordidicola', 'Bradyrhizobium sp. Ai1a-2', 'Porphyrobacter cryptus DSM 12079', 'Actinoplanes friuliensis DSM 7358', 'Deferribacter desulfuricans SSM1', 'Alkanindiges illinoisensis DSM 15370', 'Paraglaciecola mesophila KMM 241', 'Psychroflexus tropicus DSM 15496', 'Haemophilus aegyptius ATCC 11116', 'Streptococcus pasteurianus ATCC 43144', 'Candidatus Pelagibacter ubique HTCC7217', 'Anoxybacillus gonensis', 'Talaromyces verruculosus', 'Calidris pugnax', 'Candidatus Paraburkholderia kirkii UZHbot1', 'Coccidioides posadasii RMSCC 3488', 'Microbacterium paraoxydans 77MFTsu3.2', 'Methylocella silvestris BL2', 'Anopheles epiroticus', 'Nicotiana obtusifolia', 'Caldisphaera lagunensis DSM 15908', 'Pseudomonas poae RE*1-1-14', 'Strix occidentalis caurina', 'Lysinibacillus odysseyi 34hs-1 = NBRC 100172', 'Jaapia argillacea MUCL 33604', 'Punctularia strigosozonata', 'Sulfurimonas autotrophica DSM 16294', 'Actinobaculum massiliense ACS-171-V-Col2', 'Acinetobacter baylyi ADP1', 'Acinetobacter bouvetii DSM 14964 = CIP 107468', 'Acinetobacter gerneri', 'Acinetobacter tandoii', 'Acinetobacter tjernbergiae', 'Acinetobacter towneri', 'Tepidiphilus margaritifer DSM 15129', 'Longispora albida DSM 44784', 'Candidatus Blochmannia floridanus', 'Melampsora larici-populina 98AG31', 'Dickeya dadantii 3937', 'Dickeya zeae Ech586', 'Alicyclobacillus pomorum DSM 14955', 'Bacteroides massiliensis B84634 = Timone 84634 = DSM 17679 = JCM 13223', 'Roseomonas cervicalis ATCC 49957', 'Herminiimonas arsenicoxydans', 'Nitratireductor aquibiodomus NL21 = JCM 21793', 'Mastacembelus armatus', 'Novosphingobium pentaromativorans US6-1', 'Panicum hallii', 'Gymnopus luxurians FD-317 M1', 'Sulfurovum lithotrophicum', 'Bermanella marisrubri', 'Neptuniibacter caesariensis', 'Parvularcula bermudensis HTCC2503', 'Alkaliphilus metalliredigens QYMF', 'Puccinia triticina 1-1 BBBD Race 1', 'Amycolatopsis japonica', 'Amycolatopsis balhimycina FH 1894', 'Amycolatopsis vancoresmycina', 'Plasmodium coatneyi', 'Carnobacterium sp. 17-4', 'Fomitiporia mediterranea', 'Escherichia albertii KF1', 'Nocardia niigatensis NBRC 100131', 'Chaetomium thermophilum', "Candidatus Mycoplasma haemominutum 'Birmingham 1'", 'Marinobacter lipolyticus SM19', 'Afifella pfennigii DSM 17143', 'Corchorus capsularis', 'Nymphaea colorata', 'Thiorhodococcus drewsii AZ1', 'Sandarakinorhabdus limnophila DSM 17366', 'Parambassis ranga', 'Hanseniaspora opuntiae', 'Allokutzneria albata', 'Conchiformibius kuhniae DSM 17694', 'Accipiter nisus', 'Colwellia piezophila ATCC BAA-637', 'Mycobacterium sp. JS623', 'Exophiala mesophila', 'Halomonas campaniensis', 'Shewanella waksmanii ATCC BAA-643', 'Subdoligranulum variabile DSM 15176', 'Anaerofustis stercorihominis DSM 17244', 'Alistipes finegoldii DSM 17242', 'Komagataeibacter rhaeticus AF1', 'Exophiala oligosperma', 'Acaromyces ingoldii', 'Larimichthys crocea', 'Treponema caldarium DSM 7334', 'Erwinia sp. Ejp617', 'Thermomonas fusca DSM 15424', 'Roseovarius mucosus DSM 17069', 'Enhygromyxa salina', 'Dinoroseobacter shibae DFL 12 = DSM 16493', 'Pseudomonas rhizosphaerae', 'Polaromonas naphthalenivorans CJ2', 'Stenotrophomonas rhizophila', 'Bifidobacterium longum NCC2705', 'Spiroplasma chrysopicola DF-1', 'Spiroplasma culicicola AES-1', 'Spiroplasma diminutum CUAS-1', 'Spiroplasma sabaudiense Ar-1343', 'Spiroplasma syrphidicola EA-1', 'Clostridium carboxidivorans P7', 'Microvirga flocculans ATCC BAA-817', 'Marinospirillum insulare DSM 21763', 'Neomegalonema perideroedes DSM 15528', 'Fulvimarina pelagi HTCC2506', 'Anoplophora glabripennis', 'Bifidobacterium psychraerophilum', 'Bacillus vietnamensis', 'Dialister invisus DSM 15470', 'Aquilegia coerulea', 'Brachybacterium muris UCD-AY4', 'Micromonospora sp. ATCC 39149', 'Aeromicrobium marinum DSM 15272', 'Rhodanobacter fulvus Jip2', 'Gemmobacter nectariphilus DSM 15620', 'Bathymodiolus platifrons', 'Bacillus bataviensis LMG 21833', 'Bacillus vireti LMG 21834', 'Thalassospira xiamenensis M-5 = DSM 17429', 'Treponema putidum', 'Kordia algicida OT-1', 'Moniliophthora roreri', 'Mastigocladopsis repens PCC 10914', 'Synechococcus sp. RS9916', 'Synechococcus sp. RS9917', 'Polytolypa hystricis UAMH7299', 'Phaeobacter inhibens DSM 17395', 'Frankia elaeagni', 'Natrinema altunense', 'Kocuria marina', 'Phaeoacremonium minimum', 'Halomonas boliviensis LC1', 'Hymenobacter norwichensis DSM 15439', 'Exiguobacterium oxidotolerans JCM 12280', 'Methylorubrum populi BJ001', 'Buteo japonicus', 'Methanobrevibacter sp. AbM4', 'Pyrus x bretschneideri', 'Lottia gigantea', 'Geobacter bemidjiensis Bem', 'Geopsychrobacter electrodiphilus DSM 16401', 'Enhydrobacter aerosaccus SK60', 'Corynebacterium halotolerans YIM 70093 = DSM 44683', 'Erysiphe pulchra', 'Myotis davidii', 'Sulfitobacter indolifex HEL-45', 'Yaniella halotolerans DSM 15476', 'Paenibacillus sanguinis 2301083 = DSM 16941', 'Paenibacillus massiliensis 2301065 = DSM 16942', 'Fictibacillus gelatini DSM 15865', 'Comamonas aquatica NBRC 14918', 'Aestuariibacter salexigens DSM 15300', 'Salvia miltiorrhiza', 'Algoriphagus mannitolivorans DSM 15301', 'Rickettsia heilongjiangensis 054', 'Grosmannia clavigera kw1407', 'Bigelowiella natans', 'Corynebacterium ciconiae DSM 44920', 'Lactobacillus antri DSM 16041', 'Lactobacillus ultunensis DSM 16047', 'Paenibacillus lactis 154', 'Nocardia higoensis NBRC 100133', 'Nocardia pneumoniae NBRC 100136', 'Prevotella shahii DSM 15611 = JCM 12083', 'Prevotella salivae DSM 15606', 'Thermovibrio ammonificans HB-1', 'Arenibacter certesii DSM 19833', 'Flavobacterium frigoris PS1', 'Arsenicicoccus bolidensis DSM 15745', "Aster yellows witches'-broom phytoplasma AYWB", 'Streptococcus minor DSM 17118', 'Halobiforma lacisalsi AJ5', 'Aeropyrum camini SY1 = JCM 12091', 'Methylophaga aminisulfidivorans MP', 'Scardovia wiggsiae F0424', 'Lactobacillus rossiae DSM 15814', 'Saccharibacter floricola DSM 15669', 'Streptococcus devriesei DSM 19639', 'Beijerinckia mobilis', 'Desulfobulbus japonicus DSM 18378', 'Dyella japonica A8', 'Phanerochaete carnosa HHB-10118-sp', 'Belliella baltica DSM 15883', 'Effusibacillus pohliae DSM 22757', 'Halomonas alkaliantarctica', 'Synechococcus sp. CB0101', 'Acidovorax sp. JS42', 'Desulfitobacterium dichloroeliminans LMG P-21439', 'Candidatus Kinetoplastibacterium blastocrithidii (ex Strigomonas culicis)', 'Candidatus Midichloria mitochondrii IricVA', 'Corynebacterium caspium DSM 44850', 'Pseudoalteromonas sp. SM9913', 'Amanita thiersii Skay4041', 'Streptacidiphilus jiangxiensis', 'Alcanivorax sp. DG881', 'Marinobacter algicola DG893', 'Diplodia corticola', 'Chryseobacterium formosense', 'Candidatus Scalindua brodae', 'Lactobacillus kitasatonis DSM 16761 = JCM 1039', 'Oribacterium sinus F0268', 'Pseudomonas alkylphenolica', 'Pseudomonas psychrotolerans L19', 'Erythrobacter sp. NAP1', 'Lactobacillus vini DSM 20605', 'Akkermansia muciniphila ATCC BAA-835', 'Nocardiopsis valliformis DSM 45023', 'Nocardiopsis ganjiahuensis DSM 45031', 'Mycobacterium parascrofulaceum ATCC BAA-614', 'Pterocles gutturalis', 'Woodsholea maritima DSM 17123', 'Halobacillus dabanensis', 'Pseudonocardia dioxanivorans CB1190', 'Crinalium epipsammum PCC 9333', 'Helcococcus sueciensis DSM 17243', 'Amazona collaria', 'Ostreococcus lucimarinus CCE9901', 'Xenoturbella bocki', 'Acidilobus saccharovorans 345-15', 'Prevotella bergensis DSM 17361', 'Thioalkalivibrio thiocyanodenitrificans ARhD 1', 'Burkholderia sp. Ch1-1', 'Pseudomonas lutea', 'Methylohalobius crimeensis 10Ki', 'Klebsiella variicola UCI 18', 'Cynoglossus semilaevis', 'Thiocapsa marina 5811', 'Candidatus Paracaedimonas acanthamoebae', 'Candidatus Paracaedibacter symbiosus', 'Hoeflea phototrophica DFL-43', 'Nautilia profundicola AmH', 'Fictibacillus macauensis ZFHKF-1', 'Wallemia ichthyophaga', 'Yoonia vestfoldensis SKA53', "Acidomyces sp. 'richmondensis'", 'Enterococcus italicus DSM 15952', 'Bacillus bogoriensis ATCC BAA-922', 'Wolbachia endosymbiont of Cimex lectularius', 'Staphylococcus equorum subsp. equorum Mu2', 'Tupaia chinensis', 'Bacteroides cellulosilyticus WH2', 'Thermococcus sp. AM4', 'Serinicoccus marinus DSM 15273', 'Candidatus Jettenia caeni', 'Cupriavidus pinatubonensis JMP134', 'Mucispirillum schaedleri ASF457', 'Psychrobacter aquaticus CMS 56', 'Nocardia testacea NBRC 100365', 'Coccomyxa subellipsoidea', 'Cardinium endosymbiont cEper1 of Encarsia pergandiella', 'Deinococcus frigens DSM 12807', 'Deinococcus marmoris DSM 12784', 'Candidatus Blochmannia vafer str. BVAF', 'Candidatus Blochmannia chromaiodes str. 640', 'Pseudomonas syringae pv. tomato str. DC3000', 'Oceanicola granulosus HTCC2516', 'Robiginitalea biformata HTCC2501', 'Vibrio ezurae NBRC 102218', 'Saccharomyces boulardii (nom. inval.)', 'Clytia hemisphaerica', 'Mahella australiensis 50-1 BON', 'Paraburkholderia phenoliruptrix BR3459a', 'Natronolimnohabitans innermongolicus JCM 12255', 'Ethanoligenens harbinense YUAN-3', 'Owenweeksia hongkongensis DSM 17368', 'Verruconis gallopava', 'Streptomyces sp. C', 'Fonsecaea monophora', 'Solimonas variicoloris DSM 15731', 'Bacillus fordii DSM 16014 = CIP 108821', 'Streptococcus castoreus DSM 17536', 'Paeniglutamicibacter gangotriensis Lz1y', 'Arcobacter cibarius LMG 21996', 'Glycomyces arizonensis DSM 44726', 'Parvibaculum lavamentivorans DS-1', 'Glutamicibacter arilaitensis Re117', 'Gulosibacter molinativorax DSM 13485', 'Lentisphaera araneosa HTCC2155', 'Sphingomonas phyllosphaerae 5.2', 'Nocardia aobensis NBRC 100429', 'Nocardia concava NBRC 100430', 'Pleomorphomonas koreensis DSM 23070', 'Roseomonas gilardii subsp. rosea ATCC BAA-691', 'Streptococcus pseudopneumoniae IS7493', 'Otus sunia', 'Kitasatospora arboriphila', 'Corynebacterium resistens DSM 45100', 'Mycolicibacterium cosmeticum', 'Halomonas anticariensis FP35 = DSM 16096', 'Desulfatibacillum alkenivorans AK-01', 'Nocardia takedensis NBRC 100417', 'Dechloromonas aromatica RCB', 'Microbulbifer agarilyticus S89', 'Campylobacter insulaenigrae NCTC 12927', 'Nitrosomonas sp. Is79A3', 'Intestinibacter bartlettii DSM 16795', 'Paraburkholderia phytofirmans PsJN', 'Mycobacterium liflandii 128FXT', 'Cavenderia fasciculata', 'Thermosinus carboxydivorans Nor1', 'Pleomorphomonas oryzae DSM 16300', 'Kangiella koreensis DSM 16069', 'Kangiella aquimarina DSM 16071', 'Marinobacter daepoensis DSM 16072', 'Lysobacter concretionis Ko07 = DSM 16239', 'Acinetobacter beijerinckii CIP 110307', 'Jonesia quinghaiensis DSM 15701', 'Salipiger mucosus DSM 16094', 'Wolbachia endosymbiont of Culex quinquefasciatus Pel', 'Viridibacillus arenosi FSL R5-213', 'Crocosphaera watsonii WH 8501', 'Pneumocystis murina', 'Marinomonas ushuaiensis DSM 15871', 'Gordonia effusa NBRC 100432', 'Algoriphagus marincola DSM 16067', 'Botryobasidium botryosum', 'Capsella grandiflora', 'Oceanimonas smirnovii ATCC BAA-899', 'Acholeplasma equifetale ATCC 29724', 'Acholeplasma granularum ATCC 19168', 'Acholeplasma hippikon ATCC 29725', 'Trichormus variabilis ATCC 29413', 'Byssochlamys spectabilis No. 5', 'Salinimonas chungwhensis DSM 16280', 'Pontibacillus chungwhensis BH030062', 'Silanimonas lenta DSM 16282', 'Desulfurispora thermophila DSM 16022', 'Desulfallas alcoholivorax DSM 16058', 'Rhodopirellula baltica SH 1', 'Anoxybacillus tepidamans PS2', 'Methylovorus glucosetrophus SIP3-4', 'Pseudocohnilembus persalinus', 'Chryseobacterium antarcticum', 'Porphyromonas gingivicanis', 'Chelativorans sp. BNC1', 'Microbulbifer variabilis ATCC 700307', 'Thalassobacter stenotrophicus', 'Granulicoccus phenolivorans DSM 17626 = NBRC 107789 = JCM 15570', 'Neisseria bacilliformis ATCC BAA-1200', 'Lactobacillus kefiranofaciens ZW3', 'Paenibacillus wynnii', 'Nitratifractor salsuginis DSM 16511', 'Microbotryum intermedium', 'Streptococcus marimammalium DSM 18627', 'Sporolactobacillus terrae DSM 11697', 'Atopococcus tabaci DSM 17538', 'Bartonella rattimassiliensis 15908', 'Marinobacter sp. ELB17', 'Fangia hongkongensis FSC776 = DSM 21703', 'Methylomicrobium alcaliphilum 20Z', 'Shewanella sediminis HAW-EB3', 'Shewanella halifaxensis HAW-EB4', 'Flavobacterium antarcticum DSM 19726', 'Arthrobacter castelli DSM 16402', 'Nostoc punctiforme PCC 73102', 'Olleya marilimosa CAM030', 'Actinomyces dentalis DSM 19115', 'Hyaloperonospora arabidopsidis', 'Pontibacillus marinus BH030004 = DSM 16465', 'Candida orthopsilosis Co 90-125', 'Candida metapsilosis', 'Sphaerochaeta coccoides DSM 17374', 'Exiguobacterium marinum DSM 16307', 'Microbacterium oleivorans', 'Chlorobaculum parvum NCIB 8327', 'Limimaricola hongkongensis DSM 17492', 'Opitutaceae bacterium TAV1', 'Acidobacteriaceae bacterium TAA 166', 'Collimonas arenae', 'Aquimarina muelleri DSM 19832', 'Gramella echinicola DSM 19838', 'Novosphingopyxis baekryungensis DSM 16222', 'Agromyces italicus DSM 16388', 'Antrostomus carolinensis', 'Nocardiopsis baichengensis YIM 90130', 'Pochonia chlamydosporia 170', 'Azorhizobium doebereinerae UFLA1-100', 'Candidatus Amoebophilus asiaticus 5a2', 'Caenorhabditis japonica', 'Rozella allomycis CSF55', 'Porphyromonas uenonis 60-3', 'Prevotella multiformis DSM 16608', 'Nocardia jiangxiensis NBRC 101359', 'Sander lucioperca', 'Kosakonia radicincitans DSM 16656', 'Pseudoalteromonas sp. Bsw20308', 'Staphylococcus pseudintermedius ED99', 'Stackebrandtia nassauensis DSM 44728', 'Capitella teleta', 'Phenylobacterium zucineum HLK1', 'Streptomyces flavovariabilis', 'Alcanivorax dieselolei B5', 'Thioclava pacifica DSM 10166', 'Acetobacter nitrogenifigens DSM 23921 = LMG 23498', 'Streptomyces roseochromogenus subsp. oscitans DS 12.976', 'Streptomyces xylophagus', 'Streptomyces sviceus ATCC 29083', 'Streptomyces fulvoviolaceus', 'Streptomyces thermolilacinus SPC6', 'Micromonospora lupini str. Lupac 08', 'Hahella ganghwensis DSM 17046', 'Episyrphus balteatus', 'Alkaliflexus imshenetskii DSM 15055', 'Segniliparus rotundus DSM 44985', 'Segniliparus rugosus ATCC BAA-974', 'Hellea balneolensis DSM 19091', 'Haliea salexigens DSM 19537', 'Balneola vulgaris DSM 17893', 'Amycolatopsis rifamycinica', 'Bradyrhizobium sp. BTAi1', 'Kordiimonas gwangyangensis DSM 19435 = JCM 12864', 'Microbotryum lychnidis-dioicae p1A1 Lamole', 'Hungateiclostridium clariflavum DSM 19732', 'Microbotryum aff. violaceum TUB 011817', 'Bacteroides helcogenes P 36-108', 'Nocardia exalbida NBRC 100660', "Penicillium sp. 'occitanis'", 'Comamonas granuli NBRC 101663', 'Arthrobacter sp. FB24', 'Jannaschia sp. CCS1', 'Aminiphilus circumscriptus DSM 16581', 'Photorhabdus asymbiotica', 'Bartonella melophagi K-2C', 'Bacteroides salyersiae WAL 10018 = DSM 18765 = JCM 12988', 'Bacteroides nordii CL02T12C05', 'Acaricomes phytoseiuli DSM 14247', 'Erythrobacter vulgaris', 'Thermosediminibacter oceani DSM 16646', 'Ruegeria sp. TM1040', 'Dactylococcopsis salina PCC 8305', 'Flavonifractor plautii 1_3_50AFAA', 'Lysinibacillus massiliensis 4400831 = CIP 108448 = CCUG 49529', 'Martelella mediterranea DSM 17316', 'Haloquadratum walsbyi J07HQW2', 'Cyphellophora europaea', 'Desulfovibrio alkalitolerans DSM 16529', 'Agromyces subbeticus DSM 16689', 'Proteiniphilum acetatigenes DSM 18083', 'Rubellimicrobium thermophilum DSM 16684', 'Candidatus Hepatoplasma crinochetorum Av', 'Micromonas commoda', 'Polaromonas sp. JS666', 'Caldalkalibacillus thermarum TA2.A1', 'Patulibacter minatonensis DSM 18081', 'Frankia sp. EAN1pec', 'Frankia inefficax', 'Frankia saprophytica', 'Pseudoalteromonas spongiae UST010723-006', 'Denticeps clupeoides', 'Leptotrombidium deliense', 'Adhaeribacter aquaticus DSM 16391', 'Francisella orientalis str. Toba 04', 'Rhodococcus triatomae BKS 15-14', 'Glaciecola nitratireducens FR1064', 'Lachancea meyersii CBS 8951', 'Catellicoccus marimammalium M35/04/3', 'Bacillus lehensis G1', 'Roseburia hominis A2-183', 'Methanosaeta harundinacea 6Ac', 'Seriola lalandi dorsalis', 'Advenella mimigardefordensis DPN7', 'Corynebacterium tuscaniense DNF00037', 'Halobacillus kuroshimensis DSM 18393', 'Pundamilia nyererei', 'Lactobacillus apis', 'Lactobacillus harbinensis DSM 16991', 'Catenulispora acidiphila DSM 44928', 'Actinospica robiniae DSM 44927', 'Thauera sp. 27', 'Endozoicomonas elysicola', 'Pusillimonas noertemannii BS8', 'Marinimicrobium agarilyticum DSM 16975', 'Calidithermus timidus DSM 17022', 'Lactobacillus apodemi DSM 16634 = JCM 16172', 'Chryseobacterium vrystaatense', 'Aphis glycines', 'Gracilibacillus boraciitolerans JCM 21714', 'Sinocyclocheilus rhinocerous', 'Apteryx rowi', 'Bacillus boroniphilus JCM 21738', 'Dialister microaerophilus UPII 345-E', 'Chrysiogenes arsenatis DSM 11915', 'Persephonella marina EX-H1', 'Sulfurihydrogenibium azorense Az-Fu1', 'Candidatus Liberibacter americanus str. Sao Paulo', 'Deinococcus apachensis DSM 19763', 'Deinococcus maricopensis DSM 21211', 'Deinococcus pimensis DSM 21231', 'Bacteroides plebeius DSM 17135', 'Bacteroides coprocola DSM 17136', 'Bacteroides pyogenes JCM 10003', 'Neofusicoccum parvum', 'Prevotella multisaccharivorax DSM 17128', 'Advenella kashmirensis W13003', 'Deinococcus deserti VCD115', 'Modiolus philippinarum', 'Linnemannia elongata AG-77', 'Paraburkholderia terrae NBRC 100964', 'Thermococcus kodakarensis KOD1', 'Paraburkholderia mimosarum LMG 23256 = NBRC 106338', 'Flavobacterium indicum GPTSA100-9 = DSM 17447', 'Emticicia oligotrophica DSM 17448', 'Pseudomonas entomophila L48', 'Streptococcus massiliensis DSM 18628', 'Croceibacter atlanticus HTCC2559', 'Janibacter sp. HTCC2649', 'Dokdonia sp. MED134', 'Polaribacter sp. MED152', 'Maribacter sp. HTCC2170', 'Lyngbya sp. PCC 8106', 'Synechococcus sp. BL107', 'Bacillus sp. NRRL B-14911', 'Geobacter lovleyi SZ', 'Drechslerella stenobrocha 248', 'Nitrobacter sp. Nb-311A', 'Oceanicaulis sp. HTCC2633', 'Pseudooceanicola batsensis HTCC2597', 'Roseobacter sp. MED193', 'Roseovarius nubinhibens ISM', 'Roseovarius sp. 217', 'Sphingomonas sp. SKA58', 'Sulfitobacter sp. NAS-14.1', 'Rhodobacteraceae bacterium HTCC2083', 'Alteromonas mediterranea', 'Marinomonas sp. MED121', 'Pseudoalteromonas tunicata D2', 'Psychromonas sp. CNPT3', 'Vibrio sp. MED222', 'Prolixibacter bellariivorans ATCC BAA-1284', 'Mariprofundus ferrooxydans PV-1', 'Pseudoxanthomonas suwonensis 11-1', 'Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069', 'Belgica antarctica', 'Leadbetterella byssophila DSM 17132', 'Syntrophus aciditrophicus SB', 'Synechococcus sp. RCC307', 'Synechococcus sp. CC9902', 'Microbispora sp. ATCC PTA-5024', 'Rubrivivax benzoatilyticus JA2 = ATCC BAA-35', 'Kuraishia capsulata', 'Enterococcus caccae ATCC BAA-1240', 'Nostoc sp. PCC 7107', 'Mycolicibacterium rufum', 'Mycolicibacterium aromaticivorans JS19b1 = JCM 16368', 'Clostridium sulfidigenes', 'Pyricularia oryzae 70-15', 'Bradyrhizobium sp. WSM1743', 'Bradyrhizobium sp. WSM1253', 'Bradyrhizobium sp. WSM471', 'Nonlabens sediminis', 'Clostridium lundense DSM 17049', 'Formosa agariphila KMM 3901', 'Gordonia soli NBRC 108243', 'Pseudocercospora eumusae', 'Synechococcus sp. JA-3-3Ab', "Synechococcus sp. JA-2-3B'a(2-13)", 'Lepidothrix coronata', 'Pseudomonas moraviensis R28-S', 'Pseudomonas simiae', 'Wheat blue dwarf phytoplasma', 'Porphyromonas somerae DSM 23386', 'Sharpea azabuensis DSM 18934', 'Sphingomonas sp. BHC-A', 'Leptolyngbya valderiana BDU 20041', 'Paenibacillus sp. JDR-2', 'Bacillus infantis NRRL B-14911', 'Kwoniella bestiolae CBS 10118', 'Kwoniella dejecticola CBS 10117', 'Moelleriella libera RCEF 2490', 'Phytophthora kernoviae', 'Coxiella endosymbiont of Amblyomma americanum', 'Paraglaciecola psychrophila 170', 'Pseudozyma hubeiensis', 'Candidatus Accumulibacter phosphatis clade IIA str. UW-1', 'Bifidobacterium crudilactis', 'Syntrophorhabdus aromaticivorans UI', 'Nonlabens dokdonensis DSW-6', 'Parabacteroides goldsteinii dnLKV18', 'Alistipes onderdonkii WAL 8169 = DSM 19147', 'Alistipes shahii WAL 8301', 'Manacus vitellinus', 'Rhizoclosmatium globosum', 'Flavobacterium saliperosum S13', 'Bacteroides intestinalis DSM 17393', 'Amycolatopsis jejuensis', 'Nitrospira defluvii', 'Psychrobacter cryohalolentis K5', 'Kamptonema formosum PCC 6407', 'Sphingobium japonicum UT26S', 'Clostridium drakei', 'Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7', 'Candidatus Solibacter usitatus Ellin6076', 'Halococcus hamelinensis 100A6', 'Truepera radiovictrix DSM 17093', 'Exiguobacterium sibiricum 255-15', 'Hirsutella minnesotensis 3608', 'Alkalihalobacillus okhensis', 'Psychrobacter arcticus 273-4', 'Rickettsia tamurae', 'Ignisphaera aggregans DSM 17230', 'Methylobacterium oryzae CBMB20', 'Halococcus thailandensis JCM 13552', 'Thermovirga lienii DSM 17291', 'Candidatus Sulcia muelleri PSPU', 'Rhodonellum psychrophilum GCM71 = DSM 17998', 'Oenococcus kitaharae DSM 17330', 'Pyronema omphalodes', 'Chlorobium chlorochromatii CaD3', 'Gordonia sp. KTR9', 'Halorubrum ezzemoulense DSM 17463', 'Pseudodonghicola xiamenensis DSM 18339', 'Bacteroides finegoldii DSM 17565', 'Nitrosopumilus maritimus SCM1', 'Erwinia tasmaniensis Et1/99', 'Mycobacterium colombiense CECT 3035', 'Desulfosporosinus youngiae DSM 17734', 'Criblamydia sequanensis CRIB-18', 'Thermodesulfovibrio thiophilus DSM 17215', 'Tuberibacillus calidus DSM 17572', 'Spathaspora passalidarum NRRL Y-27907', 'Amorphus coralli DSM 19760', 'Desulfovibrio frigidus DSM 17176', 'Ascodesmis nigricans', 'Peptostreptococcus stomatis DSM 17678', 'Agrococcus lahaulensis DSM 17612', 'Methylophilaceae bacterium B1', 'Burkholderia oklahomensis', 'Thermococcus onnurineus NA1', 'Pyrococcus sp. NA2', 'Paenibacillus barengoltzii G22', 'Salipiger bermudensis HTCC2601', 'Flavobacterium soli DSM 19725', 'Kutzneria sp. 744', 'Podiceps cristatus', 'Geobacter pickeringii', 'Amycolatopsis benzoatilytica AK 16/65', 'Lysobacter daejeonensis GH1-9', 'Echinicola pacifica DSM 19836', 'Moraxella boevrei DSM 14165', 'Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896', 'Rhodanobacter spathiphylli B39', 'Streptomyces davaonensis JCM 4913', 'Exophiala xenobiotica', 'Streptacidiphilus oryzae TH49', 'Rhizobium favelukesii', 'Spironucleus salmonicida', 'Desulfovirgula thermocuniculi DSM 16036', 'Cercospora zeina', 'Psychrobacter sp. PRwf-1', 'Micavibrio aeruginosavorus ARL-13', 'Corynebacterium marinum DSM 44953', 'Flavobacterium daejeonense DSM 17708', 'Flavobacterium suncheonense GH29-5 = DSM 17707', 'Roseobacter sp. AzwK-3b', 'Alkalilimnicola ehrlichii MLHE-1', 'Oscillibacter valericigenes Sjm18-20', 'Salinispora pacifica CNT003', 'Geobacter uraniireducens Rf4', 'Xenorhabdus doucetiae', 'Shewanella sp. W3-18-1', 'Halostagnicola larsenii XH-48', 'Arenimonas malthae CC-JY-1', 'Niastella koreensis GR20-10', 'Streptomyces sp. Tu6071', 'Limnoperna fortunei', 'Alloscardovia criceti DSM 17774', 'Bifidobacterium tsurumiense', 'Micromonospora chokoriensis', 'Phocaeicola dorei', 'Lactobacillus parabrevis ATCC 53295', 'Cercospora berteroae', 'Psychromonas ingrahamii 37', 'Roseiflexus sp. RS-1', 'Microbacterium indicum DSM 19969', 'Acidovorax sp. KKS102', 'Methanoregula boonei 6A8', 'Streptomyces olindensis', 'Pseudomonas extremaustralis 14-3 substr. 14-3b', 'Shewanella loihica PV-4', 'Smaragdicoccus niigatensis DSM 44881 = NBRC 103563', 'Methylotenera mobilis 13', 'Bryobacter aggregatus MPL3', 'Zavarzinella formosa DSM 19928', 'Schlesneria paludicola DSM 18645', 'Leeuwenhoekiella blandensis MED217', 'Roseburia inulinivorans DSM 16841', 'Exiguobacterium sp. AT1b', 'Rubritalea marina DSM 17716', 'Tieghemostelium lacteum', 'Streptococcus pseudoporcinus SPIN 20026', 'Pseudarthrobacter phenanthrenivorans Sphe3', 'Streptomyces vietnamensis', 'Flavobacterium reichenbachii', 'Candidatus Protochlamydia amoebophila UWE25', 'Kaistia granuli DSM 23481', 'Prevotella stercorea DSM 18206', 'Ktedonobacter racemifer DSM 44963', 'Dyella ginsengisoli LA-4', 'Janibacter hoylei PVAS-1', 'Verminephrobacter eiseniae EF01-2', 'Granulibacter bethesdensis CGDNIH1', 'Endocarpon pusillum Z07020', 'Ferrimonas futtsuensis DSM 18154', 'Chryseobacterium caeni DSM 17710', 'Pelosinus fermentans DSM 17108', 'Frankia discariae', 'Belnapia moabensis DSM 16746', 'Paenibacillus sabinae T27', 'Ruania albidiflava DSM 18029', 'Caulobacter sp. K31', 'Haladaptatus paucihalophilus DX253', 'Yersinia similis', 'Phycicoccus jejuensis', 'Rhodobacterales bacterium HTCC2255', 'Pelusios castaneus', 'Blattabacterium sp. (Periplaneta americana) str. BPLAN', 'Blattabacterium sp. (Blatta orientalis) str. Tarazona', 'Rheinheimera perlucida DSM 18276', 'Paenibacillus terrigena DSM 21567', 'Mesonia mobilis DSM 19841', 'Haloterrigena limicola JCM 13563', 'Gallionella capsiferriformans ES-2', 'Arenimonas composti TR7-09 = DSM 18010', 'Flavobacterium filum DSM 17961', 'Brevundimonas aveniformis DSM 17977', 'Erwinia typographi', 'Bacteroides xylanisolvens XB1A', 'Rhodobacter sp. SW2', 'Fischerella thermalis PCC 7521', 'Bartonella tamiae Th239', 'Rivularia sp. PCC 7116', 'Campylobacter cuniculorum DSM 23162 = LMG 24588', 'Reinekea blandensis MED297', 'Janthinobacterium sp. Marseille', 'Pseudooceanicola nanhaiensis DSM 18065', 'Sphaeramia orbicularis', 'Natranaerobius thermophilus JW/NM-WN-LF', 'Haloplanus natans DSM 17983', 'Gordonia shandongensis DSM 45094', 'Olivibacter sitiensis DSM 17696', 'Zhouia amylolytica AD3', 'Paracoccus halophilus', 'Bacteroides barnesiae DSM 18169 = JCM 13652', 'Phocaeicola salanitronis DSM 18170', 'Thermobacillus composti KWC4', 'Methyloversatilis universalis FAM5', 'Novosphingobium nitrogenifigens DSM 19370', 'Cyanobacterium aponinum PCC 10605', 'Streptomyces bingchenggensis BCW-1', 'Vibrio sinaloensis DSM 21326', 'Propithecus coquereli', 'Aciduliprofundum boonei T469', 'Paenibacillus fonticola DSM 21315', 'Niabella aurantiaca DSM 17617', 'Pseudomonas protegens CHA0', 'Cohnella laeviribosi DSM 21336', 'Lactobacillus namurensis str. Chizuka 01', 'Streptococcus ictaluri 707-05', 'Hydrogenobaculum sp. Y04AAS1', 'Lachancea thermotolerans', 'Amycolatopsis nigrescens CSC17Ta-90', 'Algiphilus aromaticivorans DG1253', 'Verrucomicrobiae bacterium DG1235', 'Erythrobacter sp. JL475', 'Ornithinimicrobium pekingense DSM 21552', 'Bacillus aidingensis DSM 18341', 'Cycloclasticus sp. P1', 'Pseudophaeobacter arcticus DSM 23566', 'Thermophagus xiamenensis', 'Paraburkholderia ferrariae NBRC 106233', 'Prevotella timonensis 4401737 = DSM 22865 = JCM 15640', 'Methanobacterium arcticum', 'Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)', 'Moraxella bovoculi 237', 'Bacteroides coprophilus DSM 18228 = JCM 13818', 'Nitratiruptor sp. SB155-2', 'Sulfurovum sp. NBC37-1', 'Halovivax ruber XH-70', 'Halopiger xanaduensis SH-6', 'Parabacteroides johnsonii CL02T12C29', 'Cupriavidus sp. amp6', 'Natronorubrum sulfidifaciens JCM 14089', 'Rhodobacteraceae bacterium HTCC2150', 'Labrenzia alexandrii DFL-11', 'Algoriphagus machipongonensis', 'Bartonella australis Aust/NH1', 'Roseobacter sp. SK209-2-6', 'Hydnomerulius pinastri MD-312', 'Stachybotrys chlorohalonata IBT 40285', 'Wenxinia marina DSM 24838', 'Lactobacillus farraginis DSM 18382 = JCM 14108', 'Lactobacillus parafarraginis F0439', 'Echinicola vietnamensis DSM 17526', 'Actinocatenispora sera', 'Ehrlichia sp. HF', 'Vibrio sp. 16', 'Roseobacter sp. GAI101', 'Roseobacter sp. CCS2', 'Pedobacter sp. BAL39', 'Flavobacteria bacterium BAL38', 'Brevundimonas sp. BAL3', 'Stenotrophomonas sp. SKA14', 'Flavobacteriales bacterium ALC-1', 'Roseovarius sp. TM1035', 'Lysobacter defluvii IMMIB APB-9 = DSM 18482', 'Alicyclobacillus macrosporangiidus CPP55', 'Alicyclobacillus contaminans DSM 17975', 'Paraburkholderia nodosa DSM 21604', 'Sphingomonas jaspsi DSM 18422', 'Deinococcus misasensis DSM 22328', 'Methylophaga thiooxydans DMS010', 'Perlucidibaca piscinae DSM 21586', 'Terriglobus roseus DSM 18391', 'Uliginosibacterium gangwonense DSM 18521', 'Halalkalibacillus halophilus DSM 18494', 'Mesoflavibacter zeaxanthinifaciens S86', 'Gracilibacillus lacisalsi DSM 19029', 'Pestalotiopsis fici', 'Congregibacter litoralis KT71', 'Porphyromonas crevioricanis', 'Bhargavaea cecembensis DSE10', 'Cylindrobasidium torrendii FP15055 ss-10', 'Lactobacillus ceti DSM 22408', 'Coraliomargarita akajimensis DSM 45221', 'Bartonella rochalimae ATCC BAA-1498', 'Cyanothece sp. PCC 7425', 'Gilvimarinus chinensis DSM 19667', 'Brachybacterium phenoliresistens', 'Aspergillus ruber CBS 135680', 'Acinetobacter brisouii ANC 4119', 'Aestuariimicrobium kwangyangense DSM 21549', 'Thioalkalivibrio sp. K90mix', 'Lactobacillus hayakitensis DSM 18933 = JCM 14209', 'Andreprevotia chitinilytica DSM 18519', 'Sphingomonas sanxanigenens DSM 19645 = NX02', 'Marmoricola aequoreus', 'Lachnospiraceae bacterium 28-4', 'Lachnospiraceae bacterium 3-1', 'Lachnospiraceae bacterium A2', 'Lachnospiraceae bacterium A4', 'Barnesiella viscericola DSM 18177', 'Segetibacter koreensis DSM 18137', 'Proteiniclasticum ruminis DSM 24773', 'Agrilactobacillus composti DSM 18527 = JCM 14202', 'Helicobacter macacae MIT 99-5501', 'Trichoderma gamsii', 'Zunongwangia profunda SM-A87', 'Desulfocurvus vexinensis DSM 17965', 'Thermoanaerobacter sp. X514', 'Enterobacter sp. 638', 'Streptococcus merionis DSM 19192', 'Pontibacter korlensis', 'Marinomonas sp. MWYL1', 'Amphimedon queenslandica', 'Wohlfahrtiimonas chitiniclastica DSM 18708', 'Corynebacterium ureicelerivorans', 'Aureimonas ureilytica DSM 18598 = NBRC 106430', 'Candidatus Riesia pediculicola USDA', 'Actinomycetospora chiangmaiensis DSM 45062', 'Haloferax mucosum ATCC BAA-1512', 'Sphingobacterium sp. PM2-P1-29', 'Virgibacillus sp. SK37', 'Shewanella piezotolerans WP3', 'Maritimibacter alkaliphilus HTCC2654', 'Nonomuraea coxensis DSM 45129', 'Anaeromyxobacter sp. Fw109-5', 'Marinobacterium litorale DSM 23545', 'Geminicoccus roseus DSM 18922', 'Alicyclobacillus acidocaldarius subsp. acidocaldarius Tc-4-1', 'Leisingera daeponensis DSM 23529', 'Streptacidiphilus rugosus AM-16', 'Bacillus sp. m3-13', 'Natrinema sp. J7-2', 'Sphingomonas astaxanthinifaciens DSM 22298', 'Stegodyphus mimosarum', 'Prevotella pleuritidis JCM 14110', 'Streptomyces xiamenensis', 'Bacillus coahuilensis m4-4', 'Nocardioidaceae bacterium Broad-1', 'Clostridiisalibacter paucivorans DSM 22131', 'Treponema pedis str. T A4', 'Blastobotrys adeninivorans', 'Periophthalmus magnuspinnatus', 'Coprococcus comes ATCC 27758', 'Gordonia malaquae NBRC 108250', 'Gramella forsetii KT0803', 'Halogeometricum pallidum JCM 14848', 'Clostridium sp. SS2/1', 'Clostridium sp. M62/1', 'Clostridium sp. L2-50', 'Chryseobacterium daeguense DSM 19388', 'Entamoeba nuttalli P19', 'Paracoccus sp. TRP', 'Intrasporangium oryzae NRRL B-24470', 'Desulfotomaculum hydrothermale Lam5 = DSM 18033', 'Mycetohabitans rhizoxinica HKI 454', 'Candidatus Vesicomyosocius okutanii', 'Solimonas soli DSM 21787', 'Cronobacter turicensis z3032', 'Halalkalicoccus jeotgali B3', 'Halorubrum halophilum', 'Caldicellulosiruptor hydrothermalis 108', 'Caldicellulosiruptor kronotskyensis 2002', 'Lysobacter dokdonensis DS-58', 'Planococcus donghaensis MPA1U2', 'Actinopolyspora erythraea', 'Pseudoxanthomonas spadix BD-a59', 'Solimonas flava DSM 18980', 'Nodosilinea nodulosa PCC 7104', 'Rhodanobacter thiooxydans LCS2', 'Natronomonas moolapensis 8.8.11', 'Burkholderia sp. KJ006', 'Penicillium antarcticum', 'Selenomonas bovis DSM 23594', 'Notospermus geniculatus', 'Neptunomonas japonica DSM 18939', 'Methanosarcina horonobensis HB-1 = JCM 15518', 'Blautia wexlerae DSM 19850', 'Salinicoccus albus DSM 19776', 'Nevskia soli DSM 19509', 'Prevotella amnii CRIS 21A-A', 'Alloscardovia omnicolens DSM 21503', 'Yersinia massiliensis CCUG 53443', 'Microvirga lupini', 'Lactobacillus equicursoris DSM 19284 = JCM 14600 = CIP 110162', 'Diplodia seriata', 'Methanolobus psychrophilus R15', 'Paraburkholderia bryophila 376MFSha3.1', 'Sphingobium ummariense RL-3', 'Sulfitobacter donghicola DSW-25 = KCTC 12864 = JCM 14565', 'Chryseobacterium oranimense G311', 'Chryseobacterium halperniae', 'Chryseobacterium luteum', 'Stenoxybacter acetivorans DSM 19021', 'Mucilaginibacter paludis DSM 18603', 'Basidiobolus meristosporus CBS 931.73', 'Elusimicrobium minutum Pei191', 'Rhizobium sp. IRBG74', 'Helicobacter japonicus', 'Calidris pygmaea', 'Thiomonas arsenitoxydans', 'Methylobacterium sp. 4-46', 'Flavobacterium subsaxonicum WB 4.1-42 = DSM 21790', 'Algoriphagus vanfongensis DSM 17529', 'Nocardia rhamnosiphila', 'Bacillus chagannorensis DSM 18086', 'Salsuginibacillus kocurii DSM 18087', 'Humibacter albus DSM 18994', 'Desulfurivibrio alkaliphilus AHT 2', 'Dethiobacter alkaliphilus AHT 1', 'Moritella dasanensis ArB 0140', 'Candidatus Riesia pediculischaeffi PTSU', 'Jonquetella anthropi E3_33 E1', 'Dactylellina haptotyla', 'Halorhabdus tiamatea SARL4B', 'Baudoinia compniacensis', 'Spirosoma luteum DSM 19990', 'Spirosoma spitsbergense DSM 19989', 'Paenibacillus ginsengihumi DSM 21568', 'Kazachstania africana CBS 2517', 'Deinococcus peraridilitoris DSM 19664', 'Nocardioides halotolerans DSM 19273', 'Streptococcus sp. C150', 'Idiomarina salinarum', 'Fibularhizoctonia sp. CBS 109695', 'Sulfurihydrogenibium sp. YO3AOP1', 'Streptacidiphilus jeojiense', 'Robiginitomaculum antarcticum DSM 21748', 'Brucella sp. UK1/97', 'Brucella sp. F23/97', 'Brucella sp. F96/2', 'Brucella sp. UK40/99', 'Brucella sp. F8/99', 'Brucella sp. F5/99', 'Megamonas funiformis YIT 11815', 'Sutterella parvirubra YIT 11816', 'Ruminococcus gauvreauii DSM 19829', 'Streptococcus henryi DSM 19005', 'Streptococcus caballi DSM 19004', 'Candidatus Pelagibacter sp. HTCC7211', 'Pseudovibrio sp. JE062', 'Rhodobacterales bacterium Y4I', 'Ruegeria sp. R11', 'Prevotella maculosa DSM 19339 = JCM 15638', 'Promicromonospora kroppenstedtii DSM 19349', 'Pseudomonas sp. Chol1', 'Gouania willdenowi', 'Corynebacterium timonense 5401744', 'Corynebacterium massiliense DSM 45435', 'Hofstenia miamia', 'Knoellia aerolata DSM 18566', 'Geobacter sp. M18', 'Geobacter sp. M21', 'Bradyrhizobium sp. Cp5.3', 'Brucella microti CCM 4915', 'Sporolactobacillus vineae DSM 21990 = SL153', 'Maribacter forsetii DSM 18668', 'Gryllotalpicola ginsengisoli DSM 22003', 'Rickettsia endosymbiont of Ixodes scapularis', 'Psychromonas ossibalaenae ATCC BAA-1528', 'Reyranella massiliensis 521', 'Leptobrachium leishanense', 'Chryseobacterium soli', 'Adlercreutzia equolifaciens DSM 19450', 'Eudoraea adriatica DSM 19308', 'Niabella soli DSM 19437', 'Anaeromyxobacter sp. K', 'Epichloe gansuensis', 'Simiduia agarivorans SA1 = DSM 21679', 'Rhizobium selenitireducens ATCC BAA-1503', 'Microbacterium profundi', 'Propionibacterium sp. 5_U_42AFAA', 'Veillonella sp. 6_1_27', 'Rudanella lutea DSM 19387', 'Microbacterium luticocti DSM 19459', 'Streptomyces scopuliridis RB72', 'Pseudoclavibacter soli DSM 23366', 'Amphritea japonica ATCC BAA-1530', 'Neovison vison', 'Roseomonas aerilata DSM 19363', 'Desulfarculus baarsii DSM 2075', 'Kwoniella pini CBS 10737', 'Bdellovibrio exovorus JSS', 'Haladaptatus cibarius D43', 'Henriciella marina DSM 19595', 'Joostella marina DSM 19592', 'Halomonas lutea DSM 23508', 'Paraprevotella clara YIT 11840', 'Paraprevotella xylaniphila YIT 11841', 'Kiloniella laminariae DSM 19542', 'Chthonomonas calidirosea T49', 'Gracilimonas tropica DSM 19535', 'Spongiibacter tropicus DSM 19543', 'Glaciecola sp. HTCC2999', 'Chryseobacterium gregarium DSM 19109', 'Xanthomonas campestris pv. vesicatoria str. 85-10', 'Bizionia argentinensis JUB59', 'Saccharibacillus sacchari DSM 19268', 'Candidatus Cloacimonas acidaminovorans str. Evry', 'Streptococcus plurextorum DSM 22810', 'Rhizoctonia solani AG-8 WAC10335', 'Bacteroides sp. 1_1_30', 'Bacteroides sp. 3_1_23', 'Bacteroides sp. 3_1_33FAA', 'Bacteroides sp. 3_2_5', 'Bacteroides sp. 4_1_36', 'Bacteroides sp. 4_3_47FAA', 'Bacteroides sp. 9_1_42FAA', 'Clostridium sp. 7_2_43FAA', 'Desulfovibrio sp. 3_1_syn3', 'Escherichia sp. 1_1_43', 'Escherichia sp. 4_1_40B', 'Eubacterium sp. 3_1_31', 'Micromonospora sp. M42', 'Ruminococcus sp. 5_1_39BFAA', 'Synergistes sp. 3_1_syn1', 'Veillonella sp. 3_1_44', 'Clostridiales bacterium 1_7_47FAA', 'Erysipelotrichaceae bacterium 2_2_44A', 'Elioraea tepidiphila DSM 17972', 'Chloracidobacterium thermophilum B', 'Planomicrobium glaciei CHR43', 'Saccharibacillus kuerlensis DSM 22868', 'Kribbella catacumbae DSM 19601', 'Komagataella phaffii GS115', 'Ogataea polymorpha NCYC 495 leu1.1', 'Lactobacillus nodensis DSM 19682 = JCM 14932 = NBRC 107160', 'Actinomyces massiliensis F0489', 'Alkaliphilus oremlandii OhILAs', 'Babesia sp. Xinjiang', 'Pontibacillus yanchengensis Y32', 'Paxillus rubicundulus Ve08.2h10', 'Veillonella magna DSM 19857', 'Hemiselmis andersenii', 'Streptomyces sp. Mg1', 'Streptomyces sp. SPB074', 'Acinetobacter sp. Ver3', 'Singulisphaera acidiphila DSM 18658', 'Ilumatobacter coccineus YM16-304', 'Lachnoanaerobaculum saburreum F0468', 'Rhodobacteraceae bacterium KLH11', 'Sistotremastrum suecicum HHB10207 ss-3', 'Bacteroides sp. 1_1_14', 'Bacteroides sp. 2_1_22', 'Bacteroides sp. 2_1_33B', 'Bacteroides sp. 2_2_4', 'Parabacteroides sp. 20_3', 'Bacteroides sp. 3_1_19', 'Bacteroides sp. 3_1_40A', 'Coprobacillus sp. 8_2_54BFAA', 'Streptococcus sp. 2_1_36FAA', 'Burkholderiales bacterium 1_1_47', 'Erysipelotrichaceae bacterium 6_1_45', 'Prevotella histicola JCM 15637 = DNF00424', 'Cladophialophora yegresii', 'Gracilibacillus halophilus YIM-C55.5', 'Salinimicrobium terrae DSM 17865', 'Pantoea vagans C9-1', 'Gordonibacter pamelaeae 7-10-1-b', 'Geobacillus sp. WCH70', 'Dasania marina DSM 21967', 'Bifidobacterium bombi DSM 19703', 'Haloplasma contractile SSD-17B', 'Candidatus Desulforudis audaxviator MP104C', 'Nitratireductor basaltis', 'Nitrosococcus watsonii C-113', 'Colletotrichum gloeosporioides', 'Methanosphaerula palustris E1-9c', 'Pedobacter borealis DSM 19626', 'Pseudohaliea rubra DSM 19751', 'Leisingera aquimarina DSM 24565', 'Modestobacter marinus', 'Bacteroides graminisolvens DSM 19988 = JCM 15093', 'Aliiglaciecola lipolytica E3', 'Calditerrivibrio nitroreducens DSM 19672', 'Verrucomicrobia bacterium LP2A', 'Haematomicrobium sanguinis DSM 21259', 'Brevibacterium ravenspurgense 5401308 = CCUG 53855', 'Gluconobacter morbifer G707', 'Commensalibacter intestini A911', 'Myroides profundi', 'Bartonella rattaustraliani AUST/NH4', 'Lactobacillus otakiensis DSM 19908 = JCM 15040', 'Lactobacillus kisonensis F0435', 'Paenibacillus sp. Y412MC10', 'Galeopterus variegatus', 'Oscillatoria nigro-viridis PCC 7112', 'Burkholderia lata', 'Lactobacillus fabifermentans T30PCM01', 'Cystoisospora suis', 'Geoalkalibacter subterraneus', 'Paenibacillus riograndensis SBR5', 'Sphingobium sp. YBL2', 'Pelosinus sp. UFO1', 'Dialister succinatiphilus YIT 11850', 'Barnesiella intestinihominis YIT 11860', 'Parasutterella excrementihominis YIT 11859', 'Acinetobacter soli', 'Aequorivita capsosiphonis DSM 23843', 'Shewanella marina JCM 15074', 'Corynebacterium ulceribovis DSM 45146', 'Flavobacteria bacterium MS024-2A', 'Serratia sp. SCBI', 'Campylobacter peloridis LMG 23910', 'Desulfonatronospira thiodismutans ASO3-1', 'Halarchaeum acidiphilum MH1-52-1', 'Mesorhizobium metallidurans STM 2683', 'Corynebacterium sputi DSM 45148', 'Marinobacter sp. BSs20148', 'Litoreibacter arenae DSM 19593', 'Leucobacter chironomi DSM 19883', 'Brachymonas chironomi DSM 19884', 'Megamonas rupellensis DSM 19944', 'Bacillus velezensis FZB42', 'Dyadobacter alkalitolerans DSM 23607', 'Rhizobium alamii', 'Chryseobacterium palustre DSM 21579', 'Psychrobacter sp. TB15', 'Arthrobacter sp. TB 23', 'Spirosoma panaciterrae DSM 21099', 'Thermoanaerobacter pseudethanolicus ATCC 33223', 'Thauera sp. 63', 'Campylobacter subantarcticus LMG 24377', 'Candidatus Nitrososphaera gargensis Ga9.2', 'Brevibacillus panacihumi W25', 'Arenimonas oryziterrae DSM 21050 = YC6267', 'Flavobacterium rivuli WB 3.3-2 = DSM 21788', 'Borreliella finlandensis', 'Candidatus Korarchaeum cryptofilum OPF8', 'Tepidanaerobacter acetatoxydans Re1', 'Metarhizium brunneum ARSEF 3297', 'Streptomyces avicenniae', 'Glaciibacter superstes DSM 21135', 'Citreicella sp. SE45', 'Porphyromonas bennonis DSM 23058 = JCM 16335', 'Thermodesulfatator atlanticus DSM 21156', 'Butyricicoccus pullicaecorum 1.2', 'Thalassospira profundimaris WP0211', 'Deinococcus gobiensis I-0', 'Eggerthella sp. YY7918', 'Streptococcus porci DSM 23759', 'Aeromonas diversa CDC 2478-85', 'Salisaeta longa DSM 21114', 'Flavobacterium sasangense DSM 21067', 'Kushneria aurantia DSM 21353', 'Jejuia pallidilutea', 'Haloterrigena salina JCM 13891', 'Novosphingobium acidiphilum DSM 19966', 'Chromera velia CCMP2878', 'Rheinheimera sp. A13L', 'Leisingera caerulea DSM 24564', 'Cinara cedri', 'Peptoniphilus duerdenii ATCC BAA-1640', 'Cloacibacillus evryensis DSM 19522', 'Bradyrhizobium genosp. SA-4 str. CB756', 'Pedobacter sp. V48', 'Oceanimonas sp. GK1', 'Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2', 'Methylacidiphilum infernorum V4', 'Vibrio azureus NBRC 104587', 'Dictyoglomus turgidum DSM 6724', 'Caloramator australicus RC3', 'Lacticigenium naphtae DSM 19658', 'Prevotella falsenii DSM 22864 = JCM 15124', 'Nesterenkonia alba DSM 19423', 'Muricauda lutaonensis', 'Providencia burhodogranariea DSM 19968', 'Providencia sneebia DSM 19967', 'Jeotgalicoccus marinus DSM 19772', 'Pontibacillus litoralis JSM 072002', 'Pontibacillus halophilus JSM 076056 = DSM 19796', 'Pantoea sp. aB', 'Citromicrobium sp. JLT1363', 'Bifidobacterium mongoliense DSM 21395', 'Lactobacillus sucicola DSM 21376 = JCM 15457', 'Alcanivorax hongdengensis A-11-3', 'Deinococcus aquatilis DSM 23025', 'Elaphomyces granulatus', 'Ectothiorhodospira sp. PHS-1', 'Brucella sp. NVSL 07-0026', 'Brucella sp. 83/13', 'Acinetobacter sp. NIPH 817', 'Pseudomonas caeni DSM 24390', 'Sphingobium lactosutens DS20', 'Trichophyton mentagrophytes', 'Marinobacter santoriniensis NKSG1', 'Acinetobacter sp. ATCC 27244', 'Thiothrix lacustris DSM 21227', 'Haloglycomyces albus DSM 45210', 'Oceanibaculum indicum P24', 'Listeria marthii FSL S4-120', 'Thecamonas trahens', 'Rhodoluna lacicola', 'Pelagibacterium halotolerans B2', 'Flavobacteriaceae bacterium 3519-10', 'Actinopolymorpha alba DSM 45243', 'Mesorhizobium australicum WSM2073', 'Psychrobacter lutiphocae DSM 21542', 'Rudaea cellulosilytica DSM 22992', 'Thermus islandicus DSM 21543', 'Corynebacterium lubricantis DSM 45231', 'Peronospora effusa', 'Actinoplanes subtropicus', 'Geobacillus sp. Y412MC61', 'Actinomyces johnsonii F0510', 'Butyricimonas synergistica DSM 23225', 'Thioalkalivibrio sp. AKL11', 'Thioalkalivibrio sp. ALJ24', 'Alishewanella jeotgali KCTC 22429', 'Paraoerskovia marina DSM 21750', 'Sporothrix brasiliensis 5110', 'Hydrogenobaculum sp. 3684', 'Hydrogenobaculum sp. HO', 'Hydrogenobaculum sp. SN', 'Mycobacterium vulneris', 'Phycisphaera mikurensis NBRC 102666', 'Pseudogulbenkiania ferrooxidans 2002', 'Geobacillus sp. Y412MC52', 'Pseudonocardia acaciae DSM 45401', 'Aromatoleum aromaticum EbN1', 'Caldicoprobacter oshimai DSM 21659', 'Sediminimonas qiaohouensis DSM 21189', 'Salinarimonas rosea DSM 21201', 'Erysipelotrichaceae bacterium 5_2_54FAA', 'Ruminococcaceae bacterium D16', 'Cryptococcus gattii VGIII', 'Dehalogenimonas lykanthroporepellens BL-DC-9', 'Pseudomonas pelagia CL-AP6', 'Vibrio breoganii 1C10', 'Alishewanella agri BL06', 'Cobetia crustatorum', 'Halomonas jeotgali Hwa', 'Photobacterium leiognathi lrivu.4.1', 'Chlorella variabilis', 'Thiomonas sp. CB2', 'Flavobacterium chungangense LMG 26729', 'Galbibacter marinus', 'Staphylococcus massiliensis S46', 'Novosphingobium sp. Rr 2-17', 'Bacteroides sp. D1', 'Bacteroides sp. D2', 'Clostridium sp. D5', 'Coprobacillus sp. D7', 'Candidatus Liberibacter solanacearum CLso-ZC1', 'Propionibacterium acidifaciens DSM 21887', 'Corynebacterium freiburgense DSM 45254', 'Chryseobacterium piperi', 'Lentibacillus jeotgali', 'Salinicoccus carnicancri Crm', 'Aeromonas lacus', 'Aureobasidium namibiae CBS 147.97', 'Lysinibacillus sinduriensis BLB-1 = JCM 15800', 'Aliagarivorans taiwanensis DSM 22990', 'Prevotella sp. C561', 'Streptococcus sp. C300', 'Streptococcus sp. M143', 'Streptococcus sp. M334', 'Acidianus hospitalis W1', 'Salinisphaera hydrothermalis C41B8', 'Parabacteroides sp. D13', 'Scedosporium apiospermum', 'Geoglobus acetivorans', "Saccharomycetaceae sp. 'Ashbya aceri'", 'Metarhizium robertsii ARSEF 23', 'Dickeya poaceiphila', 'Cladophialophora immunda', 'Pseudoalteromonas lipolytica SCSIO 04301', 'Methanocella paludicola SANAE', 'Ochrobactrum rhizosphaerae SJY1', 'Psychrobacter sp. G', 'Encephalitozoon romaleae SJ-2008', 'Absidia idahoensis var. thermophila', 'Thermoanaerobacter sp. X513', 'Francisella salina', 'Candidatus Hodgkinia cicadicola Dsem', 'Pandoraea oxalativorans', 'Bacillus gaemokensis', 'Bacillus manliponensis', 'Parabacteroides gordonii MS-1 = DSM 23371', 'Pseudomonas taeanensis MS-3', 'Corynebacterium maris DSM 45190', 'Phialocephala subalpina', 'Polynucleobacter necessarius STIR1', 'Polynucleobacter asymbioticus QLW-P1DMWA-1', 'Streptomyces iranensis', 'Indibacter alkaliphilus LW1', 'Enterorhabdus mucosicola DSM 19490', 'Bacillus cytotoxicus NVH 391-98', 'Geobacillus sp. Y4.1MC1', 'Thermococcus paralvinellae', 'Rubidibacter lacunae KORDI 51-2', 'Thermoanaerobacter mathranii subsp. mathranii str. A3', 'Synechococcus sp. KORDI-49', 'Synechococcus sp. KORDI-52', 'Bacteroides sp. D20', 'Bacteroides sp. D22', 'Nematocida parisii', 'Oceanobacillus manasiensis', 'Terribacillus aidingensis', 'Myripristis murdjan', 'Pseudomonas chlororaphis', 'Rhizophagus irregularis', 'Patulibacter americanus DSM 16676', 'Kazachstania naganishii', 'Brevundimonas naejangsanensis', 'Prevotella fusca JCM 17724', 'Prevotella scopos JCM 17725', 'Alteromonas australica', 'Methylacidiphilum fumariolicum SolV', 'Streptomyces sp. SPB78', 'Streptomyces sp. AA4', 'Ignavibacterium album JCM 16511', 'Roseivivax isoporae LMG 25204', 'Piliocolobus tephrosceles', 'Pantoea sp. At-9b', 'Pantoea sp. Sc1', 'Mesorhizobium opportunistum WSM2075', 'Allofrancisella guangzhouensis', 'Rhodopirellula sp. SWK7', 'Prevotella aurantiaca JCM 15754', 'Desulfovibrio sp. U5L', 'Brenneria sp. EniD312', 'Corynebacterium pyruviciproducens ATCC BAA-1742', 'Fibroporia radiculosa', 'Meiothermus rufus DSM 22234', 'Neisseria wadsworthii 9715', 'Neisseria shayeganii 871', 'Dinoponera quadriceps', 'Asaia platycodi SF2.1', 'Harpegnathos saltator', 'Arenibacter algicola', 'Polycyclovorans algicola TG408', 'Methylocystis sp. ATCC 49242', 'Blattabacterium sp. (Blattella germanica) str. Bge', 'Bacteroides clarus YIT 12056', 'Bacteroides fluxus YIT 12057', 'Bacteroides oleiciplenus YIT 12058', 'Alistipes indistinctus YIT 12060', 'Odoribacter laneus YIT 12061', 'Slackia piriformis YIT 12062', 'Collinsella tanakaei YIT 12063', 'Succinatimonas hippei YIT 12066', 'Phascolarctobacterium succinatutens YIT 12067', 'Sphingobium sp. SYK-6', 'Sphingomonas sp. Mn802worker', 'Tomitella biformata AHU 1821', 'Thiorhodovibrio sp. 970', 'Saccharomonospora marina XMU15', 'Acinetobacter rudis CIP 110305', 'Thalassobium sp. R2A62', 'Prevotella saccharolytica F0055', 'Bifidobacterium bohemicum DSM 22767', 'Bifidobacterium actinocoloniiforme DSM 22766', 'Pyramidobacter piscolens W5455', 'Acidobacteriaceae bacterium KBS 146', 'Hoyosella subflava DQS3-9A1', 'Lactobacillus florum 2F', 'Burkholderia sp. CCGE1001', 'Burkholderia sp. CCGE1003', 'Clostridium sp. DL-VIII', 'Neisseria sp. oral taxon 014 str. F0314', 'Tatumella morbirosei', 'Silicibacter sp. TrichCH4B', 'Methanocaldococcus sp. FS406-22', 'Streptomyces sp. e14', 'Enterocytozoon hepatopenaei', 'Plasmodium gaboni', 'Methylobacterium sp. MB200', 'Micromonospora sp. L5', 'Cesiribacter andamanensis AMV16', 'Clostridium sp. ATCC BAA-442', 'Actinomyces sp. oral taxon 848 str. F0332', 'Acetomicrobium hydrogeniformans ATCC BAA-1850', 'Anaerostipes hadrus DSM 3319', 'Actinoplanes sp. N902-109', 'Sulfuricella denitrificans skB26', 'Fibrella aestuarina BUZ 2', 'Aurantimonas manganoxydans SI85-9A1', 'Kosmotoga olearia TBF 19.5.1', 'Actinomyces sp. oral taxon 180 str. F0310', 'Fretibacterium fastidiosum', 'Oribacterium sp. oral taxon 078 str. F0262', 'Bacteroidetes oral taxon 274 str. F0058', 'Peptoniphilus sp. oral taxon 386 str. F0131', 'Paenibacillus sp. oral taxon 786 str. D14', 'Prevotella sp. oral taxon 299 str. F0039', 'Prevotella sp. oral taxon 317 str. F0108', 'Actinomyces sp. oral taxon 849 str. F0330', 'Albugo laibachii', 'Prevotella sp. oral taxon 472 str. F0295', 'Pseudogymnoascus destructans 20631-21', 'Pandoraea vervacti', 'Halanaerobium hydrogeniformans', 'Ruminococcus sp. SR1/5', 'Flavobacterium beibuense F44-8', 'Candidatus Koribacter versatilis Ellin345', 'Ralstonia sp. 5_2_56FAA', 'Lachnospiraceae bacterium 1_1_57FAA', 'Lachnospiraceae bacterium 2_1_58FAA', 'Lachnospiraceae bacterium 6_1_63FAA', 'Lachnospiraceae bacterium 5_1_57FAA', 'Lachnospiraceae bacterium 3_1_57FAA_CT1', 'Lachnospiraceae bacterium 7_1_58FAA', 'Lachnospiraceae bacterium 9_1_43BFAA', 'Lachnospiraceae bacterium 5_1_63FAA', 'Pseudomonas sp. H2', 'Lachnospiraceae bacterium 1_4_56FAA', 'Lachnospiraceae bacterium 6_1_37FAA', 'Erysipelotrichaceae bacterium 21_3', 'Erysipelotrichaceae bacterium 3_1_53', 'Parabacteroides sp. D25', 'Porphyromonas sp. 31_2', 'Paraburkholderia acidipaludis NBRC 101816', 'Olsenella sp. oral taxon 809 str. F0356', 'Brachybacterium squillarum M-6-3', "Candidatus Parvarchaeum acidiphilum ARMAN-4_'5-way FS'", "Candidatus Parvarchaeum acidophilus ARMAN-5_'5-way FS'", 'Fibrisoma limi BUZ 3', 'Methylocapsa aurea', 'Leucobacter salsicius M1-8', 'Borreliella bavariensis PBi', 'Bacillus oceanisediminis 2691', 'Dietzia alimentaria 72', 'Campylobacter sp. 10_1_50', 'Clostridium sp. 7_3_54FAA', 'Coprobacillus sp. 3_3_56FAA', 'Desulfovibrio sp. 6_1_46AFAA', 'Eggerthella sp. 1_3_56FAA', 'Klebsiella sp. 4_1_44FAA', 'Neisseria sp. GT4A_CT1', 'Tannerella sp. 6_1_58FAA_CT1', 'Lachnospiraceae bacterium 3_1_46FAA', 'Lachnospiraceae bacterium 8_1_57FAA', 'Subdoligranulum sp. 4_3_54A2FAA', 'Bacillus sp. 7_6_55CFAA_CT2', 'Bacillus sp. BT1B_CT2', 'Bacillus sp. 2_A_57_CT2', 'Aquimarina macrocephali JAMB N27', 'Afipia sp. 1NLS2', 'Rhodanobacter denitrificans', 'Bacillus sp. 1NLA3E', 'Raphidiopsis brookii D9', 'Thelohanellus kitauei', 'Geminocystis herdmanii PCC 6308', 'Paenibacillus pini JCM 16418', 'Candidatus Profftella armatura', 'Microvirga aerilata', 'Candidatus Uzinura diaspidicola str. ASNER', 'Candidatus Methylomirabilis oxyfera', 'Leptotrichia sp. oral taxon 225 str. F0581', 'Alloprevotella rava F0323', 'Propionibacterium sp. oral taxon 192 str. F0372', 'Selenomonas artemidis F0399', 'Veillonella sp. oral taxon 158 str. F0412', 'Veillonella sp. oral taxon 780 str. F0422', 'Enterorhabdus caecimuris B7', 'Bacteroides sartorii dnLKV3', 'Microbacterium yannicii PS01', 'Cardinium endosymbiont cBtQ1 of Bemisia tabaci', 'Aciduliprofundum sp. MAR08-339', 'Candidatus Babela massiliensis', 'Bacteroides faecis MAJ27', 'Vibrio sp. RC586', 'Lachancea nothofagi', 'Fervidicoccus fontis Kam940', 'Sphingomonas sp. PR090111-T3T-6A', 'Pseudomonas sp. S9', 'Lichtheimia ramosa', 'Oribacterium sp. NK2B42', 'Colletotrichum fructicola Nara gc5', 'Rhizobium vignae', 'Geobacillus sp. C56-T3', 'Fonticula alba', 'Caldisericum exile AZM16c01', 'Vibrio atlanticus LGP32', 'Enterobacteriaceae bacterium strain FGI 57', 'Halogranum salarium B-1', 'Bilophila sp. 4_1_30', "Marssonina brunnea f. sp. 'multigermtubi' MB_m1", 'Virgibacillus alimentarius', 'Megasphaera genomosp. type_1 str. 28L', 'Vibrio caribbeanicus ATCC BAA-2122', 'Vibrio sp. N418', 'Novosphingobium sp. PP1Y', 'Saccharomyces arboricola H-6', 'Capnocytophaga sp. oral taxon 329 str. F0087', 'Actinomyces sp. oral taxon 171 str. F0337', 'Colletotrichum chlorophyti', 'Colletotrichum tofieldiae', 'Bradyrhizobiaceae bacterium SG-6C', 'Frankia sp. QA3', 'Actinomyces sp. oral taxon 178 str. F0338', 'Capnocytophaga sp. oral taxon 338 str. F0234', 'Colletotrichum fioriniae', 'Streptomyces sp. GXT6', 'Actinomyces sp. oral taxon 170 str. F0386', 'Actinomyces sp. oral taxon 172 str. F0311', 'Actinomyces sp. oral taxon 175 str. F0384', 'Actinomyces sp. oral taxon 181 str. F0379', 'Actinomyces sp. oral taxon 448 str. F0400', 'Aggregatibacter sp. oral taxon 458 str. W10330', 'Atopobium sp. oral taxon 199 str. F0494', 'Atopobium sp. oral taxon 810 str. F0209', 'Capnocytophaga sp. oral taxon 324 str. F0483', 'Capnocytophaga sp. oral taxon 326 str. F0382', 'Capnocytophaga sp. oral taxon 332 str. F0381', 'Capnocytophaga sp. oral taxon 336 str. F0502', 'Capnocytophaga sp. oral taxon 380 str. F0488', 'Fusobacterium sp. oral taxon 370 str. F0437', 'Leptotrichia sp. oral taxon 215 str. W9775', 'Microbacterium sp. oral taxon 186 str. F0373', 'Neisseria sp. oral taxon 020 str. F0370', 'Oribacterium sp. oral taxon 108 str. F0425', 'Peptoniphilus sp. oral taxon 375 str. F0436', 'Porphyromonas sp. oral taxon 278 str. W7784', 'Prevotella sp. oral taxon 306 str. F0472', 'Prevotella sp. oral taxon 473 str. F0040', 'Selenomonas sp. oral taxon 137 str. F0430', 'Selenomonas sp. oral taxon 138 str. F0429', 'Selenomonas sp. oral taxon 149 str. 67H29BP', 'Streptococcus sp. oral taxon 056 str. F0418', 'Streptococcus sp. oral taxon 058 str. F0407', 'Streptococcus sp. oral taxon 071 str. 73H25AP', 'Actinobaculum sp. oral taxon 183 str. F0552', 'Lachnospiraceae bacterium oral taxon 082 str. F0431', 'Lachnospiraceae oral taxon 107 str. F0167', 'Parvimonas sp. oral taxon 393 str. F0440', 'Candidatus Atelocyanobacterium thalassa isolate SIO64986', 'Alteromonas naphthalenivorans', 'Ensifer sojae CCBAU 05684', 'Caldicellulosiruptor obsidiansis OB47', 'Hyphopichia burtonii NRRL Y-1933', 'Hyphomicrobium sp. MC1', 'Plasmodium sp. DRC-Itaito', 'Nitratireductor indicus C115', 'Acidovorax ebreus TPSY', 'Vibrio genomosp. F10 str. ZF-129', 'Anncaliia algerae PRA109', 'Leptothrix ochracea L12', 'Rahnella sp. Y9602', 'Delftia sp. Cs1-4', 'Melanaphis sacchari', 'Collinsella sp. 4_8_47FAA', 'Lachnospiraceae bacterium 2_1_46FAA', 'Sphingobacterium sp. 21', 'Methylocystis sp. SB2', 'Ahrensia sp. R2A130', 'Roseibium sp. TrichSKD4', 'Sphingomonas sp. MM-1', 'Olleya sp. VCSM12', 'Mobilicoccus pelagius NBRC 104925', 'Aspergillus fumigatus Af293', 'Oceanobacillus kimchii X50', 'Azoarcus sp. KH32C', 'Pseudogulbenkiania sp. NH8B', 'Thioalkalivibrio sp. ALSr1', 'Sulfuritalea hydrogenivorans sk43H', 'Klebsiella sp. MS 92-3', 'Coprococcus sp. ART55/1', 'Halobacterium sp. DL1', 'Escherichia sp. TW09308', 'Winogradskyella sp. PG-2', 'Photobacterium aphoticum', 'Methylophaga nitratireducenticrescens', 'Methylophaga frappieri', 'Clostridium sp. BNL1100', 'Bacillus sp. WP8', 'Acinetobacter indicus CIP 110367', 'Burkholderia insecticola', 'Burkholderia sp. RPE67', 'Sporosarcina newyorkensis 2681', 'Massilia consociata', 'Bifidobacterium callitrichos DSM 23973', 'Bifidobacterium stellenboschense', 'Bifidobacterium biavatii DSM 23969', 'Siansivirga zeaxanthinifaciens CC-SAMT-1', 'Haemophilus sp. oral taxon 851 str. F0397', 'Paraburkholderia bannensis NBRC 103871', 'Moraxella macacae 0408225', 'Pyrenochaeta sp. DS3sAY3a', 'Stagonospora sp. SRC1lsM3a', 'Vibrio jasicida MWB 21', 'Citreicella sp. 357', 'Candidatus Puniceispirillum marinum IMCC1322', 'Serratia sp. AS12', 'Serratia sp. AS13', 'Sinorhizobium sp. CCBAU 05631', 'Opitutaceae bacterium TAV5', 'Burkholderiaceae bacterium PBA', 'Nesterenkonia sp. F', 'Sugiyamaella lignohabitans', 'Peptoanaerobacter stomatis', 'Stomatobaculum longum', 'Kipferlia bialata', 'Fonsecaea nubica', 'Cryptosporidium ubiquitum', 'Trichoderma parareesei', 'Caenispirillum salinarum AK4', 'Agrobacterium sp. H13-3', 'Gemmatirosa kalamazoonesis', 'Streptomyces sp. SirexAA-E', 'Thermincola potens JR', 'Burkholderiales bacterium JOSHI_001', 'Microvirga lotononidis', 'Oscillatoriales cyanobacterium C42_A2020_001', 'Schizosaccharomyces cryophilus', 'Methanothermobacter sp. CaT2', 'Chloroflexus sp. Y-396-1', 'Methanobacterium paludis', 'Ogataea angusta', 'Terriglobus saanensis SP1PR4', 'Bacteroides stercorirosoris JCM 17103', 'Lactobacillus pasteurii DSM 23907 = CRBIP 24.76', 'Celeribacter baekdonensis B30', 'Mycolicibacter sinensis', 'Peptoniphilus sp. 1-1', 'Methyloferula stellata AR4', 'Ruminococcus sp. NK3A76', 'Clostridiales bacterium NK3B98', 'Erysipelotrichaceae bacterium NK3D112', 'Lachnospiraceae bacterium NK4A136', 'Lachnospiraceae bacterium NK4A144', 'Lachnospiraceae bacterium NK4A179', 'Methanobacterium lacus', 'Chryseobacterium sp. StRB126', 'Pseudodesulfovibrio piezophilus C1TLV30', 'Cutaneotrichosporon oleaginosum', 'Plasmodium sp. gorilla clade G2', 'Fulvivirga imtechensis AK7', 'Methanoregula formicica SMSP', 'Schleiferia thermophila str. Yellowstone', 'Candidatus Zinderia insecticola CARI', 'Mageeibacillus indolicus UPII9-5', 'Fukomys damarensis', 'Desulfosporosinus acidiphilus SJ4', 'Methylovorus sp. MP688', 'Candidatus Nanosalina sp. J07AB43', 'Candidatus Nanosalinarum sp. J07AB56', 'Plautia stali symbiont', 'Nonlabens ulvanivorans', 'Phytopythium vexans DAOM BR484', 'Clostridium sp. HGF2', 'Alistipes sp. HGB5', 'Fusarium sp. FOSC 3-a', 'Actinokineospora spheciospongiae', 'SAR116 cluster alpha proteobacterium HIMB100', 'Pseudovibrio sp. FO-BEG1', 'Caldanaerobacter subterraneus subsp. tengcongensis MB4', 'Mycolicibacterium iranicum UM_TJL', 'Desulfosporosinus sp. OT', 'Knoellia flava TL1', 'Kangiella geojedonensis', 'Rhynchosporium commune', 'Rhynchosporium agropyri', 'Asinibacterium sp. OR53', 'Balearica regulorum', 'Synechocystis sp. PCC 7509', 'Bartonella florencae', 'Pseudomonas brassicacearum', 'Nonlabens marinus S1-08', 'Serratia sp. M24T3', 'Desulfosarcina sp. BuS5', 'Aminobacter sp. J41', 'Bacillus sp. J33', 'Bacillus sp. J37', 'Chelativorans sp. J32', 'Paenibacillus sp. J14', 'Paracoccus sp. J39', 'Luteimonas sp. J29', 'Nocardioides sp. J54', 'Rhizopus delemar', 'Mogibacterium sp. CM50', 'Desulfurispirillum indicum S5', 'Marinomonas posidonica IVIA-Po-181', 'Actinomyces sp. ICM47', 'Atopobium sp. BS2', 'Selenomonas sp. FOBRC6', 'Selenomonas sp. FOBRC9', 'Shuttleworthia sp. MSX8B', 'Streptococcus sp. CM6', 'Veillonella sp. AS16', 'Lachnoanaerobaculum sp. OBRC5-5', 'Lachnoanaerobaculum sp. MSX33', 'Casaltella massiliensis', 'Fenollaria massiliensis', 'Levyella massiliensis', 'Anaerococcus provencensis', 'Bacteroidetes bacterium SCGC AAA027-N21', 'Granulicella mallensis MP5ACTX8', 'Granulicella tundricola MP5ACTX9', 'Desulfovibrio sp. X2', 'Burkholderia sp. WSM2230', 'Hippea jasoniae', 'Hippea sp. KM1', 'Arcobacter sp. L', 'Gordonia neofelifaecis NRRL B-59395', 'Diplocarpon rosae', 'Salpingoeca rosetta', 'Arenimonas metalli CF5-1', 'Paraburkholderia dilworthii', 'Fusarium proliferatum', 'Palaeococcus pacificus DY20341', 'Bacillus sp. 17376', 'Fonsecaea multimorphosa CBS 102226', 'Leuconostoc sp. C2', 'Deinococcus wulumuqiensis R12', 'Aquimarina agarivorans', 'Morus notabilis', 'Ruegeria conchae', 'Lacinutrix sp. 5H-3-7-4', 'Glaciecola sp. 4H-3-7+YE-5', 'Dokdonia sp. 4H-3-7-5', 'Bifidobacterium reuteri DSM 23975', 'Heterobasidion irregulare', 'Mycoplasma parvum str. Indiana', 'Staphylococcus argenteus M21126', 'Vulcanisaeta moutnovskia 768-28', 'Ruegeria halocynthiae', 'Gillisia sp. CAL575', 'Staphylococcus agnetis', 'Lebetimonas sp. JS170', 'Polymorphum gilvum SL003B-26A1', 'Vibrio sp. HENC-03', 'Erosia sp. biolep03', 'Candidatus Kinetoplastibacterium desouzaii TCC079E', 'Candidatus Kinetoplastibacterium galatii TCC219', 'Candidatus Kinetoplastibacterium oncopeltii TCC290E', 'Desmospora sp. 8437', 'Porphyromonas sp. KLE 1280', 'Streptomyces himastatinicus ATCC 53653', 'Halomonas sp. TD01', 'Methylophaga lonarensis MPL', 'Selenomonas sp. F0473', 'Streptococcus sp. F0441', 'Streptococcus sp. F0442', 'Sedimentitalea nanhaiensis DSM 24252', 'Megasphaera sp. UPII 135-E', 'Cryobacterium roopkundense', 'Daldinia sp. EC12', 'Hypoxylon sp. CI-4A', 'Psychrobacter sp. 1501(2011)', 'Leisingera sp. ANG1', 'Candidatus Pelagibacter sp. IMCC9063', 'Verrucosispora maris AB-18-032', 'Fimbriimonas ginsengisoli Gsoil 348', 'Ogataea parapolymorpha DL-1', 'Metallosphaera cuprina Ar-4', 'Listeria weihenstephanensis FSL R9-0317', 'Defluviitoga tunisiensis', 'Candidatus Nitrosarchaeum limnium SFB1', 'Sphingomonas sp. S17', 'Pusillimonas sp. T7-7', 'Pyrococcus yayanosii CH1', 'Candidatus Tremblaya phenacola PAVE', 'Exophiala sideris', 'Nannospalax galili', 'Endozoicomonas montiporae', 'Pseudomonas sp. StFLB209', 'Acinetobacter sp. P8-3-8', 'Sphingomonas sp. KC8', 'Caloramator sp. ALD01', 'Campylobacter volucris LMG 24379', 'Corynebacterium nuruki S6-4', 'Bacillus timonensis', 'Brevibacterium senegalense', 'Kurthia sp. Dielmo', 'Kurthia massiliensis', 'Kurthia senegalensis', 'Exophiala aquamarina CBS 119918', 'Marinobacter adhaerens HP15', 'Thioalkalivibrio sulfidiphilus HL-EbGr7', 'Nitrososphaera viennensis EN76', 'Paenibacillus sp. HW567', 'Legionella massiliensis', 'Deferrisoma camini S3R1', 'Dehalobacter sp. FTH1', 'Idiomarina sp. A28L', 'Bradyrhizobium sp. WSM2793', 'Bradyrhizobium sp. WSM3983', 'Mesorhizobium sp. WSM3224', 'Mesorhizobium sp. WSM3626', 'Bradyrhizobium sp. ARR65', 'Drosophila rhopaloa', 'Ensifer sp. WSM1721', 'Candidatus Arthromitus sp. SFB-rat-Yit', 'Wickerhamomyces ciferrii', 'Aureobasidium subglaciale EXF-2481', 'Clostridium sp. SY8519', 'Rhizobium sp. IBUN', 'Ochrovirga pacifica', 'Thermococcus sp. 4557', 'Acidiphilium sp. PM', 'Demequina mangrovi', 'Citricoccus sp. CH26A', 'Oceaniovalibus guishaninsula JLT2003', 'Aminicenantes bacterium SCGC AAA252-A02', 'Zymoseptoria brevis', 'Zymoseptoria tritici', 'Candidatus Moranella endobia PCIT', 'Paracoccidioides lutzii', 'Anditalea andensis', 'Paenibacillus sp. Aloe-11', 'Verticillium alfalfae VaMs.102', 'Acetobacteraceae bacterium AT-5844', 'Thermoplasmatales archaeon BRNA1', 'Methylotenera versatilis 301', 'Psychrobacter sp. TB67', 'Grimontia indica', 'Nocardia sp. BMG51109', 'Ensifer sp. BR816', 'Azospirillum baldaniorum', 'Amycolatopsis halophila YIM 93223', 'Aspergillus luchuensis IFO 4308', 'Halonotius sp. J07HN4', 'Bacillus sp. NSP22.2', 'Tetrapisispora blattae', 'Caballeronia grimmiae', 'Lachancea dasiensis CBS 10888', 'Porticoccus hydrocarbonoclasticus MCTG13d', 'Armillaria solidipes', 'Pantoea rwandensis', 'Thiolapillus brandeum', 'Acetobacter okinawensis JCM 25146', 'Staphylococcus sp. HGB0015', 'Paenisporosarcina sp. HGH0030', 'Streptomyces sp. HGB0020', 'Parabacteroides sp. HGS0025', 'Bacteroides sp. HPS0048', 'Coprococcus sp. HPP0074', 'Coprococcus sp. HPP0048', 'Serinicoccus profundi MCCC 1A05965', 'Haemophilus sputorum CCUG 13788', 'Paenibacillus sp. HGH0039', 'Corynebacterium sp. HFH0082', 'Rhizobium mesoamericanum STM3625', 'Leucobacter chromiiresistens JG 31', 'Citrobacter sp. S-77', 'Saccharomyces eubayanus', 'Candidatus Aquiluna sp. IMCC13023', 'Hepatospora eriocheir', 'Enterospora canceri', 'Aquimarina agarilytica ZC1', 'Bartonella sp. DB5-6', 'Streptococcus sp. SK140', 'Streptococcus sp. SK643', 'Methylobacterium sp. GXF4', 'Arthrobacter sp. PAO19', 'Burkholderia sp. YI23', 'Coprobacter fastidiosus NSB1', 'Limnohabitans sp. Rim28', 'Limnohabitans sp. Rim47', 'Arthrobacter sp. MA-N2', 'Paracoccus sp. N5', 'Methylopila sp. M107', 'Methylobacterium sp. 10', 'Methylobacterium sp. 77', 'Methylophilaceae bacterium 11', 'Pyrobaculum ferrireducens', 'Actinomyces sp. ICM39', 'Clostridium sp. MSTE9', 'Rickettsia philipii str. 364D', 'Paenirhodobacter enshiensis', 'Penicillium rubens', 'Thermus sp. CCB_US3_UF1', 'Metallosphaera yellowstonensis MK1', 'Atopobium sp. BV3Ac4', 'Propionimicrobium sp. BV2F7', 'Peptoniphilus sp. BV3C26', 'Coriobacteriaceae bacterium BV3Ac1', 'Megasphaera sp. BV3C16-1', 'Psychrobacter sp. PAMC 21119', 'Sphingomonas sp. PAMC 26605', 'Sphingomonas sp. PAMC 26617', 'Methylophilus sp. 5', 'Arthrobacter sp. 31Y', 'Hoeflea sp. 108', 'Vibrio sp. EJY3', 'Elizabethkingia anophelis NUHP1', 'Brevibacillus massiliensis', 'Actinomyces sp. ph3', 'Halomonas sp. GFAJ-1', 'Arthrobacter sp. Rue61a', 'Rhizobium grahamii CCGE 502', 'Sphingopyxis sp. LC363', 'Methylopila sp. 73B', 'Mycobacterium sp. 141', 'Actinomadura flavalba DSM 45200', 'Corynebacterium doosanense CAU 212 = DSM 45436', 'Gordonia kroppenstedtii DSM 45133', 'Fodinicurvata fenggangensis DSM 21160', 'Fodinicurvata sediminis DSM 21159', 'Halomonas zhanjiangensis DSM 21076', 'Hirschia maritima DSM 19733', 'Pedobacter oryzae DSM 19973', 'Ponticaulis koreensis DSM 19734', 'Rubellimicrobium mesophilum DSM 19309', 'Thiomicrorhabdus sp. Kp2', 'Gonapodya prolifera JEL478', 'SAR86 cluster bacterium SAR86A', 'SAR86 cluster bacterium SAR86B', 'Magnetococcus marinus MC-1', 'Treponema sp. JC4', 'Pseudomonas sp. P179', 'Limimaricola cinnabarinus LL-001', 'Bosea sp. 117', 'Bradyrhizobium sp. DOA9', 'Paenibacillus beijingensis', 'Bacillus sp. JS', 'Paraglaciecola arctica BSs20135', 'Weissella oryzae SG25', 'Marine Group I thaumarchaeote SCGC AB-629-I23', 'Nitrospina sp. AB-629-B18', 'Dehalobacter sp. CF', 'Sphaerochaeta globosa str. Buddy', 'Sphaerochaeta pleomorpha str. Grapes', 'Flavobacterium sp. 83', 'Methylobacterium sp. 88A', 'Xanthobacter sp. 126', 'Arthrobacter sp. 35W', 'Bacillus sp. 37MA', 'Rhizobium sp. CCGE 510', 'Melioribacter roseus P3M-2', 'Alkalihalobacillus ligniniphilus', 'Cellvibrio sp. BR', 'Klebsiella michiganensis E718', 'Nocardiopsis sp. CNT312', 'Streptomyces sp. CNH099', 'Saccharomonospora sp. CNQ490', 'Xanthomarina gelatinilytica', 'Endozoicomonas numazuensis', 'Clostridium arbusti SL206', 'Mycobacterium paraintracellulare', 'Lactobacillus curieae', 'Pseudomassariella vexata', 'Homolaphlyctis polyrhiza', 'Novosphingobium sp. AP12', 'Sphingobium sp. AP49', 'Rhizobium sp. CF080', 'Rhizobium sp. CF122', 'Flavobacterium sp. CF136', 'Herbaspirillum sp. CF444', 'Pseudomonas sp. GM21', 'Herbaspirillum sp. YR522', 'Phyllobacterium sp. YR531', 'Tritrichomonas foetus', 'Acinetobacter sp. CIP 101934', 'Acinetobacter sp. CIP 101966', 'Acinetobacter sp. CIP 102082', 'Acinetobacter sp. CIP 102129', 'Acinetobacter sp. CIP 102136', 'Acinetobacter sp. CIP 102143', 'Acinetobacter sp. CIP 102159', 'Acinetobacter sp. CIP 102529', 'Acinetobacter sp. CIP 102637', 'Acinetobacter sp. CIP 51.11', 'Acinetobacter sp. CIP 53.82', 'Acinetobacter sp. CIP 56.2', 'Acinetobacter sp. CIP 64.7', 'Acinetobacter sp. CIP A162', 'Lysinibacillus varians', 'Dehalobacter sp. DCA', 'Ornithinibacillus scapharcae TW25', 'Achromobacter arsenitoxydans SY8', 'Acinetobacter oleivorans DR1', 'Geminisphaera colitermitum TAV2', 'Pseudomonas furukawaii', 'Arthrobacter sp. 9MFCol3.1', 'Leifsonia sp. 109', 'Tsukamurella sp. 1534', 'Arthrobacter sp. 161MFSha2.1', 'Arthrobacter sp. 162MFSha1.1', 'Microbacterium sp. 292MF', 'Nematocida sp. 1 ERTm2', 'Streptomyces sp. LaPpAH-108', 'Streptomyces sp. MspMP-M5', 'Moorea producens 3L', 'Streptococcus sp. I-G2', 'Streptococcus sp. I-P16', 'Streptomyces sp. HmicA12', 'Tumebacillus flagellatus', 'Streptomyces sp. LaPpAH-95', 'Streptomyces sp. Amel2xE9', 'Streptomyces sp. ATexAB-D23', 'Streptomyces sp. BoleA5', 'Streptomyces sp. PsTaAH-124', 'Streptomyces sp. FxanaC1', 'Mycobacterium sp. 155', 'Thermotoga sp. Cell2', 'Thermotoga sp. 2812B', 'Arthrobacter sp. 135MFCol5.1', 'Thioalkalivibrio sp. ALJT', 'Thioalkalivibrio sp. ALD1', 'Thioalkalivibrio sp. ALMg11', 'Thioalkalivibrio sp. ALE31', 'Thiomonas sp. FB-Cd', 'Prevotella sp. 10(H)', 'Desulfurobacterium sp. TC5-1', 'Persephonella sp. IF05-L8', 'Persephonella sp. KM09-Lau-8', 'Kosakonia sacchari SP1', 'Thioalkalivibrio sp. ALJ7', 'Thioalkalivibrio sp. ALJ11', 'Thioalkalivibrio sp. ALJ16', "Leptospirillum sp. Group II 'C75'", 'Ustilaginoidea virens', 'Bordetella sp. FB-8', 'Nocardia sp. BMG111209', 'Brucella sp. 63/311', 'Ruminococcus bicirculans', 'Candidatus Nasuia deltocephalinicola str. NAS-ALF', 'Euryhalocaulis caribicus', 'Streptococcus sp. ACC21', 'Ruminococcus champanellensis 18P13 = JCM 17042', 'Pseudomonas donghuensis', 'Clostridium sp. 12(A)', 'Cronobacter condimenti 1330', 'Richelia intracellularis HH01', 'Imtechella halotolerans K1', 'Methylotenera sp. 73s', 'Sulfurovum sp. AR', 'Enterobacter sp. R4-368', 'Halomonas xinjiangensis', 'Draconibacterium orientale', 'Xanthobacteraceae bacterium 501b', 'Mycobacterium sp. MOTT36Y', 'Mycobacterium sp. H4Y', 'Streptomyces pratensis ATCC 33331', 'Bacillus sp. 123MFChir2', 'Nocardia sp. CNY236', 'Streptomyces sp. CNT372', 'Streptomyces sp. CNY243', 'Brucella sp. F5/06', 'Brucella sp. 56/94', 'Citrobacter sp. KTE30', 'Escherichia sp. KTE114', 'Citrobacter sp. KTE151', 'Escherichia sp. KTE11', 'Escherichia sp. KTE31', 'Citrobacter sp. KTE32', 'Vitrella brassicaformis CCMP3155', 'Rhodobacteraceae bacterium PD-2', 'Streptomyces sp. 142MFCol3.1', 'Streptomyces sp. 351MFTsu5.1', 'Streptomyces sp. 303MFCol5.2', 'Nocardia sp. 348MFTsu5.1', 'Mycobacterium sp. 360MFTsu5.1', 'Terracoccus sp. 273MFTsu3.1', 'Oxytricha trifallax', 'Sulfurimonas hongkongensis', 'Catenovulum agarivorans DS-2', 'Fischerella sp. PCC 9431', 'Fischerella sp. PCC 9605', 'Geitlerinema sp. PCC 7407', 'Gloeocapsa sp. PCC 7428', 'Microcoleus sp. PCC 7113', 'Oscillatoria sp. PCC 10802', 'Chamaesiphon minutus PCC 6605', 'Synechococcus sp. PCC 7502', 'Leptolyngbya sp. PCC 6406', 'Colletotrichum sublineola', 'Fischerella sp. PCC 9339', 'Sphingopyxis sp. MC1', 'Herbaspirillum sp. GW103', 'Methanocella conradii HZ254', 'Methanocella arvoryzae MRE50', 'Peptoniphilus rhinitidis 1-13', 'Sulfurimonas gotlandica GD1', 'Agrobacterium fabrum str. C58', 'Alcanivorax nanhaiticus', 'Microbacterium sp. C448', 'Komagataeibacter medellinensis NBRC 3288', 'Halomonas huangheensis', 'Bacillus xiamenensis', 'Bacillus zhangzhouensis', 'Arenitalea lutea', 'Candidatus Photodesmus blepharus', 'Mycoplasma feriruminatoris', 'Pseudomonas sp. M47T1', 'Cladophialophora psammophila', 'Deinococcus swuensis', 'Escherichia sp. KTE52', 'Klebsiella sp. KTE92', 'Escherichia sp. KTE96', 'Escherichia sp. KTE159', 'Myroides injenensis M09-0166', 'Pyrococcus sp. ST04', 'Mesotoga prima MesG1.Ag.4.2', 'Thioclava dalianensis', 'Blattabacterium sp. (Blaberus giganteus)', 'Rhodovulum sp. PH10', 'Flavobacterium sp. ACAM 123', 'Burkholderia sp. lig30', 'Lactobacillus hokkaidonensis JCM 18461', 'Snodgrassella alvi', 'Gilliamella apicola', 'Corvus moneduloides', 'Clostridium sp. Maddingley MBC34-26', 'Paenibacillus sp. OSY-SE', 'Mangrovimonas yunxiaonensis', 'Arthrobacter sp. M2012083', 'Janthinobacterium sp. HH01', 'Thermogladius calderae 1633', 'Anaerovibrio sp. RM50', 'Ruminobacter sp. RM87', 'Bacteriovorax sp. Seq25_V', 'Bacteriovorax sp. BAL6_X', 'Flavobacterium sp. F52', 'Lactobacillus oryzae JCM 18671', 'Halopiger salifodinae', 'Achlya hypogyna', 'Lactobacillus hominis DSM 23910 = CRBIP 24.179', 'Geobacter daltonii FRC-32', 'Acidaminococcus sp. HPA0509', 'Actinomyces sp. HPA0247', 'Corynebacterium sp. KPL1814', 'Corynebacterium sp. KPL1817', 'Corynebacterium sp. KPL1818', 'Corynebacterium sp. KPL1821', 'Corynebacterium sp. KPL1824', 'Corynebacterium sp. KPL1855', 'Corynebacterium sp. KPL1856', 'Corynebacterium sp. KPL1857', 'Corynebacterium sp. KPL1859', 'Corynebacterium sp. KPL1860', 'Dermabacter sp. HFH0086', 'Propionibacterium sp. HGH0353', 'Propionibacterium sp. KPL1838', 'Propionibacterium sp. KPL1844', 'Propionibacterium sp. KPL1852', 'Pseudomonas sp. HPB0071', 'Streptococcus sp. HPH0090', 'Streptomyces sp. HPH0547', 'Veillonella sp. HPA0037', 'Corynebacterium sp. KPL1986', 'Corynebacterium sp. KPL1989', 'Corynebacterium sp. KPL1995', 'Corynebacterium sp. KPL1996', 'Corynebacterium sp. KPL1998', 'Corynebacterium sp. KPL2004', 'Propionibacterium sp. KPL2005', 'Propionibacterium sp. KPL2009', 'Streptomyces sp. CNR698', 'Novosphingobium sp. MBES04', 'Pseudomonas sp. Lz4W', 'Gallaecimonas xiamenensis 3-C-1', 'Idiomarina xiamenensis 10-D-4', 'Sphingobium sp. C100', 'Hyphomonas sp. L-53-1-40', 'Pseudomonas sp. UW4', 'Marinomonas profundimaris', 'Celeribacter indicus', 'Commensalibacter sp. MX01', 'Colletotrichum orchidophilum', 'Streptomyces sp. AA0539', 'Gemmata massiliana', 'Pseudoxanthomonas sp. GW2', 'Chelatococcus sp. GW1', 'Dyadobacter tibetensis Y620-1', 'Enterobacteriaceae bacterium B14', 'Acidocella sp. MX-AZ02', 'Diaporthe ampelina', 'Thermus tengchongensis YIM 77401', 'Amphibacillus jilinensis Y1', 'Clostridium bornimense', 'Acinetobacter sp. NIPH 542', 'Acinetobacter sp. NIPH 298', 'Acinetobacter sp. CIP 64.2', 'Acinetobacter sp. NIPH 1847', 'Acinetobacter sp. NIPH 3623', 'Acinetobacter sp. CIP 110321', 'Acinetobacter sp. CIP 70.18', 'Acinetobacter sp. ANC 3880', 'Acinetobacter sp. NIPH 1867', 'Acinetobacter sp. ANC 4105', 'Acinetobacter sp. NIPH 284', 'Acinetobacter sp. ANC 3862', 'Acinetobacter sp. NIPH 2168', 'Acinetobacter sp. ANC 3929', 'Acinetobacter sp. NIPH 2100', 'Acinetobacter sp. NIPH 713', 'Acinetobacter sp. NIPH 899', 'Acinetobacter sp. NIPH 236', 'Acinetobacter sp. NIPH 758', 'Acinetobacter sp. ANC 3789', 'Cupriavidus sp. BIS7', 'Roseomonas sp. B5', 'Xylona heveae TC161', 'Octadecabacter antarcticus 307', 'Streptomyces sp. GBA 94-10', 'Brucella inopinata BO1', 'Lactobacillus mellifer', 'Lactobacillus kullabergensis', 'Lactobacillus helsingborgensis', 'Lactobacillus kimbladii', 'Lactobacillus melliventris', 'Lactobacillus mellis', 'Acinetobacter nectaris CIP 110549', 'Actinomyces sp. S4-C9', 'Arcanobacterium sp. S3PF19', 'Peptostreptococcus sp. MV1', 'Methanobacterium sp. Maddingley MBC34', 'Altibacter lentus', 'Corynebacterium humireducens NBRC 106098 = DSM 45392', 'Enterobacteriaceae bacterium LSJC7', 'Mangrovibacter sp. MFB070', 'Pantoea sp. A4', 'Dickeya sp. DW 0440', 'Oscillibacter sp. KLE 1728', 'Oscillibacter sp. KLE 1745', 'Blautia sp. KLE 1732', 'Clostridium sp. KLE 1755', 'Streptomyces rapamycinicus NRRL 5491', 'Actinomyces sp. oral taxon 877 str. F0543', 'Capnocytophaga sp. oral taxon 863 str. F0517', 'Leptotrichia sp. oral taxon 879 str. F0557', 'Prevotella sp. F0091', 'Paenibacillus sp. FSL H7-689', 'Paenibacillus sp. FSL R7-277', 'Leptolyngbya sp. KIOST-1', 'Sphingobacterium deserti', 'Flavobacterium sp. WG21', 'Cupriavidus sp. GA3-3', 'Alkalibacterium sp. AK22', 'Candidatus Nitrosopumilus sediminis', 'Salimicrobium jeotgali', 'Bradyrhizobium sp. DFCI-1', 'Flaviramulus ichthyoenteri Th78', 'Lachancea sp. CBS 6924', 'Lachancea mirantina', 'Paenisporosarcina sp. TG-14', 'Nitratireductor pacificus pht-3B', 'Thermotoga sp. Mc24', 'Lactobacillus shenzhenensis LY-73', 'Clohesyomyces aquaticus', 'Desulfuromonas sp. TF', 'Corynebacterium ihumii', 'Megasphaera massiliensis', 'Nesterenkonia massiliensis', 'Nosocomiicoccus massiliensis', 'Enorma timonensis', 'Desulfobacula sp. TS', 'Clostridiales bacterium VE202-13', 'Clostridiales bacterium VE202-18', 'Clostridiales bacterium VE202-09', 'Clostridiales bacterium VE202-08', 'Clostridiales bacterium VE202-14', 'Clostridiales bacterium VE202-21', 'Marinobacterium sp. AK27', 'Geobacillus sp. GHH01', 'Chryseobacterium sp. JM1', 'Chryseobacterium sp. FH1', 'Staphylococcus sp. E463', 'Pacificimonas flava', 'Gayadomonas joobiniege G7', 'Ralstonia sp. AU12-08', 'Eubacterium sp. 14-2', 'Lachnospiraceae bacterium M18-1', 'Lachnospiraceae bacterium MD335', 'Firmicutes bacterium M10-2', 'Oscillibacter sp. 1-3', 'Dorea sp. 5-2', 'Lachnospiraceae bacterium MD308', 'Lachnospiraceae bacterium 10-1', 'Parabacteroides sp. ASF519', 'Anaerotruncus sp. G3(2012)', 'Candidatus Pantoea carbekii', 'Haloquadratum sp. J07HQX50', 'Halonotius sp. J07HN6', 'Halorubrum sp. J07HR59', 'Sodalis praecaptivus', 'Dokdonia sp. PRO95', 'Bacillus massiliogorillae', 'Luteimonas huabeiensis HB2', 'Campylobacter iguaniorum', 'Magnetospirillum caucaseum', 'Mariniradius saccharolyticus AK6', 'Lachancea lanzarotensis', 'Borreliella chilensis', 'Nocardiopsis potens DSM 45234', 'Rhizobium sp. 2MFCol3.1', 'Halobacillus sp. BAB-2008', 'Paramicrosporidium saccamoebae', 'Arsenophonus endosymbiont str. Hangzhou of Nilaparvata lugens', 'Microbacterium sp. UCD-TDU', 'Parvularcula oceani', 'Blastomonas sp. AAP53', 'Sandarakinorhabdus sp. AAP62', 'Porphyrobacter sp. AAP82', 'Candidatus Sulfuricurvum sp. RIFRC-1', 'Imhoffiella purpurea', 'Gillisia sp. Hel_I_29', 'Maribacter sp. Hel_I_7', 'Polaribacter sp. Hel1_85', 'Polaribacter sp. Hel_I_88', 'Muricauda sp. MAR_2010_75', 'Salegentibacter sp. Hel_I_6', 'Pseudomonas sp. FGI182', "Leptospirillum sp. Group IV 'UBA BS'", 'Streptomyces sp. 769', 'Phascolarctobacterium sp. CAG:207', 'Phascolarctobacterium sp. CAG:266', 'Oscillibacter ruminantium GH1', 'Edwardsiella piscicida C07-087', 'Candidatus Endolissoclinum faulkneri L2', 'Pseudomonas sp. URMO17WK12:I8', 'Streptomyces sp. PAMC 26508', 'Nafulsella turpanensis ZLM-10', 'Lysinibacillus manganicus DSM 26584', 'Thioalkalivibrio sp. ALE6', 'Thioalkalivibrio sp. ALE19', 'Thioalkalivibrio sp. AKL19', 'Frischella perrara', 'Sediminibacterium sp. C3', 'Acidobacteriaceae bacterium KBS 83', 'Acidobacteriaceae bacterium KBS 89', 'Pantoea sp. IMH', 'Pseudomonas sp. G5(2012)', 'Peptoniphilus timonensis JC401', 'Rhodococcus sp. AW25M09', 'Acidovorax sp. MR-S7', 'Thioalkalivibrio sp. ALR17-21', 'Flavobacterium sp. KJJ', 'Pedobacter sp. R20-19', 'Megasphaera sp. NM10', 'Liberibacter crescens BT-1', 'Mycobacterium sp. VKM Ac-1817D', 'Paenibacillus antibioticophila', 'Candidatus Hepatobacter penaei', 'Acidovorax sp. JHL-9', 'Escherichia sp. KTE172', 'Hippea alviniae EP5-r', 'Synechococcus sp. KORDI-100', 'Gorillibacterium massiliense', 'Butyrivibrio sp. AE2015', 'Butyrivibrio sp. VCD2006', 'Butyrivibrio sp. AE3009', 'Butyrivibrio sp. XPD2006', 'Butyrivibrio sp. FC2001', 'Butyrivibrio sp. AE3006', 'Prevotella sp. AGR2160', 'Butyrivibrio sp. WCD3002', 'Butyrivibrio sp. VCB2006', 'Butyrivibrio sp. LC3010', 'Butyrivibrio sp. WCD2001', 'Butyrivibrio sp. XBB1001', 'Butyrivibrio sp. NC3005', 'Butyrivibrio sp. MC2013', 'Meira miltonrushii', 'Hyphomonas pacifica', 'Hyphomonas sp. CY54-11-8', 'Hyphomonas beringensis', 'Hyphomonas chukchiensis', 'Hyphomonas atlantica', 'Asticcacaulis sp. AC460', 'Asticcacaulis sp. AC402', 'Asticcacaulis sp. AC466', 'Frankia sp. Iso899', 'Tolumonas lignilytica', 'Nocardioides sp. Iso805N', 'Paenibacillus sp. A9', 'Planktomarina temperata RCA23', 'Actinomyces sp. S6-Spd3', 'Tissierellia bacterium S7-1-4', 'Prevotella sp. S7-1-8', 'Pandoraea sp. SD6-2', 'Brachyspira hampsonii 30446', 'Mesorhizobium sp. L2C084A000', 'Mesorhizobium sp. LNJC398B00', 'Prevotella sp. S7 MS 2', 'Bacillus massiliosenegalensis JC6', 'Achromobacter insuavis AXX-A', 'Arcticibacter svalbardensis MN12-7', 'Streptomyces sp. CNT318', 'Streptomyces sp. TAA040', 'Anaerococcus senegalensis JC48', 'Alistipes senegalensis JC50', 'Actinomyces timonensis DSM 23838', 'Nitrosospira lacus', 'Magnetospira sp. QH-2', 'Streptomyces sp. TAA204', 'Candidatus Methanomethylophilus alvus Mx1201', 'Dietzia sp. UCD-THP', 'Kocuria sp. UCD-OTCP', 'Leucobacter sp. UCD-THU', 'Halopiger djelfimassiliensis', 'Halopiger goleimassiliensis', 'Pseudomonas sp. ATCC 13867', 'Photobacterium gaetbulicola Gung47', 'Thermodesulfobacterium geofontis OPF15', 'Parageobacillus genomosp. 1', 'Aquimarina pacifica', 'Mesorhizobium sp. STM 4661', 'Intestinimonas butyriciproducens', 'Myxococcus hansupus', 'Afipia sp. OHSU_I-C4', 'Bradyrhizobium sp. OHSU_III', 'Psychrobacter sp. JCM 18900', 'Mesorhizobium sp. URHA0056', 'Microbacterium sp. URHA0036', 'Marmoricola sp. URHB0036', 'Mycobacterium sp. URHD0025', 'Alteromonas sp. ALT199', 'Bradyrhizobium sp. URHA0002', 'Streptomyces sp. TAA486', 'Methanocaldococcus bathoardescens', 'Caldisalinibacter kiritimatiensis', 'Cellulomonas sp. KRMCY2', 'Clostridium sp. ASBs410', 'Geovibrio sp. L21-Ace-BES', 'Microbacterium sp. KROCY2', 'Oceanicola sp. HL-35', 'Marinobacter nanhaiticus D15-8W', 'Sporosarcina sp. EUR3 2.2.2', 'Alcanivorax pacificus W11-5', 'Termitomyces sp. J132', 'Streptomyces hokutonensis', 'Desulfohalovibrio reitneri', 'Salinispira pacifica', 'Arthrobacter sp. Br18', 'Arthrobacter sp. H14', 'Thermocrinis sp. GBS', 'Aureispira sp. CCB-QB1', 'Peniophora sp. CONT', 'Perkinsela sp. CCAP 1560/4', 'Streptococcus sp. HSISM1', 'Streptococcus sp. HSISB1', 'Streptococcus sp. HSISS1', 'Streptococcus sp. HSISS2', 'Streptococcus sp. HSISS3', 'Enterococcus sp. HSIEG1', 'Blattabacterium sp. (Nauphoeta cinerea)', 'Archaeoglobus sulfaticallidus PM70-1', 'Aquimarina atlantica', 'Thioclava atlantica', 'Candidatus Mycoplasma girerdii', 'Mesorhizobium sp. NBIMC_P2-C3', 'Clostridiales bacterium oral taxon 876 str. F0540', 'Mitsuokella sp. oral taxon 131 str. W9106', 'Peptostreptococcaceae bacterium oral taxon 113 str. W5053', 'Selenomonas sp. oral taxon 892 str. F0426', 'Rhodococcus defluvii', 'Mycobacterium sp. TKK-01-0059', 'Serratia sp. FS14', 'Prolemur simus', 'Thermoactinomyces daqus', 'Enterobacter sp. MGH 1', 'Enterobacter sp. MGH 3', 'Enterobacter sp. MGH 6', 'Enterobacter sp. MGH 7', 'Enterobacter sp. MGH 10', 'Enterobacter sp. MGH 15', 'Enterobacter sp. MGH 22', 'Enterobacter sp. MGH 23', 'Enterobacter sp. MGH 24', 'Enterobacter sp. MGH 25', 'Enterobacter sp. MGH 33', 'Enterobacter sp. MGH 37', 'Enterobacter sp. MGH 38', 'Enterobacter sp. BWH 37', 'Enterobacter sp. BIDMC 26', 'Enterobacter sp. BIDMC 27', 'Enterobacter sp. BIDMC 28', 'Enterobacter sp. BIDMC 29', 'Enterobacter sp. BIDMC 30', 'Novosphingobium lindaniclasticum LE124', 'Cycloclasticus zancles 78-ME', 'Thermus caliditerrae', 'Auricularia subglabra TFB-10046 SS5', 'Sphingobium baderi LL03', 'Candidatus Saccharimonas aalborgensis', 'Salinarchaeum sp. Harcht-Bsk1', 'Bifidobacterium moukalabense DSM 27321', 'Tepidicaulis marinus', 'Spiribacter salinus M19-40', 'Spiribacter curvatus', 'Sphingobium bisphenolivorans', 'Polaribacter sp. Hel1_33_49', 'Calothrix sp. 336/3', 'Bacillus sp. UNC438CL73TsuS30', 'Luminiphilus syltensis NOR5-1B', 'Flavobacterium enshiense DK69', 'Brucella sp. 04-5288', 'Sulfitobacter geojensis', 'Sulfitobacter noctilucicola', 'Sulfitobacter noctilucae', 'Saccharibacter sp. AM169', 'Epichloe mollis', 'Winogradskyella psychrotolerans RS-3', 'Halomonas sp. A3H3', 'Bacillus sp. EB01', 'Paucisalibacillus sp. EB02', 'Bacillus ndiopicus', 'Bacillus dielmoensis', 'Anaerosalibacter massiliensis', 'Bacteroides neonati', 'Pseudoalteromonas piratica', 'Arthrobacter sp. AK-YN10', 'Cyclobacterium qasimii M12-11B', 'Synechococcus sp. UTEX 2973', 'Thioclava indica', 'Bacteriovorax sp. BSW11_IV', 'Peptoniphilus mikwangii', 'Roseovarius sp. MCTG156(2b)', 'Arcobacter sp. AF1028', 'Arcobacter lanthieri', 'Bradyrhizobium diazoefficiens USDA 110', 'Rhodococcus sp. PML026', 'Hymenobacter sp. APR13', 'Batrachochytrium salamandrivorans', 'Lutibaculum baratangense AMV1', 'Thermofilum adornatum', 'Zygosaccharomyces parabailii', 'Rhodobacteraceae bacterium HIMB11', 'Fonsecaea erecta', 'Mycobacterium sp. UM_WGJ', 'Mycobacterium sp. UM_WWY', 'Firmicutes bacterium ASF500', 'Dyella jiangningensis', 'Gemmatimonas phototrophica', 'Desulfonauticus sp. A7A', 'Sphingomonas sp. FUKUSWIS1', 'Methanobacterium sp. MB1', 'Spirosoma radiotolerans', 'Streptomyces sp. URHA0041', 'Geodermatophilaceae bacterium URHB0048', 'Mesorhizobium sp. URHC0008', 'Cellulomonas sp. URHE0023', 'Bradyrhizobium sp. URHD0069', 'Blastococcus sp. URHD0036', 'Halomonas sp. 23_GOM-1509m', 'Sulfitobacter sp. 20_GPM-1509m', 'Intrasporangiaceae bacterium URHB0013', 'Ahrensia sp. 13_GOM-1096m', 'Tenacibaculum sp. 47A_GOM-205m', 'Mycobacterium sp. URHB0044', 'Alcanivorax sp. 43B_GOM-46m', 'Solirubrobacterales bacterium URHD0059', 'Dongia sp. URHE0060', 'Geodermatophilaceae bacterium URHA0031', 'Rhodospirillales bacterium URHD0088', 'Paenibacillus darwinianus', 'Streptomycetaceae bacterium MP113-05', 'Aliihoeflea sp. 2WW', 'Brevibacterium sp. VCM10', 'Caulobacteraceae bacterium PMMR1', 'Sporosarcina sp. D27', 'Thermogemmatispora carboxidivorans', 'Thermorudis peleae', 'Acidobacterium ailaaui', 'Methyloceanibacter caenitepidi', 'Francisella sp. W12-1067', 'Lysobacter arseniciresistens ZS79', 'Hymenobacter sp. DG25B', 'Leptolyngbya sp. Heron Island J', 'Exiguobacterium chiriqhucha RW-2', 'Sphingobacterium paucimobilis HER1398', 'Methylophilus sp. OH31', 'Staphylococcus sp. M0480', 'Clostridium sp. Ade.TY', 'Pseudogymnoascus sp. VKM F-3808', 'Kalmanozyma brasiliensis', 'Prevotella sp. HUN102', 'Eubacterium sp. AB3007', 'Flavimarina sp. Hel_I_48', 'Leeuwenhoekiella sp. MAR_2009_132', 'Sediminibacter sp. Hel_I_10', 'Ruminococcaceae bacterium AE2021', 'Lachnospiraceae bacterium AC2031', 'Bifidobacterium sp. 7101', 'Bifidobacterium sp. A11', 'Candidatus Saccharibacteria bacterium RAAC3_TM7_1', 'Thermosynechococcus sp. NK55a', 'Paenibacillus sp. MAEPY2', 'Haloferula sp. BvORR071', 'Verrucomicrobium sp. BvORR034', 'Marinobacter sp. ES-1', 'Leucobacter sp. PH1c', 'Serratia sp. H1n', 'Alcanivorax sp. P2S70', 'Halomonas sp. PBN3', 'Candidatus Micropelagos thuwalensis', 'Exiguobacterium sp. MH3', 'Ophiocordyceps australis', 'Bacteroidales bacterium CF', 'Flavobacterium limnosediminis JC2902', 'Sulfitobacter pseudonitzschiae', 'Streptomyces sp. A02', 'Verrucomicrobium sp. BvORR106', 'Corynebacterium glyciniphilum AJ 3170', 'Candidatus Methanomassiliicoccus intestinalis Issoire-Mx1', 'Synechococcus sp. NKBG15041c', 'Betaproteobacteria bacterium MOLA814', 'Bacillus sp. MB2021', 'Butyrivibrio sp. FCS014', 'Butyrivibrio sp. MC2021', 'Prevotella sp. MA2016', 'Oribacterium sp. FC2011', 'Pseudobutyrivibrio sp. LB2011', 'Lachnospiraceae bacterium AC2028', 'Lachnospiraceae bacterium AC3007', 'Lachnospiraceae bacterium MA2020', 'Lachnospiraceae bacterium MC2017', 'Youngiibacter fragilis 232.1', 'Candidatus Tachikawaea gelatinosa', 'Candidatus Nitrosopelagicus brevis', 'Bacteroides sp. Ga6A2', 'Treponema sp. C6A8', 'Oribacterium sp. P6A1', 'Prevotella sp. P6B1', 'Pseudobutyrivibrio sp. MD2005', 'Ruminococcus sp. FC2018', 'Selenomonas sp. ND2010', 'Serratia sp. DD3', 'Shinella sp. DD12', 'Lachnospiraceae bacterium C6A11', 'Lachnospiraceae bacterium FE2018', 'Lachnospiraceae bacterium MD2004', 'Lachnospiraceae bacterium NC2004', 'Lachnospiraceae bacterium ND2006', 'Lachnospiraceae bacterium P6A3', 'Lachnospiraceae bacterium P6B14', 'Lachnospiraceae bacterium V9D3004', 'Lachnospiraceae bacterium YSB2008', 'Propionibacteriaceae bacterium P6A17', 'Ruminococcaceae bacterium AB4001', 'Methyloglobulus morosus KoM1', 'Rhizobiales bacterium YIM 77505', 'Gammaproteobacteria bacterium MOLA455', 'Corynebacterium jeddahense', 'Clostridium saudiense', 'Pseudomonas sp. TKP', 'Candidatus Walczuchella monophlebidarum', 'Marinobacter sp. MCTG268', 'Halomonas sp. TG39a', 'Oceanicola sp. MCTG156(1a)', 'Gloeobacter kilaueensis JS1', 'Defluviimonas sp. 20V17', 'Streptococcus sp. VT 162', 'Pseudogymnoascus sp. VKM F-3775', 'Pseudogymnoascus sp. VKM F-4246', 'Pseudogymnoascus sp. VKM F-4281 (FW-2241)', 'Pseudogymnoascus sp. VKM F-4513 (FW-928)', 'Pseudogymnoascus sp. VKM F-4514 (FW-929)', 'Pseudogymnoascus sp. VKM F-4515 (FW-2607)', 'Pseudogymnoascus sp. VKM F-4516 (FW-969)', 'Pseudogymnoascus sp. VKM F-4517 (FW-2822)', 'Pseudogymnoascus sp. VKM F-103', 'Pseudogymnoascus sp. VKM F-4518 (FW-2643)', 'Pseudogymnoascus sp. VKM F-4519 (FW-2642)', 'Pseudogymnoascus sp. VKM F-4520 (FW-2644)', 'Marinobacter similis', 'Marinobacter salarius', 'Kurthia huakuii LAM0618', 'Bacillus sp. SJS', 'Hyphomicrobium nitrativorans NL23', 'Candidatus Entotheonella factor', 'Candidatus Entotheonella gemina', 'Afipia sp. P52-10', 'Geobacillus icigianus', 'Candidatus Halobonum tyrrellensis G22', 'Mannheimia sp. USDA-ARS-USMARC-1261', 'Mucinivorans hirudinis', 'Methanosarcina sp. Kolksee', 'Methanosarcina sp. MTP4', 'Methanosarcina sp. WH1', 'Methanosarcina sp. WWM596', 'Acinetobacter bohemicus ANC 3994', 'Alcanivorax sp. 97CO-5', 'Candidatus Symbiobacter mobilis CR', 'Pseudogymnoascus sp. VKM F-3557', 'Citrobacter sp. MGH 55', 'Pseudomonas sp. BAY1663', 'Talaromyces atroroseus', 'Clostridium sp. K25', 'Aquimarina megaterium XH134', 'Candidatus Protochlamydia massiliensis', 'Candidatus Rubidus massiliensis', 'Xylella taiwanensis', 'Gynuella sunshinyii YC6258', 'Sciscionella sp. SE31', 'Hymenobacter swuensis DY53', 'Bacillus sp. Pc3', 'Campylobacter corcagiensis', 'Halobellus rufus', 'Arthrobacter sp. UNC362MFTsu5.1', 'Mycobacterium sp. UNC280MFTsu5.1', 'Caulobacter sp. UNC358MFTsu5.1', 'Clostridium sp. KNHs205', 'Microbacterium sp. UNCCL10', 'Paenibacillus sp. UNC451MF', 'Phyllobacterium sp. UNC302MFCol5.2', 'Rhodococcus sp. UNC23MFCrub1.1', 'Rhodococcus sp. UNC363MFTsu5.1', 'Sphingomonas sp. UNC305MFCol5.2', 'Thermus amyloliquefaciens', 'Bacillus sp. TS-2', 'Microbacterium sp. MRS-1', 'Microbacterium sp. Cr-K32', 'Microbacterium sp. Cr-K20', 'Pseudomonas sp. RL', 'Chryseobacterium hispalense DSM 25574', 'Microbulbifer sp. HZ11', 'Candidatus Accumulibacter sp. BA-93', 'Cellulomonas sp. HZM', 'Chlamydia avium 10DC88', 'Chlamydia gallinacea 08-1274/3', 'Halapricum salinum', 'Caballeronia jiangsuensis', 'Serpentinomonas raichei', 'Serpentinomonas mccroryi', 'Candidatus Phaeomarinobacter ectocarpi', 'Lachnospiraceae bacterium AC2029', 'Candidatus Nitrososphaera evergladensis SR1', 'Geomicrobium sp. JCM 19037', 'Geomicrobium sp. JCM 19038', 'Bacillus sp. JCM 19046', 'Paraphaeosphaeria sporulosa', 'Weeksella massiliensis', 'Haemophilus massiliensis', 'Neobacillus jeddahensis', 'Jeotgalicoccus saudimassiliensis', 'Metalysinibacillus saudimassiliensis', 'Actibacterium atlanticum', 'Pseudooceanicola atlanticus', 'Pseudoalteromonas sp. SCSIO_11900', 'Virgibacillus massiliensis', 'Oceanobacillus jeddahense', 'Brucella papionis', 'Klebsiella quasipneumoniae subsp. quasipneumoniae UCICRE 14', 'Actinosporangium sp. NRRL B-3428', 'Glycomyces sp. NRRL B-16210', 'Saccharothrix sp. NRRL B-16314', 'Streptomyces sp. NRRL F-2580', 'Streptomyces sp. NRRL F-2890', 'Streptomyces sp. NRRL F-5008', 'Streptomyces sp. NRRL F-5053', 'Streptomyces sp. NRRL F-5065', 'Streptomyces sp. NRRL F-5123', 'Streptomyces sp. NRRL F-5126', 'Streptomyces sp. NRRL F-5135', 'Streptomyces sp. NRRL F-525', 'Streptomyces sp. NRRL F-5630', 'Streptomyces sp. NRRL F-6677', 'Streptomyces sp. NRRL S-118', 'Streptomyces sp. NRRL S-149', 'Streptomyces sp. NRRL S-1777', 'Streptomyces sp. NRRL S-237', 'Streptomyces sp. NRRL S-337', 'Streptomyces sp. NRRL S-340', 'Streptomyces sp. NRRL S-37', 'Streptomyces sp. NRRL S-474', 'Streptomyces sp. NRRL S-646', 'Streptomyces sp. NRRL S-87', 'Streptomyces sp. NRRL S-920', 'Streptomyces sp. NRRL WC-3626', 'Streptomyces sp. NRRL WC-3742', 'Streptomyces sp. NRRL WC-3773', 'Micromonospora parva', 'Aeromicrobium massiliense JC14', 'Peptoniphilus grossensis ph5', 'Peptoniphilus senegalensis JC140', "Oceanobacillus massiliensis str. N'diop", 'Paenibacillus senegalensis JC66', 'Clostridium senegalense JC122', 'Cellulomonas massiliensis JC225', 'Noviherbaspirillum massiliense JC206', 'Timonella senegalensis JC301', 'Burkholderia sp. 2002721687', 'Bacillus massilioanorexius AP8', 'Bartonella senegalensis OS02', 'Holdemania massiliensis AP2', 'Thioalkalivibrio sp. HK1', 'Burkholderiales bacterium GJ-E10', 'Lacinutrix jangbogonensis', 'Rhodovulum sp. NI22', 'Kineothrix alysoides', 'Alistipes ihumii AP11', 'Candidatus Stoquefichus massiliensis AP9', 'Clostridium ihumii AP5', 'Candidatus Blastococcus massiliensis AP3', 'Streptomyces sp. Tu 6176', 'Sphingomonas sp. RIT328', 'Pseudomonas sp. RIT357', 'Prochlorococcus sp. scB241_528O2', 'Prochlorococcus sp. scB245a_520K10', 'Talaromyces cellulolyticus', 'Basilea psittacipulmonis DSM 24701', 'Falsirhodobacter sp. alg1', 'Burkholderia sp. K24', 'Enorma massiliensis phI', 'Kallipyga massiliensis ph2', 'Senegalimassilia anaerobia JC110', 'Lysinibacillus sp. BF-4', 'Mizugakiibacter sediminis', 'Deinococcus phoenicis', 'Streptomyces sp. NRRL B-24720', 'Peptostreptococcaceae bacterium VA2', 'Halomonas sp. HL-48', 'Marinobacter sp. HL-58', 'Oceanicaulis sp. HL-87', 'Porphyrobacter sp. HL-46', 'Curtobacterium sp. S6', 'Spirochaeta lutea', 'Pantoea sp. PSNIH2', 'Pantoea sp. PSNIH1', 'Psychroserpens jangbogonensis', 'Exiguobacterium sp. AB2', 'Rhodoferax saidenbachensis ED16', 'Cadophora sp. DSE1049', 'Selenomonas sp. AE3005', 'Ferriphaselus sp. R-1', 'Ghiorsea bivora', 'Mitosporidium daphniae', 'Martelella endophytica', 'Candidatus Sodalis pierantonius str. SOPE', 'Clostridium sp. HMP27', 'Desulfosporosinus sp. HMP52', 'Corynebacterium sp. ATCC 6931', 'Pseudomonas sp. Ant30-3', 'Deinococcus sp. RL', 'Trichoderma guizhouense', 'Flavobacterium gilvum', 'Flavobacterium seoulense', 'Gammaproteobacteria bacterium MFB021', 'Arthrobacter sp. PAMC 25486', 'Mesoaciditoga lauensis cd-1655R = DSM 25116', 'Pseudomonas sp. WCS374', 'Penicillium cf. griseofulvum UFMGCB 6741', 'Candidatus Evansia muelleri', 'Cyanobium sp. CACIAM 14', 'Listeriaceae bacterium FSL A5-0209', 'Prochlorococcus sp. MIT 0601', 'Prochlorococcus sp. MIT 0602', 'Prochlorococcus sp. MIT 0701', 'Bacillus rubiinfantis', 'Clostridium sp. CL-6', 'Clostridium sp. CL-2', 'Bacillus andreraoultii', 'Pseudomonas saudiphocaensis', 'Clostridium amazonitimonense', 'Candidatus Moduliflexus flocculans', 'Candidatus Vecturithrix granuli', 'Paenibacillus sp. TCA20', 'Rhizobium sp. YR295', 'Rhizobium sp. YR519', 'Chryseobacterium sp. CF284', 'Rhizobium sp. CF097', 'Rhizobium sp. CF394', 'Rhizobium sp. OK494', 'Luteibacter sp. 9143', 'Luteibacter sp. 9135', 'Massilia sp. 9096', 'Burkholderia sp. 9120', 'Campylobacter sp. RM16704', 'Paenibacillus tyrfis', 'Prochlorococcus sp. MIT 0604', 'Prochlorococcus sp. MIT 0801', 'Oribacterium parvum ACB8', 'Oribacterium asaccharolyticum ACB7', 'Alistipes inops', 'Devosia sp. LC5', 'Methylotenera sp. L2L1', 'Pseudomonas sp. AAC', 'Sphingopyxis sp. LC81', 'Bosea sp. LC85', 'Massilia sp. LC238', 'Veillonella seminalis ACS-216-V-Col6b', 'Polaromonas sp. CG9_12', 'Halomonas sp. KO116', 'Chitinivibrio alkaliphilus ACht1', 'Blochmannia endosymbiont of Polyrhachis (Hedomyrma) turneri', 'Blochmannia endosymbiont of Camponotus (Colobopsis) obliquus', 'Candidatus Schmidhempelia bombi str. Bimp', 'Thermococcus eurythermalis', 'Flavobacterium sp. Fl', 'Butyrivibrio sp. AE3004', 'Rachicladosporium antarcticum', 'Jeotgalibacillus malaysiensis', 'Candidatus Arthromitus sp. SFB-mouse-NL', 'Acinetobacter sp. HR7', 'Pseudorhizobium pelagicum', 'Candidatus Nitrosopumilus koreensis AR1', 'Bosea sp. UNC402CLCol', 'Ruminococcus sp. HUN007', 'Sphingopyxis fribergensis', 'Porphyromonas sp. COT-239 OH1446', 'Porphyromonas sp. COT-290 OH860', 'Shewanella mangrovi', 'Idiomarina atlantica', 'Vibrio sp. ER1A', 'Porphyromonadaceae bacterium COT-184 OH4590', 'Anopheles coluzzii', 'Oscillibacter sp. ER4', 'Candidatus Thermochlorobacteriaceae bacterium GBChlB', 'Chloroflexus sp. MS-G', 'Sphingobium sp. ba1', 'Ceraceosorus guamensis', 'Pseudomonas sp. ML96', 'Serratia sp. Ag1', 'Planococcus sp. PAMC 21323', 'Rickettsiales bacterium Ac37b', 'Thalassospira australica', 'Acinetobacter seifertii', 'Palleronia rufa', 'Coriobacteriaceae bacterium 68-1-3', 'Torrubiella hemipterigena', 'Achromobacter sp. RTa', 'Rhizobium sp. YS-1r', 'Devosia sp. 17-2-E-8', 'Thalassotalea sp. ND16A', 'Paenibacillus sp. FSL P4-0081', 'Paenibacillus sp. FSL R5-0345', 'Paenibacillus sp. FSL R5-0912', 'Paenibacillus sp. FSL R7-0273', 'Paenibacillus sp. FSL R7-0331', 'Paenibacillus sp. FSL H7-0357', 'Paenibacillus sp. FSL H7-0737', 'Sphingopyxis sp. MWB1', 'Sulfurospirillum sp. SCADC', 'Sulfuricurvum sp. MLSB', 'Alteromonas sp. LOR', 'Micromonospora sp. HK10', 'Aquabacterium sp. NJ1', 'Sphingobacterium sp. ML3W', 'Treponema sp. OMZ 838', 'Deinococcus sp. YIM 77859', 'Clostridium sp. KNHs214', 'Myxosarcina sp. GI1', 'Candidatus Izimaplasma sp. HR1', 'Candidatus Izimaplasma sp. HR2', 'Oleiagrimonas soli', 'Lactobacillus sp. wkB10', 'Lactobacillus sp. wkB8', 'Sphingomonas sp. 35-24ZXX', 'Hoeflea sp. BAL378', 'Francisella sp. FSC1006', 'Helicobacter sp. MIT 11-5569', 'Campylobacter sp. MIT 97-5078', 'Sphingomonas taxi', 'Sphingomonas sp. 37zxx', 'Sphingobacteriaceae bacterium DW12', 'Thermofilum uzonense', 'Listeria booriae', 'Caenorhabditis tropicalis', 'Fermentimonas caenicola', 'Rhodococcus sp. B7740', 'Shewanella sp. ECSMB14101', 'Sulfurospirillum sp. MES', 'Rugosibacter aromaticivorans', 'Bacillus sp. X1(2014)', 'Paenibacillus sp. IHBB 10380', 'Paracoccus sp. PAMC 22219', 'Phaeobacter sp. S60', 'Jaminaea rosea', 'Bacillus sp. BH072', 'Bacillus sp. YP1', 'Candidatus Methanoplasma termitum', 'Dickeya undicola', 'Nitrosopumilus adriaticus', 'Pseudomonas sp. HMSC05H02', 'Neisseria sp. HMSC06F02', 'Candidatus Methylopumilus planktonicus', 'Nitrosopumilus piranensis', 'Fusobacterium hwasookii ChDC F128', 'Myroides sp. A21', 'Agrobacterium arsenijevicii', 'Pseudomonas sp. 10B238', 'Haloarcula sp. CBA1115', 'Enterobacteriaceae bacterium ATCC 29904', 'Candidatus Nitrosotenuis cloacae', 'Halanaeroarchaeum sulfurireducens', 'Sinocyclocheilus anshuiensis', 'Candidatus Filomicrobium marinum', 'Sphingomonas hengshuiensis', 'Pseudomonas sp. MRSN12121', 'Vibrio sp. S234-5', 'Psychromicrobium lacuslunae', 'Bacillus sp. LM 4-2', 'Sulfuricella sp. T08', 'Verrucomicrobia bacterium IMCC26134', 'Chania multitudinisentens RB-25', 'Bacillus paralicheniformis ATCC 9945a', 'Metarhizium rileyi RCEF 4871', 'Metarhizium majus ARSEF 297', 'Blattabacterium cuenoti BPAA', 'Lachancea quebecensis', 'Emmonsia sp. CAC-2015a', 'Blastomyces percursus', 'Phialophora attinorum', 'Violaceomyces palustris', 'Paramormyrops kingsleyae', 'Blastomyces gilchristii SLH14081', 'Pseudomicrostroma glucosiphilum', 'Wallemia mellicola CBS 633.66', 'Baudoinia panamericana UAMH 10762', 'Leucoagaricus sp. SymC.cos', 'Pezoloma ericae', 'Neocallimastix californiae', 'Piromyces finnis', 'Anaeromyces robustus', 'Mesorhizobium erdmanii USDA 3471', 'Nematocida displodere', 'Enterobacter roggenkampii EC_38VIM1', 'Edwardsiella anguillarum ET080813', 'Gopherus evgoodei', 'Dacryopinax primogenitus', 'Cryptococcus gattii VGII LA55', 'Cryptococcus gattii VGIV IND107', 'Amphiamblys sp. WSBS2006', 'Carlito syrichta', 'Pseudocercospora fijiensis CIRAD86', 'Testicularia cyperi', 'Xanthomonas cannabis pv. phaseoli', 'Planoprotostelium fungivorum', 'Fortiea contorta PCC 7126', 'Pectobacterium parmentieri WPP163', 'Geobacillus genomosp. 3', 'Bifiguratus adelaidae', 'Emergomyces pasteurianus Ep9510', 'Dinothrombium tinctorium', 'Rachicladosporium sp. CCFEE 5018', 'Xanthomonas phaseoli pv. phaseoli', 'Cordyceps sp. RAO-2017', 'Ophiocordyceps camponoti-rufipedis', 'Ooceraea biroi', 'Malassezia vespertilionis', 'Coniella lustricola', 'Globisporangium ultimum DAOM BR144', 'Blastomyces silverae', 'Mesorhizobium japonicum MAFF 303099', 'Rutstroemia sp. NJR-2017a WRK4', 'Rutstroemia sp. NJR-2017a BVV2', 'Rutstroemia sp. NJR-2017a BBW', 'Cervus hanglu yarkandensis', 'Lactobacillus paragasseri JV-V03', 'Photorhabdus laumondii subsp. laumondii TTO1', 'Pyrrhoderma noxium', 'Hondaea fermentalgiana', 'Yamadazyma tenuis ATCC 10573', 'Hyaloscypha bicolor E', 'Hyaloscypha variabilis F', 'Nothophytophthora sp. Chile5', 'Strigops habroptila', 'Fusarium odoratissimum NRRL 54006', 'Gloeothece citriformis PCC 7424', 'Gloeothece verrucosa PCC 7822', 'Crocosphaera subtropica ATCC 51142', 'Crocosphaera chwakensis CCY0110', 'Rippkaea orientalis PCC 8802', 'Thermothielavioides terrestris NRRL 8126', 'Podospora anserina S mat+', 'Dacryopinax sp. DJM 731 SSP-1', 'Akanthomyces lecanii RCEF 1005', 'Fusarium vanettenii 77-13-4']], map_from_organism: Union[Literal['auto'], str, int, Literal['Azorhizobium caulinodans ORS 571', 'Buchnera aphidicola str. G002 (Myzus persicae)', 'Cellulomonas gilvus ATCC 13127', 'Dictyoglomus thermophilum H-6-12', 'Methylophilus methylotrophus DSM 46235 = ATCC 53528', 'Pelobacter carbinolicus DSM 2380', 'Shewanella putrefaciens CN-32', 'Myxococcus fulvus HW-1', 'Myxococcus xanthus DK 1622', 'Stigmatella aurantiaca DW4/3-1', 'Cystobacter fuscus DSM 2262', 'Chondromyces apiculatus DSM 436', 'Sorangium cellulosum So0157-2', 'Vitreoscilla stercoraria DSM 513', 'Herpetosiphon aurantiacus DSM 785', 'Simonsiella muelleri ATCC 29453', 'Hyphomonas jannaschiana VP2', 'Flectobacillus major DSM 103', 'Cyclobacterium marinum DSM 745', 'Runella slithyformis DSM 19594', 'Spirosoma linguale DSM 74', 'Rubinisphaera brasiliensis DSM 5305', 'Planctopirus limnophila DSM 3776', 'Gimesia maris DSM 8797', 'Blastopirellula marina DSM 3645', 'Pirellula staleyi DSM 6068', 'Isosphaera pallida ATCC 43644', 'Methylocystis parvus OBBP', 'Borreliella burgdorferi B31', 'Borrelia hermsii DAH', 'Borrelia parkeri SLO', 'Borrelia turicatae 91E135', 'Borrelia anserina BA2', 'Sediminispirochaeta bajacaliforniensis DSM 16054', 'Spirochaeta thermophila DSM 6192', 'Treponema denticola ATCC 35405', 'Brachyspira hyodysenteriae WA1', 'Treponema pallidum subsp. pallidum str. Nichols', 'Treponema phagedenis F0421', 'Treponema bryantii NK4A124', 'Treponema saccharophilum DSM 2985', 'Treponema succinifaciens DSM 2489', "Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'", 'Leptospira interrogans serovar Lai str. 56601', 'Leptospira borgpetersenii serovar Hardjo-bovis str. L550', 'Leptospirillum ferrooxidans C2-3', 'Leptonema illini DSM 21528', 'Novispirillum itersonii subsp. itersonii ATCC 12639', 'Aquaspirillum serpens DSM 68', 'Azospirillum sp. B510', 'Campylobacter coli 76339', 'Campylobacter fetus subsp. venerealis NCTC 10354', 'Campylobacter jejuni subsp. jejuni 414', 'Campylobacter concisus 13826', 'Campylobacter curvus 525.92', 'Campylobacter lari RM2100', 'Campylobacter rectus RM3267', 'Campylobacter showae CSUNSWCD', 'Campylobacter sputorum biovar sputorum', 'Helicobacter pylori 26695', 'Helicobacter acinonychis str. Sheeba', 'Helicobacter cinaedi CCUG 18818 = ATCC BAA-847', 'Helicobacter felis ATCC 49179', 'Helicobacter fennelliae MRY12-0050', 'Helicobacter mustelae 12198', 'Pseudoalteromonas haloplanktis ATCC 14393', 'Brucella abortus 2308', 'Brucella ovis ATCC 25840', 'Elizabethkingia meningoseptica ATCC 13253 = NBRC 12535', 'Flavobacterium aquatile LMG 4008 = ATCC 11947', 'Empedobacter brevis NBRC 14943 = ATCC 43319', 'Chryseobacterium gleum ATCC 35910', 'Psychroflexus gondwanensis ACAM 44', 'Chryseobacterium indologenes NBRC 14944', 'Myroides odoratus DSM 2801', 'Sphingobacterium spiritivorum ATCC 33861', 'Francisella cf. tularensis subsp. novicida 3523', 'Paracoccus denitrificans PD1222', 'Thermus aquaticus Y51MC23', 'Thermus thermophilus HB8', 'Meiothermus ruber DSM 1279', 'Xanthobacter autotrophicus Py2', 'Comamonas testosteroni KF-1', 'Pseudomonas aeruginosa PAO1', 'Pseudoalteromonas atlantica T6c', 'Burkholderia cepacia', 'Brevundimonas diminuta 470-4', 'Pseudomonas fluorescens NCIMB 11764', 'Pseudomonas fragi B25', 'Pseudomonas mendocina NK-01', 'Pseudomonas pseudoalcaligenes AD6', 'Pseudomonas putida KT2440', 'Ralstonia solanacearum GMI1000', 'Pseudomonas stutzeri MF28', 'Pseudomonas syringae pv. syringae B728a', 'Ralstonia pickettii DTP0602', 'Burkholderia glumae BGR1', 'Xanthomonas campestris pv. campestris', 'Xanthomonas translucens DAR61454', 'Xanthomonas citri pv. citri str. 306', 'Xanthomonas oryzae pv. oryzae PXO99A', 'Azotobacter chroococcum NCIMB 8003', 'Azotobacter vinelandii DJ', 'Agrobacterium radiobacter K84', 'Agrobacterium rhizogenes', 'Agrobacterium vitis S4', 'Bradyrhizobium japonicum', 'Sinorhizobium fredii USDA 257', 'Mesorhizobium loti CJ3sym', 'Sinorhizobium meliloti 1021', 'Rhizobium leguminosarum bv. viciae GB30', 'Rhizobium tropici CIAT 899', 'Neorhizobium galegae bv. orientalis str. HAMBI 540', 'Methylobacillus flagellatus KT', 'Methylobacillus glycogenes JCM 2850', 'Methylorubrum extorquens AM1', 'Methylococcus capsulatus str. Bath', 'Methylomonas methanica MC09', 'Methylosinus trichosporium OB3b', 'Acetobacter aceti ATCC 23746', 'Komagataeibacter hansenii ATCC 23769', 'Acetobacter pasteurianus 3P3', 'Gluconobacter oxydans H24', 'Legionella pneumophila str. Paris', 'Legionella hackeliae', 'Legionella longbeachae NSW150', 'Tatlockia micdadei', 'Fluoribacter dumoffii NY 23', 'Acinetobacter baumannii', 'Acinetobacter calcoaceticus ANC 3680', 'Moraxella catarrhalis O35E', 'Neisseria cinerea ATCC 14685', 'Neisseria flavescens NRL30031/H210', 'Neisseria gonorrhoeae NCCP11945', 'Neisseria lactamica 020-06', 'Neisseria meningitidis MC58', 'Neisseria mucosa ATCC 25996', 'Neisseria polysaccharea ATCC 43768', 'Neisseria sicca ATCC 29256', 'Neisseria elongata subsp. glycolytica ATCC 29315', 'Neisseria macacae ATCC 33926', 'Thermomicrobium roseum DSM 5159', 'Kingella denitrificans ATCC 33394', 'Kingella kingae ATCC 23330', 'Kingella oralis ATCC 51147', 'Alcaligenes faecalis', 'Bordetella bronchiseptica RB50', 'Bordetella parapertussis Bpp5', 'Bordetella pertussis Tohama I', 'Bordetella avium 197N', 'Acidiphilium angustum ATCC 35903', 'Acidiphilium cryptum JF-5', 'Acidocella facilis ATCC 35904', 'Ochrobactrum anthropi ATCC 49188', 'Polaribacter irgensii 23-P', 'Beijerinckia indica subsp. indica ATCC 9039', 'Chromobacterium violaceum ATCC 12472', 'Eikenella corrodens ATCC 23834', 'Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821', 'Citrobacter koseri ATCC BAA-895', 'Citrobacter freundii MGH 56', 'Klebsiella aerogenes KCTC 2190', 'Pantoea agglomerans', 'Enterobacter cloacae subsp. cloacae ATCC 13047', 'Erwinia amylovora CFBP1430', 'Pantoea ananatis LMG 20103', 'Pectobacterium carotovorum subsp. carotovorum PC1', 'Dickeya chrysanthemi Ech1591', 'Escherichia coli K-12', 'Shimwellia blattae DSM 4481 = NBRC 105725', 'Escherichia fergusonii B253', 'Atlantibacter hermannii NBRC 105704', 'Pseudescherichia vulneris NBRC 102420', 'Hafnia alvei FB1', 'Klebsiella oxytoca', 'Klebsiella pneumoniae', 'Morganella morganii subsp. morganii KT', 'Proteus mirabilis HI4320', 'Proteus vulgaris', 'Providencia rettgeri DSM 1131', 'Providencia stuartii ATCC 25827', 'Serratia liquefaciens ATCC 27592', 'Serratia marcescens subsp. marcescens Db11', 'Serratia odorifera DSM 4582', 'Shigella boydii CDC 3083-94', 'Shigella dysenteriae 1617', 'Shigella flexneri 2a str. 301', 'Shigella sonnei Ss046', 'Xenorhabdus nematophila ATCC 19061', 'Yersinia enterocolitica LC20', 'Yersinia intermedia ATCC 29909', 'Yersinia pestis CO92', 'Yersinia pseudotuberculosis', 'Edwardsiella tarda ATCC 15947 = NBRC 105688', 'Aeromonas hydrophila subsp. hydrophila ATCC 7966', 'Aeromonas salmonicida subsp. salmonicida A449', 'Aeromonas media WS', 'Aeromonas veronii B565', 'Photobacterium phosphoreum ANT-2200', 'Photobacterium angustum S14', 'Vibrio alginolyticus NBRC 15630 = ATCC 17749', 'Vibrio cholerae O395', 'Aliivibrio fischeri ES114', 'Vibrio parahaemolyticus RIMD 2210633', 'Vibrio proteolyticus NBRC 13287', 'Vibrio vulnificus', 'Grimontia hollisae CIP 101886', 'Vibrio mimicus MB451', 'Vibrio campbellii ATCC BAA-1116', 'Vibrio diazotrophicus NBRC 103148', 'Plesiomonas shigelloides 302-73', 'Aggregatibacter actinomycetemcomitans HK1651', 'Actinobacillus pleuropneumoniae serovar 1 str. 4074', 'Actinobacillus suis H91-0380', 'Actinobacillus capsulatus DSM 19761', 'Actinobacillus equuli subsp. equuli', 'Actinobacillus ureae ATCC 25976', 'Haemophilus haemolyticus M21639', 'Haemophilus influenzae Rd KW20', 'Avibacterium paragallinarum 221', 'Haemophilus parainfluenzae T3T1', 'Histophilus somni 129PT', 'Aggregatibacter aphrophilus NJ8700', 'Haemophilus paraphrohaemolyticus HK411', 'Glaesserella parasuis ZJ0906', 'Aggregatibacter segnis ATCC 33393', 'Pasteurella multocida', 'Gallibacterium anatis UMN179', 'Pasteurella bettyae CCUG 2042', 'Pasteurella dagmatis ATCC 43325', 'Rodentibacter pneumotropicus', 'Anaplasma centrale str. Israel', 'Anaplasma marginale str. St. Maries', 'Bartonella bacilliformis KC583', 'Coxiella burnetii RSA 493', 'Ehrlichia ruminantium str. Welgevonden', 'Rickettsia conorii str. Malish 7', 'Rickettsia prowazekii str. Madrid E', 'Rickettsia rickettsii str. Iowa', 'Orientia tsutsugamushi str. Boryong', 'Rickettsia typhi str. Wilmington', 'Rickettsia akari str. Hartford', 'Rickettsia australis str. Cutlack', 'Rickettsia canadensis str. McKiel', 'Bartonella quintana str. Toulouse', 'Bartonella elizabethae F9251 = ATCC 49927', 'Chlamydia trachomatis D/UW-3/CX', 'Bacteroides fragilis 3_1_12', 'Bacteroides thetaiotaomicron VPI-5482', 'Bacteroides uniformis ATCC 8492', 'Bacteroides vulgatus ATCC 8482', 'Parabacteroides distasonis ATCC 8503', 'Campylobacter gracilis RM3268', 'Sebaldella termitidis ATCC 33386', 'Campylobacter ureolyticus', 'Butyrivibrio fibrisolvens ND3005', 'Fibrobacter succinogenes subsp. succinogenes S85', 'Porphyromonas gingivalis ATCC 33277', 'Prevotella ruminicola 23', 'Prevotella loescheii DSM 19665 = JCM 12249 = ATCC 15930', 'Wolinella succinogenes DSM 1740', 'Oxalobacter formigenes HOxBLS', 'Fusobacterium gonidiaformans ATCC 25563', 'Fusobacterium mortiferum ATCC 9817', 'Fusobacterium nucleatum subsp. nucleatum ATCC 25586', 'Fusobacterium perfoetens ATCC 29250', 'Faecalibacterium prausnitzii A2-165', 'Fusobacterium russii ATCC 25533', 'Fusobacterium varium ATCC 27725', 'Fusobacterium necrophorum subsp. funduliforme ATCC 51357', 'Fusobacterium periodonticum ATCC 33693', 'Fusobacterium ulcerans ATCC 49185', 'Syntrophomonas wolfei subsp. wolfei str. Goettingen G311', 'Dichelobacter nodosus VCS1703A', 'Desulfocurvibacter africanus subsp. africanus str. Walvis Bay', 'Desulfovibrio desulfuricans ND132', 'Desulfovibrio fructosivorans JJ', 'Desulfovibrio gigas DSM 1382 = ATCC 19364', 'Desulfovibrio salexigens DSM 2638', 'Desulfovibrio vulgaris str. Hildenborough', 'Thermodesulfobacterium thermophilum DSM 1276', 'Desulfovibrio longus DSM 6739', 'Desulfobulbus propionicus DSM 2032', 'Desulfococcus multivorans DSM 2059', 'Desulfomicrobium baculatum DSM 4028', 'Desulfovibrio piger ATCC 29098', 'Acidaminococcus fermentans DSM 20731', 'Megasphaera elsdenii DSM 20460', 'Nitrobacter hamburgensis X14', 'Nitrobacter winogradskyi Nb-255', 'Nitrosomonas europaea ATCC 19718', 'Nitrosomonas eutropha C91', 'Acidithiobacillus ferrooxidans ATCC 23270', 'Starkeya novella DSM 506', 'Thiomonas intermedia K12', 'Halothiobacillus neapolitanus c2', 'Thermithiobacillus tepidarius DSM 3134', 'Acidithiobacillus thiooxidans ATCC 19377', 'Thiobacillus thioparus DSM 505', 'Thiomicrospira pelophila DSM 1534', 'Hydrogenobacter thermophilus TK-6', 'Ehrlichia canis str. Jake', 'Ehrlichia chaffeensis str. Arkansas', 'Anaplasma phagocytophilum str. HZ', 'Neorickettsia risticii str. Illinois', 'Neorickettsia sennetsu str. Miyayama', 'Bdellovibrio bacteriovorus HD100', 'Herbaspirillum seropedicae SmR1', 'Selenomonas ruminantium AB3002', 'Cellulophaga lytica DSM 7489', 'Saccharicrinis fermentans DSM 9555 = JCM 21142', 'Pedobacter heparinus DSM 2366', 'Cytophaga hutchinsonii ATCC 33406', 'Flavobacterium johnsoniae UW101', 'Marinilabilia salmonicolor JCM 21150', 'Flavobacterium hydatis', 'Solitalea canadensis DSM 3403', 'Flavobacterium columnare ATCC 49512', 'Bernardetia litoralis DSM 6794', 'Marivirga tractuosa DSM 4126', 'Saprospira grandis str. Lewin', 'Weeksella virosa DSM 16922', 'Bergeyella zoohelcum ATCC 43767', 'Capnocytophaga gingivalis ATCC 33624', 'Capnocytophaga ochracea F0287', 'Capnocytophaga sputigena ATCC 33612', 'Beggiatoa alba B18LD', 'Microscilla marina ATCC 23134', 'Thiothrix nivea DSM 5205', 'Afipia clevelandensis ATCC 49720', 'Afipia felis ATCC 53690', 'Erythrobacter longus', 'Allochromatium vinosum DSM 180', 'Halorhodospira halochloris str. A', 'Halorhodospira halophila SL1', 'Rhodobacter capsulatus SB 1003', 'Rhodobacter sphaeroides 2.4.1', 'Rhodomicrobium vannielii ATCC 17100', 'Rhodopseudomonas palustris CGA009', 'Phaeospirillum fulvum MGU-K5', 'Phaeospirillum molischianum DSM 120', 'Pararhodospirillum photometricum DSM 122', 'Rhodospirillum rubrum ATCC 11170', 'Rhodovibrio salinarum DSM 9154', 'Chlorobium limicola DSM 245', 'Chlorobium phaeovibrioides DSM 265', 'Chlorobium phaeobacteroides DSM 266', 'Chlorobaculum tepidum TLS', 'Pelodictyon luteolum DSM 273', 'Prosthecochloris aestuarii DSM 271', 'Chloroflexus aurantiacus J-10-fl', 'Chlorogloeopsis fritschii PCC 6912', 'Microcystis aeruginosa NIES-843', 'Synechocystis sp. PCC 6714', 'Synechocystis sp. PCC 6803 substr. Kazusa', 'Planktothrix agardhii NIVA-CYA 126/8', 'Anabaena cylindrica PCC 7122', 'Leptolyngbya boryana PCC 6306', 'Tolypothrix sp. PCC 7601', 'Trichodesmium erythraeum IMS101', 'Prochlorococcus marinus str. AS9601', 'Prochlorothrix hollandica PCC 9006 = CALU 1027', 'Nitrosococcus oceani ATCC 19707', 'Nitrosospira multiformis ATCC 25196', 'Leuconostoc gelidum subsp. gasicomitatum LMG 18811', 'Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293', 'Leuconostoc lactis', 'Oenococcus oeni PSU-1', 'Weissella paramesenteroides ATCC 33313', 'Leuconostoc fallax KCTC 3537', 'Leuconostoc carnosum JB16', 'Pediococcus acidilactici DSM 20284', 'Pediococcus pentosaceus ATCC 25745', 'Finegoldia magna ATCC 53516', 'Peptostreptococcus anaerobius VPI 4330 = DSM 2949', 'Ruminococcus albus 8', 'Ruminococcus flavefaciens FD-1', 'Micrococcus luteus NCTC 2665', 'Dermacoccus nishinomiyaensis', 'Kytococcus sedentarius DSM 20547', 'Staphylococcus aureus subsp. aureus Mu50', 'Staphylococcus carnosus subsp. carnosus TM300', 'Staphylococcus epidermidis RP62A', 'Staphylococcus haemolyticus JCSC1435', 'Staphylococcus hyicus', 'Staphylococcus intermedius NCTC 11048', 'Staphylococcus simulans UMC-CNS-990', 'Staphylococcus xylosus', 'Staphylococcus hominis SK119', 'Staphylococcus warneri L37603', 'Staphylococcus sciuri subsp. sciuri Z8', 'Deinococcus radiodurans R1', 'Streptococcus gordonii str. Challis substr. CH1', 'Streptococcus oralis subsp. tigurinus AZ_3a', 'Streptococcus salivarius 57.I', 'Streptococcus sanguinis SK1057', 'Streptococcus suis R61', 'Streptococcus thermophilus LMG 18311', 'Streptococcus mutans UA159', 'Streptococcus sobrinus W1703', 'Streptococcus agalactiae LMG 14747', 'Streptococcus pneumoniae R6', 'Streptococcus pyogenes', 'Streptococcus downei F0415', 'Streptococcus parasanguinis ATCC 903', 'Blautia hansenii DSM 20583', 'Faecalicoccus pleomorphus DSM 20574', 'Streptococcus anginosus DORA_7', 'Streptococcus canis FSL Z3-227', 'Streptococcus criceti HS-6', 'Streptococcus dysgalactiae subsp. equisimilis AC-2713', 'Streptococcus equinus ATCC 9812', 'Streptococcus equi subsp. zooepidemicus', 'Streptococcus intermedius B196', 'Streptococcus macacae NCTC 11558', 'Streptococcus porcinus str. Jelinkova 176', 'Streptococcus ratti FA-1 = DSM 20564', 'Streptococcus vestibularis F0396', 'Streptococcus ferus DSM 20646', 'Streptococcus iniae', 'Streptococcus parauberis NCFD 2020', 'Streptococcus uberis 0140J', 'Enterococcus faecalis V583', 'Enterococcus faecium C68', 'Enterococcus gallinarum EG2', 'Enterococcus hirae ATCC 9790', 'Enterococcus columbae DSM 7374 = ATCC 51263', 'Enterococcus sulfureus ATCC 49903', 'Lactococcus lactis subsp. cremoris SK11', 'Lactococcus garvieae DCC43', 'Lactococcus piscium MKFS47', 'Lactococcus raffinolactis 4877', 'Aerococcus urinae ACS-120-V-Col10a', 'Aerococcus viridans ATCC 11563 = CCUG 4311', 'Gemella haemolysans M341', 'Atopobium minutum 10063974', 'Atopobium parvulum DSM 20469', 'Atopobium rimae ATCC 49626', 'Bacillus amyloliquefaciens Y2', 'Aneurinibacillus aneurinilyticus ATCC 12856', 'Bacillus anthracis str. Ames', 'Brevibacillus brevis X23', 'Bacillus cereus', 'Bacillus coagulans 36D1', 'Bacillus firmus DS1', 'Bacillus licheniformis DSM 13 = ATCC 14580', 'Bacillus megaterium QM B1551', 'Bacillus mycoides KBAB4', 'Paenibacillus polymyxa SC2', 'Bacillus psychrosaccharolyticus ATCC 23296', 'Bacillus pumilus SAFR-032', 'Bacillus sp. (in: Bacteria)', 'Bacillus akibai JCM 9157', 'Bacillus cellulosilyticus DSM 2522', 'Lysinibacillus sphaericus OT4b.31', 'Bacillus subtilis subsp. subtilis str. 168', 'Parageobacillus thermoglucosidasius C56-YS93', 'Bacillus thuringiensis serovar kurstaki', 'Bacillus alcalophilus ATCC 27647 = CGMCC 1.3604', 'Amphibacillus xylanus NBRC 15112', 'Alicyclobacillus acidoterrestris ATCC 49025', 'Bacillus atrophaeus 1942', 'Geobacillus kaustophilus HTA426', 'Paenibacillus larvae subsp. larvae DSM 25430', 'Brevibacillus laterosporus DSM 25', 'Bacillus methanolicus PB1', 'Peribacillus simplex BA2H3', 'Bacillus smithii 7_3_47FAA', 'Virgibacillus halodenitrificans 1806', 'Clostridium acetobutylicum ATCC 824', 'Paraclostridium bifermentans WYM', 'Clostridium botulinum A2 str. Kyoto', 'Clostridium butyricum E4 str. BoNT E BL5262', 'Clostridium cellulovorans 743B', 'Clostridioides difficile', 'Ruminiclostridium josui JCM 17888', 'Clostridium pasteurianum BC1', 'Clostridium perfringens ATCC 13124', 'Paeniclostridium sordellii VPI 9048', 'Clostridium sp. ATCC 29733', 'Clostridium sporogenes PA 3679', 'Thermoclostridium stercorarium subsp. stercorarium DSM 8532', 'Acetoanaerobium sticklandii', 'Clostridium tetani 12124569', 'Hungateiclostridium thermocellum ATCC 27405', 'Thermoanaerobacter thermohydrosulfuricus WC1', 'Thermoanaerobacterium thermosaccharolyticum DSM 571', 'Clostridium tyrobutyricum DSM 2637 = ATCC 25755 = JCM 11008', 'Clostridium beijerinckii NCIMB 8052', 'Ruminiclostridium cellulolyticum H10', 'Moorella thermoacetica ATCC 39073', 'Clostridium cadaveris AGR2141', 'Clostridium kluyveri DSM 555', 'Clostridium ljungdahlii DSM 13528', 'Clostridioides mangenotii TR', 'Clostridium novyi B str. NCTC 9691', 'Erysipelatoclostridium ramosum DSM 1402', 'Clostridium scatologenes', 'Clostridium tetanomorphum DSM 665', 'Gottschalkia acidurici 9a', 'Peptoclostridium litorale DSM 5388', 'Clostridium baratii str. Sullivan', 'Desulfosporosinus orientis DSM 765', 'Desulfotomaculum ruminis DSM 2154', 'Desulfotomaculum nigrificans DSM 574', 'Halobacillus halophilus DSM 2266', 'Sporosarcina ureae DSM 2281', 'Leifsonia xyli subsp. cynodontis DSM 46306', 'Lactobacillus acidophilus 30SC', 'Lactobacillus brevis ATCC 367', 'Lactobacillus buchneri ATCC 11577', 'Lactobacillus casei BL23', 'Weissella confusa LBAE C39-2', 'Lactobacillus delbrueckii subsp. bulgaricus 2038', 'Lactobacillus helveticus CNRZ32', 'Lactobacillus hilgardii DSM 20176 = ATCC 8290', 'Lactobacillus pentosus KCA1', 'Lactobacillus plantarum WCFS1', 'Lactobacillus gasseri ATCC 33323 = JCM 1131', 'Lactobacillus paracasei subsp. paracasei ATCC 25302', 'Lactobacillus reuteri 100-23', 'Lactobacillus sakei subsp. sakei 23K', 'Lactobacillus amylovorus GRL 1112', 'Lactobacillus animalis', 'Lactobacillus coryniformis subsp. coryniformis KCTC 3167 = DSM 20001', 'Lactobacillus farciminis KCTC 3681 = DSM 20184', 'Lactobacillus fermentum IFO 3956', 'Lactobacillus fructivorans KCTC 3543 = DSM 20203', 'Weissella halotolerans DSM 20190', 'Lactobacillus murinus ASF361', 'Lactobacillus ruminis ATCC 27782', 'Lactobacillus salivarius UCC118', 'Lactobacillus sanfranciscensis TMW 1.1304', 'Kandleria vitulina MC3001', 'Fructobacillus fructosus KCTC 3544', 'Lactobacillus oris F0423', 'Lactobacillus vaginalis DSM 5837 = ATCC 49540', 'Listeria ivanovii subsp. londoniensis', 'Listeria monocytogenes EGD-e', 'Listeria seeligeri serovar 1/2b str. SLCC3954', 'Listeria grayi DSM 20601', 'Listeria innocua Clip11262', 'Listeria welshimeri serovar 6b str. SLCC5334', 'Renibacterium salmoninarum ATCC 33209', 'Erysipelothrix rhusiopathiae str. Fujisawa', 'Alloiococcus otitis ATCC 51267', 'Actinomyces naeslundii str. Howell 279', 'Actinomyces viscosus C505', 'Actinomyces israelii DSM 43320', 'Schaalia odontolytica ATCC 17982', 'Trueperella pyogenes TP8', 'Arthrobacter globiformis NBRC 12137', 'Bifidobacterium adolescentis', 'Bifidobacterium bifidum NCIMB 41171', 'Bifidobacterium angulatum DSM 20098 = JCM 7096', 'Bifidobacterium asteroides PRL2011', 'Bifidobacterium breve UCC2003', 'Bifidobacterium catenulatum DSM 16992 = JCM 1194 = LMG 11043', 'Bifidobacterium coryneforme', 'Bifidobacterium cuniculi', 'Bifidobacterium dentium Bd1', 'Bifidobacterium indicum LMG 11587 = DSM 20214', 'Bifidobacterium magnum', 'Bifidobacterium minimum', 'Bifidobacterium pseudolongum subsp. globosum', 'Corynebacterium ammoniagenes DSM 20306', 'Brevibacterium linens BL2', 'Cellulomonas fimi ATCC 484', 'Cellulosimicrobium cellulans J36', 'Cellulomonas flavigena DSM 20109', 'Oerskovia turbata', 'Corynebacterium diphtheriae PW8', 'Corynebacterium glutamicum', 'Corynebacterium pseudotuberculosis', 'Corynebacterium callunae DSM 20147', 'Corynebacterium variabile DSM 44702', 'Peptoclostridium acidaminophilum DSM 3953', 'Holdemanella biformis DSM 3989', 'Eubacterium limosum KIST612', 'Thermodesulfobacterium commune DSM 2178', 'Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1', 'Cutibacterium acnes KPA171202', 'Acidipropionibacterium acidipropionici ATCC 4875', 'Acidipropionibacterium jensenii DSM 20535', 'Pseudopropionibacterium propionicum F0230a', 'Acidipropionibacterium thoenii DSM 20276', 'Mycobacterium avium subsp. avium', 'Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841', 'Mycobacterium intracellulare ATCC 13950', 'Mycobacterium kansasii 732', 'Mycobacterium leprae TN', 'Mycolicibacterium phlei RIVM601174', 'Mycolicibacterium smegmatis MC2 155', 'Mycobacterium tuberculosis H37Rv', 'Mycobacteroides chelonae', 'Mycobacterium marinum M', 'Mycobacterium asiaticum DSM 44297', 'Mycolicibacterium neoaurum VKM Ac-1815D', 'Mycolicibacterium thermoresistibile ATCC 19527', 'Mycolicibacterium chubuense NBB4', 'Mycolicibacterium farcinogenes', 'Mycolicibacterium gilvum PYR-GCK', 'Mycobacterium ulcerans Agy99', 'Mycolicibacterium vaccae ATCC 25954', 'Amycolatopsis methanolica 239', 'Nocardia otitidiscaviarum NBRC 14405', 'Nocardia asteroides NBRC 15531', 'Rhodococcus fascians', 'Rhodococcus rhodochrous ATCC 21198', 'Rhodococcus ruber Chol-4', 'Rhodococcus erythropolis PR4', 'Saccharopolyspora erythraea NRRL 2338', 'Actinopolyspora halophila DSM 43834', 'Saccharomonospora viridis DSM 43017', 'Frankia alni ACN14a', 'Geodermatophilus obscurus DSM 43160', 'Actinoplanes missouriensis 431', 'Actinoplanes utahensis', 'Streptomyces albus subsp. albus', 'Kitasatospora aureofaciens', 'Streptomyces bikiniensis', 'Streptomyces coelicolor A3(2)', 'Streptomyces fradiae', 'Streptomyces glaucescens', 'Streptomyces griseus subsp. griseus NBRC 13350', 'Streptomyces hygroscopicus subsp. jinggangensis 5008', 'Streptomyces lividans 1326', 'Streptomyces scabiei 87.22', 'Streptomyces viridochromogenes DSM 40736', 'Streptomyces halstedii', 'Streptomyces purpureus KA281', 'Streptomyces sclerotialus', 'Streptomyces virginiae', 'Streptomyces cellulosae', 'Streptomyces chartreusis NRRL 12338', 'Actinomadura atramentaria DSM 43919', 'Actinomadura madurae LIID-AJ290', 'Microtetraspora glauca', 'Streptosporangium roseum DSM 43021', 'Streptosporangium amethystogenes', 'Thermobispora bispora DSM 43833', 'Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111', 'Nocardiopsis prasina DSM 43845', 'Thermomonospora curvata DSM 43183', 'Thermobifida fusca YX', 'Microbacterium testaceum StLB037', 'Curtobacterium flaccumfaciens UCD-AKU', 'Tropheryma whipplei str. Twist', 'Pimelobacter simplex', 'Rothia dentocariosa ATCC 17931', 'Mobiluncus curtisii ATCC 43063', 'Mobiluncus mulieris 28-1', 'Gordonia bronchialis DSM 43247', 'Gordonia terrae', 'Sphaerobacter thermophilus DSM 20745', 'Tsukamurella paurometabola DSM 20162', 'Kitasatospora setae KM-6054', 'Pseudonocardia autotrophica', 'Mycoplasma arginini 7264', 'Mycoplasma capricolum subsp. capricolum ATCC 27343', 'Mycoplasma gallisepticum', 'Mycoplasma genitalium G37', 'Mycoplasma hominis', 'Mycoplasma hyopneumoniae J', 'Mycoplasma hyorhinis SK76', 'Mycoplasma mycoides subsp. mycoides SC str. PG1', 'Mycoplasma pneumoniae', 'Mycoplasma leachii PG50', 'Mycoplasma pulmonis', 'Mycoplasma synoviae 53', 'Mycoplasma agalactiae PG2', 'Mycoplasma arthritidis 158L3-1', 'Mycoplasma bovigenitalium 51080', 'Mycoplasmopsis californica', 'Mycoplasma fermentans PG18', 'Mycoplasma iowae 695', 'Mycoplasma mobile', 'Mycoplasma putrefaciens Mput9231', 'Mycoplasma flocculare ATCC 27399', 'Ureaplasma urealyticum serovar 7 str. ATCC 27819', 'Spiroplasma melliferum IPMB4A', 'Spiroplasma apis B31', 'Spiroplasma mirum ATCC 29335', 'Spiroplasma taiwanense CT-1', 'Acholeplasma laidlawii PG-8A', 'Acholeplasma modicum ATCC 29102', 'Mesoplasma florum L1', 'Methanobrevibacter smithii ATCC 35061', 'Methanohalophilus mahii DSM 5219', 'Methanothermus fervidus DSM 2088', 'Methanothermococcus thermolithotrophicus DSM 2095', 'Methanococcus vannielii SB', 'Methanococcus voltae A3', 'Methanotorris igneus Kol 5', 'Methanocaldococcus jannaschii DSM 2661', 'Methanoculleus marisnigri JR1', 'Methanofollis liminatans DSM 4140', 'Methanospirillum hungatei JF-1', 'Methanomicrobium mobile BP', 'Methanosarcina barkeri str. Fusaro', 'Methanosarcina mazei Go1', 'Methanosarcina thermophila TM-1', 'Methanosarcina acetivorans C2A', 'Methanosarcina vacuolata Z-761', 'Methanothrix soehngenii GP6', 'Methanothrix thermoacetophila PT', 'Methanococcoides methylutens MM1', 'Archaeoglobus fulgidus DSM 4304', 'Haloarcula marismortui ATCC 43049', 'Halobacterium salinarum NRC-1', 'Haloferax volcanii DS2', 'Halorubrum lacusprofundi ATCC 49239', 'Halorubrum saccharovorum DSM 1137', 'Halococcus morrhuae DSM 1307', 'Haloferax mediterranei ATCC 33500', 'Natronomonas pharaonis DSM 2160', 'Pyrococcus furiosus DSM 3638', 'Thermococcus litoralis DSM 5473', 'Thermofilum pendens Hrk 5', 'Thermoproteus tenax Kra 1', 'Desulfurococcus mucosus DSM 2162', 'Pyrobaculum islandicum DSM 4184', 'Staphylothermus marinus F1', 'Sulfolobus acidocaldarius DSM 639', 'Saccharolobus solfataricus P2', 'Desulfobacter curvatus DSM 3379', 'Desulfobacter postgatei 2ac9', 'Desulfobacterium autotrophicum HRM2', 'Thermoplasma acidophilum DSM 1728', 'Methanoplanus limicola DSM 2279', 'Methanosphaera stadtmanae DSM 3091', 'Methanopyrus kandleri AV19', 'Methanohalobium evestigatum Z-7303', 'Thermoanaerobacter kivui', 'Halanaerobium praevalens DSM 2228', 'Thermotoga maritima MSB8', 'Thermotoga neapolitana DSM 4359', 'Solemya velum gill symbiont', 'Haliscomenobacter hydrossis DSM 1100', 'Flexistipes sinusarabici DSM 4947', 'Desulfomonile tiedjei DSM 6799', 'Xylella fastidiosa 9a5c', 'Acetonema longum DSM 6540', 'Sporomusa ovata DSM 2662', 'Thermosipho africanus TCF52B', 'Fervidobacterium islandicum', 'Fervidobacterium nodosum Rt17-B1', 'Teredinibacter turnerae T7901', 'Roseobacter denitrificans OCh 114', 'Gardnerella vaginalis 6119V5', 'Citrus sinensis', 'Cardiobacterium hominis ATCC 15826', 'Hirschia baltica ATCC 49814', 'Symbiobacterium thermophilum IAM 14863', 'Verrucomicrobium spinosum DSM 4136 = JCM 18804', 'Marinobacter hydrocarbonoclasticus VT8', 'Halomonas elongata DSM 2581', 'Carnobacterium divergens DSM 20623', 'Carnobacterium gallinarum DSM 4847', 'Carnobacterium mobile DSM 4848', 'Carnobacterium maltaromaticum LMA28', 'Carnobacterium funditum DSM 5970', 'Synergistes jonesii', 'Chondrus crispus', 'Phaeodactylum tricornutum', 'Ectocarpus siliculosus', 'Cryptomonas paramecium', 'Emiliania huxleyi', 'Symbiodinium microadriaticum', 'Chlamydomonas reinhardtii', 'Volvox carteri', 'Auxenochlorella protothecoides', 'Marchantia polymorpha', 'Physcomitrium patens', 'Cannabis sativa', 'Actinidia chinensis var. chinensis', 'Theobroma cacao', 'Carica papaya', 'Citrullus lanatus', 'Cucumis melo', 'Cucumis sativus', 'Populus trichocarpa', 'Arabidopsis thaliana', 'Brassica napus', 'Brassica rapa', 'Brassica oleracea', 'Malus domestica', 'Prunus dulcis', 'Prunus persica', 'Cajanus cajan', 'Cicer arietinum', 'Glycine max', 'Glycine soja', 'Lupinus angustifolius', 'Medicago truncatula', 'Phaseolus vulgaris', 'Vigna angularis', 'Manihot esculenta', 'Ricinus communis', 'Linum usitatissimum', 'Daucus carota subsp. sativus', 'Capsicum annuum', 'Solanum lycopersicum', 'Nicotiana sylvestris', 'Nicotiana tabacum', 'Nicotiana tomentosiformis', 'Nicotiana benthamiana', 'Solanum commersonii', 'Solanum tuberosum', 'Olea europaea', 'Erythranthe guttata', 'Sesamum indicum', 'Helianthus annuus', 'Cynara cardunculus var. scolymus', 'Nelumbo nucifera', 'Hordeum vulgare', 'Oryza longistaminata', 'Oryza rufipogon', 'Oryza sativa Japonica Group', 'Oryza brachyantha', 'Oryza nivara', 'Oryza punctata', 'Oryza glaberrima', 'Setaria italica', 'Setaria viridis', 'Sorghum bicolor', 'Triticum aestivum', 'Triticum turgidum subsp. durum', 'Triticum urartu', 'Zea mays', 'Ananas comosus', 'Musa acuminata', 'Pneumocystis carinii', 'Plasmopara halstedii', 'Phytophthora infestans', 'Phytophthora nicotianae', 'Phytophthora parasitica', 'Phytophthora megakarya', 'Phytophthora palmivora var. palmivora', 'Phycomyces blakesleeanus', 'Schizosaccharomyces pombe 972h-', 'Schizosaccharomyces japonicus', 'Schizosaccharomyces octosporus', 'Cyberlindnera jadinii', 'Pichia kudriavzevii', 'Kluyveromyces marxianus DMKU3-1042', 'Lachancea waltii', 'Pachysolen tannophilus NRRL Y-2460', 'Millerozyma farinosa', 'Komagataella pastoris', 'Scheffersomyces stipitis', 'Pichia membranifaciens NRRL Y-2026', 'Wickerhamomyces anomalus', 'Meyerozyma guilliermondii', 'Saccharomyces bayanus', 'Saccharomyces cerevisiae S288C', 'Lachancea kluyveri', 'Torulaspora delbrueckii CBS 1146', 'Yarrowia lipolytica CLIB122', 'Zygosaccharomyces bailii CLIB 213', 'Lachancea fermentati', 'Zygosaccharomyces rouxii', 'Debaryomyces hansenii', 'Kockovaella imperatae', 'Brettanomyces bruxellensis', 'Taphrina deformans PYCC 5710', 'Bipolaris maydis', 'Bipolaris zeicola', 'Leptosphaeria maculans', 'Histoplasma capsulatum', 'Blastomyces dermatitidis', 'Acremonium chrysogenum ATCC 11550', 'Aspergillus aculeatus', 'Aspergillus clavatus', 'Aspergillus flavus', 'Aspergillus niger', 'Aspergillus oryzae', 'Penicillium camemberti', 'Penicillium chrysogenum', 'Penicillium roqueforti', 'Amorphotheca resinae ATCC 22711', 'Ascosphaera apis ARSEF 7405', 'Claviceps purpurea 20.1', 'Epichloe typhina E8', 'Cryphonectria parasitica', 'Fusarium fujikuroi', 'Neurospora crassa OR74A', 'Sordaria macrospora k-hell', 'Ophiostoma ulmi', 'Sclerotinia sclerotiorum 1980 UF-70', 'Cryptococcus neoformans var. neoformans JEC21', 'Cryptococcus depauperatus CBS 7841', 'Tremella mesenterica', 'Exidia glandulosa HHB12029', 'Ustilago maydis 521', 'Microbotryum violaceum', 'Tilletiaria anomala UBC 951', 'Rhodotorula toruloides', 'Puccinia graminis f. sp. tritici CRL 75-36-700-3', 'Phanerochaete chrysosporium', 'Pleurotus ostreatus var. ostreatus', 'Trametes versicolor FP-101664 SS1', 'Schizophyllum commune', 'Agaricus bisporus', 'Coprinopsis cinerea', 'Lentinula edodes', 'Suillus luteus UH-Slu-Lm8-n1', 'Ascochyta rabiei', 'Colletotrichum orbiculare', 'Candida albicans SC5314', 'Candida maltosa', 'Candida parapsilosis', 'Diutina rugosa', 'Candida tropicalis', 'Coccidioides immitis', 'Fusarium oxysporum', 'Fusarium culmorum CS7071', 'Fusarium graminearum', 'Metarhizium anisopliae ARSEF 549', 'Rhodotorula glutinis', 'Trichoderma harzianum', 'Trichoderma longibrachiatum ATCC 18648', 'Trichophyton rubrum', 'Aureobasidium pullulans EXF-150', 'Alternaria alternata', 'Phialophora americana', 'Saitoella complicata NRRL Y-17804', 'Cryptococcus wingfieldii CBS 7118', 'Grifola frondosa', 'Laetiporus sulphureus 93-53', 'Trametes cinnabarina', 'Leishmania braziliensis MHOM/BR/75/M2904', 'Leishmania donovani BPK282A1', 'Leishmania major', 'Leishmania mexicana MHOM/GT/2001/U1103', 'Leishmania infantum JPCM5', 'Leishmania panamensis', 'Leptomonas seymouri', 'Leishmania tarentolae', 'Trypanosoma brucei brucei', 'Trypanosoma cruzi', 'Trypanosoma equiperdum', 'Trypanosoma rangeli SC58', 'Trichomonas vaginalis', 'Giardia lamblia ATCC 50803', 'Acanthamoeba castellanii str. Neff', 'Entamoeba histolytica', 'Naegleria gruberi', 'Dictyostelium purpureum', 'Eimeria acervulina', 'Eimeria tenella', 'Eimeria maxima', 'Cryptosporidium parvum Iowa II', 'Cryptosporidium muris', 'Toxoplasma gondii ME49', 'Plasmodium berghei', 'Plasmodium chabaudi', 'Plasmodium cynomolgi strain B', 'Plasmodium falciparum 3D7', 'Plasmodium gallinaceum', 'Plasmodium knowlesi strain H', 'Plasmodium reichenowi', 'Plasmodium vivax Sal-1', 'Plasmodium fragile', 'Plasmodium malariae', 'Plasmodium vinckei', 'Plasmodium yoelii yoelii', 'Babesia bovis T2Bo', 'Babesia bigemina', 'Theileria equi', 'Theileria annulata', 'Theileria parva', 'Paramecium tetraurelia', 'Tetrahymena thermophila', 'Ichthyophthirius multifiliis', 'Stylonychia lemnae', 'Stentor coeruleus', 'Exophiala dermatitidis', 'Encephalitozoon cuniculi', 'Hydra vulgaris', 'Schistosoma japonicum', 'Schistosoma mansoni', 'Schistosoma haematobium', 'Echinococcus multilocularis', 'Caenorhabditis briggsae', 'Caenorhabditis elegans', 'Ascaris suum', 'Brugia malayi', 'Onchocerca volvulus', 'Meloidogyne hapla', 'Bursaphelenchus xylophilus', 'Trichinella spiralis', 'Helobdella robusta', 'Aplysia californica', 'Biomphalaria glabrata', 'Crassostrea virginica', 'Mizuhopecten yessoensis', 'Daphnia pulex', 'Tigriopus californicus', 'Ixodes scapularis', 'Blattella germanica', 'Acyrthosiphon pisum', 'Bemisia tabaci', 'Tribolium castaneum', 'Bombyx mori', 'Aedes aegypti', 'Aedes albopictus', 'Anopheles gambiae', 'Anopheles albimanus', 'Anopheles dirus', 'Anopheles arabiensis', 'Culex pipiens', 'Culex quinquefasciatus', 'Lutzomyia longipalpis', 'Loa loa', 'Ceratitis capitata', 'Drosophila ananassae', 'Drosophila erecta', 'Drosophila grimshawi', 'Drosophila melanogaster', 'Drosophila mojavensis', 'Drosophila persimilis', 'Drosophila pseudoobscura pseudoobscura', 'Drosophila sechellia', 'Drosophila simulans', 'Drosophila virilis', 'Drosophila yakuba', 'Drosophila willistoni', 'Drosophila saltans', 'Musca domestica', 'Lucilia cuprina', 'Glossina morsitans morsitans', 'Glossina austeni', 'Glossina fuscipes fuscipes', 'Glossina palpalis gambiensis', 'Glossina pallidipes', 'Nasonia vitripennis', 'Apis mellifera', 'Lingula anatina', 'Strongylocentrotus purpuratus', 'Ciona intestinalis', 'Branchiostoma floridae', 'Branchiostoma lanceolatum', 'Petromyzon marinus', 'Eptatretus burgeri', 'Callorhinchus milii', 'Latimeria chalumnae', 'Lepisosteus oculatus', 'Clupea harengus', 'Danio rerio', 'Carassius auratus', 'Cyprinus carpio', 'Astyanax mexicanus', 'Ictalurus punctatus', 'Electrophorus electricus', 'Esox lucius', 'Oncorhynchus kisutch', 'Oncorhynchus mykiss', 'Salmo salar', 'Salmo trutta', 'Gadus morhua', 'Fundulus heteroclitus', 'Poecilia reticulata', 'Xiphophorus maculatus', 'Oryzias latipes', 'Cyclopterus lumpus', 'Oreochromis niloticus', 'Haplochromis burtoni', 'Astatotilapia calliptera', 'Sparus aurata', 'Lates calcarifer', 'Xenopus tropicalis', 'Chelonia mydas', 'Chelydra serpentina', 'Chrysemys picta', 'Alligator mississippiensis', 'Crocodylus porosus', 'Sphenodon punctatus', 'Laticauda laticaudata', 'Notechis scutatus', 'Pseudonaja textilis', 'Dromaius novaehollandiae', 'Struthio camelus', 'Apteryx haastii', 'Apteryx owenii', 'Anas platyrhynchos', 'Anser cygnoides', 'Cairina moschata domestica', 'Chaetura pelagica', 'Columba livia', 'Falco peregrinus', 'Aquila chrysaetos chrysaetos', 'Haliaeetus albicilla', 'Numida meleagris', 'Gallus gallus', 'Pavo cristatus', 'Phasianus colchicus', 'Chrysolophus pictus', 'Meleagris gallopavo', 'Serinus canaria', 'Parus major', 'Phalacrocorax carbo', 'Phoenicopterus ruber ruber', 'Aptenodytes forsteri', 'Pygoscelis adeliae', 'Calypte anna', 'Ornithorhynchus anatinus', 'Sarcophilus harrisii', 'Notamacropus eugenii', 'Choloepus hoffmanni', 'Dasypus novemcinctus', 'Erinaceus europaeus', 'Echinops telfairi', 'Pteropus alecto', 'Callithrix jacchus', 'Cercocebus atys', 'Macaca fascicularis', 'Macaca mulatta', 'Macaca nemestrina', 'Papio anubis', 'Theropithecus gelada', 'Mandrillus leucophaeus', 'Gorilla gorilla gorilla', 'Pan paniscus', 'Pan troglodytes', 'Pongo abelii', 'Homo sapiens', 'Canis lupus familiaris', 'Vulpes vulpes', 'Ursus thibetanus thibetanus', 'Ursus americanus', 'Ailuropoda melanoleuca', 'Mustela putorius', 'Felis catus', 'Panthera leo', 'Panthera onca', 'Panthera pardus', 'Panthera tigris', 'Zalophus californianus', 'Odobenus rosmarus', 'Leptonychotes weddellii', 'Orcinus orca', 'Tursiops truncatus', 'Delphinapterus leucas', 'Physeter catodon', 'Balaenoptera acutorostrata', 'Balaenoptera musculus', 'Trichechus manatus', 'Loxodonta africana', 'Equus asinus asinus', 'Equus caballus', 'Procavia capensis', 'Orycteropus afer', 'Sus scrofa', 'Camelus dromedarius', 'Bison bison bison', 'Bos taurus', 'Capra hircus', 'Ovis aries', 'Ochotona princeps', 'Oryctolagus cuniculus', 'Marmota marmota marmota', 'Urocitellus parryii', 'Dipodomys ordii', 'Cricetulus griseus', 'Mesocricetus auratus', 'Peromyscus maniculatus', 'Meriones unguiculatus', 'Mus caroli', 'Mus musculus', 'Mus pahari', 'Mus spretus', 'Mus spicilegus', 'Rattus norvegicus', 'Cavia porcellus', 'Octodon degus', 'Heterocephalus glaber', 'Saccoglossus kowalevskii', 'Trichoplax adhaerens', 'Sagitta elegans', 'Atta cephalotes', 'Blastocystis hominis', 'Danaus plexippus', 'Lynx lynx', 'Melopsittacus undulatus', 'Myzus persicae', 'Rhodnius prolixus', 'Tilletia caries', 'Tilletia controversa', 'Amborella trichopoda', 'Anaerobiospirillum succiniciproducens DSM 6400', 'Arthrobotrys oligospora ATCC 24927', 'Burkholderia mallei ATCC 23344', 'Dicentrarchus labrax', 'Monodelphis domestica', 'Parastagonospora nodorum SN15', 'Solenopsis invicta', 'Sphingomonas paucimobilis', 'Sphingobium yanoikuyae', 'Syncephalastrum racemosum', 'Pelodiscus sinensis', 'Utricularia gibba', 'Natrialba magadii ATCC 43099', 'Pyrobaculum aerophilum str. IM2', 'Brachypodium distachyon', 'Naumovozyma castellii', 'Naumovozyma dairenensis CBS 421', 'Saccharomyces paradoxus', 'Saccharomyces pastorianus Weihenstephan 34/70', 'Metschnikowia bicuspidata var. bicuspidata NRRL YB-4993', 'Penicillium expansum', 'Verticillium dahliae VdLs.17', 'Schizopora paradoxa', 'Puccinia coronata var. avenae f. sp. avenae', 'Puccinia sorghi', 'Puccinia striiformis', 'Saimiri boliviensis', 'Erpetoichthys calabaricus', 'Mnemiopsis leidyi', 'Encephalitozoon hellem ATCC 50504', 'Nosema bombycis CQ1', 'Strigomonas culicis', 'Bifidobacterium animalis subsp. lactis BB-12', 'Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505', 'Lysinibacillus fusiformis ZC1', 'Staphylococcus lugdunensis HKU09-01', 'Streptococcus mitis B6', 'Lactobacillus curvatus CRL 705', 'Saccharopolyspora rectivirgula', 'Acidothermus cellulolyticus 11B', 'Lachnospira multipara ATCC 19207', 'Rubrivivax gelatinosus IL144', 'Nostoc sp. PCC 7524', 'Campylobacter upsaliensis RM3195', 'Legionella anisa str. Linanisette', 'Legionella sainthelensi ATCC 35248 = DSM 19231', 'Acinetobacter lwoffii SH145', 'Neisseria weaveri LMG 5135', 'Burkholderia gladioli BSR3', 'Mesorhizobium huakuii 7653R', "Alteromonas macleodii str. 'Black Sea 11'", 'Francisella philomiragia subsp. philomiragia ATCC 25017', 'Bacteroides eggerthii DSM 20697', 'Tannerella forsythia 92A2', 'Porphyromonas levii DSM 23370', 'Porphyromonas macacae', 'Bacteroides ovatus ATCC 8483', 'Alistipes putredinis DSM 17216', 'Odoribacter splanchnicus DSM 20712', 'Porphyromonas asaccharolytica DSM 20707', 'Porphyromonas endodontalis ATCC 35406', 'Prevotella bivia DNF00188', 'Prevotella buccae ATCC 33574', 'Prevotella buccalis ATCC 35310', 'Prevotella corporis DSM 18810 = JCM 8529', 'Prevotella denticola F0289', 'Prevotella disiens JCM 6334 = ATCC 29426', 'Prevotella intermedia 17', 'Prevotella melaninogenica ATCC 25845', 'Prevotella nigrescens ATCC 33563', 'Prevotella oralis ATCC 33269', 'Prevotella oris C735', 'Prevotella oulorum JCM 14966', 'Prevotella veroralis F0319', 'Rikenella microfusus DSM 15922', 'Cronobacter sakazakii ATCC BAA-894', 'Serratia proteamaculans 568', 'Yersinia kristensenii', 'Vibrio metschnikovii CIP 69.14', 'Vibrio nigripulchritudo SOn1', 'Vibrio orientalis CIP 102891 = ATCC 33934', 'Candidatus Photodesmus katoptron', 'Acetohalobium arabaticum DSM 5501', 'Capnocytophaga canimorsus Cc5', 'Capnocytophaga cynodegmi DSM 19736', 'Arcobacter butzleri RM4018', 'Arcobacter nitrofigilis DSM 7299', 'Sphingomonas parapaucimobilis NBRC 15100', 'Desulfobacula toluolica Tol2', 'Mycoplasma penetrans', 'Colwellia psychrerythraea', 'Carnobacterium alterfunditum DSM 5972', 'Geobacter metallireducens GS-15', 'Ornithobacterium rhinotracheale DSM 15997', 'Cobetia marina', 'Thermodesulfovibrio yellowstonii DSM 11347', 'Arcanobacterium haemolyticum DSM 20595', 'Anolis carolinensis', 'Herbidospora cretacea', 'Clavibacter michiganensis subsp. sepedonicus', 'Komagataeibacter xylinus E25', 'Neisseria subflava NJ9703', 'Burkholderia pseudomallei K96243', 'Tarenaya hassleriana', 'Talaromyces stipitatus ATCC 10500', 'Talaromyces islandicus', 'Allomyces macrogynus', 'Elephantulus edwardii', 'Cyprinodon variegatus', 'Thermoanaerobacterium saccharolyticum JW/SL-YS485', 'Salmonella enterica subsp. enterica serovar Typhimurium str. LT2', 'Mycoplasma bovis PG45', 'Kluyveromyces lactis', 'Alternaria brassicicola', 'Drosophila eugracilis', 'Drosophila takahashii', 'Phlebotomus papatasi', 'Panthera uncia', 'Ursus maritimus', 'Eptesicus fuscus', 'Vombatus ursinus', 'Mytilus galloprovincialis', 'Crassostrea gigas', 'Neospora caninum', 'Haloarcula japonica DSM 6131', 'Natronococcus occultus SP4', 'Methanococcoides burtonii DSM 6242', 'Pyrococcus abyssi GE5', 'Streptomyces cattleya NRRL 8057 = DSM 46488', 'Streptomyces griseoluteus', 'Paenarthrobacter nicotinovorans 231Sha2.1M6', 'Corynebacterium otitidis ATCC 51513', 'Thermoanaerobacter brockii subsp. finnii Ako-1', 'Thermoanaerobacterium xylanolyticum LX-11', 'Ruminiclostridium cellobioparum subsp. termitidis CT1112', 'Cellulosilyticum lentocellum DSM 5427', 'Tyzzerella nexilis DSM 1787', 'Ruminiclostridium papyrosolvens DSM 2782', 'Clostridium paraputrificum AGR2156', 'Staphylococcus caprae M23864:W1', 'Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292', 'Staphylococcus capitis C87', 'Gemella morbillorum M424', 'Dolosigranulum pigrum ATCC 51524', 'Microlunatus phosphovorus NM-1', 'Helicobacter canis NCTC 12740', 'Legionella oakridgensis ATCC 33761 = DSM 21215', 'Acinetobacter haemolyticus MTCC 9819', 'Psychrobacter phenylpyruvicus DSM 7000 = NBRC 102152', 'Pseudomonas savastanoi pv. phaseolicola 1448A', 'Xanthomonas albilineans GPE PC73', 'Bradyrhizobium elkanii WSM2783', 'Rhizobium etli CIAT 652', 'Rhizobium leucaenae USDA 9039', 'Brucella melitensis bv. 1 str. 16M', 'Brucella neotomae 5K33', 'Brucella suis 1330', 'Veillonella parvula DSM 2008', 'Pectobacterium atrosepticum SCRI1043', 'Yersinia aldovae ATCC 35236', 'Yersinia frederiksenii ATCC 33641', 'Yersinia rohdei', 'Yersinia ruckeri', 'Vibrio furnissii NCTC 11218', 'Vibrio navarrensis', 'Vibrio splendidus ZS-139', 'Vibrio tubiashii ATCC 19109', 'Mycoplasma haemofelis Ohio2', 'Turneriella parva DSM 21527', 'Borreliella afzelii PKo', 'Borreliella garinii BgVir', 'Borrelia crocidurae DOU', 'Cytophaga aurantiaca DSM 3654', 'Flavobacterium succinicans LMG 10402', 'Pelobacter propionicus DSM 2379', 'Lawsonia intracellularis PHE/MN1-00', 'Rhodothermus marinus DSM 4252', 'Acholeplasma axanthum ATCC 25176', 'Mycoplasma canadense', 'Mycoplasma canis PG 14', 'Mycoplasma meleagridis', 'Mycoplasma ovipneumoniae 14811', 'Taylorella equigenitalis MCE9', 'Janthinobacterium lividum', 'Dioscorea cayenensis subsp. rotundata', 'Gossypium raimondii', 'Vitis vinifera', 'Lipomyces starkeyi NRRL Y-11557', 'Lachancea cidri', 'Hanseniaspora uvarum DSM 2768', 'Penicillium vulpinum', 'Gaeumannomyces graminis', 'Trichoderma virens', 'Neurospora discreta FGSC 8579', 'Laccaria bicolor', 'Calocera cornea HHB12733', 'Rhodotorula graminis WP1', 'Sporothrix schenckii', 'Tolypocladium inflatum', 'Phytophthora cactorum', 'Drosophila elegans', 'Drosophila emarginata', 'Drosophila ficusphila', 'Drosophila kikkawai', 'Drosophila neocordata', 'Drosophila prosaltans', 'Drosophila sturtevanti', 'Anopheles merus', 'Anopheles stephensi', 'Bombus terrestris', 'Opisthocomus hoazin', 'Fulmarus glacialis', 'Bubo bubo', 'Nothoprocta perdicaria', 'Tinamus major', 'Bos grunniens', 'Bos indicus x Bos taurus', 'Vicugna pacos', 'Microcebus murinus', 'Otolemur garnettii', 'Oryzias melastigma', 'Takifugu rubripes', 'Caenorhabditis remanei', 'Perkinsus marinus ATCC 50983', 'Enterocytozoon bieneusi H348', 'Colletotrichum graminicola M1.001', 'Caldicellulosiruptor bescii DSM 6725', 'Halothermothrix orenii H 168', 'Amycolatopsis orientalis DSM 40040 = KCTC 9412', 'Amycolatopsis lurida NRRL 2430', 'Absiella dolichum DSM 3991', 'Eggerthia catenaformis OT 569 = DSM 20559', 'Methylobacterium radiotolerans JCM 2831', 'Helicobacter hepaticus ATCC 51449', 'Synechococcus elongatus', 'Synechococcus sp. PCC 7002', 'Synechococcus sp. WH 7803', 'Calothrix sp. PCC 6303', 'Calothrix sp. PCC 7103', 'Tetranychus urticae', 'Xiphophorus couchianus', 'Neolamprologus brichardi', 'Desulfurella acetivorans A63', 'Winkia neuii subsp. neuii DSM 8576', 'Cutibacterium avidum 44067', 'Cutibacterium granulosum TM11', 'Propionimicrobium lymphophilum ACS-093-V-SCH5', 'Sporolactobacillus laevolacticus DSM 442', 'Anaerococcus hydrogenalis DSM 7454', 'Peptoniphilus indolicus ATCC 29427', 'Peptoniphilus lacrimalis 315-B', 'Anaerococcus lactolyticus ATCC 51172', 'Parvimonas micra ATCC 33270', 'Anaerococcus prevotii DSM 20548', 'Blautia producta', 'Anaerococcus tetradius ATCC 35098', 'Anaerococcus vaginalis ATCC 51170', 'Coprococcus eutactus ATCC 27759', 'Bartonella doshiae NCTC 12862 = ATCC 700133', 'Bartonella grahamii as4aup', 'Bartonella taylorii 8TBB', 'Bartonella vinsonii subsp. arupensis Pm136co', 'Candidatus Kinetoplastibacterium crithidii TCC036E', 'Acidithiobacillus caldus ATCC 51756', 'Gloeobacter violaceus PCC 7421', 'Acidobacterium capsulatum ATCC 51196', 'Entamoeba invadens IP1', 'Eremothecium gossypii ATCC 10895', 'Aspergillus terreus', 'Uncinocarpus reesii 1704', 'Purpureocillium lilacinum', 'Gambusia affinis', 'Coriobacterium glomerans PW2', 'Catenuloplanes japonicus', 'Brevibacterium casei S18', 'Streptomyces galbus', 'Streptomyces avermitilis MA-4680 = NBRC 14893', 'Bifidobacterium thermophilum', 'Actinopolyspora mortivallis DSM 44261', 'Amycolatopsis mediterranei U32', 'Anoxybacillus flavithermus subsp. yunnanensis str. E13', 'Geobacillus thermodenitrificans NG80-2', 'Geobacillus thermoleovorans CCB_US3_UF5', 'Kyrpidia tusciae DSM 2912', 'Enterococcus avium ATCC 14025', 'Acetobacterium woodii DSM 1030', 'Lactobacillus johnsonii NCC 533', 'Leuconostoc citreum KM20', 'Leuconostoc pseudomesenteroides 4882', 'Melissococcus plutonius ATCC 35311', 'Rickettsia amblyommatis str. GAT-30V', 'Rickettsia bellii OSU 85-389', 'Rickettsia montanensis str. OSU 85-930', 'Rickettsia rhipicephali str. 3-7-female6-CWPP', 'Neorickettsia helminthoeca str. Oregon', 'Gluconacetobacter diazotrophicus PA1 5', 'Paracoccus aminophilus JCM 7686', 'Paracoccus versutus', 'Azospirillum halopraeferens DSM 3675', 'Rhodospirillum centenum SW', 'Candidatus Liberibacter asiaticus str. gxpsy', 'Leptothrix cholodnii SP-6', 'Rahnella aquatilis CIP 78.65 = ATCC 33071', 'Variovorax paradoxus 110B', 'Riemerella anatipestifer RA-GD', 'Pedobacter antarcticus 4BY', 'Pelodictyon phaeoclathratiforme BU-1', 'Sphaerotilus natans subsp. natans DSM 6575', 'Streptobacillus moniliformis DSM 12112', 'Lotus japonicus', 'Mixia osmundae', 'Blumeria graminis', 'Trichophyton tonsurans', 'Trichophyton violaceum', 'Conidiobolus coronatus NRRL 28638', 'Strongyloides ratti', 'Anopheles melas', 'Anopheles quadriannulatus', 'Heliconius melpomene plesseni', 'Chinchilla lanigera', 'Thalassiosira pseudonana', 'Nosema apis BRL 01', 'Eubacterium brachy ATCC 33089', 'Eubacterium nodatum ATCC 33099', 'Daphnia magna', 'Geobacter sulfurreducens PCA', 'Stomoxys calcitrans', 'Streptomyces griseoflavus Tu4000', 'Streptomyces mobaraensis NBRC 13819 = DSM 40847', 'Acholeplasma oculi', 'Naja naja', 'Heliobacterium modesticaldum Ice1', 'Citrobacter amalonaticus', 'Epichloe festucae', 'Macrophomina phaseolina MS6', 'Sporichthya polymorpha DSM 43042', 'Dactylosporangium aurantiacum', 'Corynebacterium kutscheri', 'Corynebacterium pilosum DSM 20521', 'Bifidobacterium choerinum', "Peanut witches'-broom phytoplasma NTU2011", 'Coprothermobacter proteolyticus DSM 5265', 'Rickettsia africae ESF-5', 'Rickettsia helvetica C9P9', 'Rickettsia japonica YH', 'Rickettsia massiliae str. AZT80', 'Rickettsia parkeri str. Portsmouth', 'Rickettsia sibirica 246', 'Rickettsia slovaca str. D-CWPP', 'Ehrlichia muris AS145', 'Nitrococcus mobilis Nb-231', 'Nitrosospira briensis C-128', 'Nitrospina gracilis 3/211', 'Rhodovulum sulfidophilum DSM 1374', 'Bordetella holmesii ATCC 51541', 'Helicobacter heilmannii ASB1.4', 'Helicobacter pullorum MIT 98-5489', 'Pseudobacteroides cellulosolvens ATCC 35603 = DSM 2933', 'Hungateiclostridium cellulolyticum CD2', 'Bilophila wadsworthia ATCC 49260', 'Holophaga foetida DSM 6591', 'Bacillus thermoamylovorans', 'Ipomoea triloba', 'Cyberlindnera fabianii', 'Vanderwaltozyma polyspora DSM 70294', 'Fusarium poae', 'Cantharellus cibarius var. cibarius', 'Ganoderma sinense ZZ0214-1', 'Mucor circinelloides', 'Megaselia scalaris', 'Pelecanus crispus', 'Plasmodium ovale curtisi', 'Globisporangium irregulare', 'Aspergillus fischeri NRRL 181', 'Penicillium coprophilum', 'Penicillium digitatum', 'Dermabacter hominis 1368', 'Clostridium saccharoperbutylacetonicum N1-4(HMT)', 'Pseudomonas cichorii JBC1', 'Gaeumannomyces tritici', 'Mycobacteroides abscessus', 'Mycobacterium genavense ATCC 51234', 'Mycolicibacterium rhodesiae JS60', 'Gordonia aichiensis NBRC 108223', 'Gordonia amarae NBRC 15530', 'Gordonia sputi NBRC 100414', 'Clostridium celatum DSM 1785', 'Clostridium intestinale URNW', 'Desulfitobacterium dehalogenans ATCC 51507', 'Brucella canis ATCC 23365', 'Thiobacillus denitrificans DSM 12475', 'Paraburkholderia xenovorans LB400', 'Porphyromonas cangingivalis', 'Porphyromonas canoris', 'Clavispora lusitaniae', 'Lodderomyces elongisporus', 'Glossina brevipalpis', 'Kryptolebias marmoratus', 'Suricata suricatta', 'Gavia stellata', 'Aotus nancymaae', 'Nocardia brasiliensis ATCC 700358', 'Nocardia brevicatena NBRC 12119', 'Nocardia carnea NBRC 14403', 'Nocardia farcinica IFM 10152', 'Nocardia nova SH22a', 'Nocardia transvalensis NBRC 15921', 'Tupaia belangeri', 'Plasmodiophora brassicae', 'Helicobacter bilis ATCC 43879', 'Pisolithus tinctorius Marx 270', 'Laceyella sacchari 1-1', 'Marichromatium purpuratum 984', 'Cavia aperea', 'Thermus scotoductus SA-01', 'Octopus bimaculoides', 'Clostridium algidicarnis', 'Aegilops tauschii', 'Candidatus Phytoplasma mali AT', 'Talaromyces marneffei ATCC 18224', 'Enterococcus casseliflavus EC20', 'Cryptococcus gattii EJB2', 'Heterorhabditis bacteriophora', 'Rhytidhysteron rufulum', 'Rhodococcus opacus', 'Methanosarcina siciliae C2J', 'Chaetomium globosum', 'Rhynchosporium secalis', 'Corynebacterium accolens ATCC 49725', 'Corynebacterium genitalium ATCC 33030', 'Corynebacterium jeikeium K411', 'Photobacterium damselae subsp. damselae CIP 102761', 'Streptomyces pristinaespiralis ATCC 25486', 'Corynebacterium pseudogenitalium ATCC 33035', 'Corynebacterium vitaeruminis DSM 20294', 'Gluconobacter frateurii NBRC 103465', 'Rhodococcus rhodnii LMG 5362', 'Shewanella algae JCM 14758', 'Bartonella henselae str. Houston-1', 'Erysipelothrix tonsillarum DSM 14972', 'Eragrostis curvula', 'Phascolarctos cinereus', 'Alligator sinensis', 'Panicum virgatum', 'Gopherus agassizii', 'Neolentinus lepideus HHB14362 ss-1', 'Micromonas pusilla', 'Fraxinus excelsior', 'Acholeplasma palmae J233', 'Methanococcus maripaludis C6', 'Tuber melanosporum Mel28', 'Faecalitalea cylindroides ATCC 27803', 'Agathobaculum desmolans ATCC 43058', 'Dorea formicigenerans 4_6_53AFAA', 'Anaerobutyricum hallii DSM 3353', 'Eubacterium ramulus ATCC 29099', 'Eubacterium ventriosum ATCC 27560', 'Eubacterium xylanophilum ATCC 35991', 'Mesorhizobium ciceri biovar biserrulae WSM1271', 'Cellvibrio mixtus subsp. mixtus J3-8', 'Methanosalsum zhilinae DSM 4017', 'Mayetiola destructor', 'Hydrogenovibrio crunogenus XCL-2', 'Sulfurimonas denitrificans DSM 1251', 'Blattabacterium sp. (Mastotermes darwiniensis) str. MADAR', 'Methylomicrobium album BG8', 'Veillonella atypica KON', 'Veillonella dispar ATCC 17748', 'Corynebacterium glucuronolyticum ATCC 51867', 'Erythrobacter litoralis HTCC2594', 'Legionella moravica DSM 19234', 'Hypsizygus marmoreus', 'Helcococcus kunzii ATCC 51366', 'Bipolaris victoriae FI3', 'Neurospora tetrasperma', 'Oligotropha carboxidovorans OM5', 'Oryza glumipatula', 'Oryza meridionalis', 'Monodon monoceros', 'Lonchura striata domestica', 'Fusarium avenaceum', 'Acinetobacter johnsonii SH046', 'Acinetobacter junii', 'Acinetobacter radioresistens SH164', 'Junco hyemalis', 'Aliivibrio salmonicida LFI1238', 'Penicillium italicum', 'Nosema ceranae BRL01', 'Streptomyces nodosus', 'Stenotrophomonas maltophilia K279a', 'Fonsecaea pedrosoi CBS 271.37', 'Acinetobacter sp. CIP-A165', 'Daedalea quercina L-15889', 'Fistulina hepatica ATCC 64428', 'Fomitopsis pinicola', 'Stereum hirsutum', 'Ruminococcus bromii L2-63', 'Ruminococcus callidus ATCC 27760', 'Blautia obeum ATCC 29174', 'Leptotrichia buccalis C-1013-b', 'Sutterella wadsworthensis HGA0223', 'Botrytis cinerea', 'Sporobolomyces roseus IAM 13481', 'Actinosynnema mirum DSM 43827', 'Lentzea albidocapillata', 'Xenorhabdus bovienii SS-2004', 'Xenorhabdus poinarii G6', 'Claviceps paspali', 'Claviceps fusiformis', 'Balansia obtecta', 'Thioploca ingrica', 'Borrelia duttonii Ly', 'Rhopalosiphum padi', 'Saccharomonospora azurea SZMC 14600', 'Saccharomonospora cyanea NA-134', 'Saccharomonospora glauca K62', 'Aspergillus carbonarius ITEM 5010', 'Elsinoe australis', 'Penicilliopsis zonata CBS 506.65', 'Ewingella americana ATCC 33852', 'Anopheles atroparvus', 'Seriola dumerili', 'Lomentospora prolificans', 'Bathycoccus prasinos', 'Candidatus Microthrix parvicella RN1', 'Amanita muscaria Koide BX008', 'Porphyromonas catoniae F0037', 'Enterococcus saccharolyticus subsp. saccharolyticus ATCC 43076', 'Drosophila bipectinata', 'Pneumocystis jirovecii SE8', 'Ureaplasma diversum NCTC 246', 'Phocoena sinus', 'Prunus avium', 'Streptomyces acidiscabies 84-104', 'Tuber magnatum', 'Tuber borchii', 'Desulfovibrio termitidis HI1', 'Sorex araneus', 'Rubrobacter radiotolerans', 'Phoenix dactylifera', 'Aciculosporium take MAFF-241224', 'Candida dubliniensis', 'Vittaforma corneae ATCC 50505', 'Halobacteroides halobius DSM 5150', 'Roseobacter litoralis Och 149', 'Lichtheimia corymbifera', 'Desulfofundulus thermocisternus DSM 10259', 'Pygocentrus nattereri', 'Halomonas salina', 'Streptomyces collinus Tu 365', 'Gelatoporia subvermispora B', 'Epichloe amarillans E57', 'Corynebacterium argentoratense DSM 44202', 'Ammonifex degensii KC4', 'Staphylococcus lentus F1142', 'Rickettsia felis URRWXCal2', 'Methanococcus aeolicus Nankai-3', 'Anopheles christyi', 'Tilletia indica', 'Sulfolobus islandicus REY15A', 'Rhopalosiphum maidis', 'Anopheles darlingi', 'Ictidomys tridecemlineatus', 'Capronia epimyces', 'Capronia coronata', 'Pseudomonas alcaligenes NBRC 14159', 'Butyrivibrio proteoclasticus P6B7', 'Prauserella rugosa', 'Kutzneria albida DSM 43870', 'Cathartes aura', 'Zosterops lateralis melanops', 'Halanaerobium saccharolyticum subsp. saccharolyticum DSM 6643', 'Pseudoalteromonas citrea DSM 8771', 'Pseudoalteromonas luteoviolacea B = ATCC 29581', 'Pseudoalteromonas rubra DSM 6842', 'Paenarthrobacter aurescens TC1', 'Brachybacterium faecium DSM 4810', 'Jonesia denitrificans DSM 20603', 'Rothia mucilaginosa DY-18', 'Metallosphaera sedula DSM 5348', 'Monopterus albus', 'Streptomyces wedmorensis', 'Corynebacterium amycolatum SK46', 'Rhodococcus hoagii 103S', 'Corynebacterium matruchotii ATCC 14266', 'Corynebacterium propinquum DSM 44285', 'Corynebacterium striatum ATCC 6940', 'Corynebacterium urealyticum DSM 7109', 'Tolumonas auensis DSM 9187', 'Johnsonella ignava ATCC 51276', 'Catonella morbi ATCC 51271', 'Caldicellulosiruptor saccharolyticus DSM 8903', 'Enterococcus cecorum DSM 20682 = ATCC 43198', 'Enterococcus dispar ATCC 51266', 'Ferrimonas balearica DSM 9799', 'Aureococcus anophagefferens', 'Streptomyces megasporus', 'Trichomonascus ciferrii', 'Paenibacillus alvei TS-15', 'Paenibacillus durus', 'Paenibacillus macerans', 'Bradyrhizobium oligotrophicum S58', 'Caldanaerobius polysaccharolyticus DSM 13641', 'Erythrura gouldiae', 'Zonotrichia albicollis', 'Eimeria mitis', 'Borrelia persica No12', 'Borrelia recurrentis A1', 'Natronococcus amylolyticus DSM 10524', 'Nitrosomonas cryotolerans ATCC 49181', 'Sulfurospirillum barnesii SES-3', 'Geothrix fermentans DSM 14018', 'Dictyostelium discoideum', 'Natronobacterium gregoryi SP2', 'Legionella fairfieldensis ATCC 49588', 'Legionella lansingensis DSM 19556 = ATCC 49751', 'Legionella shakespearei DSM 23087', 'Bipolaris sorokiniana', 'Pyrenophora tritici-repentis Pt-1C-BFP', 'Cyanidioschyzon merolae', 'Tolypocladium capitatum', 'Capnocytophaga granulosa ATCC 51502', 'Leucothrix mucor DSM 2157', 'Eremothecium cymbalariae', 'Eremothecium sinecaudum', 'Nematostella vectensis', 'Mycoplasma conjunctivae HRC/581', 'Mycoplasma bovoculi M165/69', 'Mycoplasma alkalescens 14918', 'Brevibacillus borstelensis 3096-7', 'Wickerhamiella sorbophila', 'Babjeviella inositovora NRRL Y-12698', 'Streptococcus cristatus AS 1.3089', 'Vibrio scophthalmi LMG 19158', 'Desulfohalobium retbaense DSM 5692', 'Nadsonia fulvescens', 'Butyrivibrio crossotus DSM 2876', 'Staphylococcus pasteuri SP1', 'Granulicatella adiacens ATCC 49175', 'Abiotrophia defectiva ATCC 49176', 'Staphylococcus chromogenes MU 970', 'Pseudobutyrivibrio ruminis CF1b', 'Anabaena sp. 90', 'Weissella hellenica', 'Pseudomonas avellanae BPIC 631', 'Mycolicibacterium hassiacum DSM 44199', 'Thermoanaerobacter wiegelii Rt8.B1', 'Spirochaeta africana DSM 8902', 'Sphingobium chlorophenolicum', 'Reticulomyxa filosa', 'Orenia marismortui DSM 5156', 'Parabacteroides merdae ATCC 43184', 'Bacteroides stercoris ATCC 43183', 'Thermosipho melanesiensis BI429', 'Suhomyces tanzawaensis', 'Aureobasidium melanogenum', 'Pseudomonas nitroreducens HBP1', 'Entamoeba dispar', 'Cenarchaeum symbiosum A', 'Dethiosulfovibrio peptidovorans DSM 11002', 'Desulfovibrio bastinii DSM 16055', 'Massilia timonae CCUG 45783', 'Neogobius melanostomus', 'Armillaria gallica', 'Armillaria ostoyae', 'Borrelia miyamotoi LB-2001', 'Rickettsia peacockii str. Rustic', 'Lautropia mirabilis ATCC 51599', 'Bacteroides caccae ATCC 43185', 'Mycoplasma alligatoris A21JP2', 'Lactobacillus rhamnosus GG', 'Streptomyces olivaceus', 'Bibersteinia trehalosi USDA-ARS-USMARC-189', 'Atkinsonella hypoxylon', 'Streptomyces sulphureus DSM 40104', 'Streptomyces lydicus', 'Lactobacillus crispatus ST1', 'Epichloe baconii ATCC 200745', 'Mycobacterium triplex', 'Micromonospora aurantiaca ATCC 27029', 'Pseudomonas amygdali pv. mori str. 301020', 'Pseudomonas corrugata CFBP 5454', 'Pseudomonas fulva 12-X', 'Pseudomonas synxantha BG33R', 'Pseudomonas luteola XLDN4-9', 'Serratia fonticola AU-AP2C', 'Vibrio cyclitrophicus FF75', 'Oreochromis aureus', 'Hyphomicrobium zavarzinii ATCC 27496', 'Acinetobacter pittii PHEA-2', 'Xanthomonas fragariae LMG 25863', 'Neolecta irregularis DAH-3', 'Penicillium freii', 'Poecilia formosa', 'Poecilia latipinna', 'Poecilia mexicana', 'Orchesella cincta', 'Geospiza fortis', 'Novosphingobium aromaticivorans DSM 12444', 'Sporisorium scitamineum', 'Candidatus Arthromitus sp. SFB-mouse-Japan', 'Kineosporia aurantiaca JCM 3230', 'Marinobacterium stanieri S30', 'Psychroserpens burtonensis DSM 12212', 'Rubrobacter xylanophilus DSM 9941', 'Desulfitobacterium hafniense Y51', 'Coffea canephora', 'Nicotiana attenuata', 'Holospora obtusa F1', 'Mycoplasma crocodyli MP145', 'Rhizobium sullae WSM1592', 'Thermoplasma volcanium GSS1', 'Charadrius vociferus', 'Pinctada fucata', 'Arabis alpina', 'Helicobacter trogontum', 'Actinobacillus minor NM305', 'Eubacterium saphenum ATCC 49989', 'Catagonus wagneri', 'Treponema maltophilum ATCC 51939', 'Ureibacillus thermosphaericus str. Thermo-BF', 'Syntrophobotulus glycolicus DSM 8271', 'Wigglesworthia glossinidia endosymbiont of Glossina morsitans morsitans (Yale colony)', 'Kluyvera ascorbata ATCC 33433', 'Eimeria brunetti', 'Eimeria praecox', 'Jaculus jaculus', 'Castor canadensis', 'Mycoplasma auris 15026', 'Mycoplasma yeatsii 13926', 'Trichoderma reesei', 'Ciona savignyi', 'Spraguea lophii 42_110', 'Haloarcula hispanica ATCC 33960', 'Kluyveromyces dobzhanskii CBS 2104', 'Nakaseomyces delphensis', 'Nakaseomyces bacillisporus', 'Tetragenococcus halophilus NBRC 12172', 'Tortispora caseinolytica', 'Meiothermus silvanus DSM 9946', 'Calidithermus chliarophilus DSM 9957', 'Acinetobacter venetianus RAG-1 = CIP 110063', 'Mitsuokella multacida DSM 20544', 'Prevotella dentalis DSM 3688', 'Lactobacillus gallinarum DSM 10532 = JCM 2011', 'Sarcoptes scabiei', 'Plasmodium inui San Antonio 1', 'Brachyspira pilosicoli 95/1000', 'Erysiphe necator', 'Sulfitobacter sp. EE-36', 'Sagittula stellata E-37', 'Haliaeetus leucocephalus', 'Bartonella alsatica IBS 382', 'Caldicellulosiruptor kristjanssonii I77R1B', 'Caldicellulosiruptor lactoaceticus 6A', 'Schaalia georgiae DSM 6843', 'Scophthalmus maximus', 'Desulfonatronovibrio hydrogenovorans DSM 9292', 'Desulfospira joergensenii DSM 10085', 'Enterococcus durans ATCC 6056', 'Enterococcus mundtii QU 25', 'Intrasporangium calvum DSM 43043', 'Brevibacterium mcbrellneri ATCC 49030', 'Hamadaea tsunoensis DSM 44101', 'Hyphomicrobium denitrificans 1NES1', 'Pseudomonas coronafaciens pv. oryzae str. 1_6', 'Pseudomonas resinovorans NBRC 106553', 'Xanthomonas axonopodis pv. vasculorum', 'Treponema lecithinolyticum ATCC 700332', 'Treponema socranskii subsp. socranskii VPI DR56BR1116 = ATCC 35536', 'Thermobrachium celere DSM 8682', 'Thermodesulfobacterium hveragerdense DSM 12571', 'Gordonia hirsuta DSM 44140 = NBRC 16056', 'Treponema paraluiscuniculi Cuniculi A', 'Nocardiopsis alba ATCC BAA-2165', 'Blautia hydrogenotrophica DSM 10507', 'Nakamurella multipartita DSM 44233', 'Mycolicibacterium mageritense DSM 44476 = CIP 104973', 'Pyrenophora teres', 'Sulfobacillus acidophilus TPY', 'Acidimicrobium ferrooxidans DSM 10331', 'Hanseniaspora valbyensis NRRL Y-1626', 'Octadecabacter arcticus 238', 'Pyrococcus horikoshii OT3', 'Peptoniphilus harei ACS-146-V-Sch2b', 'Pseudonocardia asaccharolytica DSM 44247 = NBRC 16224', 'Thermococcus zilligii AN1', 'Methanolacinia petrolearia DSM 11571', 'Pristionchus pacificus', 'Colobus angolensis palliatus', 'Ascoidea rubescens DSM 1968', 'Hyperthermus butylicus DSM 5456', 'Pyrolobus fumarii 1A', 'Thermosphaera aggregans DSM 11486', 'Ferroglobus placidus DSM 10642', 'Raoultella ornithinolytica B6', 'Chroococcidiopsis thermalis PCC 7203', 'Pleurocapsa sp. PCC 7327', 'Spirulina subsalsa PCC 9445', 'Mesitornis unicolor', 'Cariama cristata', 'Eurypyga helias', 'Streptomyces venezuelae ATCC 10712', 'Salmonella bongori N268-08', 'Streptococcus thoraltensis DSM 12221', 'Deinococcus proteolyticus MRP', 'Sciurus vulgaris', 'Flavobacterium branchiophilum FL-15', 'Epichloe elymi E56', 'Caldicellulosiruptor owensensis OL', 'Sediminispirochaeta smaragdinae DSM 11293', 'Pectobacterium betavasculorum', 'Ruegeria lacuscaerulensis ITI-1157', 'Thermonema rossianum DSM 10300', 'Janthinobacterium agaricidamnosum NBRC 102515 = DSM 9628', 'Pistacia vera', 'Magnetospirillum gryphiswaldense MSR-1 v2', 'Guillardia theta', 'Actinomyces graevenitzii C83', 'Dehalobacter restrictus DSM 9455', 'Vibrio anguillarum', 'Cuculus canorus', 'Thermococcus barophilus MP', 'Malurus cyaneus samueli', 'Streptomyces toyocaensis', 'Tyto alba', 'Hanseniaspora guilliermondii', 'Hanseniaspora osmophila', 'Bartonella clarridgeiae 73', 'Xanthomonas arboricola pv. celebensis', 'Xanthomonas cassavae CFBP 4642', 'Xanthomonas hortorum pv. carotae str. M081', 'Xanthomonas sacchari', 'Xanthomonas campestris pv. musacearum NCPPB 4379', 'Xanthomonas vesicatoria ATCC 35937', 'Protomyces lactucaedebilis', 'Aeropyrum pernix K1', 'Cottoperca gobio', 'Labrus bergylta', 'Rhizobium gallicum bv. gallicum R602sp', 'Rhizobium giardinii bv. giardinii H152', 'Eubacterium infirmum F0142', 'Glaciecola punicea ACAM 611', 'Shewanella frigidimarina NCIMB 400', 'Helicobacter bizzozeronii CIII-1', 'Afipia broomeae ATCC 49717', 'Thermus oshimai JL-2', 'Psychroflexus torquis ATCC 700755', 'Lactobacillus zeae DSM 20178 = KCTC 3804', 'Acanthisitta chloris', 'Mycoplasma suis str. Illinois', 'Apaloderma vittatum', 'Colius striatus', 'Merops nubicus', 'Trifolium pratense', 'Sulfurospirillum arcachonense DSM 9755', 'Rhizobium mongolense USDA 1844', 'Halomicrobium mukohataei DSM 12286', 'Enterococcus asini ATCC 700915', 'Fragaria vesca subsp. vesca', 'Burkholderia thailandensis MSMB43', 'Daktulosphaira vitifoliae', 'Spirillospora albida', 'Desulfofundulus kuznetsovii DSM 6115', 'Desulfofarcimen acetoxidans DSM 771', 'Desulfovibrio alaskensis G20', 'Treponema medium ATCC 700293', 'Archaeoglobus veneficus SNP6', 'Rhizopus microsporus', 'Streptomyces celluloflavus', 'Kitasatospora azatica KCTC 9699', 'Kitasatospora mediocidica KCTC 9733', 'Debaryomyces fabryi', 'Encephalitozoon intestinalis ATCC 50506', 'Trichoderma citrinoviride', 'Tilletiopsis washingtonensis', 'Rickettsiella grylli', 'Streptococcus macedonicus ACA-DC 198', 'Myotis lucifugus', 'Rhinolophus ferrumequinum', 'Actinotignum schaalii FB123-CNA-2', 'Pantholops hodgsonii', 'Corynespora cassiicola Philippines', 'Cellulophaga algicola DSM 14237', 'Desulfotomaculum reducens MI-1', 'Helicobacter rodentium ATCC 700285', 'Arabidopsis lyrata', 'Taeniopygia guttata', 'Candidatus Phytoplasma australiense', 'Alcanivorax borkumensis SK2', 'Angomonas deanei', 'Sphingomonas echinoides ATCC 14820', 'Paenibacillus alginolyticus DSM 5050 = NBRC 15375', 'Paenibacillus curdlanolyticus YK9', 'Paenibacillus peoriae KCTC 3763', 'Ficedula albicollis', 'Cyanobium gracile PCC 6307', 'Synechococcus sp. WH 7805', 'Prevotella pallens ATCC 700821', 'Penicillium polonicum', 'Penicillium solitum', 'Penicillium nalgiovense', 'Shewanella violacea DSS12', 'Shewanella amazonensis SB2B', 'Shewanella sp. MR-4', 'Shewanella sp. MR-7', 'Lactobacillus paraplantarum', 'Burkholderia vietnamiensis G4', 'Chlorocebus sabaeus', 'Halogeometricum borinquense DSM 11551', 'Phaeobacter gallaeciensis DSM 26640', 'Desulfobacca acetoxidans DSM 11109', 'Saccharopolyspora spinosa NRRL 18395', 'Sanguibacter keddieii DSM 10542', 'Shewanella woodyi ATCC 51908', 'Holdemania filiformis DSM 12042', 'Monilinia laxa', 'Varanus komodoensis', 'Ophiostoma piceae', 'Lynx canadensis', 'Dehalococcoides mccartyi 195', 'Coniosporium apollinis', 'Corynebacterium durum F0235', 'Rhinopithecus bieti', 'Rhinopithecus roxellana', 'Paenibacillus mucilaginosus KNP414', 'Acholeplasma brassicae', 'Enterobacter asburiae LF7a', 'Lelliottia amnigena CHS 78', 'Pluralibacter gergoviae', 'Amphilophus citrinellus', 'Nomascus leucogenys', 'Natronorubrum bangense JCM 10635', 'Hucho hucho', 'Borreliella valaisiana Tom4006', 'Acidiphilium multivorum AIU301', 'Haloterrigena turkmenica DSM 5511', 'Shewanella baltica OS117', 'Anopheles funestus', 'Saccharum spontaneum', 'Natronorubrum tibetense GA33', 'Calocera viscosa TUFC12733', 'Zobellia galactanivorans', 'Aquifex aeolicus VF5', 'Melanopsichium pennsylvanicum 4', 'Trichophyton benhamiae', 'Nannizzia gypsea CBS 118893', 'Microsporum canis CBS 113480', 'Trichophyton verrucosum', 'Trichophyton equinum', 'Desulfovibrio oxyclinae DSM 11498', 'Trichoderma atroviride', "Sodalis glossinidius str. 'morsitans'", 'Hydrogenovibrio kuenenii DSM 12350', 'Sideroxydans lithotrophicus ES-1', 'Demetria terragena DSM 11295', 'Nevskia ramosa DSM 11499', 'Bacillus pseudomycoides DSM 12442', 'Anabas testudineus', 'Desulfurobacterium thermolithotrophum DSM 11699', 'Podarcis muralis', 'Coleofasciculus chthonoplastes PCC 7420', 'Carnimonas nigrificans ATCC BAA-78', 'Dothistroma septosporum', 'Synechococcus sp. CC9311', 'Rhizopus oryzae', 'Mortierella alpina ATCC 32222', 'Lobosporangium transversale', 'Natrialba asiatica DSM 12278', 'Tetragenococcus muriaticus DSM 15685', 'Borreliella bissettii DN127', 'Terasakiella pusilla DSM 6293', 'Marinospirillum minutulum DSM 6287', 'Alcanivorax jadensis T9', 'Corynebacterium ulcerans BR-AD22', 'Pythium aphanidermatum DAOM BR444', 'Halothece sp. PCC 7418', 'Mycoplasma wenyonii str. Massachusetts', 'Oryza barthii', 'Actinoalloteichus cyanogriseus', 'Meiothermus cerbereus DSM 11376', 'Sulfurospirillum deleyianum DSM 6946', 'Desulfocapsa sulfexigens DSM 10523', 'Serendipita indica', 'Erwinia tracheiphila PSU-1', 'Pseudomonas knackmussii B13', 'Wolbachia sp. wRi', 'Lachnoclostridium phytofermentans ISDg', 'Gleimia europaea ACS-120-V-Col10b', 'Komagataeibacter intermedius AF2', 'Pantoea stewartii', 'Streptomyces niger', 'Streptomyces violens', 'Papilio xuthus', 'Streptomyces roseoverticillatus', 'Sulfurospirillum multivorans DSM 12446', 'Streptomyces afghaniensis 772', 'Streptomyces atroolivaceus', 'Streptomyces bicolor', 'Streptomyces catenulae', 'Streptomyces griseorubens', 'Trypanosoma theileri', 'Streptomyces alboflavus', 'Streptomyces aureocirculatus', 'Streptomyces filamentosus NRRL 15998', 'Streptomyces flavidovirens DSM 40150', 'Streptomyces lavenduligriseus', 'Streptomyces mutabilis', 'Kitasatospora purpeofusca', 'Streptomyces resistomycificus', 'Streptomyces varsoviensis', 'Rheinheimera baltica DSM 14885', 'Streptomyces viridosporus ATCC 14672', 'Phytophthora sojae', 'Methanocaldococcus infernus ME', 'Edwardsiella ictaluri 93-146', 'Citrobacter farmeri GTC 1319', 'Citrobacter rodentium ICC168', 'Citrobacter sedlakii NBRC 105722', 'Actinobacillus succinogenes 130Z', 'Lentzea aerocolonigenes', 'Streptomyces cyaneogriseus subsp. noncyanogenus', 'Streptomyces durhamensis', 'Streptomyces flavochromogenes', 'Streptomyces fulvissimus DSM 40593', 'Streptomyces griseoaurantiacus M045', 'Streptomyces iakyrus', 'Streptomyces katrae', 'Streptomyces pyridomyceticus', 'Streptomyces violaceusniger Tu 4113', 'Moschus moschiferus', 'Streptomyces albulus', 'Sphaerobolus stellatus SS14', 'Scleroderma citrinum Foug A', 'Rasamsonia emersonii CBS 393.64', 'Theileria orientalis', 'Streptococcus peroris ATCC 700780', 'Streptococcus infantis SK970', 'Deinococcus geothermalis DSM 11300', 'Anopheles farauti', 'Synechococcus sp. WH 5701', 'Enterobacter cancerogenus ATCC 35316', 'Dickeya paradisiaca Ech703', 'Aquamicrobium defluvii', 'Gasterosteus aculeatus', 'Microplitis demolitor', 'Pseudomonas sp. VLB120', 'Chara braunii', 'Caulobacter henricii', 'Petrotoga mobilis SJ95', 'Natrinema pellirubrum DSM 15624', 'Natrinema pallidum DSM 3751', 'Treponema vincentii ATCC 35580', 'Penicillium oxalicum 114-2', 'Selenomonas sputigena ATCC 35185', 'Trichophyton soudanense CBS 452.61', 'Macrococcus caseolyticus JCSC5402', 'Ostreococcus tauri', 'Edhazardia aedis USNM 41457', 'Pyrobaculum neutrophilum V24Sta', 'Pseudomonas plecoglossicida NB2011', 'Nodularia spumigena CCY9414', 'Shewanella oneidensis MR-1', 'Shewanella pealeana ATCC 700345', 'Flexithrix dorotheae DSM 6795', 'Lewinella cohaerens DSM 23179', 'Lewinella persica DSM 23188', 'Eucalyptus grandis', 'Paxillus involutus ATCC 200175', 'Staphylococcus vitulinus F1028', 'Vibrio halioticoli NBRC 102217', 'Mesorhizobium amorphae CCNWGS0123', 'Enterococcus malodoratus ATCC 43197', 'Enterococcus raffinosus ATCC 49464', 'Tolypocladium ophioglossoides CBS 100239', 'Lonsdalea quercina subsp. quercina', 'Waddlia chondrophila WSU 86-1044', 'Naematelia encephala', 'Hypholoma sublateritium FD-334 SS-4', 'Kocuria rhizophila P7-4', 'Bos mutus', 'Sphaeroforma arctica JP610', 'Thielaviopsis punctulata', 'Lepeophtheirus salmonis', 'Citromicrobium bathyomarinum JL354', 'Ophiocordyceps sinensis', 'Trachipleistophora hominis', 'Bacillus mojavensis RO-H-1 = KCTC 3706', 'Drosophila austrosaltans', 'Drosophila lusaltans', 'Drosophila milleri', 'Nannochloropsis gaditana CCMP526', 'Achromobacter piechaudii HLE', 'Sporisorium reilianum', 'Boechera stricta', 'Eutrema salsugineum', 'Dechloromonas agitata is5', 'Streptomyces seoulensis', 'Thiocystis violascens DSM 198', 'Emmonsia crescens UAMH 3008', 'Cordyceps militaris', 'Piromyces sp. E2', 'Methanocaldococcus vulcanius M7', 'Thermaerobacter marianensis DSM 12885', 'Photobacterium profundum SS9', 'Brevundimonas bacteroides DSM 4726', 'Brevundimonas subvibrioides ATCC 15264', 'Maricaulis maris MCS10', 'Hyphomonas polymorpha PS728', 'Sulfitobacter guttiformis KCTC 32187', 'Thraustotheca clavata', 'Rosa chinensis', 'Stachybotrys chartarum IBT 7711', 'Pseudomonas balearica DSM 6083', 'Anopheles maculatus', 'Anopheles sinensis', 'Oncorhynchus tshawytscha', 'Paraburkholderia caribensis MBA4', 'Saccharomonospora xinjiangensis XJ-54', 'Sinocyclocheilus grahami', 'Pseudomonas mandelii PD30', 'Castellaniella defragrans 65Phen', 'Anas zonorhyncha', 'Thermocrinis ruber DSM 12173', 'Mycolicibacterium tusciae JS617', 'Mannheimia haemolytica M42548', 'Thauera linaloolentis 47Lol = DSM 12138', 'Thauera terpenica 58Eu', 'Alloprevotella tannerae ATCC 51259', 'Prevotella enoeca JCM 12259', 'Vibrio rumoiensis 1S-45', 'Campylobacter hominis ATCC BAA-381', 'Cellulophaga baltica 13', 'Mycetocola saprophilus', 'Streptomyces vitaminophilus DSM 41686', 'Sinorhizobium arboris LMG 14919', 'Pseudomonas monteilii SB3078', 'Malassezia globosa CBS 7966', 'Malassezia sympodialis ATCC 42132', 'Myroides odoratimimus H1bi', 'Solibacillus silvestris StLB046', 'Streptococcus constellatus subsp. pharyngis SK1060 = CCUG 46377', 'Hebeloma cylindrosporum h7', 'Caldivirga maquilingensis IC-167', 'Asticcacaulis biprosthecum C19', 'Sphingobium herbicidovorans NBRC 16415', 'Malassezia pachydermatis', 'Cylindrospermopsis raciborskii CS-505', 'Wolbachia endosymbiont of Drosophila simulans wNo', 'Rosellinia necatrix', 'Sclerotinia borealis F-4128', 'Dendroctonus ponderosae', 'Plasmodium gonderi', 'Leersia perrieri', 'Bifidobacterium subtile', 'Prevotella albensis DSM 11370 = JCM 12258', 'Succinispira mobilis DSM 6222', 'Oidiodendron maius', 'Parascardovia denticolens DSM 10105 = JCM 12538', 'Scardovia inopinata F0304', 'Pseudomonas mosselii SJ10', 'Mycobacterium canettii CIPT 140070017', 'Bifidobacterium gallicum DSM 20093 = LMG 11596', 'Bifidobacterium gallinarum', 'Bifidobacterium merycicum', 'Bifidobacterium ruminantium', 'Streptomyces somaliensis DSM 40738', 'Pectobacterium odoriferum', 'Neonectria ditissima', 'Bifidobacterium pullorum DSM 20433', 'Rhizobium undicola ORS 992 = ATCC 700741', 'Thermothelomyces thermophilus', 'Asticcacaulis excentricus CB 48', 'Podila verticillata', 'Desulfosporosinus meridiei DSM 13257', 'Chitinophaga pinensis DSM 2588', 'Epichloe brachyelytri', 'Microtus ochrogaster', 'Cimex lectularius', 'Bacillus clausii KSM-K16', 'Bacillus pseudofirmus OF4', 'Erwinia pyrifoliae Ep1/96', 'Coniophora puteana', 'Piloderma croceum F 1598', 'Thioflavicoccus mobilis 8321', 'Aphis gossypii', 'Haliangium ochraceum DSM 14365', 'Wolbachia endosymbiont strain TRS of Brugia malayi', 'Aliivibrio wodanis', 'Moritella viscosa', 'Delftia acidovorans SPH-1', 'Acidovorax avenae subsp. avenae ATCC 19860', 'Acidovorax citrulli AAC00-1', 'Cryptosporangium arvum DSM 44712', 'Hylemonella gracilis str. Niagara R', 'Simplicispira psychrophila DSM 11588', 'Colletotrichum higginsianum', 'Acanthochromis polyacanthus', 'Amphiprion ocellaris', 'Treponema brennaborense DSM 12168', 'Hyphomonas adhaerens MHS-3', 'Hyphomonas johnsonii MHS-2', 'Hyphomonas neptunium ATCC 15444', 'Hyphomonas oceanitis SCH89', 'Wolfiporia cocos MD-104 SS10', 'Desulfovibrio alcoholivorans DSM 5433', 'Parageobacillus caldoxylosilyticus CIC9', 'Aminomonas paucivorans DSM 12260', 'Desulfovibrio aminophilus DSM 12254', 'Thermanaerovibrio acidaminovorans DSM 6589', 'Aminobacterium mobile DSM 12262', 'Aminobacterium colombiense DSM 12261', 'Frateuria aurantia DSM 6220', 'Monosiga brevicollis', 'Kitasatospora cheerisanensis KCTC 2395', 'Vagococcus lutrae LBD1', 'Arabidopsis halleri subsp. gemmifera', 'Capsella rubella', 'Picrophilus torridus DSM 9790', 'Atopobium vaginae DSM 15829', 'Centipeda periodontii DSM 2778', 'Phlebiopsis gigantea 11061_1 CR5-6', 'Facklamia languida CCUG 37842', 'Paracoccus pantotrophus J46', 'Anaerovibrio lipolyticus LB2005', 'Anaeroarcus burkinensis DSM 6283', 'Trichosporon asahii', 'Pseudanabaena sp. PCC 7367', 'Streptococcus ovis DSM 16829', 'Pythium arrhenomanes ATCC 12531', 'Buttiauxella agrestis ATCC 33320', 'Budvicia aquatica DSM 5075 = ATCC 35567', 'Leminorella grimontii ATCC 33999 = DSM 5078', 'Tatumella ptyseos ATCC 33301', 'Serratia grimesii', 'Serratia plymuthica', 'Methanocaldococcus fervens AG86', 'Sulfitobacter mediterraneus', 'Prevotella brevis P6B11', 'Gordonia rhizosphera NBRC 16068', 'Myxococcus stipitatus DSM 14675', 'Linepithema humile', 'Parachlamydia acanthamoebae UV-7', 'Chlamydia psittaci 10_1398_11', 'Chlamydia abortus S26/3', 'Chlamydia felis Fe/C-56', 'Chlamydia caviae GPIC', 'Chlamydia pneumoniae TW-183', 'Chlamydia suis MD56', 'Chlamydia muridarum str. Nigg', 'Simkania negevensis Z', 'Leclercia adecarboxylata ATCC 23216 = NBRC 102595', 'Lactobacillus amylolyticus DSM 11664', 'Succinimonas amylolytica DSM 2873', 'Succinivibrio dextrinosolvens H5', 'Methanobrevibacter ruminantium M1', 'Trypanosoma conorhini', 'Methanocorpusculum labreanum Z', 'Methanoculleus bourgensis MS2', 'Clostridium autoethanogenum DSM 10061', 'Clostridium haemolyticum NCTC 9693', 'Gordonia alkanivorans NBRC 16433', 'Slackia exigua ATCC 700122', 'Slackia heliotrinireducens DSM 20476', 'Eggerthella lenta DSM 2243', 'Gemella sanguinis M325', 'Gemella bergeri ATCC 700627', 'Archaeoglobus profundus DSM 5631', 'Magnetospirillum magneticum AMB-1', 'Cryptobacterium curtum DSM 15641', 'Brachyspira intermedia PWS/A', 'Brachyspira murdochii DSM 12563', 'Hippea maritima DSM 10411', 'Lysobacter antibioticus', 'Synechococcus sp. WH 8102', 'Taylorella asinigenitalis MCE3', 'Gordonia polyisoprenivorans VH2', 'Staphylothermus hellenicus DSM 12710', 'Candidatus Odyssella thessalonicensis L13', 'Anthracocystis flocculosa', 'Moesziomyces antarcticus', 'Moesziomyces aphidis DSM 70725', 'Beutenbergia cavernae DSM 12333', 'Desulfotalea psychrophila LSv54', 'Corvus brachyrhynchos', 'Pseudarthrobacter chlorophenolicus A6', 'Clogmia albipunctata', 'Mannheimia varigena USDA-ARS-USMARC-1296', 'Plasmodium relictum', 'Thauera sp. MZ1T', 'Citrus clementina', 'Triticum dicoccoides', 'Achromobacter xylosoxidans A8', 'Bartonella tribocorum CIP 105476', 'Thermacetogenium phaeum DSM 12270', 'Sphaerulina musiva', 'Serpula lacrymans', 'Chlamydia pecorum E58', 'Cladophialophora carrionii', 'Rhinocladiella mackenziei CBS 650.93', 'Arenibacter latericius DSM 15913', 'Syntrophothermus lipocalidus DSM 12680', 'Phaseolibacter flectens ATCC 12775', 'Saccharophagus degradans 2-40', 'Mycoplasma dispar', 'Bacillus flexus T6186-2', 'Bacillus halodurans C-125', 'Propionispira raffinosivorans DSM 20765', 'Camarhynchus parvulus', 'Facklamia sourekii ATCC 700629', 'Burkholderia multivorans ATCC 17616', 'Selaginella moellendorffii', 'Treponema primitia ZAS-2', 'Eremococcus coleocola DSM 15696', 'Thermus igniterrae ATCC 700962', 'Thermus antranikianii DSM 12462', 'Dorea longicatena AGR2136', 'Cyclospora cayetanensis', 'Megaselia abdita', 'Caulobacter segnis ATCC 21756', 'Ceratocystis platani', 'Borreliella spielmanii A14S', 'Streptomyces yeochonensis CN732', 'Gordonia amicalis CCMA-559', 'Corynebacterium terpenotabidum Y-11', 'Ruegeria pomeroyi DSS-3', 'Laccaria amethystina LaAM-08-1', 'Bubalus bubalis', 'Cladophialophora bantiana CBS 173.52', 'Moraxella caprae DSM 19149', 'Oligella ureolytica DSM 18253', 'Oligella urethralis DNF00040', 'Absidia repens', 'Camelina sativa', 'Moritella marina ATCC 15381', 'Hydrogenovibrio sp. Milos-T1', 'Thiomicrorhabdus sp. Milos-T2', 'Enterovibrio calviensis 1F-211', 'Polistes canadensis', 'Synechococcus sp. PCC 7335', 'Aspergillus udagawae', 'Candidatus Paracaedibacter acanthamoebae', 'Mucor ambiguus', 'Candidatus Portiera aleyrodidarum BT-QVLC', 'Exophiala spinifera', 'Hortaea werneckii', 'Catharus ustulatus', 'Bartonella koehlerae C-29', 'Thiomicrospira aerophila AL3', 'Metarhizium album ARSEF 1941', 'Metarhizium acridum CQMa 102', 'Herbaspirillum frisingense GSF30', 'Fischerella muscicola PCC 7414', 'Ketogulonicigenium vulgare WSH-001', 'Pandoraea apista', 'Pandoraea pnomenusa', 'Pandoraea pulmonicola', 'Pandoraea sputorum', 'Pseudaminobacter salicylatoxidans KCT001', 'Edwardsiella hoshinae NBRC 105699 = ATCC 33379', 'Fervidobacterium pennivorans DSM 9078', 'Exserohilum turcicum', 'Roseivivax halodurans JCM 10272', 'Myzus cerasi', 'Thermotoga petrophila RKU-1', 'Thermotoga naphthophila RKU-10', 'Coturnix japonica', 'Cryptosporidium meleagridis', 'Thermicanus aegyptius DSM 12793', 'Shewanella sp. ANA-3', 'Rhizophagus clarus', 'Ramlibacter tataouinensis TTB310', 'Tolypocladium paradoxum', 'Mola mola', 'Dyadobacter fermentans DSM 18053', 'Bordetella petrii', 'Ochrobactrum intermedium LMG 3301', 'Besnoitia besnoiti', 'Desulfurococcus amylolyticus 1221n', 'Gavialis gangeticus', 'Helicobacter pametensis ATCC 51478', 'Burkholderia cenocepacia J2315', 'Pseudomonas sp. M1', 'Legionella fallonii LLAP-10', 'Flavobacterium psychrophilum JIP02/86', 'Salvator merianae', 'Lactobacillus hamsteri DSM 5661 = JCM 6256', 'Halobacteriovorax marinus SJ', 'Eutypa lata', 'Phaethon lepturus', 'Lactobacillus sp. ASF360', 'Clostridium sp. MD294', 'Eubacterium plexicaudatum ASF492', 'Ferroplasma acidarmanus fer1', 'Acetomicrobium mobile DSM 13181', 'Lactobacillus mucosae LM1', 'Periconia macrospinosa', 'Bacillus sp. OxB-1', 'Drechmeria coniospora', 'Mycolicibacterium septicum DSM 44393', 'Phlebia centrifuga', 'Pyrobaculum oguniense TE7', 'Hammondia hammondi', 'Flavobacterium frigidarium DSM 17623', 'Calothrix sp. PCC 7507', 'Spermophilus dauricus', 'Tetraodon nigroviridis', 'Austwickia chelonae NBRC 105200', 'Onion yellows phytoplasma', 'Chloroherpeton thalassium ATCC 35110', 'Verticillium longisporum', 'Madurella mycetomatis', 'Falco tinnunculus', 'Wolbachia endosymbiont of Onchocerca ochengi', 'Fusarium pseudograminearum CS3096', 'Choanephora cucurbitarum', 'Hesseltinella vesiculosa', 'Bipolaris oryzae', 'Methanomethylovorans hollandica DSM 15978', 'Trichoderma asperellum CBS 433.97', 'Saprolegnia parasitica CBS 223.65', 'Aequorivita sublithincola DSM 14238', 'Trichophyton interdigitale H6', 'Candidatus Blochmannia pennsylvanicus str. BPEN', 'Burkholderia ubonensis MSMB22', 'Tetrasphaera elongata Lp2', 'Glarea lozoyensis ATCC 20868', 'Prunus mume', 'Stanieria cyanosphaera PCC 7437', 'Xenococcus sp. PCC 7305', 'Leptolyngbya sp. PCC 7375', 'Desulfallas gibsoniae DSM 7213', 'Solobacterium moorei DSM 22971', 'Gloeocapsa sp. PCC 73106', 'Cyanobacterium stanieri PCC 7202', 'Streptococcus infantarius subsp. infantarius CJ18', 'Proteus penneri ATCC 35198', 'Streptococcus didelphis DSM 15616', 'Acromyrmex echinatior', 'Vavraia culicis subsp. floridensis', 'Gleimia coleocanis DSM 15436', 'Actinomyces urogenitalis DSM 15434', 'Nostoc sp. PCC 7120 = FACHB-418', 'Pogona vitticeps', 'Saccharothrix espanaensis DSM 44229', 'Saccharothrix syringae', 'Riemerella columbina DSM 16469', 'Rhodococcus pyridinivorans SB3094', 'Bordetella hinzii ATCC 51730', 'Oscillochloris trichoides DG-6', 'Penicillium brasilianum', 'Postia placenta Mad-698-R', 'Gloeophyllum trabeum', 'Camponotus floridanus', 'Serratia sp. ATCC 39006', 'Helicobacter suis HS1', 'Cryptococcus amylolentus', 'Adineta vaga', 'Nothobranchius furzeri', 'Ralstonia mannitolilytica', 'Streptacidiphilus neutrinimicus', 'Streptacidiphilus carbonis', 'Streptacidiphilus albus', 'Desulfohalotomaculum alkaliphilum DSM 12257', 'Valsa mali var. pyri', 'Methylibium petroleiphilum PM1', 'Epicoccum nigrum', 'Cryptotermes secundus', 'Anaerostipes caccae DSM 14662', 'Leucosporidium creatinivorum', 'Frankia casuarinae', 'Thermoanaerobacter siderophilus SR4', 'Maylandia zebra', 'Pseudoflavonifractor capillosus ATCC 29799', 'Cupriavidus necator H16', 'Ensifer adhaerens OV14', 'Acinetobacter bereziniae', 'Acinetobacter guillouiae NIPH 991', 'Acinetobacter sp. RUH2624', 'Chelonoidis abingdonii', 'Tenacibaculum maritimum NCIMB 2154', 'Methylosinus sp. LW3', 'Methylosinus sp. PW1', 'Opitutus terrae PB90-1', 'Thermanaerovibrio velox DSM 12556', 'Thermoanaerobacter italicus Ab9', 'Corynebacterium falsenii DSM 44353', 'Coprothermobacter platensis DSM 11748', 'Acinetobacter ursingii DSM 16037 = CIP 107286', 'Acinetobacter schindleri NIPH 900', 'Rickettsia monacensis', 'Hippocampus comes', 'Anaerovorax odorimutans DSM 5092', 'Leptotrichia trevisanii DSM 22070', 'Varroa destructor', 'Myotis brandtii', 'Galerina marginata CBS 339.88', 'Spizellomyces punctatus', 'Lactobacillus jensenii 115-3-CHN', 'Batrachochytrium dendrobatidis JAM81', 'Catenaria anguillulae PL171', 'Serendipita vermifera MAFF 305830', 'Nocardioides sp. CF8', 'Sinorhizobium medicae WSM419', 'Gregarina niphandrodes', 'Pelotomaculum thermopropionicum SI', 'Mycolicibacterium vanbaalenii PYR-1', 'Synechococcus sp. CC9605', 'Synechococcus sp. CC9616', 'Eragrostis tef', 'Porphyromonas gulae', 'Muricauda ruestringensis DSM 13258', 'Bartonella birtlesii E11', 'Kineosphaera limosa NBRC 100340', 'Leptolyngbya sp. PCC 7376', 'Sulfurisphaera tokodaii str. 7', 'Ignatzschineria larvae DSM 13226', 'Aphanomyces astaci', 'Saprolegnia diclina', 'Anopheles minimus', 'Ramularia collo-cygni', 'Enterococcus villorum ATCC 700913', 'Streptococcus australis ATCC 700641', 'Pseudocercospora musae', 'Pseudoramibacter alactolyticus ATCC 23263', 'Melitaea cinxia', 'Bradyrhizobium sp. Tv2a-2', 'Scleropages formosus', 'Actinoplanes globisporus DSM 43857', 'Tetrapisispora phaffii CBS 4417', 'Geoglobus ahangari', 'Dichomitus squalens LYAD-421 SS1', 'Candidatus Carsonella ruddii DC', 'Cordyceps fumosorosea ARSEF 2679', 'Saccharomyces kudriavzevii', 'Saccharomyces mikatae', 'Bradyrhizobium sp. ORS 278', 'Methylobacterium nodulans ORS 2060', 'Alkaliphilus transvaalensis ATCC 700919', 'Streptococcus orisratti DSM 15617', 'Streptomyces auratus AGR0001', 'Mycoplasmopsis columbinum SF7', 'Phoronis australis', 'Globisporangium iwayamae', 'Coprococcus catus GD/7', 'Lactobacillus psittaci DSM 15354', 'Cryptosporidium andersoni', 'Tilletia walkeri', 'Fusarium verticillioides', 'Sphingopyxis alaskensis RB2256', 'Denitrovibrio acetiphilus DSM 12809', 'Pleurocapsa sp. PCC 7319', 'Pseudanabaena sp. PCC 6802', 'Picoides pubescens', 'Beauveria brongniartii RCEF 3172', 'Oscillatoria acuminata PCC 6304', 'Arthrospira platensis NIES-39', 'Nicotiana noctiflora var. noctiflora', 'Bulleidia extructa W1219', 'Lipotes vexillifer', 'Cupriavidus metallidurans CH34', 'Pseudothermotoga thermarum DSM 5069', 'Syntrophobacter fumaroxidans MPOB', 'Microcoleus vaginatus FGP-2', 'Bacillus sonorensis L12', 'Marinomonas mediterranea MMB-1', 'Ustilago hordei Uh4857-4', 'Brucella pinnipedialis B2/94', 'Brucella ceti M644/93/1', 'Roseiflexus castenholzii DSM 13941', 'Ferrimicrobium acidiphilum DSM 19497', 'Helicocarpus griseus UAMH5409', 'Schaalia suimastitidis DSM 15538', 'Pediculus humanus corporis', 'Pyrobaculum arsenaticum DSM 13514', 'Sphingobium xenophagum QYY', 'Tauraco erythrolophus', 'Pannonibacter phragmitetus DSM 14782', 'Photobacterium sp. SKA34', 'Paracoccidioides brasiliensis', 'Diaphorina citri', 'Pseudomonas psychrophila HA-4', 'Cercospora beticola', 'Alicyclobacillus herbarius DSM 13609', 'Oryzias javanicus', 'Helicobacter canadensis MIT 98-5491', 'Bordetella trematum', 'Nocardiopsis xinjiangensis YIM 90004', 'Thiolinea disciformis DSM 14473', 'Thiofilum flexile DSM 14609', 'Drosophila biarmipes', 'Halodesulfovibrio aestuarii DSM 10141', 'Providencia alcalifaciens DSM 30120', 'Thermotoga sp. RQ7', 'Thermotoga sp. RQ2', 'Strigamia maritima', 'Nipponia nippon', 'Catelliglobosispora koreensis DSM 44566', 'Drosophila santomea', 'Phytophthora lateralis MPF4', 'Arthrospira maxima CS-328', 'Carboxydothermus hydrogenoformans Z-2901', 'Halobiforma nitratireducens JCM 10879', 'Galdieria sulphuraria', 'Corynebacterium capitovis DSM 44611', 'Schaalia turicensis ACS-279-V-Col4', 'Thiomicrorhabdus arctica DSM 13458', 'Kineococcus radiotolerans SRS30216 = ATCC BAA-149', 'Bombus impatiens', 'Candidatus Glomeribacter gigasporarum BEG34', 'Nocardia veterana NBRC 100344', 'Anser brachyrhynchus', 'Pteropus vampyrus', 'Rhodococcus jostii RHA1', 'Exiguobacterium antarcticum B7', 'Citrobacter youngae ATCC 29220', 'Caldilinea aerophila DSM 14535 = NBRC 104270', 'Nitrosococcus halophilus Nc 4', 'Methylocapsa acidiphila B2', 'Frankliniella occidentalis', 'Leisingera methylohalidivorans DSM 14336', 'Olsenella uli DSM 7084', 'Phytomonas sp. isolate EM1', 'Phytomonas sp. isolate Hart1', 'Corynebacterium freneyi DNF00450', 'Acinetobacter parvus NIPH 1103', 'Acinetobacter gyllenbergii NIPH 230', 'Paraburkholderia fungorum', 'Ministeria vibrans', 'Actinoplanes sp. SE50/110', 'Ureaplasma parvum serovar 3 str. ATCC 27815', 'Selenomonas flueggei ATCC 43531', 'Selenomonas infelix ATCC 43532', 'Selenomonas noxia ATCC 43541', 'Paenibacillus daejeonensis DSM 15491', 'Nocardia cyriacigeorgica GUH-2', 'Geobacillus vulcani PSS1', 'Idiomarina loihiensis L2TR', 'Caenorhabditis brenneri', 'Bacillus endophyticus 2102', 'Zootermopsis nevadensis', 'Thermocrinis albus DSM 14484', 'Knoellia sinensis KCTC 19936', 'Mycoplasma haemocanis str. Illinois', 'Kocuria polaris', 'Atopobacter phocae ATCC BAA-285', 'Leuconostoc kimchii IMSNU 11154', 'Methylosinus sp. LW4', 'Weissella cibaria KACC 11862', 'Facklamia ignava CCUG 37419', 'Granulicatella elegans ATCC 700633', 'Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)', 'Candidatus Regiella insecticola LSR1', "Serratia symbiotica str. 'Cinara cedri'", 'Blastococcus saxobsidens DD2', 'Helicobacter cetorum MIT 00-7128', 'Olsenella profusa F0195', 'Sistotremastrum niveocremeum HHB9708', 'Isoptericola variabilis 225', 'Plicaturopsis crispa FD-325 SS-3', 'Teleopsis dalmanni', 'Anopheles culicifacies', 'Shimazuella kribbensis DSM 45090', 'Lachnobacterium bovis', 'Nicotiana cordifolia', 'Candidatus Mycoplasma haemolamae str. Purdue', 'Nocardiopsis kunsanensis DSM 44524', 'Cylindrospermum stagnale PCC 7417', 'Desulfitobacterium metallireducens DSM 15288', 'Zobellia uliginosa', 'Filifactor alocis ATCC 35896', 'Eubacterium sulci ATCC 35585', 'Diuraphis noxia', 'Sipha flava', 'Pogonomyrmex barbatus', 'Mobiluncus holmesii ATCC 35242', 'Leifsonia aquatica H1aii', 'Stegastes partitus', 'Methanothermobacter thermautotrophicus str. Delta H', 'Methanothermobacter marburgensis str. Marburg', 'Rathayibacter toxicus DSM 7488', 'Thermosynechococcus elongatus BP-1', 'Halorhabdus utahensis DSM 12940', 'Pseudoloma neurophilia', 'Salinibacter ruber DSM 13855', 'Streptomyces griseofuscus', 'Azovibrio restrictus DSM 23866', 'Azospira oryzae PS', 'Collinsella stercoris DSM 13279', 'Collinsella intestinalis DSM 13280', 'Agrobacterium albertimagni AOL15', 'Thiomicrospira cyclica ALM1', 'Limnospira indica PCC 8005', 'Paracoccus yeei ATCC BAA-599', 'Carnobacterium inhibens subsp. gilichinskyi', 'Lactobacillus iners AB-1', 'Magnaporthiopsis poae', 'Pyricularia grisea', 'Paraburkholderia phymatum STM815', 'Lactobacillus ingluviei str. Autruche 4', 'Sulfuricurvum kujiense DSM 16994', 'Lactobacillus kunkeei', 'Wallemia sebi', 'Streptococcus urinalis 2285-97', 'Phialocephala scopiformis', 'Marinitoga piezophila KA3', 'Streptococcus lutetiensis 033', 'Halonatronum saccharophilum DSM 13868', 'Gemella cuniculi DSM 15828', 'Sporothrix insectorum RCEF 264', 'Escovopsis weberi', 'Pseudomonas sp. MT-1', 'Treponema azotonutricium ZAS-9', 'Pseudoalteromonas ruthenica CP76', 'Bacteroides coprosuis DSM 18011', 'Afipia birgiae 34632', 'Xenophilus azovorans DSM 13620', 'Pseudopedobacter saltans DSM 12145', 'Chloroflexus aggregans DSM 9485', 'Lactobacillus suebicus DSM 5007 = KCTC 3549', 'Thioalkalivibrio thiocyanoxidans ARh 4', 'Burkholderia ambifaria AMMD', 'Burkholderia dolosa PC543', 'Sphingomonas melonis DAPP-PG 224', 'Corynebacterium efficiens YS-314', 'Desulforegula conservatrix Mb1Pa', 'Oceanicaulis alexandrii DSM 11625', 'Alysiella crassa DSM 2578', 'Conchiformibius steedae DSM 2580', 'Kozakia baliensis', 'Moniliophthora perniciosa FA553', 'Sporocytophaga myxococcoides', 'Nitrosomonas sp. AL212', 'Hungatella hathewayi DSM 13479', 'Turicibacter sanguinis PC909', 'Thiorhodospira sibirica ATCC 700588', 'Trametes pubescens', 'Enterococcus phoeniculicola ATCC BAA-412', 'Cellvibrio japonicus Ueda107', 'Bartonella bovis 91-4', 'Bacillus toyonensis BCT-7112', 'Gallibacterium genomosp. 1', 'Enterococcus moraviensis ATCC BAA-383', 'Enterococcus haemoperoxidus ATCC BAA-382', 'Streptococcus entericus DSM 14446', 'Methanothermococcus okinawensis IH1', 'Caulobacter vibrioides NA1000', 'Actinokineospora enzanensis DSM 44649', 'Acaryochloris marina MBIC11017', 'Anaeroglobus geminatus F0357', 'Tulasnella calospora MUT 4182', 'Cyanistes caeruleus', 'Alteromonadales bacterium TW-7', 'Flavobacteria bacterium BBFL7', 'Dysgonomonas gadei ATCC BAA-286', 'Corynebacterium imitans', 'Aphanomyces invadans', 'Jeotgalicoccus psychrophilus DSM 19085', 'Helicobacter winghamensis ATCC BAA-430', 'Leptomonas pyrrhocoris', 'Leptotrichia wadei F0279', 'Leptotrichia hofstadii F0254', 'Leptotrichia shahii DSM 19757', 'Leptotrichia goodfellowii F0264', 'Pseudomonas parafulva NBRC 16636 = DSM 17004', 'Pseudomonas cremoricolorata', 'Vigna radiata var. radiata', 'Phaeomoniella chlamydospora', 'Chromohalobacter salexigens DSM 3043', 'Hahella chejuensis KCTC 2396', 'Folsomia candida', 'Betta splendens', 'Cedecea davisae DSM 4568', 'Novosphingobium resinovorum', 'Trametes coccinea BRFM310', 'Diaporthe helianthi', 'Bifidobacterium scardovii', 'Terrapene carolina triunguis', 'Cedecea neteri', 'Enterobacter sp. MGH 2', 'Megamonas hypermegale DSM 1672', 'Providencia rustigianii DSM 4541', 'Trabulsiella guamensis ATCC 49490', 'Yokenella regensburgei ATCC 43003', 'Collimonas fungivorans Ter331', 'Roseibacterium elongatum DSM 19469', 'Embleya scabrispora DSM 41855', 'Paraburkholderia sacchari', 'Paenibacillus terrae HPL-003', 'Thalassiosira oceanica', 'Microbacterium gubbeenense DSM 15944', 'Nanoarchaeum equitans Kin4-M', 'Ignicoccus hospitalis KIN4/I', 'Corynebacterium casei LMG S-19264', 'Enterococcus gilvus ATCC BAA-350', 'Enterococcus pallens ATCC BAA-351', 'Sphingomonas wittichii RW1', 'Paenibacillus borealis', 'Acidithiobacillus ferrivorans SS3', 'Auricularia delicata', 'Thermodesulfobacterium hydrogeniphilum', 'Planococcus antarcticus DSM 14505', 'Anaeromyxobacter dehalogenans 2CP-C', 'Erythrobacter sp. SD-21', 'Amphiprion percula', 'Corynebacterium kroppenstedtii DSM 44385', 'Corynebacterium lipophiloflavum DSM 44291', 'Corynebacterium mastitidis DSM 44356', 'Corynebacterium camporealensis', 'Corynebacterium singulare', 'Beta vulgaris', 'Aspergillus nidulans FGSC A4', 'Thermococcus cleftensis', 'Wolbachia endosymbiont of Drosophila melanogaster', 'Dysgonomonas mossii DSM 22836', 'Algicola sagamiensis DSM 14643', 'Anabaena sp. PCC 7108', 'Phytophthora ramorum', 'Lactobacillus fuchuensis DSM 14340 = JCM 11249', 'Vulcanisaeta distributa DSM 14429', 'Blattabacterium sp. (Cryptocercus punctulatus) str. Cpu', 'Cupriavidus taiwanensis LMG 19424', 'Mycobacterium sp. MCS', 'Mycobacterium sp. JLS', 'Weissella koreensis KACC 15510', 'Prevotella copri DSM 18205', 'Bartonella schoenbuchensis m07a', 'Synechococcus sp. WH 8109', 'Synechococcus sp. WH 8016', 'Roseburia intestinalis L1-82', 'Thermobaculum terrenum ATCC BAA-798', 'Pseudoalteromonas translucida TAC125', 'Allofustis seminis DSM 15817', 'Ilyobacter polytropus DSM 2926', 'Anaerolinea thermophila UNI-1', 'Candidatus Ishikawaella capsulata Mpkobe', 'Marvinbryantia formatexigens DSM 14469', 'Laribacter hongkongensis HLHK9', 'Salinispora tropica CNB-440', 'Salinispora arenicola CNS-205', 'Legionella drancourtii LLAP12', 'Metarhizium guizhouense ARSEF 977', 'Gelidibacter mesophilus DSM 14095', 'Novosphingobium tardaugens NBRC 16725', 'Exiguobacterium undae DSM 14481', 'Corynebacterium aurimucosum ATCC 700975', 'Anaerotruncus colihominis DSM 17241', 'Saccharospirillum impatiens DSM 12546', 'Clostridium saccharobutylicum DSM 13864', 'Paenibacillus stellifer', 'Epichloe aotearoae', 'Staphylococcus pettenkoferi VCU012', 'Vibrio brasiliensis LMG 20546', 'Vibrio kanaloae 5S-149', 'Methanosarcina lacustris Z-7289', 'Sulfurihydrogenibium subterraneum DSM 15120', 'Halosimplex carlsbadense 2-9-1', 'Mycoplasma anatis 1340', 'Mycoplasma cynos C142', 'Tistrella mobilis KA081020-065', 'Mycoplasma ovis str. Michigan', 'Oceanobacillus picturae', 'Thermodesulfatator indicus DSM 15286', 'Rothia aeria F0184', 'Elizabethkingia miricola', 'Thermococcus sibiricus MM 739', 'Bradyrhizobium sp. th.b2', 'Meiothermus taiwanensis DSM 14542', 'Echeneis naucrates', 'Brachybacterium paraconglomeratum LC44', 'Methylobacter tundripaludum SV96', 'Gemmatimonas aurantiaca T-27', 'Gordonia sihwensis NBRC 108236', 'Ordospora colligata OC4', 'Allobaculum stercoricanis DSM 13633', 'Gordonia paraffinivorans NBRC 108238', 'Thermaerobacter subterraneus DSM 13965', 'Buceros rhinoceros', 'Nestor notabilis', 'Streptococcus sinensis', 'Pseudoalteromonas agarivorans S816', 'Beauveria bassiana', 'Halomonas halocynthiae DSM 14573', 'Lactobacillus malefermentans DSM 5705 = KCTC 3548', 'Python bivittatus', 'Coniochaeta ligniaria NRRL 30616', 'Anaerophaga thermohalophila DSM 12881', 'Pseudothermotoga lettingae TMO', 'Shuttleworthia satelles DSM 14600', 'Facklamia hominis ACS-120-V-Sch10', 'Leptospirillum ferriphilum ML-04', 'Pisolithus microcarpus 441', 'Acetobacter malorum', 'Clostridium colicanis 209318', 'Alicycliphilus denitrificans K601', 'Culicoides sonorensis', 'Sphingomonas elodea ATCC 31461', 'Rhizopogon vesiculosus', 'Cyanobium sp. PCC 7001', 'Robinsoniella peoriensis', 'Salinisphaera shabanensis E1L3A', 'Proteocatella sphenisci DSM 23131', 'Carnobacterium pleistocenium FTR1', 'Pseudopodoces humilis', 'Salarias fasciatus', 'Pyrobaculum calidifontis JCM 11548', 'Schaalia cardiffensis F0333', 'Cyanoderma ruficeps', 'Desulfococcus oleovorans Hxd3', 'Lactobacillus coleohominis 101-4-CHN', 'Pseudodesulfovibrio aespoeensis Aspo-2', 'Erwinia billingiae Eb661', 'Rubritepida flocculans DSM 14296', 'Kribbella flavida DSM 17836', 'Oceanobacillus iheyensis HTE831', 'Oryzias sinensis', 'Stemphylium lycopersici', 'Pseudo-nitzschia multistriata', 'Pseudomonas mediterranea CFBP 5447', 'Schaalia vaccimaxillae DSM 15804', 'Thermodesulfobium narugense DSM 14796', 'Thermoproteus uzoniensis 768-20', 'Crocinitomix catalasitica ATCC 23190', 'Varibaculum cambriense DORA_20', 'Knoellia subterranea KCTC 19937', 'Corallococcus coralloides DSM 2259', 'Desulfovibrio magneticus RS-1', 'Prevotella oryzae DSM 17970', 'Prevotella paludivivens DSM 17968 = JCM 13650', 'Paludibacter propionicigenes WB4', 'Chrysochloris asiatica', 'Fragilariopsis cylindrus CCMP1102', 'Xylanimonas cellulosilytica DSM 15894', 'Marinithermus hydrothermalis DSM 14884', 'Candidatus Baumannia cicadellinicola', 'Bartonella washoeensis Sb944nv', 'Thioalkalivibrio nitratireducens DSM 14787', 'Sneathia amnii', 'Oceanithermus profundus DSM 14977', 'Caldithrix abyssi DSM 13497', 'Methylocystis sp. SC2', 'Labrenzia aggregata IAM 12614', 'Megasphaera micronuciformis F0359', 'Acidaminococcus intestini RyC-MR95', 'Veillonella montpellierensis DNF00314', 'Chlamydotis macqueenii', 'Paracoccus zeaxanthinifaciens ATCC 21588', 'Pediococcus claussenii ATCC BAA-344', 'Thalassolituus oleivorans MIL-1', 'Thermococcus gammatolerans EJ3', 'Mitsuokella jalaludinii DSM 13811', 'Enterovibrio norvegicus FF-33', 'Leptosomus discolor', 'Egretta garzetta', 'Dermacoccus sp. Ellin185', 'Oleispira antarctica RB-8', 'Cetobacterium somerae ATCC BAA-474', 'Candidatus Tremblaya princeps PCIT', 'Paenibacillus graminis', 'Paenibacillus odorifer', 'Babesia ovata', 'Paenibacillus elgii B69', 'Prevotella marshii DSM 16973 = JCM 13450', 'Prevotella micans F0438', 'Bradyrhizobium sp. Ec3.3', 'Mycobacterium sp. KMS', 'Actinotignum urinale DSM 15805', 'Idiomarina baltica OS145', 'Vibrio coralliilyticus ATCC BAA-450', 'Desulfovibrio hydrothermalis AM13 = DSM 14728', 'Rhodococcus aetherivorans', 'Leifsonia rubra CMS 76R', 'Conexibacter woesei DSM 14684', 'Epilithonimonas tenax DSM 16811', 'Fluviicola taffensis DSM 16823', 'Corynebacterium atypicum', 'Plesiocystis pacifica SIR-1', 'Lynx pardinus', 'Chthoniobacter flavus Ellin428', 'Shewanella denitrificans OS217', 'Rhodoferax ferrireducens T118', 'Capsaspora owczarzaki ATCC 30864', 'Streptomyces niveus NCIMB 11891', 'Lactobacillus versmoldensis DSM 14857 = KCTC 3814', 'Athene cunicularia', 'Cardiobacterium valvarum F0432', 'Sphingomonas sp. ATCC 31555', 'Sinorhizobium americanum CCGM7', 'Chroomonas mesostigmatica CCMP1168', 'Haematobacter massiliensis', 'Synechococcus sp. PCC 7336', 'Synechococcus sp. PCC 6312', 'Thermococcus nautili', 'Gillisia limnaea DSM 15749', 'Caldimonas manganoxidans ATCC BAA-369', 'Microdochium bolleyi', 'Nocardioides sp. JS614', 'Caballeronia sordidicola', 'Bradyrhizobium sp. Ai1a-2', 'Porphyrobacter cryptus DSM 12079', 'Actinoplanes friuliensis DSM 7358', 'Deferribacter desulfuricans SSM1', 'Alkanindiges illinoisensis DSM 15370', 'Paraglaciecola mesophila KMM 241', 'Psychroflexus tropicus DSM 15496', 'Haemophilus aegyptius ATCC 11116', 'Streptococcus pasteurianus ATCC 43144', 'Candidatus Pelagibacter ubique HTCC7217', 'Anoxybacillus gonensis', 'Talaromyces verruculosus', 'Calidris pugnax', 'Candidatus Paraburkholderia kirkii UZHbot1', 'Coccidioides posadasii RMSCC 3488', 'Microbacterium paraoxydans 77MFTsu3.2', 'Methylocella silvestris BL2', 'Anopheles epiroticus', 'Nicotiana obtusifolia', 'Caldisphaera lagunensis DSM 15908', 'Pseudomonas poae RE*1-1-14', 'Strix occidentalis caurina', 'Lysinibacillus odysseyi 34hs-1 = NBRC 100172', 'Jaapia argillacea MUCL 33604', 'Punctularia strigosozonata', 'Sulfurimonas autotrophica DSM 16294', 'Actinobaculum massiliense ACS-171-V-Col2', 'Acinetobacter baylyi ADP1', 'Acinetobacter bouvetii DSM 14964 = CIP 107468', 'Acinetobacter gerneri', 'Acinetobacter tandoii', 'Acinetobacter tjernbergiae', 'Acinetobacter towneri', 'Tepidiphilus margaritifer DSM 15129', 'Longispora albida DSM 44784', 'Candidatus Blochmannia floridanus', 'Melampsora larici-populina 98AG31', 'Dickeya dadantii 3937', 'Dickeya zeae Ech586', 'Alicyclobacillus pomorum DSM 14955', 'Bacteroides massiliensis B84634 = Timone 84634 = DSM 17679 = JCM 13223', 'Roseomonas cervicalis ATCC 49957', 'Herminiimonas arsenicoxydans', 'Nitratireductor aquibiodomus NL21 = JCM 21793', 'Mastacembelus armatus', 'Novosphingobium pentaromativorans US6-1', 'Panicum hallii', 'Gymnopus luxurians FD-317 M1', 'Sulfurovum lithotrophicum', 'Bermanella marisrubri', 'Neptuniibacter caesariensis', 'Parvularcula bermudensis HTCC2503', 'Alkaliphilus metalliredigens QYMF', 'Puccinia triticina 1-1 BBBD Race 1', 'Amycolatopsis japonica', 'Amycolatopsis balhimycina FH 1894', 'Amycolatopsis vancoresmycina', 'Plasmodium coatneyi', 'Carnobacterium sp. 17-4', 'Fomitiporia mediterranea', 'Escherichia albertii KF1', 'Nocardia niigatensis NBRC 100131', 'Chaetomium thermophilum', "Candidatus Mycoplasma haemominutum 'Birmingham 1'", 'Marinobacter lipolyticus SM19', 'Afifella pfennigii DSM 17143', 'Corchorus capsularis', 'Nymphaea colorata', 'Thiorhodococcus drewsii AZ1', 'Sandarakinorhabdus limnophila DSM 17366', 'Parambassis ranga', 'Hanseniaspora opuntiae', 'Allokutzneria albata', 'Conchiformibius kuhniae DSM 17694', 'Accipiter nisus', 'Colwellia piezophila ATCC BAA-637', 'Mycobacterium sp. JS623', 'Exophiala mesophila', 'Halomonas campaniensis', 'Shewanella waksmanii ATCC BAA-643', 'Subdoligranulum variabile DSM 15176', 'Anaerofustis stercorihominis DSM 17244', 'Alistipes finegoldii DSM 17242', 'Komagataeibacter rhaeticus AF1', 'Exophiala oligosperma', 'Acaromyces ingoldii', 'Larimichthys crocea', 'Treponema caldarium DSM 7334', 'Erwinia sp. Ejp617', 'Thermomonas fusca DSM 15424', 'Roseovarius mucosus DSM 17069', 'Enhygromyxa salina', 'Dinoroseobacter shibae DFL 12 = DSM 16493', 'Pseudomonas rhizosphaerae', 'Polaromonas naphthalenivorans CJ2', 'Stenotrophomonas rhizophila', 'Bifidobacterium longum NCC2705', 'Spiroplasma chrysopicola DF-1', 'Spiroplasma culicicola AES-1', 'Spiroplasma diminutum CUAS-1', 'Spiroplasma sabaudiense Ar-1343', 'Spiroplasma syrphidicola EA-1', 'Clostridium carboxidivorans P7', 'Microvirga flocculans ATCC BAA-817', 'Marinospirillum insulare DSM 21763', 'Neomegalonema perideroedes DSM 15528', 'Fulvimarina pelagi HTCC2506', 'Anoplophora glabripennis', 'Bifidobacterium psychraerophilum', 'Bacillus vietnamensis', 'Dialister invisus DSM 15470', 'Aquilegia coerulea', 'Brachybacterium muris UCD-AY4', 'Micromonospora sp. ATCC 39149', 'Aeromicrobium marinum DSM 15272', 'Rhodanobacter fulvus Jip2', 'Gemmobacter nectariphilus DSM 15620', 'Bathymodiolus platifrons', 'Bacillus bataviensis LMG 21833', 'Bacillus vireti LMG 21834', 'Thalassospira xiamenensis M-5 = DSM 17429', 'Treponema putidum', 'Kordia algicida OT-1', 'Moniliophthora roreri', 'Mastigocladopsis repens PCC 10914', 'Synechococcus sp. RS9916', 'Synechococcus sp. RS9917', 'Polytolypa hystricis UAMH7299', 'Phaeobacter inhibens DSM 17395', 'Frankia elaeagni', 'Natrinema altunense', 'Kocuria marina', 'Phaeoacremonium minimum', 'Halomonas boliviensis LC1', 'Hymenobacter norwichensis DSM 15439', 'Exiguobacterium oxidotolerans JCM 12280', 'Methylorubrum populi BJ001', 'Buteo japonicus', 'Methanobrevibacter sp. AbM4', 'Pyrus x bretschneideri', 'Lottia gigantea', 'Geobacter bemidjiensis Bem', 'Geopsychrobacter electrodiphilus DSM 16401', 'Enhydrobacter aerosaccus SK60', 'Corynebacterium halotolerans YIM 70093 = DSM 44683', 'Erysiphe pulchra', 'Myotis davidii', 'Sulfitobacter indolifex HEL-45', 'Yaniella halotolerans DSM 15476', 'Paenibacillus sanguinis 2301083 = DSM 16941', 'Paenibacillus massiliensis 2301065 = DSM 16942', 'Fictibacillus gelatini DSM 15865', 'Comamonas aquatica NBRC 14918', 'Aestuariibacter salexigens DSM 15300', 'Salvia miltiorrhiza', 'Algoriphagus mannitolivorans DSM 15301', 'Rickettsia heilongjiangensis 054', 'Grosmannia clavigera kw1407', 'Bigelowiella natans', 'Corynebacterium ciconiae DSM 44920', 'Lactobacillus antri DSM 16041', 'Lactobacillus ultunensis DSM 16047', 'Paenibacillus lactis 154', 'Nocardia higoensis NBRC 100133', 'Nocardia pneumoniae NBRC 100136', 'Prevotella shahii DSM 15611 = JCM 12083', 'Prevotella salivae DSM 15606', 'Thermovibrio ammonificans HB-1', 'Arenibacter certesii DSM 19833', 'Flavobacterium frigoris PS1', 'Arsenicicoccus bolidensis DSM 15745', "Aster yellows witches'-broom phytoplasma AYWB", 'Streptococcus minor DSM 17118', 'Halobiforma lacisalsi AJ5', 'Aeropyrum camini SY1 = JCM 12091', 'Methylophaga aminisulfidivorans MP', 'Scardovia wiggsiae F0424', 'Lactobacillus rossiae DSM 15814', 'Saccharibacter floricola DSM 15669', 'Streptococcus devriesei DSM 19639', 'Beijerinckia mobilis', 'Desulfobulbus japonicus DSM 18378', 'Dyella japonica A8', 'Phanerochaete carnosa HHB-10118-sp', 'Belliella baltica DSM 15883', 'Effusibacillus pohliae DSM 22757', 'Halomonas alkaliantarctica', 'Synechococcus sp. CB0101', 'Acidovorax sp. JS42', 'Desulfitobacterium dichloroeliminans LMG P-21439', 'Candidatus Kinetoplastibacterium blastocrithidii (ex Strigomonas culicis)', 'Candidatus Midichloria mitochondrii IricVA', 'Corynebacterium caspium DSM 44850', 'Pseudoalteromonas sp. SM9913', 'Amanita thiersii Skay4041', 'Streptacidiphilus jiangxiensis', 'Alcanivorax sp. DG881', 'Marinobacter algicola DG893', 'Diplodia corticola', 'Chryseobacterium formosense', 'Candidatus Scalindua brodae', 'Lactobacillus kitasatonis DSM 16761 = JCM 1039', 'Oribacterium sinus F0268', 'Pseudomonas alkylphenolica', 'Pseudomonas psychrotolerans L19', 'Erythrobacter sp. NAP1', 'Lactobacillus vini DSM 20605', 'Akkermansia muciniphila ATCC BAA-835', 'Nocardiopsis valliformis DSM 45023', 'Nocardiopsis ganjiahuensis DSM 45031', 'Mycobacterium parascrofulaceum ATCC BAA-614', 'Pterocles gutturalis', 'Woodsholea maritima DSM 17123', 'Halobacillus dabanensis', 'Pseudonocardia dioxanivorans CB1190', 'Crinalium epipsammum PCC 9333', 'Helcococcus sueciensis DSM 17243', 'Amazona collaria', 'Ostreococcus lucimarinus CCE9901', 'Xenoturbella bocki', 'Acidilobus saccharovorans 345-15', 'Prevotella bergensis DSM 17361', 'Thioalkalivibrio thiocyanodenitrificans ARhD 1', 'Burkholderia sp. Ch1-1', 'Pseudomonas lutea', 'Methylohalobius crimeensis 10Ki', 'Klebsiella variicola UCI 18', 'Cynoglossus semilaevis', 'Thiocapsa marina 5811', 'Candidatus Paracaedimonas acanthamoebae', 'Candidatus Paracaedibacter symbiosus', 'Hoeflea phototrophica DFL-43', 'Nautilia profundicola AmH', 'Fictibacillus macauensis ZFHKF-1', 'Wallemia ichthyophaga', 'Yoonia vestfoldensis SKA53', "Acidomyces sp. 'richmondensis'", 'Enterococcus italicus DSM 15952', 'Bacillus bogoriensis ATCC BAA-922', 'Wolbachia endosymbiont of Cimex lectularius', 'Staphylococcus equorum subsp. equorum Mu2', 'Tupaia chinensis', 'Bacteroides cellulosilyticus WH2', 'Thermococcus sp. AM4', 'Serinicoccus marinus DSM 15273', 'Candidatus Jettenia caeni', 'Cupriavidus pinatubonensis JMP134', 'Mucispirillum schaedleri ASF457', 'Psychrobacter aquaticus CMS 56', 'Nocardia testacea NBRC 100365', 'Coccomyxa subellipsoidea', 'Cardinium endosymbiont cEper1 of Encarsia pergandiella', 'Deinococcus frigens DSM 12807', 'Deinococcus marmoris DSM 12784', 'Candidatus Blochmannia vafer str. BVAF', 'Candidatus Blochmannia chromaiodes str. 640', 'Pseudomonas syringae pv. tomato str. DC3000', 'Oceanicola granulosus HTCC2516', 'Robiginitalea biformata HTCC2501', 'Vibrio ezurae NBRC 102218', 'Saccharomyces boulardii (nom. inval.)', 'Clytia hemisphaerica', 'Mahella australiensis 50-1 BON', 'Paraburkholderia phenoliruptrix BR3459a', 'Natronolimnohabitans innermongolicus JCM 12255', 'Ethanoligenens harbinense YUAN-3', 'Owenweeksia hongkongensis DSM 17368', 'Verruconis gallopava', 'Streptomyces sp. C', 'Fonsecaea monophora', 'Solimonas variicoloris DSM 15731', 'Bacillus fordii DSM 16014 = CIP 108821', 'Streptococcus castoreus DSM 17536', 'Paeniglutamicibacter gangotriensis Lz1y', 'Arcobacter cibarius LMG 21996', 'Glycomyces arizonensis DSM 44726', 'Parvibaculum lavamentivorans DS-1', 'Glutamicibacter arilaitensis Re117', 'Gulosibacter molinativorax DSM 13485', 'Lentisphaera araneosa HTCC2155', 'Sphingomonas phyllosphaerae 5.2', 'Nocardia aobensis NBRC 100429', 'Nocardia concava NBRC 100430', 'Pleomorphomonas koreensis DSM 23070', 'Roseomonas gilardii subsp. rosea ATCC BAA-691', 'Streptococcus pseudopneumoniae IS7493', 'Otus sunia', 'Kitasatospora arboriphila', 'Corynebacterium resistens DSM 45100', 'Mycolicibacterium cosmeticum', 'Halomonas anticariensis FP35 = DSM 16096', 'Desulfatibacillum alkenivorans AK-01', 'Nocardia takedensis NBRC 100417', 'Dechloromonas aromatica RCB', 'Microbulbifer agarilyticus S89', 'Campylobacter insulaenigrae NCTC 12927', 'Nitrosomonas sp. Is79A3', 'Intestinibacter bartlettii DSM 16795', 'Paraburkholderia phytofirmans PsJN', 'Mycobacterium liflandii 128FXT', 'Cavenderia fasciculata', 'Thermosinus carboxydivorans Nor1', 'Pleomorphomonas oryzae DSM 16300', 'Kangiella koreensis DSM 16069', 'Kangiella aquimarina DSM 16071', 'Marinobacter daepoensis DSM 16072', 'Lysobacter concretionis Ko07 = DSM 16239', 'Acinetobacter beijerinckii CIP 110307', 'Jonesia quinghaiensis DSM 15701', 'Salipiger mucosus DSM 16094', 'Wolbachia endosymbiont of Culex quinquefasciatus Pel', 'Viridibacillus arenosi FSL R5-213', 'Crocosphaera watsonii WH 8501', 'Pneumocystis murina', 'Marinomonas ushuaiensis DSM 15871', 'Gordonia effusa NBRC 100432', 'Algoriphagus marincola DSM 16067', 'Botryobasidium botryosum', 'Capsella grandiflora', 'Oceanimonas smirnovii ATCC BAA-899', 'Acholeplasma equifetale ATCC 29724', 'Acholeplasma granularum ATCC 19168', 'Acholeplasma hippikon ATCC 29725', 'Trichormus variabilis ATCC 29413', 'Byssochlamys spectabilis No. 5', 'Salinimonas chungwhensis DSM 16280', 'Pontibacillus chungwhensis BH030062', 'Silanimonas lenta DSM 16282', 'Desulfurispora thermophila DSM 16022', 'Desulfallas alcoholivorax DSM 16058', 'Rhodopirellula baltica SH 1', 'Anoxybacillus tepidamans PS2', 'Methylovorus glucosetrophus SIP3-4', 'Pseudocohnilembus persalinus', 'Chryseobacterium antarcticum', 'Porphyromonas gingivicanis', 'Chelativorans sp. BNC1', 'Microbulbifer variabilis ATCC 700307', 'Thalassobacter stenotrophicus', 'Granulicoccus phenolivorans DSM 17626 = NBRC 107789 = JCM 15570', 'Neisseria bacilliformis ATCC BAA-1200', 'Lactobacillus kefiranofaciens ZW3', 'Paenibacillus wynnii', 'Nitratifractor salsuginis DSM 16511', 'Microbotryum intermedium', 'Streptococcus marimammalium DSM 18627', 'Sporolactobacillus terrae DSM 11697', 'Atopococcus tabaci DSM 17538', 'Bartonella rattimassiliensis 15908', 'Marinobacter sp. ELB17', 'Fangia hongkongensis FSC776 = DSM 21703', 'Methylomicrobium alcaliphilum 20Z', 'Shewanella sediminis HAW-EB3', 'Shewanella halifaxensis HAW-EB4', 'Flavobacterium antarcticum DSM 19726', 'Arthrobacter castelli DSM 16402', 'Nostoc punctiforme PCC 73102', 'Olleya marilimosa CAM030', 'Actinomyces dentalis DSM 19115', 'Hyaloperonospora arabidopsidis', 'Pontibacillus marinus BH030004 = DSM 16465', 'Candida orthopsilosis Co 90-125', 'Candida metapsilosis', 'Sphaerochaeta coccoides DSM 17374', 'Exiguobacterium marinum DSM 16307', 'Microbacterium oleivorans', 'Chlorobaculum parvum NCIB 8327', 'Limimaricola hongkongensis DSM 17492', 'Opitutaceae bacterium TAV1', 'Acidobacteriaceae bacterium TAA 166', 'Collimonas arenae', 'Aquimarina muelleri DSM 19832', 'Gramella echinicola DSM 19838', 'Novosphingopyxis baekryungensis DSM 16222', 'Agromyces italicus DSM 16388', 'Antrostomus carolinensis', 'Nocardiopsis baichengensis YIM 90130', 'Pochonia chlamydosporia 170', 'Azorhizobium doebereinerae UFLA1-100', 'Candidatus Amoebophilus asiaticus 5a2', 'Caenorhabditis japonica', 'Rozella allomycis CSF55', 'Porphyromonas uenonis 60-3', 'Prevotella multiformis DSM 16608', 'Nocardia jiangxiensis NBRC 101359', 'Sander lucioperca', 'Kosakonia radicincitans DSM 16656', 'Pseudoalteromonas sp. Bsw20308', 'Staphylococcus pseudintermedius ED99', 'Stackebrandtia nassauensis DSM 44728', 'Capitella teleta', 'Phenylobacterium zucineum HLK1', 'Streptomyces flavovariabilis', 'Alcanivorax dieselolei B5', 'Thioclava pacifica DSM 10166', 'Acetobacter nitrogenifigens DSM 23921 = LMG 23498', 'Streptomyces roseochromogenus subsp. oscitans DS 12.976', 'Streptomyces xylophagus', 'Streptomyces sviceus ATCC 29083', 'Streptomyces fulvoviolaceus', 'Streptomyces thermolilacinus SPC6', 'Micromonospora lupini str. Lupac 08', 'Hahella ganghwensis DSM 17046', 'Episyrphus balteatus', 'Alkaliflexus imshenetskii DSM 15055', 'Segniliparus rotundus DSM 44985', 'Segniliparus rugosus ATCC BAA-974', 'Hellea balneolensis DSM 19091', 'Haliea salexigens DSM 19537', 'Balneola vulgaris DSM 17893', 'Amycolatopsis rifamycinica', 'Bradyrhizobium sp. BTAi1', 'Kordiimonas gwangyangensis DSM 19435 = JCM 12864', 'Microbotryum lychnidis-dioicae p1A1 Lamole', 'Hungateiclostridium clariflavum DSM 19732', 'Microbotryum aff. violaceum TUB 011817', 'Bacteroides helcogenes P 36-108', 'Nocardia exalbida NBRC 100660', "Penicillium sp. 'occitanis'", 'Comamonas granuli NBRC 101663', 'Arthrobacter sp. FB24', 'Jannaschia sp. CCS1', 'Aminiphilus circumscriptus DSM 16581', 'Photorhabdus asymbiotica', 'Bartonella melophagi K-2C', 'Bacteroides salyersiae WAL 10018 = DSM 18765 = JCM 12988', 'Bacteroides nordii CL02T12C05', 'Acaricomes phytoseiuli DSM 14247', 'Erythrobacter vulgaris', 'Thermosediminibacter oceani DSM 16646', 'Ruegeria sp. TM1040', 'Dactylococcopsis salina PCC 8305', 'Flavonifractor plautii 1_3_50AFAA', 'Lysinibacillus massiliensis 4400831 = CIP 108448 = CCUG 49529', 'Martelella mediterranea DSM 17316', 'Haloquadratum walsbyi J07HQW2', 'Cyphellophora europaea', 'Desulfovibrio alkalitolerans DSM 16529', 'Agromyces subbeticus DSM 16689', 'Proteiniphilum acetatigenes DSM 18083', 'Rubellimicrobium thermophilum DSM 16684', 'Candidatus Hepatoplasma crinochetorum Av', 'Micromonas commoda', 'Polaromonas sp. JS666', 'Caldalkalibacillus thermarum TA2.A1', 'Patulibacter minatonensis DSM 18081', 'Frankia sp. EAN1pec', 'Frankia inefficax', 'Frankia saprophytica', 'Pseudoalteromonas spongiae UST010723-006', 'Denticeps clupeoides', 'Leptotrombidium deliense', 'Adhaeribacter aquaticus DSM 16391', 'Francisella orientalis str. Toba 04', 'Rhodococcus triatomae BKS 15-14', 'Glaciecola nitratireducens FR1064', 'Lachancea meyersii CBS 8951', 'Catellicoccus marimammalium M35/04/3', 'Bacillus lehensis G1', 'Roseburia hominis A2-183', 'Methanosaeta harundinacea 6Ac', 'Seriola lalandi dorsalis', 'Advenella mimigardefordensis DPN7', 'Corynebacterium tuscaniense DNF00037', 'Halobacillus kuroshimensis DSM 18393', 'Pundamilia nyererei', 'Lactobacillus apis', 'Lactobacillus harbinensis DSM 16991', 'Catenulispora acidiphila DSM 44928', 'Actinospica robiniae DSM 44927', 'Thauera sp. 27', 'Endozoicomonas elysicola', 'Pusillimonas noertemannii BS8', 'Marinimicrobium agarilyticum DSM 16975', 'Calidithermus timidus DSM 17022', 'Lactobacillus apodemi DSM 16634 = JCM 16172', 'Chryseobacterium vrystaatense', 'Aphis glycines', 'Gracilibacillus boraciitolerans JCM 21714', 'Sinocyclocheilus rhinocerous', 'Apteryx rowi', 'Bacillus boroniphilus JCM 21738', 'Dialister microaerophilus UPII 345-E', 'Chrysiogenes arsenatis DSM 11915', 'Persephonella marina EX-H1', 'Sulfurihydrogenibium azorense Az-Fu1', 'Candidatus Liberibacter americanus str. Sao Paulo', 'Deinococcus apachensis DSM 19763', 'Deinococcus maricopensis DSM 21211', 'Deinococcus pimensis DSM 21231', 'Bacteroides plebeius DSM 17135', 'Bacteroides coprocola DSM 17136', 'Bacteroides pyogenes JCM 10003', 'Neofusicoccum parvum', 'Prevotella multisaccharivorax DSM 17128', 'Advenella kashmirensis W13003', 'Deinococcus deserti VCD115', 'Modiolus philippinarum', 'Linnemannia elongata AG-77', 'Paraburkholderia terrae NBRC 100964', 'Thermococcus kodakarensis KOD1', 'Paraburkholderia mimosarum LMG 23256 = NBRC 106338', 'Flavobacterium indicum GPTSA100-9 = DSM 17447', 'Emticicia oligotrophica DSM 17448', 'Pseudomonas entomophila L48', 'Streptococcus massiliensis DSM 18628', 'Croceibacter atlanticus HTCC2559', 'Janibacter sp. HTCC2649', 'Dokdonia sp. MED134', 'Polaribacter sp. MED152', 'Maribacter sp. HTCC2170', 'Lyngbya sp. PCC 8106', 'Synechococcus sp. BL107', 'Bacillus sp. NRRL B-14911', 'Geobacter lovleyi SZ', 'Drechslerella stenobrocha 248', 'Nitrobacter sp. Nb-311A', 'Oceanicaulis sp. HTCC2633', 'Pseudooceanicola batsensis HTCC2597', 'Roseobacter sp. MED193', 'Roseovarius nubinhibens ISM', 'Roseovarius sp. 217', 'Sphingomonas sp. SKA58', 'Sulfitobacter sp. NAS-14.1', 'Rhodobacteraceae bacterium HTCC2083', 'Alteromonas mediterranea', 'Marinomonas sp. MED121', 'Pseudoalteromonas tunicata D2', 'Psychromonas sp. CNPT3', 'Vibrio sp. MED222', 'Prolixibacter bellariivorans ATCC BAA-1284', 'Mariprofundus ferrooxydans PV-1', 'Pseudoxanthomonas suwonensis 11-1', 'Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069', 'Belgica antarctica', 'Leadbetterella byssophila DSM 17132', 'Syntrophus aciditrophicus SB', 'Synechococcus sp. RCC307', 'Synechococcus sp. CC9902', 'Microbispora sp. ATCC PTA-5024', 'Rubrivivax benzoatilyticus JA2 = ATCC BAA-35', 'Kuraishia capsulata', 'Enterococcus caccae ATCC BAA-1240', 'Nostoc sp. PCC 7107', 'Mycolicibacterium rufum', 'Mycolicibacterium aromaticivorans JS19b1 = JCM 16368', 'Clostridium sulfidigenes', 'Pyricularia oryzae 70-15', 'Bradyrhizobium sp. WSM1743', 'Bradyrhizobium sp. WSM1253', 'Bradyrhizobium sp. WSM471', 'Nonlabens sediminis', 'Clostridium lundense DSM 17049', 'Formosa agariphila KMM 3901', 'Gordonia soli NBRC 108243', 'Pseudocercospora eumusae', 'Synechococcus sp. JA-3-3Ab', "Synechococcus sp. JA-2-3B'a(2-13)", 'Lepidothrix coronata', 'Pseudomonas moraviensis R28-S', 'Pseudomonas simiae', 'Wheat blue dwarf phytoplasma', 'Porphyromonas somerae DSM 23386', 'Sharpea azabuensis DSM 18934', 'Sphingomonas sp. BHC-A', 'Leptolyngbya valderiana BDU 20041', 'Paenibacillus sp. JDR-2', 'Bacillus infantis NRRL B-14911', 'Kwoniella bestiolae CBS 10118', 'Kwoniella dejecticola CBS 10117', 'Moelleriella libera RCEF 2490', 'Phytophthora kernoviae', 'Coxiella endosymbiont of Amblyomma americanum', 'Paraglaciecola psychrophila 170', 'Pseudozyma hubeiensis', 'Candidatus Accumulibacter phosphatis clade IIA str. UW-1', 'Bifidobacterium crudilactis', 'Syntrophorhabdus aromaticivorans UI', 'Nonlabens dokdonensis DSW-6', 'Parabacteroides goldsteinii dnLKV18', 'Alistipes onderdonkii WAL 8169 = DSM 19147', 'Alistipes shahii WAL 8301', 'Manacus vitellinus', 'Rhizoclosmatium globosum', 'Flavobacterium saliperosum S13', 'Bacteroides intestinalis DSM 17393', 'Amycolatopsis jejuensis', 'Nitrospira defluvii', 'Psychrobacter cryohalolentis K5', 'Kamptonema formosum PCC 6407', 'Sphingobium japonicum UT26S', 'Clostridium drakei', 'Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7', 'Candidatus Solibacter usitatus Ellin6076', 'Halococcus hamelinensis 100A6', 'Truepera radiovictrix DSM 17093', 'Exiguobacterium sibiricum 255-15', 'Hirsutella minnesotensis 3608', 'Alkalihalobacillus okhensis', 'Psychrobacter arcticus 273-4', 'Rickettsia tamurae', 'Ignisphaera aggregans DSM 17230', 'Methylobacterium oryzae CBMB20', 'Halococcus thailandensis JCM 13552', 'Thermovirga lienii DSM 17291', 'Candidatus Sulcia muelleri PSPU', 'Rhodonellum psychrophilum GCM71 = DSM 17998', 'Oenococcus kitaharae DSM 17330', 'Pyronema omphalodes', 'Chlorobium chlorochromatii CaD3', 'Gordonia sp. KTR9', 'Halorubrum ezzemoulense DSM 17463', 'Pseudodonghicola xiamenensis DSM 18339', 'Bacteroides finegoldii DSM 17565', 'Nitrosopumilus maritimus SCM1', 'Erwinia tasmaniensis Et1/99', 'Mycobacterium colombiense CECT 3035', 'Desulfosporosinus youngiae DSM 17734', 'Criblamydia sequanensis CRIB-18', 'Thermodesulfovibrio thiophilus DSM 17215', 'Tuberibacillus calidus DSM 17572', 'Spathaspora passalidarum NRRL Y-27907', 'Amorphus coralli DSM 19760', 'Desulfovibrio frigidus DSM 17176', 'Ascodesmis nigricans', 'Peptostreptococcus stomatis DSM 17678', 'Agrococcus lahaulensis DSM 17612', 'Methylophilaceae bacterium B1', 'Burkholderia oklahomensis', 'Thermococcus onnurineus NA1', 'Pyrococcus sp. NA2', 'Paenibacillus barengoltzii G22', 'Salipiger bermudensis HTCC2601', 'Flavobacterium soli DSM 19725', 'Kutzneria sp. 744', 'Podiceps cristatus', 'Geobacter pickeringii', 'Amycolatopsis benzoatilytica AK 16/65', 'Lysobacter daejeonensis GH1-9', 'Echinicola pacifica DSM 19836', 'Moraxella boevrei DSM 14165', 'Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896', 'Rhodanobacter spathiphylli B39', 'Streptomyces davaonensis JCM 4913', 'Exophiala xenobiotica', 'Streptacidiphilus oryzae TH49', 'Rhizobium favelukesii', 'Spironucleus salmonicida', 'Desulfovirgula thermocuniculi DSM 16036', 'Cercospora zeina', 'Psychrobacter sp. PRwf-1', 'Micavibrio aeruginosavorus ARL-13', 'Corynebacterium marinum DSM 44953', 'Flavobacterium daejeonense DSM 17708', 'Flavobacterium suncheonense GH29-5 = DSM 17707', 'Roseobacter sp. AzwK-3b', 'Alkalilimnicola ehrlichii MLHE-1', 'Oscillibacter valericigenes Sjm18-20', 'Salinispora pacifica CNT003', 'Geobacter uraniireducens Rf4', 'Xenorhabdus doucetiae', 'Shewanella sp. W3-18-1', 'Halostagnicola larsenii XH-48', 'Arenimonas malthae CC-JY-1', 'Niastella koreensis GR20-10', 'Streptomyces sp. Tu6071', 'Limnoperna fortunei', 'Alloscardovia criceti DSM 17774', 'Bifidobacterium tsurumiense', 'Micromonospora chokoriensis', 'Phocaeicola dorei', 'Lactobacillus parabrevis ATCC 53295', 'Cercospora berteroae', 'Psychromonas ingrahamii 37', 'Roseiflexus sp. RS-1', 'Microbacterium indicum DSM 19969', 'Acidovorax sp. KKS102', 'Methanoregula boonei 6A8', 'Streptomyces olindensis', 'Pseudomonas extremaustralis 14-3 substr. 14-3b', 'Shewanella loihica PV-4', 'Smaragdicoccus niigatensis DSM 44881 = NBRC 103563', 'Methylotenera mobilis 13', 'Bryobacter aggregatus MPL3', 'Zavarzinella formosa DSM 19928', 'Schlesneria paludicola DSM 18645', 'Leeuwenhoekiella blandensis MED217', 'Roseburia inulinivorans DSM 16841', 'Exiguobacterium sp. AT1b', 'Rubritalea marina DSM 17716', 'Tieghemostelium lacteum', 'Streptococcus pseudoporcinus SPIN 20026', 'Pseudarthrobacter phenanthrenivorans Sphe3', 'Streptomyces vietnamensis', 'Flavobacterium reichenbachii', 'Candidatus Protochlamydia amoebophila UWE25', 'Kaistia granuli DSM 23481', 'Prevotella stercorea DSM 18206', 'Ktedonobacter racemifer DSM 44963', 'Dyella ginsengisoli LA-4', 'Janibacter hoylei PVAS-1', 'Verminephrobacter eiseniae EF01-2', 'Granulibacter bethesdensis CGDNIH1', 'Endocarpon pusillum Z07020', 'Ferrimonas futtsuensis DSM 18154', 'Chryseobacterium caeni DSM 17710', 'Pelosinus fermentans DSM 17108', 'Frankia discariae', 'Belnapia moabensis DSM 16746', 'Paenibacillus sabinae T27', 'Ruania albidiflava DSM 18029', 'Caulobacter sp. K31', 'Haladaptatus paucihalophilus DX253', 'Yersinia similis', 'Phycicoccus jejuensis', 'Rhodobacterales bacterium HTCC2255', 'Pelusios castaneus', 'Blattabacterium sp. (Periplaneta americana) str. BPLAN', 'Blattabacterium sp. (Blatta orientalis) str. Tarazona', 'Rheinheimera perlucida DSM 18276', 'Paenibacillus terrigena DSM 21567', 'Mesonia mobilis DSM 19841', 'Haloterrigena limicola JCM 13563', 'Gallionella capsiferriformans ES-2', 'Arenimonas composti TR7-09 = DSM 18010', 'Flavobacterium filum DSM 17961', 'Brevundimonas aveniformis DSM 17977', 'Erwinia typographi', 'Bacteroides xylanisolvens XB1A', 'Rhodobacter sp. SW2', 'Fischerella thermalis PCC 7521', 'Bartonella tamiae Th239', 'Rivularia sp. PCC 7116', 'Campylobacter cuniculorum DSM 23162 = LMG 24588', 'Reinekea blandensis MED297', 'Janthinobacterium sp. Marseille', 'Pseudooceanicola nanhaiensis DSM 18065', 'Sphaeramia orbicularis', 'Natranaerobius thermophilus JW/NM-WN-LF', 'Haloplanus natans DSM 17983', 'Gordonia shandongensis DSM 45094', 'Olivibacter sitiensis DSM 17696', 'Zhouia amylolytica AD3', 'Paracoccus halophilus', 'Bacteroides barnesiae DSM 18169 = JCM 13652', 'Phocaeicola salanitronis DSM 18170', 'Thermobacillus composti KWC4', 'Methyloversatilis universalis FAM5', 'Novosphingobium nitrogenifigens DSM 19370', 'Cyanobacterium aponinum PCC 10605', 'Streptomyces bingchenggensis BCW-1', 'Vibrio sinaloensis DSM 21326', 'Propithecus coquereli', 'Aciduliprofundum boonei T469', 'Paenibacillus fonticola DSM 21315', 'Niabella aurantiaca DSM 17617', 'Pseudomonas protegens CHA0', 'Cohnella laeviribosi DSM 21336', 'Lactobacillus namurensis str. Chizuka 01', 'Streptococcus ictaluri 707-05', 'Hydrogenobaculum sp. Y04AAS1', 'Lachancea thermotolerans', 'Amycolatopsis nigrescens CSC17Ta-90', 'Algiphilus aromaticivorans DG1253', 'Verrucomicrobiae bacterium DG1235', 'Erythrobacter sp. JL475', 'Ornithinimicrobium pekingense DSM 21552', 'Bacillus aidingensis DSM 18341', 'Cycloclasticus sp. P1', 'Pseudophaeobacter arcticus DSM 23566', 'Thermophagus xiamenensis', 'Paraburkholderia ferrariae NBRC 106233', 'Prevotella timonensis 4401737 = DSM 22865 = JCM 15640', 'Methanobacterium arcticum', 'Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)', 'Moraxella bovoculi 237', 'Bacteroides coprophilus DSM 18228 = JCM 13818', 'Nitratiruptor sp. SB155-2', 'Sulfurovum sp. NBC37-1', 'Halovivax ruber XH-70', 'Halopiger xanaduensis SH-6', 'Parabacteroides johnsonii CL02T12C29', 'Cupriavidus sp. amp6', 'Natronorubrum sulfidifaciens JCM 14089', 'Rhodobacteraceae bacterium HTCC2150', 'Labrenzia alexandrii DFL-11', 'Algoriphagus machipongonensis', 'Bartonella australis Aust/NH1', 'Roseobacter sp. SK209-2-6', 'Hydnomerulius pinastri MD-312', 'Stachybotrys chlorohalonata IBT 40285', 'Wenxinia marina DSM 24838', 'Lactobacillus farraginis DSM 18382 = JCM 14108', 'Lactobacillus parafarraginis F0439', 'Echinicola vietnamensis DSM 17526', 'Actinocatenispora sera', 'Ehrlichia sp. HF', 'Vibrio sp. 16', 'Roseobacter sp. GAI101', 'Roseobacter sp. CCS2', 'Pedobacter sp. BAL39', 'Flavobacteria bacterium BAL38', 'Brevundimonas sp. BAL3', 'Stenotrophomonas sp. SKA14', 'Flavobacteriales bacterium ALC-1', 'Roseovarius sp. TM1035', 'Lysobacter defluvii IMMIB APB-9 = DSM 18482', 'Alicyclobacillus macrosporangiidus CPP55', 'Alicyclobacillus contaminans DSM 17975', 'Paraburkholderia nodosa DSM 21604', 'Sphingomonas jaspsi DSM 18422', 'Deinococcus misasensis DSM 22328', 'Methylophaga thiooxydans DMS010', 'Perlucidibaca piscinae DSM 21586', 'Terriglobus roseus DSM 18391', 'Uliginosibacterium gangwonense DSM 18521', 'Halalkalibacillus halophilus DSM 18494', 'Mesoflavibacter zeaxanthinifaciens S86', 'Gracilibacillus lacisalsi DSM 19029', 'Pestalotiopsis fici', 'Congregibacter litoralis KT71', 'Porphyromonas crevioricanis', 'Bhargavaea cecembensis DSE10', 'Cylindrobasidium torrendii FP15055 ss-10', 'Lactobacillus ceti DSM 22408', 'Coraliomargarita akajimensis DSM 45221', 'Bartonella rochalimae ATCC BAA-1498', 'Cyanothece sp. PCC 7425', 'Gilvimarinus chinensis DSM 19667', 'Brachybacterium phenoliresistens', 'Aspergillus ruber CBS 135680', 'Acinetobacter brisouii ANC 4119', 'Aestuariimicrobium kwangyangense DSM 21549', 'Thioalkalivibrio sp. K90mix', 'Lactobacillus hayakitensis DSM 18933 = JCM 14209', 'Andreprevotia chitinilytica DSM 18519', 'Sphingomonas sanxanigenens DSM 19645 = NX02', 'Marmoricola aequoreus', 'Lachnospiraceae bacterium 28-4', 'Lachnospiraceae bacterium 3-1', 'Lachnospiraceae bacterium A2', 'Lachnospiraceae bacterium A4', 'Barnesiella viscericola DSM 18177', 'Segetibacter koreensis DSM 18137', 'Proteiniclasticum ruminis DSM 24773', 'Agrilactobacillus composti DSM 18527 = JCM 14202', 'Helicobacter macacae MIT 99-5501', 'Trichoderma gamsii', 'Zunongwangia profunda SM-A87', 'Desulfocurvus vexinensis DSM 17965', 'Thermoanaerobacter sp. X514', 'Enterobacter sp. 638', 'Streptococcus merionis DSM 19192', 'Pontibacter korlensis', 'Marinomonas sp. MWYL1', 'Amphimedon queenslandica', 'Wohlfahrtiimonas chitiniclastica DSM 18708', 'Corynebacterium ureicelerivorans', 'Aureimonas ureilytica DSM 18598 = NBRC 106430', 'Candidatus Riesia pediculicola USDA', 'Actinomycetospora chiangmaiensis DSM 45062', 'Haloferax mucosum ATCC BAA-1512', 'Sphingobacterium sp. PM2-P1-29', 'Virgibacillus sp. SK37', 'Shewanella piezotolerans WP3', 'Maritimibacter alkaliphilus HTCC2654', 'Nonomuraea coxensis DSM 45129', 'Anaeromyxobacter sp. Fw109-5', 'Marinobacterium litorale DSM 23545', 'Geminicoccus roseus DSM 18922', 'Alicyclobacillus acidocaldarius subsp. acidocaldarius Tc-4-1', 'Leisingera daeponensis DSM 23529', 'Streptacidiphilus rugosus AM-16', 'Bacillus sp. m3-13', 'Natrinema sp. J7-2', 'Sphingomonas astaxanthinifaciens DSM 22298', 'Stegodyphus mimosarum', 'Prevotella pleuritidis JCM 14110', 'Streptomyces xiamenensis', 'Bacillus coahuilensis m4-4', 'Nocardioidaceae bacterium Broad-1', 'Clostridiisalibacter paucivorans DSM 22131', 'Treponema pedis str. T A4', 'Blastobotrys adeninivorans', 'Periophthalmus magnuspinnatus', 'Coprococcus comes ATCC 27758', 'Gordonia malaquae NBRC 108250', 'Gramella forsetii KT0803', 'Halogeometricum pallidum JCM 14848', 'Clostridium sp. SS2/1', 'Clostridium sp. M62/1', 'Clostridium sp. L2-50', 'Chryseobacterium daeguense DSM 19388', 'Entamoeba nuttalli P19', 'Paracoccus sp. TRP', 'Intrasporangium oryzae NRRL B-24470', 'Desulfotomaculum hydrothermale Lam5 = DSM 18033', 'Mycetohabitans rhizoxinica HKI 454', 'Candidatus Vesicomyosocius okutanii', 'Solimonas soli DSM 21787', 'Cronobacter turicensis z3032', 'Halalkalicoccus jeotgali B3', 'Halorubrum halophilum', 'Caldicellulosiruptor hydrothermalis 108', 'Caldicellulosiruptor kronotskyensis 2002', 'Lysobacter dokdonensis DS-58', 'Planococcus donghaensis MPA1U2', 'Actinopolyspora erythraea', 'Pseudoxanthomonas spadix BD-a59', 'Solimonas flava DSM 18980', 'Nodosilinea nodulosa PCC 7104', 'Rhodanobacter thiooxydans LCS2', 'Natronomonas moolapensis 8.8.11', 'Burkholderia sp. KJ006', 'Penicillium antarcticum', 'Selenomonas bovis DSM 23594', 'Notospermus geniculatus', 'Neptunomonas japonica DSM 18939', 'Methanosarcina horonobensis HB-1 = JCM 15518', 'Blautia wexlerae DSM 19850', 'Salinicoccus albus DSM 19776', 'Nevskia soli DSM 19509', 'Prevotella amnii CRIS 21A-A', 'Alloscardovia omnicolens DSM 21503', 'Yersinia massiliensis CCUG 53443', 'Microvirga lupini', 'Lactobacillus equicursoris DSM 19284 = JCM 14600 = CIP 110162', 'Diplodia seriata', 'Methanolobus psychrophilus R15', 'Paraburkholderia bryophila 376MFSha3.1', 'Sphingobium ummariense RL-3', 'Sulfitobacter donghicola DSW-25 = KCTC 12864 = JCM 14565', 'Chryseobacterium oranimense G311', 'Chryseobacterium halperniae', 'Chryseobacterium luteum', 'Stenoxybacter acetivorans DSM 19021', 'Mucilaginibacter paludis DSM 18603', 'Basidiobolus meristosporus CBS 931.73', 'Elusimicrobium minutum Pei191', 'Rhizobium sp. IRBG74', 'Helicobacter japonicus', 'Calidris pygmaea', 'Thiomonas arsenitoxydans', 'Methylobacterium sp. 4-46', 'Flavobacterium subsaxonicum WB 4.1-42 = DSM 21790', 'Algoriphagus vanfongensis DSM 17529', 'Nocardia rhamnosiphila', 'Bacillus chagannorensis DSM 18086', 'Salsuginibacillus kocurii DSM 18087', 'Humibacter albus DSM 18994', 'Desulfurivibrio alkaliphilus AHT 2', 'Dethiobacter alkaliphilus AHT 1', 'Moritella dasanensis ArB 0140', 'Candidatus Riesia pediculischaeffi PTSU', 'Jonquetella anthropi E3_33 E1', 'Dactylellina haptotyla', 'Halorhabdus tiamatea SARL4B', 'Baudoinia compniacensis', 'Spirosoma luteum DSM 19990', 'Spirosoma spitsbergense DSM 19989', 'Paenibacillus ginsengihumi DSM 21568', 'Kazachstania africana CBS 2517', 'Deinococcus peraridilitoris DSM 19664', 'Nocardioides halotolerans DSM 19273', 'Streptococcus sp. C150', 'Idiomarina salinarum', 'Fibularhizoctonia sp. CBS 109695', 'Sulfurihydrogenibium sp. YO3AOP1', 'Streptacidiphilus jeojiense', 'Robiginitomaculum antarcticum DSM 21748', 'Brucella sp. UK1/97', 'Brucella sp. F23/97', 'Brucella sp. F96/2', 'Brucella sp. UK40/99', 'Brucella sp. F8/99', 'Brucella sp. F5/99', 'Megamonas funiformis YIT 11815', 'Sutterella parvirubra YIT 11816', 'Ruminococcus gauvreauii DSM 19829', 'Streptococcus henryi DSM 19005', 'Streptococcus caballi DSM 19004', 'Candidatus Pelagibacter sp. HTCC7211', 'Pseudovibrio sp. JE062', 'Rhodobacterales bacterium Y4I', 'Ruegeria sp. R11', 'Prevotella maculosa DSM 19339 = JCM 15638', 'Promicromonospora kroppenstedtii DSM 19349', 'Pseudomonas sp. Chol1', 'Gouania willdenowi', 'Corynebacterium timonense 5401744', 'Corynebacterium massiliense DSM 45435', 'Hofstenia miamia', 'Knoellia aerolata DSM 18566', 'Geobacter sp. M18', 'Geobacter sp. M21', 'Bradyrhizobium sp. Cp5.3', 'Brucella microti CCM 4915', 'Sporolactobacillus vineae DSM 21990 = SL153', 'Maribacter forsetii DSM 18668', 'Gryllotalpicola ginsengisoli DSM 22003', 'Rickettsia endosymbiont of Ixodes scapularis', 'Psychromonas ossibalaenae ATCC BAA-1528', 'Reyranella massiliensis 521', 'Leptobrachium leishanense', 'Chryseobacterium soli', 'Adlercreutzia equolifaciens DSM 19450', 'Eudoraea adriatica DSM 19308', 'Niabella soli DSM 19437', 'Anaeromyxobacter sp. K', 'Epichloe gansuensis', 'Simiduia agarivorans SA1 = DSM 21679', 'Rhizobium selenitireducens ATCC BAA-1503', 'Microbacterium profundi', 'Propionibacterium sp. 5_U_42AFAA', 'Veillonella sp. 6_1_27', 'Rudanella lutea DSM 19387', 'Microbacterium luticocti DSM 19459', 'Streptomyces scopuliridis RB72', 'Pseudoclavibacter soli DSM 23366', 'Amphritea japonica ATCC BAA-1530', 'Neovison vison', 'Roseomonas aerilata DSM 19363', 'Desulfarculus baarsii DSM 2075', 'Kwoniella pini CBS 10737', 'Bdellovibrio exovorus JSS', 'Haladaptatus cibarius D43', 'Henriciella marina DSM 19595', 'Joostella marina DSM 19592', 'Halomonas lutea DSM 23508', 'Paraprevotella clara YIT 11840', 'Paraprevotella xylaniphila YIT 11841', 'Kiloniella laminariae DSM 19542', 'Chthonomonas calidirosea T49', 'Gracilimonas tropica DSM 19535', 'Spongiibacter tropicus DSM 19543', 'Glaciecola sp. HTCC2999', 'Chryseobacterium gregarium DSM 19109', 'Xanthomonas campestris pv. vesicatoria str. 85-10', 'Bizionia argentinensis JUB59', 'Saccharibacillus sacchari DSM 19268', 'Candidatus Cloacimonas acidaminovorans str. Evry', 'Streptococcus plurextorum DSM 22810', 'Rhizoctonia solani AG-8 WAC10335', 'Bacteroides sp. 1_1_30', 'Bacteroides sp. 3_1_23', 'Bacteroides sp. 3_1_33FAA', 'Bacteroides sp. 3_2_5', 'Bacteroides sp. 4_1_36', 'Bacteroides sp. 4_3_47FAA', 'Bacteroides sp. 9_1_42FAA', 'Clostridium sp. 7_2_43FAA', 'Desulfovibrio sp. 3_1_syn3', 'Escherichia sp. 1_1_43', 'Escherichia sp. 4_1_40B', 'Eubacterium sp. 3_1_31', 'Micromonospora sp. M42', 'Ruminococcus sp. 5_1_39BFAA', 'Synergistes sp. 3_1_syn1', 'Veillonella sp. 3_1_44', 'Clostridiales bacterium 1_7_47FAA', 'Erysipelotrichaceae bacterium 2_2_44A', 'Elioraea tepidiphila DSM 17972', 'Chloracidobacterium thermophilum B', 'Planomicrobium glaciei CHR43', 'Saccharibacillus kuerlensis DSM 22868', 'Kribbella catacumbae DSM 19601', 'Komagataella phaffii GS115', 'Ogataea polymorpha NCYC 495 leu1.1', 'Lactobacillus nodensis DSM 19682 = JCM 14932 = NBRC 107160', 'Actinomyces massiliensis F0489', 'Alkaliphilus oremlandii OhILAs', 'Babesia sp. Xinjiang', 'Pontibacillus yanchengensis Y32', 'Paxillus rubicundulus Ve08.2h10', 'Veillonella magna DSM 19857', 'Hemiselmis andersenii', 'Streptomyces sp. Mg1', 'Streptomyces sp. SPB074', 'Acinetobacter sp. Ver3', 'Singulisphaera acidiphila DSM 18658', 'Ilumatobacter coccineus YM16-304', 'Lachnoanaerobaculum saburreum F0468', 'Rhodobacteraceae bacterium KLH11', 'Sistotremastrum suecicum HHB10207 ss-3', 'Bacteroides sp. 1_1_14', 'Bacteroides sp. 2_1_22', 'Bacteroides sp. 2_1_33B', 'Bacteroides sp. 2_2_4', 'Parabacteroides sp. 20_3', 'Bacteroides sp. 3_1_19', 'Bacteroides sp. 3_1_40A', 'Coprobacillus sp. 8_2_54BFAA', 'Streptococcus sp. 2_1_36FAA', 'Burkholderiales bacterium 1_1_47', 'Erysipelotrichaceae bacterium 6_1_45', 'Prevotella histicola JCM 15637 = DNF00424', 'Cladophialophora yegresii', 'Gracilibacillus halophilus YIM-C55.5', 'Salinimicrobium terrae DSM 17865', 'Pantoea vagans C9-1', 'Gordonibacter pamelaeae 7-10-1-b', 'Geobacillus sp. WCH70', 'Dasania marina DSM 21967', 'Bifidobacterium bombi DSM 19703', 'Haloplasma contractile SSD-17B', 'Candidatus Desulforudis audaxviator MP104C', 'Nitratireductor basaltis', 'Nitrosococcus watsonii C-113', 'Colletotrichum gloeosporioides', 'Methanosphaerula palustris E1-9c', 'Pedobacter borealis DSM 19626', 'Pseudohaliea rubra DSM 19751', 'Leisingera aquimarina DSM 24565', 'Modestobacter marinus', 'Bacteroides graminisolvens DSM 19988 = JCM 15093', 'Aliiglaciecola lipolytica E3', 'Calditerrivibrio nitroreducens DSM 19672', 'Verrucomicrobia bacterium LP2A', 'Haematomicrobium sanguinis DSM 21259', 'Brevibacterium ravenspurgense 5401308 = CCUG 53855', 'Gluconobacter morbifer G707', 'Commensalibacter intestini A911', 'Myroides profundi', 'Bartonella rattaustraliani AUST/NH4', 'Lactobacillus otakiensis DSM 19908 = JCM 15040', 'Lactobacillus kisonensis F0435', 'Paenibacillus sp. Y412MC10', 'Galeopterus variegatus', 'Oscillatoria nigro-viridis PCC 7112', 'Burkholderia lata', 'Lactobacillus fabifermentans T30PCM01', 'Cystoisospora suis', 'Geoalkalibacter subterraneus', 'Paenibacillus riograndensis SBR5', 'Sphingobium sp. YBL2', 'Pelosinus sp. UFO1', 'Dialister succinatiphilus YIT 11850', 'Barnesiella intestinihominis YIT 11860', 'Parasutterella excrementihominis YIT 11859', 'Acinetobacter soli', 'Aequorivita capsosiphonis DSM 23843', 'Shewanella marina JCM 15074', 'Corynebacterium ulceribovis DSM 45146', 'Flavobacteria bacterium MS024-2A', 'Serratia sp. SCBI', 'Campylobacter peloridis LMG 23910', 'Desulfonatronospira thiodismutans ASO3-1', 'Halarchaeum acidiphilum MH1-52-1', 'Mesorhizobium metallidurans STM 2683', 'Corynebacterium sputi DSM 45148', 'Marinobacter sp. BSs20148', 'Litoreibacter arenae DSM 19593', 'Leucobacter chironomi DSM 19883', 'Brachymonas chironomi DSM 19884', 'Megamonas rupellensis DSM 19944', 'Bacillus velezensis FZB42', 'Dyadobacter alkalitolerans DSM 23607', 'Rhizobium alamii', 'Chryseobacterium palustre DSM 21579', 'Psychrobacter sp. TB15', 'Arthrobacter sp. TB 23', 'Spirosoma panaciterrae DSM 21099', 'Thermoanaerobacter pseudethanolicus ATCC 33223', 'Thauera sp. 63', 'Campylobacter subantarcticus LMG 24377', 'Candidatus Nitrososphaera gargensis Ga9.2', 'Brevibacillus panacihumi W25', 'Arenimonas oryziterrae DSM 21050 = YC6267', 'Flavobacterium rivuli WB 3.3-2 = DSM 21788', 'Borreliella finlandensis', 'Candidatus Korarchaeum cryptofilum OPF8', 'Tepidanaerobacter acetatoxydans Re1', 'Metarhizium brunneum ARSEF 3297', 'Streptomyces avicenniae', 'Glaciibacter superstes DSM 21135', 'Citreicella sp. SE45', 'Porphyromonas bennonis DSM 23058 = JCM 16335', 'Thermodesulfatator atlanticus DSM 21156', 'Butyricicoccus pullicaecorum 1.2', 'Thalassospira profundimaris WP0211', 'Deinococcus gobiensis I-0', 'Eggerthella sp. YY7918', 'Streptococcus porci DSM 23759', 'Aeromonas diversa CDC 2478-85', 'Salisaeta longa DSM 21114', 'Flavobacterium sasangense DSM 21067', 'Kushneria aurantia DSM 21353', 'Jejuia pallidilutea', 'Haloterrigena salina JCM 13891', 'Novosphingobium acidiphilum DSM 19966', 'Chromera velia CCMP2878', 'Rheinheimera sp. A13L', 'Leisingera caerulea DSM 24564', 'Cinara cedri', 'Peptoniphilus duerdenii ATCC BAA-1640', 'Cloacibacillus evryensis DSM 19522', 'Bradyrhizobium genosp. SA-4 str. CB756', 'Pedobacter sp. V48', 'Oceanimonas sp. GK1', 'Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2', 'Methylacidiphilum infernorum V4', 'Vibrio azureus NBRC 104587', 'Dictyoglomus turgidum DSM 6724', 'Caloramator australicus RC3', 'Lacticigenium naphtae DSM 19658', 'Prevotella falsenii DSM 22864 = JCM 15124', 'Nesterenkonia alba DSM 19423', 'Muricauda lutaonensis', 'Providencia burhodogranariea DSM 19968', 'Providencia sneebia DSM 19967', 'Jeotgalicoccus marinus DSM 19772', 'Pontibacillus litoralis JSM 072002', 'Pontibacillus halophilus JSM 076056 = DSM 19796', 'Pantoea sp. aB', 'Citromicrobium sp. JLT1363', 'Bifidobacterium mongoliense DSM 21395', 'Lactobacillus sucicola DSM 21376 = JCM 15457', 'Alcanivorax hongdengensis A-11-3', 'Deinococcus aquatilis DSM 23025', 'Elaphomyces granulatus', 'Ectothiorhodospira sp. PHS-1', 'Brucella sp. NVSL 07-0026', 'Brucella sp. 83/13', 'Acinetobacter sp. NIPH 817', 'Pseudomonas caeni DSM 24390', 'Sphingobium lactosutens DS20', 'Trichophyton mentagrophytes', 'Marinobacter santoriniensis NKSG1', 'Acinetobacter sp. ATCC 27244', 'Thiothrix lacustris DSM 21227', 'Haloglycomyces albus DSM 45210', 'Oceanibaculum indicum P24', 'Listeria marthii FSL S4-120', 'Thecamonas trahens', 'Rhodoluna lacicola', 'Pelagibacterium halotolerans B2', 'Flavobacteriaceae bacterium 3519-10', 'Actinopolymorpha alba DSM 45243', 'Mesorhizobium australicum WSM2073', 'Psychrobacter lutiphocae DSM 21542', 'Rudaea cellulosilytica DSM 22992', 'Thermus islandicus DSM 21543', 'Corynebacterium lubricantis DSM 45231', 'Peronospora effusa', 'Actinoplanes subtropicus', 'Geobacillus sp. Y412MC61', 'Actinomyces johnsonii F0510', 'Butyricimonas synergistica DSM 23225', 'Thioalkalivibrio sp. AKL11', 'Thioalkalivibrio sp. ALJ24', 'Alishewanella jeotgali KCTC 22429', 'Paraoerskovia marina DSM 21750', 'Sporothrix brasiliensis 5110', 'Hydrogenobaculum sp. 3684', 'Hydrogenobaculum sp. HO', 'Hydrogenobaculum sp. SN', 'Mycobacterium vulneris', 'Phycisphaera mikurensis NBRC 102666', 'Pseudogulbenkiania ferrooxidans 2002', 'Geobacillus sp. Y412MC52', 'Pseudonocardia acaciae DSM 45401', 'Aromatoleum aromaticum EbN1', 'Caldicoprobacter oshimai DSM 21659', 'Sediminimonas qiaohouensis DSM 21189', 'Salinarimonas rosea DSM 21201', 'Erysipelotrichaceae bacterium 5_2_54FAA', 'Ruminococcaceae bacterium D16', 'Cryptococcus gattii VGIII', 'Dehalogenimonas lykanthroporepellens BL-DC-9', 'Pseudomonas pelagia CL-AP6', 'Vibrio breoganii 1C10', 'Alishewanella agri BL06', 'Cobetia crustatorum', 'Halomonas jeotgali Hwa', 'Photobacterium leiognathi lrivu.4.1', 'Chlorella variabilis', 'Thiomonas sp. CB2', 'Flavobacterium chungangense LMG 26729', 'Galbibacter marinus', 'Staphylococcus massiliensis S46', 'Novosphingobium sp. Rr 2-17', 'Bacteroides sp. D1', 'Bacteroides sp. D2', 'Clostridium sp. D5', 'Coprobacillus sp. D7', 'Candidatus Liberibacter solanacearum CLso-ZC1', 'Propionibacterium acidifaciens DSM 21887', 'Corynebacterium freiburgense DSM 45254', 'Chryseobacterium piperi', 'Lentibacillus jeotgali', 'Salinicoccus carnicancri Crm', 'Aeromonas lacus', 'Aureobasidium namibiae CBS 147.97', 'Lysinibacillus sinduriensis BLB-1 = JCM 15800', 'Aliagarivorans taiwanensis DSM 22990', 'Prevotella sp. C561', 'Streptococcus sp. C300', 'Streptococcus sp. M143', 'Streptococcus sp. M334', 'Acidianus hospitalis W1', 'Salinisphaera hydrothermalis C41B8', 'Parabacteroides sp. D13', 'Scedosporium apiospermum', 'Geoglobus acetivorans', "Saccharomycetaceae sp. 'Ashbya aceri'", 'Metarhizium robertsii ARSEF 23', 'Dickeya poaceiphila', 'Cladophialophora immunda', 'Pseudoalteromonas lipolytica SCSIO 04301', 'Methanocella paludicola SANAE', 'Ochrobactrum rhizosphaerae SJY1', 'Psychrobacter sp. G', 'Encephalitozoon romaleae SJ-2008', 'Absidia idahoensis var. thermophila', 'Thermoanaerobacter sp. X513', 'Francisella salina', 'Candidatus Hodgkinia cicadicola Dsem', 'Pandoraea oxalativorans', 'Bacillus gaemokensis', 'Bacillus manliponensis', 'Parabacteroides gordonii MS-1 = DSM 23371', 'Pseudomonas taeanensis MS-3', 'Corynebacterium maris DSM 45190', 'Phialocephala subalpina', 'Polynucleobacter necessarius STIR1', 'Polynucleobacter asymbioticus QLW-P1DMWA-1', 'Streptomyces iranensis', 'Indibacter alkaliphilus LW1', 'Enterorhabdus mucosicola DSM 19490', 'Bacillus cytotoxicus NVH 391-98', 'Geobacillus sp. Y4.1MC1', 'Thermococcus paralvinellae', 'Rubidibacter lacunae KORDI 51-2', 'Thermoanaerobacter mathranii subsp. mathranii str. A3', 'Synechococcus sp. KORDI-49', 'Synechococcus sp. KORDI-52', 'Bacteroides sp. D20', 'Bacteroides sp. D22', 'Nematocida parisii', 'Oceanobacillus manasiensis', 'Terribacillus aidingensis', 'Myripristis murdjan', 'Pseudomonas chlororaphis', 'Rhizophagus irregularis', 'Patulibacter americanus DSM 16676', 'Kazachstania naganishii', 'Brevundimonas naejangsanensis', 'Prevotella fusca JCM 17724', 'Prevotella scopos JCM 17725', 'Alteromonas australica', 'Methylacidiphilum fumariolicum SolV', 'Streptomyces sp. SPB78', 'Streptomyces sp. AA4', 'Ignavibacterium album JCM 16511', 'Roseivivax isoporae LMG 25204', 'Piliocolobus tephrosceles', 'Pantoea sp. At-9b', 'Pantoea sp. Sc1', 'Mesorhizobium opportunistum WSM2075', 'Allofrancisella guangzhouensis', 'Rhodopirellula sp. SWK7', 'Prevotella aurantiaca JCM 15754', 'Desulfovibrio sp. U5L', 'Brenneria sp. EniD312', 'Corynebacterium pyruviciproducens ATCC BAA-1742', 'Fibroporia radiculosa', 'Meiothermus rufus DSM 22234', 'Neisseria wadsworthii 9715', 'Neisseria shayeganii 871', 'Dinoponera quadriceps', 'Asaia platycodi SF2.1', 'Harpegnathos saltator', 'Arenibacter algicola', 'Polycyclovorans algicola TG408', 'Methylocystis sp. ATCC 49242', 'Blattabacterium sp. (Blattella germanica) str. Bge', 'Bacteroides clarus YIT 12056', 'Bacteroides fluxus YIT 12057', 'Bacteroides oleiciplenus YIT 12058', 'Alistipes indistinctus YIT 12060', 'Odoribacter laneus YIT 12061', 'Slackia piriformis YIT 12062', 'Collinsella tanakaei YIT 12063', 'Succinatimonas hippei YIT 12066', 'Phascolarctobacterium succinatutens YIT 12067', 'Sphingobium sp. SYK-6', 'Sphingomonas sp. Mn802worker', 'Tomitella biformata AHU 1821', 'Thiorhodovibrio sp. 970', 'Saccharomonospora marina XMU15', 'Acinetobacter rudis CIP 110305', 'Thalassobium sp. R2A62', 'Prevotella saccharolytica F0055', 'Bifidobacterium bohemicum DSM 22767', 'Bifidobacterium actinocoloniiforme DSM 22766', 'Pyramidobacter piscolens W5455', 'Acidobacteriaceae bacterium KBS 146', 'Hoyosella subflava DQS3-9A1', 'Lactobacillus florum 2F', 'Burkholderia sp. CCGE1001', 'Burkholderia sp. CCGE1003', 'Clostridium sp. DL-VIII', 'Neisseria sp. oral taxon 014 str. F0314', 'Tatumella morbirosei', 'Silicibacter sp. TrichCH4B', 'Methanocaldococcus sp. FS406-22', 'Streptomyces sp. e14', 'Enterocytozoon hepatopenaei', 'Plasmodium gaboni', 'Methylobacterium sp. MB200', 'Micromonospora sp. L5', 'Cesiribacter andamanensis AMV16', 'Clostridium sp. ATCC BAA-442', 'Actinomyces sp. oral taxon 848 str. F0332', 'Acetomicrobium hydrogeniformans ATCC BAA-1850', 'Anaerostipes hadrus DSM 3319', 'Actinoplanes sp. N902-109', 'Sulfuricella denitrificans skB26', 'Fibrella aestuarina BUZ 2', 'Aurantimonas manganoxydans SI85-9A1', 'Kosmotoga olearia TBF 19.5.1', 'Actinomyces sp. oral taxon 180 str. F0310', 'Fretibacterium fastidiosum', 'Oribacterium sp. oral taxon 078 str. F0262', 'Bacteroidetes oral taxon 274 str. F0058', 'Peptoniphilus sp. oral taxon 386 str. F0131', 'Paenibacillus sp. oral taxon 786 str. D14', 'Prevotella sp. oral taxon 299 str. F0039', 'Prevotella sp. oral taxon 317 str. F0108', 'Actinomyces sp. oral taxon 849 str. F0330', 'Albugo laibachii', 'Prevotella sp. oral taxon 472 str. F0295', 'Pseudogymnoascus destructans 20631-21', 'Pandoraea vervacti', 'Halanaerobium hydrogeniformans', 'Ruminococcus sp. SR1/5', 'Flavobacterium beibuense F44-8', 'Candidatus Koribacter versatilis Ellin345', 'Ralstonia sp. 5_2_56FAA', 'Lachnospiraceae bacterium 1_1_57FAA', 'Lachnospiraceae bacterium 2_1_58FAA', 'Lachnospiraceae bacterium 6_1_63FAA', 'Lachnospiraceae bacterium 5_1_57FAA', 'Lachnospiraceae bacterium 3_1_57FAA_CT1', 'Lachnospiraceae bacterium 7_1_58FAA', 'Lachnospiraceae bacterium 9_1_43BFAA', 'Lachnospiraceae bacterium 5_1_63FAA', 'Pseudomonas sp. H2', 'Lachnospiraceae bacterium 1_4_56FAA', 'Lachnospiraceae bacterium 6_1_37FAA', 'Erysipelotrichaceae bacterium 21_3', 'Erysipelotrichaceae bacterium 3_1_53', 'Parabacteroides sp. D25', 'Porphyromonas sp. 31_2', 'Paraburkholderia acidipaludis NBRC 101816', 'Olsenella sp. oral taxon 809 str. F0356', 'Brachybacterium squillarum M-6-3', "Candidatus Parvarchaeum acidiphilum ARMAN-4_'5-way FS'", "Candidatus Parvarchaeum acidophilus ARMAN-5_'5-way FS'", 'Fibrisoma limi BUZ 3', 'Methylocapsa aurea', 'Leucobacter salsicius M1-8', 'Borreliella bavariensis PBi', 'Bacillus oceanisediminis 2691', 'Dietzia alimentaria 72', 'Campylobacter sp. 10_1_50', 'Clostridium sp. 7_3_54FAA', 'Coprobacillus sp. 3_3_56FAA', 'Desulfovibrio sp. 6_1_46AFAA', 'Eggerthella sp. 1_3_56FAA', 'Klebsiella sp. 4_1_44FAA', 'Neisseria sp. GT4A_CT1', 'Tannerella sp. 6_1_58FAA_CT1', 'Lachnospiraceae bacterium 3_1_46FAA', 'Lachnospiraceae bacterium 8_1_57FAA', 'Subdoligranulum sp. 4_3_54A2FAA', 'Bacillus sp. 7_6_55CFAA_CT2', 'Bacillus sp. BT1B_CT2', 'Bacillus sp. 2_A_57_CT2', 'Aquimarina macrocephali JAMB N27', 'Afipia sp. 1NLS2', 'Rhodanobacter denitrificans', 'Bacillus sp. 1NLA3E', 'Raphidiopsis brookii D9', 'Thelohanellus kitauei', 'Geminocystis herdmanii PCC 6308', 'Paenibacillus pini JCM 16418', 'Candidatus Profftella armatura', 'Microvirga aerilata', 'Candidatus Uzinura diaspidicola str. ASNER', 'Candidatus Methylomirabilis oxyfera', 'Leptotrichia sp. oral taxon 225 str. F0581', 'Alloprevotella rava F0323', 'Propionibacterium sp. oral taxon 192 str. F0372', 'Selenomonas artemidis F0399', 'Veillonella sp. oral taxon 158 str. F0412', 'Veillonella sp. oral taxon 780 str. F0422', 'Enterorhabdus caecimuris B7', 'Bacteroides sartorii dnLKV3', 'Microbacterium yannicii PS01', 'Cardinium endosymbiont cBtQ1 of Bemisia tabaci', 'Aciduliprofundum sp. MAR08-339', 'Candidatus Babela massiliensis', 'Bacteroides faecis MAJ27', 'Vibrio sp. RC586', 'Lachancea nothofagi', 'Fervidicoccus fontis Kam940', 'Sphingomonas sp. PR090111-T3T-6A', 'Pseudomonas sp. S9', 'Lichtheimia ramosa', 'Oribacterium sp. NK2B42', 'Colletotrichum fructicola Nara gc5', 'Rhizobium vignae', 'Geobacillus sp. C56-T3', 'Fonticula alba', 'Caldisericum exile AZM16c01', 'Vibrio atlanticus LGP32', 'Enterobacteriaceae bacterium strain FGI 57', 'Halogranum salarium B-1', 'Bilophila sp. 4_1_30', "Marssonina brunnea f. sp. 'multigermtubi' MB_m1", 'Virgibacillus alimentarius', 'Megasphaera genomosp. type_1 str. 28L', 'Vibrio caribbeanicus ATCC BAA-2122', 'Vibrio sp. N418', 'Novosphingobium sp. PP1Y', 'Saccharomyces arboricola H-6', 'Capnocytophaga sp. oral taxon 329 str. F0087', 'Actinomyces sp. oral taxon 171 str. F0337', 'Colletotrichum chlorophyti', 'Colletotrichum tofieldiae', 'Bradyrhizobiaceae bacterium SG-6C', 'Frankia sp. QA3', 'Actinomyces sp. oral taxon 178 str. F0338', 'Capnocytophaga sp. oral taxon 338 str. F0234', 'Colletotrichum fioriniae', 'Streptomyces sp. GXT6', 'Actinomyces sp. oral taxon 170 str. F0386', 'Actinomyces sp. oral taxon 172 str. F0311', 'Actinomyces sp. oral taxon 175 str. F0384', 'Actinomyces sp. oral taxon 181 str. F0379', 'Actinomyces sp. oral taxon 448 str. F0400', 'Aggregatibacter sp. oral taxon 458 str. W10330', 'Atopobium sp. oral taxon 199 str. F0494', 'Atopobium sp. oral taxon 810 str. F0209', 'Capnocytophaga sp. oral taxon 324 str. F0483', 'Capnocytophaga sp. oral taxon 326 str. F0382', 'Capnocytophaga sp. oral taxon 332 str. F0381', 'Capnocytophaga sp. oral taxon 336 str. F0502', 'Capnocytophaga sp. oral taxon 380 str. F0488', 'Fusobacterium sp. oral taxon 370 str. F0437', 'Leptotrichia sp. oral taxon 215 str. W9775', 'Microbacterium sp. oral taxon 186 str. F0373', 'Neisseria sp. oral taxon 020 str. F0370', 'Oribacterium sp. oral taxon 108 str. F0425', 'Peptoniphilus sp. oral taxon 375 str. F0436', 'Porphyromonas sp. oral taxon 278 str. W7784', 'Prevotella sp. oral taxon 306 str. F0472', 'Prevotella sp. oral taxon 473 str. F0040', 'Selenomonas sp. oral taxon 137 str. F0430', 'Selenomonas sp. oral taxon 138 str. F0429', 'Selenomonas sp. oral taxon 149 str. 67H29BP', 'Streptococcus sp. oral taxon 056 str. F0418', 'Streptococcus sp. oral taxon 058 str. F0407', 'Streptococcus sp. oral taxon 071 str. 73H25AP', 'Actinobaculum sp. oral taxon 183 str. F0552', 'Lachnospiraceae bacterium oral taxon 082 str. F0431', 'Lachnospiraceae oral taxon 107 str. F0167', 'Parvimonas sp. oral taxon 393 str. F0440', 'Candidatus Atelocyanobacterium thalassa isolate SIO64986', 'Alteromonas naphthalenivorans', 'Ensifer sojae CCBAU 05684', 'Caldicellulosiruptor obsidiansis OB47', 'Hyphopichia burtonii NRRL Y-1933', 'Hyphomicrobium sp. MC1', 'Plasmodium sp. DRC-Itaito', 'Nitratireductor indicus C115', 'Acidovorax ebreus TPSY', 'Vibrio genomosp. F10 str. ZF-129', 'Anncaliia algerae PRA109', 'Leptothrix ochracea L12', 'Rahnella sp. Y9602', 'Delftia sp. Cs1-4', 'Melanaphis sacchari', 'Collinsella sp. 4_8_47FAA', 'Lachnospiraceae bacterium 2_1_46FAA', 'Sphingobacterium sp. 21', 'Methylocystis sp. SB2', 'Ahrensia sp. R2A130', 'Roseibium sp. TrichSKD4', 'Sphingomonas sp. MM-1', 'Olleya sp. VCSM12', 'Mobilicoccus pelagius NBRC 104925', 'Aspergillus fumigatus Af293', 'Oceanobacillus kimchii X50', 'Azoarcus sp. KH32C', 'Pseudogulbenkiania sp. NH8B', 'Thioalkalivibrio sp. ALSr1', 'Sulfuritalea hydrogenivorans sk43H', 'Klebsiella sp. MS 92-3', 'Coprococcus sp. ART55/1', 'Halobacterium sp. DL1', 'Escherichia sp. TW09308', 'Winogradskyella sp. PG-2', 'Photobacterium aphoticum', 'Methylophaga nitratireducenticrescens', 'Methylophaga frappieri', 'Clostridium sp. BNL1100', 'Bacillus sp. WP8', 'Acinetobacter indicus CIP 110367', 'Burkholderia insecticola', 'Burkholderia sp. RPE67', 'Sporosarcina newyorkensis 2681', 'Massilia consociata', 'Bifidobacterium callitrichos DSM 23973', 'Bifidobacterium stellenboschense', 'Bifidobacterium biavatii DSM 23969', 'Siansivirga zeaxanthinifaciens CC-SAMT-1', 'Haemophilus sp. oral taxon 851 str. F0397', 'Paraburkholderia bannensis NBRC 103871', 'Moraxella macacae 0408225', 'Pyrenochaeta sp. DS3sAY3a', 'Stagonospora sp. SRC1lsM3a', 'Vibrio jasicida MWB 21', 'Citreicella sp. 357', 'Candidatus Puniceispirillum marinum IMCC1322', 'Serratia sp. AS12', 'Serratia sp. AS13', 'Sinorhizobium sp. CCBAU 05631', 'Opitutaceae bacterium TAV5', 'Burkholderiaceae bacterium PBA', 'Nesterenkonia sp. F', 'Sugiyamaella lignohabitans', 'Peptoanaerobacter stomatis', 'Stomatobaculum longum', 'Kipferlia bialata', 'Fonsecaea nubica', 'Cryptosporidium ubiquitum', 'Trichoderma parareesei', 'Caenispirillum salinarum AK4', 'Agrobacterium sp. H13-3', 'Gemmatirosa kalamazoonesis', 'Streptomyces sp. SirexAA-E', 'Thermincola potens JR', 'Burkholderiales bacterium JOSHI_001', 'Microvirga lotononidis', 'Oscillatoriales cyanobacterium C42_A2020_001', 'Schizosaccharomyces cryophilus', 'Methanothermobacter sp. CaT2', 'Chloroflexus sp. Y-396-1', 'Methanobacterium paludis', 'Ogataea angusta', 'Terriglobus saanensis SP1PR4', 'Bacteroides stercorirosoris JCM 17103', 'Lactobacillus pasteurii DSM 23907 = CRBIP 24.76', 'Celeribacter baekdonensis B30', 'Mycolicibacter sinensis', 'Peptoniphilus sp. 1-1', 'Methyloferula stellata AR4', 'Ruminococcus sp. NK3A76', 'Clostridiales bacterium NK3B98', 'Erysipelotrichaceae bacterium NK3D112', 'Lachnospiraceae bacterium NK4A136', 'Lachnospiraceae bacterium NK4A144', 'Lachnospiraceae bacterium NK4A179', 'Methanobacterium lacus', 'Chryseobacterium sp. StRB126', 'Pseudodesulfovibrio piezophilus C1TLV30', 'Cutaneotrichosporon oleaginosum', 'Plasmodium sp. gorilla clade G2', 'Fulvivirga imtechensis AK7', 'Methanoregula formicica SMSP', 'Schleiferia thermophila str. Yellowstone', 'Candidatus Zinderia insecticola CARI', 'Mageeibacillus indolicus UPII9-5', 'Fukomys damarensis', 'Desulfosporosinus acidiphilus SJ4', 'Methylovorus sp. MP688', 'Candidatus Nanosalina sp. J07AB43', 'Candidatus Nanosalinarum sp. J07AB56', 'Plautia stali symbiont', 'Nonlabens ulvanivorans', 'Phytopythium vexans DAOM BR484', 'Clostridium sp. HGF2', 'Alistipes sp. HGB5', 'Fusarium sp. FOSC 3-a', 'Actinokineospora spheciospongiae', 'SAR116 cluster alpha proteobacterium HIMB100', 'Pseudovibrio sp. FO-BEG1', 'Caldanaerobacter subterraneus subsp. tengcongensis MB4', 'Mycolicibacterium iranicum UM_TJL', 'Desulfosporosinus sp. OT', 'Knoellia flava TL1', 'Kangiella geojedonensis', 'Rhynchosporium commune', 'Rhynchosporium agropyri', 'Asinibacterium sp. OR53', 'Balearica regulorum', 'Synechocystis sp. PCC 7509', 'Bartonella florencae', 'Pseudomonas brassicacearum', 'Nonlabens marinus S1-08', 'Serratia sp. M24T3', 'Desulfosarcina sp. BuS5', 'Aminobacter sp. J41', 'Bacillus sp. J33', 'Bacillus sp. J37', 'Chelativorans sp. J32', 'Paenibacillus sp. J14', 'Paracoccus sp. J39', 'Luteimonas sp. J29', 'Nocardioides sp. J54', 'Rhizopus delemar', 'Mogibacterium sp. CM50', 'Desulfurispirillum indicum S5', 'Marinomonas posidonica IVIA-Po-181', 'Actinomyces sp. ICM47', 'Atopobium sp. BS2', 'Selenomonas sp. FOBRC6', 'Selenomonas sp. FOBRC9', 'Shuttleworthia sp. MSX8B', 'Streptococcus sp. CM6', 'Veillonella sp. AS16', 'Lachnoanaerobaculum sp. OBRC5-5', 'Lachnoanaerobaculum sp. MSX33', 'Casaltella massiliensis', 'Fenollaria massiliensis', 'Levyella massiliensis', 'Anaerococcus provencensis', 'Bacteroidetes bacterium SCGC AAA027-N21', 'Granulicella mallensis MP5ACTX8', 'Granulicella tundricola MP5ACTX9', 'Desulfovibrio sp. X2', 'Burkholderia sp. WSM2230', 'Hippea jasoniae', 'Hippea sp. KM1', 'Arcobacter sp. L', 'Gordonia neofelifaecis NRRL B-59395', 'Diplocarpon rosae', 'Salpingoeca rosetta', 'Arenimonas metalli CF5-1', 'Paraburkholderia dilworthii', 'Fusarium proliferatum', 'Palaeococcus pacificus DY20341', 'Bacillus sp. 17376', 'Fonsecaea multimorphosa CBS 102226', 'Leuconostoc sp. C2', 'Deinococcus wulumuqiensis R12', 'Aquimarina agarivorans', 'Morus notabilis', 'Ruegeria conchae', 'Lacinutrix sp. 5H-3-7-4', 'Glaciecola sp. 4H-3-7+YE-5', 'Dokdonia sp. 4H-3-7-5', 'Bifidobacterium reuteri DSM 23975', 'Heterobasidion irregulare', 'Mycoplasma parvum str. Indiana', 'Staphylococcus argenteus M21126', 'Vulcanisaeta moutnovskia 768-28', 'Ruegeria halocynthiae', 'Gillisia sp. CAL575', 'Staphylococcus agnetis', 'Lebetimonas sp. JS170', 'Polymorphum gilvum SL003B-26A1', 'Vibrio sp. HENC-03', 'Erosia sp. biolep03', 'Candidatus Kinetoplastibacterium desouzaii TCC079E', 'Candidatus Kinetoplastibacterium galatii TCC219', 'Candidatus Kinetoplastibacterium oncopeltii TCC290E', 'Desmospora sp. 8437', 'Porphyromonas sp. KLE 1280', 'Streptomyces himastatinicus ATCC 53653', 'Halomonas sp. TD01', 'Methylophaga lonarensis MPL', 'Selenomonas sp. F0473', 'Streptococcus sp. F0441', 'Streptococcus sp. F0442', 'Sedimentitalea nanhaiensis DSM 24252', 'Megasphaera sp. UPII 135-E', 'Cryobacterium roopkundense', 'Daldinia sp. EC12', 'Hypoxylon sp. CI-4A', 'Psychrobacter sp. 1501(2011)', 'Leisingera sp. ANG1', 'Candidatus Pelagibacter sp. IMCC9063', 'Verrucosispora maris AB-18-032', 'Fimbriimonas ginsengisoli Gsoil 348', 'Ogataea parapolymorpha DL-1', 'Metallosphaera cuprina Ar-4', 'Listeria weihenstephanensis FSL R9-0317', 'Defluviitoga tunisiensis', 'Candidatus Nitrosarchaeum limnium SFB1', 'Sphingomonas sp. S17', 'Pusillimonas sp. T7-7', 'Pyrococcus yayanosii CH1', 'Candidatus Tremblaya phenacola PAVE', 'Exophiala sideris', 'Nannospalax galili', 'Endozoicomonas montiporae', 'Pseudomonas sp. StFLB209', 'Acinetobacter sp. P8-3-8', 'Sphingomonas sp. KC8', 'Caloramator sp. ALD01', 'Campylobacter volucris LMG 24379', 'Corynebacterium nuruki S6-4', 'Bacillus timonensis', 'Brevibacterium senegalense', 'Kurthia sp. Dielmo', 'Kurthia massiliensis', 'Kurthia senegalensis', 'Exophiala aquamarina CBS 119918', 'Marinobacter adhaerens HP15', 'Thioalkalivibrio sulfidiphilus HL-EbGr7', 'Nitrososphaera viennensis EN76', 'Paenibacillus sp. HW567', 'Legionella massiliensis', 'Deferrisoma camini S3R1', 'Dehalobacter sp. FTH1', 'Idiomarina sp. A28L', 'Bradyrhizobium sp. WSM2793', 'Bradyrhizobium sp. WSM3983', 'Mesorhizobium sp. WSM3224', 'Mesorhizobium sp. WSM3626', 'Bradyrhizobium sp. ARR65', 'Drosophila rhopaloa', 'Ensifer sp. WSM1721', 'Candidatus Arthromitus sp. SFB-rat-Yit', 'Wickerhamomyces ciferrii', 'Aureobasidium subglaciale EXF-2481', 'Clostridium sp. SY8519', 'Rhizobium sp. IBUN', 'Ochrovirga pacifica', 'Thermococcus sp. 4557', 'Acidiphilium sp. PM', 'Demequina mangrovi', 'Citricoccus sp. CH26A', 'Oceaniovalibus guishaninsula JLT2003', 'Aminicenantes bacterium SCGC AAA252-A02', 'Zymoseptoria brevis', 'Zymoseptoria tritici', 'Candidatus Moranella endobia PCIT', 'Paracoccidioides lutzii', 'Anditalea andensis', 'Paenibacillus sp. Aloe-11', 'Verticillium alfalfae VaMs.102', 'Acetobacteraceae bacterium AT-5844', 'Thermoplasmatales archaeon BRNA1', 'Methylotenera versatilis 301', 'Psychrobacter sp. TB67', 'Grimontia indica', 'Nocardia sp. BMG51109', 'Ensifer sp. BR816', 'Azospirillum baldaniorum', 'Amycolatopsis halophila YIM 93223', 'Aspergillus luchuensis IFO 4308', 'Halonotius sp. J07HN4', 'Bacillus sp. NSP22.2', 'Tetrapisispora blattae', 'Caballeronia grimmiae', 'Lachancea dasiensis CBS 10888', 'Porticoccus hydrocarbonoclasticus MCTG13d', 'Armillaria solidipes', 'Pantoea rwandensis', 'Thiolapillus brandeum', 'Acetobacter okinawensis JCM 25146', 'Staphylococcus sp. HGB0015', 'Paenisporosarcina sp. HGH0030', 'Streptomyces sp. HGB0020', 'Parabacteroides sp. HGS0025', 'Bacteroides sp. HPS0048', 'Coprococcus sp. HPP0074', 'Coprococcus sp. HPP0048', 'Serinicoccus profundi MCCC 1A05965', 'Haemophilus sputorum CCUG 13788', 'Paenibacillus sp. HGH0039', 'Corynebacterium sp. HFH0082', 'Rhizobium mesoamericanum STM3625', 'Leucobacter chromiiresistens JG 31', 'Citrobacter sp. S-77', 'Saccharomyces eubayanus', 'Candidatus Aquiluna sp. IMCC13023', 'Hepatospora eriocheir', 'Enterospora canceri', 'Aquimarina agarilytica ZC1', 'Bartonella sp. DB5-6', 'Streptococcus sp. SK140', 'Streptococcus sp. SK643', 'Methylobacterium sp. GXF4', 'Arthrobacter sp. PAO19', 'Burkholderia sp. YI23', 'Coprobacter fastidiosus NSB1', 'Limnohabitans sp. Rim28', 'Limnohabitans sp. Rim47', 'Arthrobacter sp. MA-N2', 'Paracoccus sp. N5', 'Methylopila sp. M107', 'Methylobacterium sp. 10', 'Methylobacterium sp. 77', 'Methylophilaceae bacterium 11', 'Pyrobaculum ferrireducens', 'Actinomyces sp. ICM39', 'Clostridium sp. MSTE9', 'Rickettsia philipii str. 364D', 'Paenirhodobacter enshiensis', 'Penicillium rubens', 'Thermus sp. CCB_US3_UF1', 'Metallosphaera yellowstonensis MK1', 'Atopobium sp. BV3Ac4', 'Propionimicrobium sp. BV2F7', 'Peptoniphilus sp. BV3C26', 'Coriobacteriaceae bacterium BV3Ac1', 'Megasphaera sp. BV3C16-1', 'Psychrobacter sp. PAMC 21119', 'Sphingomonas sp. PAMC 26605', 'Sphingomonas sp. PAMC 26617', 'Methylophilus sp. 5', 'Arthrobacter sp. 31Y', 'Hoeflea sp. 108', 'Vibrio sp. EJY3', 'Elizabethkingia anophelis NUHP1', 'Brevibacillus massiliensis', 'Actinomyces sp. ph3', 'Halomonas sp. GFAJ-1', 'Arthrobacter sp. Rue61a', 'Rhizobium grahamii CCGE 502', 'Sphingopyxis sp. LC363', 'Methylopila sp. 73B', 'Mycobacterium sp. 141', 'Actinomadura flavalba DSM 45200', 'Corynebacterium doosanense CAU 212 = DSM 45436', 'Gordonia kroppenstedtii DSM 45133', 'Fodinicurvata fenggangensis DSM 21160', 'Fodinicurvata sediminis DSM 21159', 'Halomonas zhanjiangensis DSM 21076', 'Hirschia maritima DSM 19733', 'Pedobacter oryzae DSM 19973', 'Ponticaulis koreensis DSM 19734', 'Rubellimicrobium mesophilum DSM 19309', 'Thiomicrorhabdus sp. Kp2', 'Gonapodya prolifera JEL478', 'SAR86 cluster bacterium SAR86A', 'SAR86 cluster bacterium SAR86B', 'Magnetococcus marinus MC-1', 'Treponema sp. JC4', 'Pseudomonas sp. P179', 'Limimaricola cinnabarinus LL-001', 'Bosea sp. 117', 'Bradyrhizobium sp. DOA9', 'Paenibacillus beijingensis', 'Bacillus sp. JS', 'Paraglaciecola arctica BSs20135', 'Weissella oryzae SG25', 'Marine Group I thaumarchaeote SCGC AB-629-I23', 'Nitrospina sp. AB-629-B18', 'Dehalobacter sp. CF', 'Sphaerochaeta globosa str. Buddy', 'Sphaerochaeta pleomorpha str. Grapes', 'Flavobacterium sp. 83', 'Methylobacterium sp. 88A', 'Xanthobacter sp. 126', 'Arthrobacter sp. 35W', 'Bacillus sp. 37MA', 'Rhizobium sp. CCGE 510', 'Melioribacter roseus P3M-2', 'Alkalihalobacillus ligniniphilus', 'Cellvibrio sp. BR', 'Klebsiella michiganensis E718', 'Nocardiopsis sp. CNT312', 'Streptomyces sp. CNH099', 'Saccharomonospora sp. CNQ490', 'Xanthomarina gelatinilytica', 'Endozoicomonas numazuensis', 'Clostridium arbusti SL206', 'Mycobacterium paraintracellulare', 'Lactobacillus curieae', 'Pseudomassariella vexata', 'Homolaphlyctis polyrhiza', 'Novosphingobium sp. AP12', 'Sphingobium sp. AP49', 'Rhizobium sp. CF080', 'Rhizobium sp. CF122', 'Flavobacterium sp. CF136', 'Herbaspirillum sp. CF444', 'Pseudomonas sp. GM21', 'Herbaspirillum sp. YR522', 'Phyllobacterium sp. YR531', 'Tritrichomonas foetus', 'Acinetobacter sp. CIP 101934', 'Acinetobacter sp. CIP 101966', 'Acinetobacter sp. CIP 102082', 'Acinetobacter sp. CIP 102129', 'Acinetobacter sp. CIP 102136', 'Acinetobacter sp. CIP 102143', 'Acinetobacter sp. CIP 102159', 'Acinetobacter sp. CIP 102529', 'Acinetobacter sp. CIP 102637', 'Acinetobacter sp. CIP 51.11', 'Acinetobacter sp. CIP 53.82', 'Acinetobacter sp. CIP 56.2', 'Acinetobacter sp. CIP 64.7', 'Acinetobacter sp. CIP A162', 'Lysinibacillus varians', 'Dehalobacter sp. DCA', 'Ornithinibacillus scapharcae TW25', 'Achromobacter arsenitoxydans SY8', 'Acinetobacter oleivorans DR1', 'Geminisphaera colitermitum TAV2', 'Pseudomonas furukawaii', 'Arthrobacter sp. 9MFCol3.1', 'Leifsonia sp. 109', 'Tsukamurella sp. 1534', 'Arthrobacter sp. 161MFSha2.1', 'Arthrobacter sp. 162MFSha1.1', 'Microbacterium sp. 292MF', 'Nematocida sp. 1 ERTm2', 'Streptomyces sp. LaPpAH-108', 'Streptomyces sp. MspMP-M5', 'Moorea producens 3L', 'Streptococcus sp. I-G2', 'Streptococcus sp. I-P16', 'Streptomyces sp. HmicA12', 'Tumebacillus flagellatus', 'Streptomyces sp. LaPpAH-95', 'Streptomyces sp. Amel2xE9', 'Streptomyces sp. ATexAB-D23', 'Streptomyces sp. BoleA5', 'Streptomyces sp. PsTaAH-124', 'Streptomyces sp. FxanaC1', 'Mycobacterium sp. 155', 'Thermotoga sp. Cell2', 'Thermotoga sp. 2812B', 'Arthrobacter sp. 135MFCol5.1', 'Thioalkalivibrio sp. ALJT', 'Thioalkalivibrio sp. ALD1', 'Thioalkalivibrio sp. ALMg11', 'Thioalkalivibrio sp. ALE31', 'Thiomonas sp. FB-Cd', 'Prevotella sp. 10(H)', 'Desulfurobacterium sp. TC5-1', 'Persephonella sp. IF05-L8', 'Persephonella sp. KM09-Lau-8', 'Kosakonia sacchari SP1', 'Thioalkalivibrio sp. ALJ7', 'Thioalkalivibrio sp. ALJ11', 'Thioalkalivibrio sp. ALJ16', "Leptospirillum sp. Group II 'C75'", 'Ustilaginoidea virens', 'Bordetella sp. FB-8', 'Nocardia sp. BMG111209', 'Brucella sp. 63/311', 'Ruminococcus bicirculans', 'Candidatus Nasuia deltocephalinicola str. NAS-ALF', 'Euryhalocaulis caribicus', 'Streptococcus sp. ACC21', 'Ruminococcus champanellensis 18P13 = JCM 17042', 'Pseudomonas donghuensis', 'Clostridium sp. 12(A)', 'Cronobacter condimenti 1330', 'Richelia intracellularis HH01', 'Imtechella halotolerans K1', 'Methylotenera sp. 73s', 'Sulfurovum sp. AR', 'Enterobacter sp. R4-368', 'Halomonas xinjiangensis', 'Draconibacterium orientale', 'Xanthobacteraceae bacterium 501b', 'Mycobacterium sp. MOTT36Y', 'Mycobacterium sp. H4Y', 'Streptomyces pratensis ATCC 33331', 'Bacillus sp. 123MFChir2', 'Nocardia sp. CNY236', 'Streptomyces sp. CNT372', 'Streptomyces sp. CNY243', 'Brucella sp. F5/06', 'Brucella sp. 56/94', 'Citrobacter sp. KTE30', 'Escherichia sp. KTE114', 'Citrobacter sp. KTE151', 'Escherichia sp. KTE11', 'Escherichia sp. KTE31', 'Citrobacter sp. KTE32', 'Vitrella brassicaformis CCMP3155', 'Rhodobacteraceae bacterium PD-2', 'Streptomyces sp. 142MFCol3.1', 'Streptomyces sp. 351MFTsu5.1', 'Streptomyces sp. 303MFCol5.2', 'Nocardia sp. 348MFTsu5.1', 'Mycobacterium sp. 360MFTsu5.1', 'Terracoccus sp. 273MFTsu3.1', 'Oxytricha trifallax', 'Sulfurimonas hongkongensis', 'Catenovulum agarivorans DS-2', 'Fischerella sp. PCC 9431', 'Fischerella sp. PCC 9605', 'Geitlerinema sp. PCC 7407', 'Gloeocapsa sp. PCC 7428', 'Microcoleus sp. PCC 7113', 'Oscillatoria sp. PCC 10802', 'Chamaesiphon minutus PCC 6605', 'Synechococcus sp. PCC 7502', 'Leptolyngbya sp. PCC 6406', 'Colletotrichum sublineola', 'Fischerella sp. PCC 9339', 'Sphingopyxis sp. MC1', 'Herbaspirillum sp. GW103', 'Methanocella conradii HZ254', 'Methanocella arvoryzae MRE50', 'Peptoniphilus rhinitidis 1-13', 'Sulfurimonas gotlandica GD1', 'Agrobacterium fabrum str. C58', 'Alcanivorax nanhaiticus', 'Microbacterium sp. C448', 'Komagataeibacter medellinensis NBRC 3288', 'Halomonas huangheensis', 'Bacillus xiamenensis', 'Bacillus zhangzhouensis', 'Arenitalea lutea', 'Candidatus Photodesmus blepharus', 'Mycoplasma feriruminatoris', 'Pseudomonas sp. M47T1', 'Cladophialophora psammophila', 'Deinococcus swuensis', 'Escherichia sp. KTE52', 'Klebsiella sp. KTE92', 'Escherichia sp. KTE96', 'Escherichia sp. KTE159', 'Myroides injenensis M09-0166', 'Pyrococcus sp. ST04', 'Mesotoga prima MesG1.Ag.4.2', 'Thioclava dalianensis', 'Blattabacterium sp. (Blaberus giganteus)', 'Rhodovulum sp. PH10', 'Flavobacterium sp. ACAM 123', 'Burkholderia sp. lig30', 'Lactobacillus hokkaidonensis JCM 18461', 'Snodgrassella alvi', 'Gilliamella apicola', 'Corvus moneduloides', 'Clostridium sp. Maddingley MBC34-26', 'Paenibacillus sp. OSY-SE', 'Mangrovimonas yunxiaonensis', 'Arthrobacter sp. M2012083', 'Janthinobacterium sp. HH01', 'Thermogladius calderae 1633', 'Anaerovibrio sp. RM50', 'Ruminobacter sp. RM87', 'Bacteriovorax sp. Seq25_V', 'Bacteriovorax sp. BAL6_X', 'Flavobacterium sp. F52', 'Lactobacillus oryzae JCM 18671', 'Halopiger salifodinae', 'Achlya hypogyna', 'Lactobacillus hominis DSM 23910 = CRBIP 24.179', 'Geobacter daltonii FRC-32', 'Acidaminococcus sp. HPA0509', 'Actinomyces sp. HPA0247', 'Corynebacterium sp. KPL1814', 'Corynebacterium sp. KPL1817', 'Corynebacterium sp. KPL1818', 'Corynebacterium sp. KPL1821', 'Corynebacterium sp. KPL1824', 'Corynebacterium sp. KPL1855', 'Corynebacterium sp. KPL1856', 'Corynebacterium sp. KPL1857', 'Corynebacterium sp. KPL1859', 'Corynebacterium sp. KPL1860', 'Dermabacter sp. HFH0086', 'Propionibacterium sp. HGH0353', 'Propionibacterium sp. KPL1838', 'Propionibacterium sp. KPL1844', 'Propionibacterium sp. KPL1852', 'Pseudomonas sp. HPB0071', 'Streptococcus sp. HPH0090', 'Streptomyces sp. HPH0547', 'Veillonella sp. HPA0037', 'Corynebacterium sp. KPL1986', 'Corynebacterium sp. KPL1989', 'Corynebacterium sp. KPL1995', 'Corynebacterium sp. KPL1996', 'Corynebacterium sp. KPL1998', 'Corynebacterium sp. KPL2004', 'Propionibacterium sp. KPL2005', 'Propionibacterium sp. KPL2009', 'Streptomyces sp. CNR698', 'Novosphingobium sp. MBES04', 'Pseudomonas sp. Lz4W', 'Gallaecimonas xiamenensis 3-C-1', 'Idiomarina xiamenensis 10-D-4', 'Sphingobium sp. C100', 'Hyphomonas sp. L-53-1-40', 'Pseudomonas sp. UW4', 'Marinomonas profundimaris', 'Celeribacter indicus', 'Commensalibacter sp. MX01', 'Colletotrichum orchidophilum', 'Streptomyces sp. AA0539', 'Gemmata massiliana', 'Pseudoxanthomonas sp. GW2', 'Chelatococcus sp. GW1', 'Dyadobacter tibetensis Y620-1', 'Enterobacteriaceae bacterium B14', 'Acidocella sp. MX-AZ02', 'Diaporthe ampelina', 'Thermus tengchongensis YIM 77401', 'Amphibacillus jilinensis Y1', 'Clostridium bornimense', 'Acinetobacter sp. NIPH 542', 'Acinetobacter sp. NIPH 298', 'Acinetobacter sp. CIP 64.2', 'Acinetobacter sp. NIPH 1847', 'Acinetobacter sp. NIPH 3623', 'Acinetobacter sp. CIP 110321', 'Acinetobacter sp. CIP 70.18', 'Acinetobacter sp. ANC 3880', 'Acinetobacter sp. NIPH 1867', 'Acinetobacter sp. ANC 4105', 'Acinetobacter sp. NIPH 284', 'Acinetobacter sp. ANC 3862', 'Acinetobacter sp. NIPH 2168', 'Acinetobacter sp. ANC 3929', 'Acinetobacter sp. NIPH 2100', 'Acinetobacter sp. NIPH 713', 'Acinetobacter sp. NIPH 899', 'Acinetobacter sp. NIPH 236', 'Acinetobacter sp. NIPH 758', 'Acinetobacter sp. ANC 3789', 'Cupriavidus sp. BIS7', 'Roseomonas sp. B5', 'Xylona heveae TC161', 'Octadecabacter antarcticus 307', 'Streptomyces sp. GBA 94-10', 'Brucella inopinata BO1', 'Lactobacillus mellifer', 'Lactobacillus kullabergensis', 'Lactobacillus helsingborgensis', 'Lactobacillus kimbladii', 'Lactobacillus melliventris', 'Lactobacillus mellis', 'Acinetobacter nectaris CIP 110549', 'Actinomyces sp. S4-C9', 'Arcanobacterium sp. S3PF19', 'Peptostreptococcus sp. MV1', 'Methanobacterium sp. Maddingley MBC34', 'Altibacter lentus', 'Corynebacterium humireducens NBRC 106098 = DSM 45392', 'Enterobacteriaceae bacterium LSJC7', 'Mangrovibacter sp. MFB070', 'Pantoea sp. A4', 'Dickeya sp. DW 0440', 'Oscillibacter sp. KLE 1728', 'Oscillibacter sp. KLE 1745', 'Blautia sp. KLE 1732', 'Clostridium sp. KLE 1755', 'Streptomyces rapamycinicus NRRL 5491', 'Actinomyces sp. oral taxon 877 str. F0543', 'Capnocytophaga sp. oral taxon 863 str. F0517', 'Leptotrichia sp. oral taxon 879 str. F0557', 'Prevotella sp. F0091', 'Paenibacillus sp. FSL H7-689', 'Paenibacillus sp. FSL R7-277', 'Leptolyngbya sp. KIOST-1', 'Sphingobacterium deserti', 'Flavobacterium sp. WG21', 'Cupriavidus sp. GA3-3', 'Alkalibacterium sp. AK22', 'Candidatus Nitrosopumilus sediminis', 'Salimicrobium jeotgali', 'Bradyrhizobium sp. DFCI-1', 'Flaviramulus ichthyoenteri Th78', 'Lachancea sp. CBS 6924', 'Lachancea mirantina', 'Paenisporosarcina sp. TG-14', 'Nitratireductor pacificus pht-3B', 'Thermotoga sp. Mc24', 'Lactobacillus shenzhenensis LY-73', 'Clohesyomyces aquaticus', 'Desulfuromonas sp. TF', 'Corynebacterium ihumii', 'Megasphaera massiliensis', 'Nesterenkonia massiliensis', 'Nosocomiicoccus massiliensis', 'Enorma timonensis', 'Desulfobacula sp. TS', 'Clostridiales bacterium VE202-13', 'Clostridiales bacterium VE202-18', 'Clostridiales bacterium VE202-09', 'Clostridiales bacterium VE202-08', 'Clostridiales bacterium VE202-14', 'Clostridiales bacterium VE202-21', 'Marinobacterium sp. AK27', 'Geobacillus sp. GHH01', 'Chryseobacterium sp. JM1', 'Chryseobacterium sp. FH1', 'Staphylococcus sp. E463', 'Pacificimonas flava', 'Gayadomonas joobiniege G7', 'Ralstonia sp. AU12-08', 'Eubacterium sp. 14-2', 'Lachnospiraceae bacterium M18-1', 'Lachnospiraceae bacterium MD335', 'Firmicutes bacterium M10-2', 'Oscillibacter sp. 1-3', 'Dorea sp. 5-2', 'Lachnospiraceae bacterium MD308', 'Lachnospiraceae bacterium 10-1', 'Parabacteroides sp. ASF519', 'Anaerotruncus sp. G3(2012)', 'Candidatus Pantoea carbekii', 'Haloquadratum sp. J07HQX50', 'Halonotius sp. J07HN6', 'Halorubrum sp. J07HR59', 'Sodalis praecaptivus', 'Dokdonia sp. PRO95', 'Bacillus massiliogorillae', 'Luteimonas huabeiensis HB2', 'Campylobacter iguaniorum', 'Magnetospirillum caucaseum', 'Mariniradius saccharolyticus AK6', 'Lachancea lanzarotensis', 'Borreliella chilensis', 'Nocardiopsis potens DSM 45234', 'Rhizobium sp. 2MFCol3.1', 'Halobacillus sp. BAB-2008', 'Paramicrosporidium saccamoebae', 'Arsenophonus endosymbiont str. Hangzhou of Nilaparvata lugens', 'Microbacterium sp. UCD-TDU', 'Parvularcula oceani', 'Blastomonas sp. AAP53', 'Sandarakinorhabdus sp. AAP62', 'Porphyrobacter sp. AAP82', 'Candidatus Sulfuricurvum sp. RIFRC-1', 'Imhoffiella purpurea', 'Gillisia sp. Hel_I_29', 'Maribacter sp. Hel_I_7', 'Polaribacter sp. Hel1_85', 'Polaribacter sp. Hel_I_88', 'Muricauda sp. MAR_2010_75', 'Salegentibacter sp. Hel_I_6', 'Pseudomonas sp. FGI182', "Leptospirillum sp. Group IV 'UBA BS'", 'Streptomyces sp. 769', 'Phascolarctobacterium sp. CAG:207', 'Phascolarctobacterium sp. CAG:266', 'Oscillibacter ruminantium GH1', 'Edwardsiella piscicida C07-087', 'Candidatus Endolissoclinum faulkneri L2', 'Pseudomonas sp. URMO17WK12:I8', 'Streptomyces sp. PAMC 26508', 'Nafulsella turpanensis ZLM-10', 'Lysinibacillus manganicus DSM 26584', 'Thioalkalivibrio sp. ALE6', 'Thioalkalivibrio sp. ALE19', 'Thioalkalivibrio sp. AKL19', 'Frischella perrara', 'Sediminibacterium sp. C3', 'Acidobacteriaceae bacterium KBS 83', 'Acidobacteriaceae bacterium KBS 89', 'Pantoea sp. IMH', 'Pseudomonas sp. G5(2012)', 'Peptoniphilus timonensis JC401', 'Rhodococcus sp. AW25M09', 'Acidovorax sp. MR-S7', 'Thioalkalivibrio sp. ALR17-21', 'Flavobacterium sp. KJJ', 'Pedobacter sp. R20-19', 'Megasphaera sp. NM10', 'Liberibacter crescens BT-1', 'Mycobacterium sp. VKM Ac-1817D', 'Paenibacillus antibioticophila', 'Candidatus Hepatobacter penaei', 'Acidovorax sp. JHL-9', 'Escherichia sp. KTE172', 'Hippea alviniae EP5-r', 'Synechococcus sp. KORDI-100', 'Gorillibacterium massiliense', 'Butyrivibrio sp. AE2015', 'Butyrivibrio sp. VCD2006', 'Butyrivibrio sp. AE3009', 'Butyrivibrio sp. XPD2006', 'Butyrivibrio sp. FC2001', 'Butyrivibrio sp. AE3006', 'Prevotella sp. AGR2160', 'Butyrivibrio sp. WCD3002', 'Butyrivibrio sp. VCB2006', 'Butyrivibrio sp. LC3010', 'Butyrivibrio sp. WCD2001', 'Butyrivibrio sp. XBB1001', 'Butyrivibrio sp. NC3005', 'Butyrivibrio sp. MC2013', 'Meira miltonrushii', 'Hyphomonas pacifica', 'Hyphomonas sp. CY54-11-8', 'Hyphomonas beringensis', 'Hyphomonas chukchiensis', 'Hyphomonas atlantica', 'Asticcacaulis sp. AC460', 'Asticcacaulis sp. AC402', 'Asticcacaulis sp. AC466', 'Frankia sp. Iso899', 'Tolumonas lignilytica', 'Nocardioides sp. Iso805N', 'Paenibacillus sp. A9', 'Planktomarina temperata RCA23', 'Actinomyces sp. S6-Spd3', 'Tissierellia bacterium S7-1-4', 'Prevotella sp. S7-1-8', 'Pandoraea sp. SD6-2', 'Brachyspira hampsonii 30446', 'Mesorhizobium sp. L2C084A000', 'Mesorhizobium sp. LNJC398B00', 'Prevotella sp. S7 MS 2', 'Bacillus massiliosenegalensis JC6', 'Achromobacter insuavis AXX-A', 'Arcticibacter svalbardensis MN12-7', 'Streptomyces sp. CNT318', 'Streptomyces sp. TAA040', 'Anaerococcus senegalensis JC48', 'Alistipes senegalensis JC50', 'Actinomyces timonensis DSM 23838', 'Nitrosospira lacus', 'Magnetospira sp. QH-2', 'Streptomyces sp. TAA204', 'Candidatus Methanomethylophilus alvus Mx1201', 'Dietzia sp. UCD-THP', 'Kocuria sp. UCD-OTCP', 'Leucobacter sp. UCD-THU', 'Halopiger djelfimassiliensis', 'Halopiger goleimassiliensis', 'Pseudomonas sp. ATCC 13867', 'Photobacterium gaetbulicola Gung47', 'Thermodesulfobacterium geofontis OPF15', 'Parageobacillus genomosp. 1', 'Aquimarina pacifica', 'Mesorhizobium sp. STM 4661', 'Intestinimonas butyriciproducens', 'Myxococcus hansupus', 'Afipia sp. OHSU_I-C4', 'Bradyrhizobium sp. OHSU_III', 'Psychrobacter sp. JCM 18900', 'Mesorhizobium sp. URHA0056', 'Microbacterium sp. URHA0036', 'Marmoricola sp. URHB0036', 'Mycobacterium sp. URHD0025', 'Alteromonas sp. ALT199', 'Bradyrhizobium sp. URHA0002', 'Streptomyces sp. TAA486', 'Methanocaldococcus bathoardescens', 'Caldisalinibacter kiritimatiensis', 'Cellulomonas sp. KRMCY2', 'Clostridium sp. ASBs410', 'Geovibrio sp. L21-Ace-BES', 'Microbacterium sp. KROCY2', 'Oceanicola sp. HL-35', 'Marinobacter nanhaiticus D15-8W', 'Sporosarcina sp. EUR3 2.2.2', 'Alcanivorax pacificus W11-5', 'Termitomyces sp. J132', 'Streptomyces hokutonensis', 'Desulfohalovibrio reitneri', 'Salinispira pacifica', 'Arthrobacter sp. Br18', 'Arthrobacter sp. H14', 'Thermocrinis sp. GBS', 'Aureispira sp. CCB-QB1', 'Peniophora sp. CONT', 'Perkinsela sp. CCAP 1560/4', 'Streptococcus sp. HSISM1', 'Streptococcus sp. HSISB1', 'Streptococcus sp. HSISS1', 'Streptococcus sp. HSISS2', 'Streptococcus sp. HSISS3', 'Enterococcus sp. HSIEG1', 'Blattabacterium sp. (Nauphoeta cinerea)', 'Archaeoglobus sulfaticallidus PM70-1', 'Aquimarina atlantica', 'Thioclava atlantica', 'Candidatus Mycoplasma girerdii', 'Mesorhizobium sp. NBIMC_P2-C3', 'Clostridiales bacterium oral taxon 876 str. F0540', 'Mitsuokella sp. oral taxon 131 str. W9106', 'Peptostreptococcaceae bacterium oral taxon 113 str. W5053', 'Selenomonas sp. oral taxon 892 str. F0426', 'Rhodococcus defluvii', 'Mycobacterium sp. TKK-01-0059', 'Serratia sp. FS14', 'Prolemur simus', 'Thermoactinomyces daqus', 'Enterobacter sp. MGH 1', 'Enterobacter sp. MGH 3', 'Enterobacter sp. MGH 6', 'Enterobacter sp. MGH 7', 'Enterobacter sp. MGH 10', 'Enterobacter sp. MGH 15', 'Enterobacter sp. MGH 22', 'Enterobacter sp. MGH 23', 'Enterobacter sp. MGH 24', 'Enterobacter sp. MGH 25', 'Enterobacter sp. MGH 33', 'Enterobacter sp. MGH 37', 'Enterobacter sp. MGH 38', 'Enterobacter sp. BWH 37', 'Enterobacter sp. BIDMC 26', 'Enterobacter sp. BIDMC 27', 'Enterobacter sp. BIDMC 28', 'Enterobacter sp. BIDMC 29', 'Enterobacter sp. BIDMC 30', 'Novosphingobium lindaniclasticum LE124', 'Cycloclasticus zancles 78-ME', 'Thermus caliditerrae', 'Auricularia subglabra TFB-10046 SS5', 'Sphingobium baderi LL03', 'Candidatus Saccharimonas aalborgensis', 'Salinarchaeum sp. Harcht-Bsk1', 'Bifidobacterium moukalabense DSM 27321', 'Tepidicaulis marinus', 'Spiribacter salinus M19-40', 'Spiribacter curvatus', 'Sphingobium bisphenolivorans', 'Polaribacter sp. Hel1_33_49', 'Calothrix sp. 336/3', 'Bacillus sp. UNC438CL73TsuS30', 'Luminiphilus syltensis NOR5-1B', 'Flavobacterium enshiense DK69', 'Brucella sp. 04-5288', 'Sulfitobacter geojensis', 'Sulfitobacter noctilucicola', 'Sulfitobacter noctilucae', 'Saccharibacter sp. AM169', 'Epichloe mollis', 'Winogradskyella psychrotolerans RS-3', 'Halomonas sp. A3H3', 'Bacillus sp. EB01', 'Paucisalibacillus sp. EB02', 'Bacillus ndiopicus', 'Bacillus dielmoensis', 'Anaerosalibacter massiliensis', 'Bacteroides neonati', 'Pseudoalteromonas piratica', 'Arthrobacter sp. AK-YN10', 'Cyclobacterium qasimii M12-11B', 'Synechococcus sp. UTEX 2973', 'Thioclava indica', 'Bacteriovorax sp. BSW11_IV', 'Peptoniphilus mikwangii', 'Roseovarius sp. MCTG156(2b)', 'Arcobacter sp. AF1028', 'Arcobacter lanthieri', 'Bradyrhizobium diazoefficiens USDA 110', 'Rhodococcus sp. PML026', 'Hymenobacter sp. APR13', 'Batrachochytrium salamandrivorans', 'Lutibaculum baratangense AMV1', 'Thermofilum adornatum', 'Zygosaccharomyces parabailii', 'Rhodobacteraceae bacterium HIMB11', 'Fonsecaea erecta', 'Mycobacterium sp. UM_WGJ', 'Mycobacterium sp. UM_WWY', 'Firmicutes bacterium ASF500', 'Dyella jiangningensis', 'Gemmatimonas phototrophica', 'Desulfonauticus sp. A7A', 'Sphingomonas sp. FUKUSWIS1', 'Methanobacterium sp. MB1', 'Spirosoma radiotolerans', 'Streptomyces sp. URHA0041', 'Geodermatophilaceae bacterium URHB0048', 'Mesorhizobium sp. URHC0008', 'Cellulomonas sp. URHE0023', 'Bradyrhizobium sp. URHD0069', 'Blastococcus sp. URHD0036', 'Halomonas sp. 23_GOM-1509m', 'Sulfitobacter sp. 20_GPM-1509m', 'Intrasporangiaceae bacterium URHB0013', 'Ahrensia sp. 13_GOM-1096m', 'Tenacibaculum sp. 47A_GOM-205m', 'Mycobacterium sp. URHB0044', 'Alcanivorax sp. 43B_GOM-46m', 'Solirubrobacterales bacterium URHD0059', 'Dongia sp. URHE0060', 'Geodermatophilaceae bacterium URHA0031', 'Rhodospirillales bacterium URHD0088', 'Paenibacillus darwinianus', 'Streptomycetaceae bacterium MP113-05', 'Aliihoeflea sp. 2WW', 'Brevibacterium sp. VCM10', 'Caulobacteraceae bacterium PMMR1', 'Sporosarcina sp. D27', 'Thermogemmatispora carboxidivorans', 'Thermorudis peleae', 'Acidobacterium ailaaui', 'Methyloceanibacter caenitepidi', 'Francisella sp. W12-1067', 'Lysobacter arseniciresistens ZS79', 'Hymenobacter sp. DG25B', 'Leptolyngbya sp. Heron Island J', 'Exiguobacterium chiriqhucha RW-2', 'Sphingobacterium paucimobilis HER1398', 'Methylophilus sp. OH31', 'Staphylococcus sp. M0480', 'Clostridium sp. Ade.TY', 'Pseudogymnoascus sp. VKM F-3808', 'Kalmanozyma brasiliensis', 'Prevotella sp. HUN102', 'Eubacterium sp. AB3007', 'Flavimarina sp. Hel_I_48', 'Leeuwenhoekiella sp. MAR_2009_132', 'Sediminibacter sp. Hel_I_10', 'Ruminococcaceae bacterium AE2021', 'Lachnospiraceae bacterium AC2031', 'Bifidobacterium sp. 7101', 'Bifidobacterium sp. A11', 'Candidatus Saccharibacteria bacterium RAAC3_TM7_1', 'Thermosynechococcus sp. NK55a', 'Paenibacillus sp. MAEPY2', 'Haloferula sp. BvORR071', 'Verrucomicrobium sp. BvORR034', 'Marinobacter sp. ES-1', 'Leucobacter sp. PH1c', 'Serratia sp. H1n', 'Alcanivorax sp. P2S70', 'Halomonas sp. PBN3', 'Candidatus Micropelagos thuwalensis', 'Exiguobacterium sp. MH3', 'Ophiocordyceps australis', 'Bacteroidales bacterium CF', 'Flavobacterium limnosediminis JC2902', 'Sulfitobacter pseudonitzschiae', 'Streptomyces sp. A02', 'Verrucomicrobium sp. BvORR106', 'Corynebacterium glyciniphilum AJ 3170', 'Candidatus Methanomassiliicoccus intestinalis Issoire-Mx1', 'Synechococcus sp. NKBG15041c', 'Betaproteobacteria bacterium MOLA814', 'Bacillus sp. MB2021', 'Butyrivibrio sp. FCS014', 'Butyrivibrio sp. MC2021', 'Prevotella sp. MA2016', 'Oribacterium sp. FC2011', 'Pseudobutyrivibrio sp. LB2011', 'Lachnospiraceae bacterium AC2028', 'Lachnospiraceae bacterium AC3007', 'Lachnospiraceae bacterium MA2020', 'Lachnospiraceae bacterium MC2017', 'Youngiibacter fragilis 232.1', 'Candidatus Tachikawaea gelatinosa', 'Candidatus Nitrosopelagicus brevis', 'Bacteroides sp. Ga6A2', 'Treponema sp. C6A8', 'Oribacterium sp. P6A1', 'Prevotella sp. P6B1', 'Pseudobutyrivibrio sp. MD2005', 'Ruminococcus sp. FC2018', 'Selenomonas sp. ND2010', 'Serratia sp. DD3', 'Shinella sp. DD12', 'Lachnospiraceae bacterium C6A11', 'Lachnospiraceae bacterium FE2018', 'Lachnospiraceae bacterium MD2004', 'Lachnospiraceae bacterium NC2004', 'Lachnospiraceae bacterium ND2006', 'Lachnospiraceae bacterium P6A3', 'Lachnospiraceae bacterium P6B14', 'Lachnospiraceae bacterium V9D3004', 'Lachnospiraceae bacterium YSB2008', 'Propionibacteriaceae bacterium P6A17', 'Ruminococcaceae bacterium AB4001', 'Methyloglobulus morosus KoM1', 'Rhizobiales bacterium YIM 77505', 'Gammaproteobacteria bacterium MOLA455', 'Corynebacterium jeddahense', 'Clostridium saudiense', 'Pseudomonas sp. TKP', 'Candidatus Walczuchella monophlebidarum', 'Marinobacter sp. MCTG268', 'Halomonas sp. TG39a', 'Oceanicola sp. MCTG156(1a)', 'Gloeobacter kilaueensis JS1', 'Defluviimonas sp. 20V17', 'Streptococcus sp. VT 162', 'Pseudogymnoascus sp. VKM F-3775', 'Pseudogymnoascus sp. VKM F-4246', 'Pseudogymnoascus sp. VKM F-4281 (FW-2241)', 'Pseudogymnoascus sp. VKM F-4513 (FW-928)', 'Pseudogymnoascus sp. VKM F-4514 (FW-929)', 'Pseudogymnoascus sp. VKM F-4515 (FW-2607)', 'Pseudogymnoascus sp. VKM F-4516 (FW-969)', 'Pseudogymnoascus sp. VKM F-4517 (FW-2822)', 'Pseudogymnoascus sp. VKM F-103', 'Pseudogymnoascus sp. VKM F-4518 (FW-2643)', 'Pseudogymnoascus sp. VKM F-4519 (FW-2642)', 'Pseudogymnoascus sp. VKM F-4520 (FW-2644)', 'Marinobacter similis', 'Marinobacter salarius', 'Kurthia huakuii LAM0618', 'Bacillus sp. SJS', 'Hyphomicrobium nitrativorans NL23', 'Candidatus Entotheonella factor', 'Candidatus Entotheonella gemina', 'Afipia sp. P52-10', 'Geobacillus icigianus', 'Candidatus Halobonum tyrrellensis G22', 'Mannheimia sp. USDA-ARS-USMARC-1261', 'Mucinivorans hirudinis', 'Methanosarcina sp. Kolksee', 'Methanosarcina sp. MTP4', 'Methanosarcina sp. WH1', 'Methanosarcina sp. WWM596', 'Acinetobacter bohemicus ANC 3994', 'Alcanivorax sp. 97CO-5', 'Candidatus Symbiobacter mobilis CR', 'Pseudogymnoascus sp. VKM F-3557', 'Citrobacter sp. MGH 55', 'Pseudomonas sp. BAY1663', 'Talaromyces atroroseus', 'Clostridium sp. K25', 'Aquimarina megaterium XH134', 'Candidatus Protochlamydia massiliensis', 'Candidatus Rubidus massiliensis', 'Xylella taiwanensis', 'Gynuella sunshinyii YC6258', 'Sciscionella sp. SE31', 'Hymenobacter swuensis DY53', 'Bacillus sp. Pc3', 'Campylobacter corcagiensis', 'Halobellus rufus', 'Arthrobacter sp. UNC362MFTsu5.1', 'Mycobacterium sp. UNC280MFTsu5.1', 'Caulobacter sp. UNC358MFTsu5.1', 'Clostridium sp. KNHs205', 'Microbacterium sp. UNCCL10', 'Paenibacillus sp. UNC451MF', 'Phyllobacterium sp. UNC302MFCol5.2', 'Rhodococcus sp. UNC23MFCrub1.1', 'Rhodococcus sp. UNC363MFTsu5.1', 'Sphingomonas sp. UNC305MFCol5.2', 'Thermus amyloliquefaciens', 'Bacillus sp. TS-2', 'Microbacterium sp. MRS-1', 'Microbacterium sp. Cr-K32', 'Microbacterium sp. Cr-K20', 'Pseudomonas sp. RL', 'Chryseobacterium hispalense DSM 25574', 'Microbulbifer sp. HZ11', 'Candidatus Accumulibacter sp. BA-93', 'Cellulomonas sp. HZM', 'Chlamydia avium 10DC88', 'Chlamydia gallinacea 08-1274/3', 'Halapricum salinum', 'Caballeronia jiangsuensis', 'Serpentinomonas raichei', 'Serpentinomonas mccroryi', 'Candidatus Phaeomarinobacter ectocarpi', 'Lachnospiraceae bacterium AC2029', 'Candidatus Nitrososphaera evergladensis SR1', 'Geomicrobium sp. JCM 19037', 'Geomicrobium sp. JCM 19038', 'Bacillus sp. JCM 19046', 'Paraphaeosphaeria sporulosa', 'Weeksella massiliensis', 'Haemophilus massiliensis', 'Neobacillus jeddahensis', 'Jeotgalicoccus saudimassiliensis', 'Metalysinibacillus saudimassiliensis', 'Actibacterium atlanticum', 'Pseudooceanicola atlanticus', 'Pseudoalteromonas sp. SCSIO_11900', 'Virgibacillus massiliensis', 'Oceanobacillus jeddahense', 'Brucella papionis', 'Klebsiella quasipneumoniae subsp. quasipneumoniae UCICRE 14', 'Actinosporangium sp. NRRL B-3428', 'Glycomyces sp. NRRL B-16210', 'Saccharothrix sp. NRRL B-16314', 'Streptomyces sp. NRRL F-2580', 'Streptomyces sp. NRRL F-2890', 'Streptomyces sp. NRRL F-5008', 'Streptomyces sp. NRRL F-5053', 'Streptomyces sp. NRRL F-5065', 'Streptomyces sp. NRRL F-5123', 'Streptomyces sp. NRRL F-5126', 'Streptomyces sp. NRRL F-5135', 'Streptomyces sp. NRRL F-525', 'Streptomyces sp. NRRL F-5630', 'Streptomyces sp. NRRL F-6677', 'Streptomyces sp. NRRL S-118', 'Streptomyces sp. NRRL S-149', 'Streptomyces sp. NRRL S-1777', 'Streptomyces sp. NRRL S-237', 'Streptomyces sp. NRRL S-337', 'Streptomyces sp. NRRL S-340', 'Streptomyces sp. NRRL S-37', 'Streptomyces sp. NRRL S-474', 'Streptomyces sp. NRRL S-646', 'Streptomyces sp. NRRL S-87', 'Streptomyces sp. NRRL S-920', 'Streptomyces sp. NRRL WC-3626', 'Streptomyces sp. NRRL WC-3742', 'Streptomyces sp. NRRL WC-3773', 'Micromonospora parva', 'Aeromicrobium massiliense JC14', 'Peptoniphilus grossensis ph5', 'Peptoniphilus senegalensis JC140', "Oceanobacillus massiliensis str. N'diop", 'Paenibacillus senegalensis JC66', 'Clostridium senegalense JC122', 'Cellulomonas massiliensis JC225', 'Noviherbaspirillum massiliense JC206', 'Timonella senegalensis JC301', 'Burkholderia sp. 2002721687', 'Bacillus massilioanorexius AP8', 'Bartonella senegalensis OS02', 'Holdemania massiliensis AP2', 'Thioalkalivibrio sp. HK1', 'Burkholderiales bacterium GJ-E10', 'Lacinutrix jangbogonensis', 'Rhodovulum sp. NI22', 'Kineothrix alysoides', 'Alistipes ihumii AP11', 'Candidatus Stoquefichus massiliensis AP9', 'Clostridium ihumii AP5', 'Candidatus Blastococcus massiliensis AP3', 'Streptomyces sp. Tu 6176', 'Sphingomonas sp. RIT328', 'Pseudomonas sp. RIT357', 'Prochlorococcus sp. scB241_528O2', 'Prochlorococcus sp. scB245a_520K10', 'Talaromyces cellulolyticus', 'Basilea psittacipulmonis DSM 24701', 'Falsirhodobacter sp. alg1', 'Burkholderia sp. K24', 'Enorma massiliensis phI', 'Kallipyga massiliensis ph2', 'Senegalimassilia anaerobia JC110', 'Lysinibacillus sp. BF-4', 'Mizugakiibacter sediminis', 'Deinococcus phoenicis', 'Streptomyces sp. NRRL B-24720', 'Peptostreptococcaceae bacterium VA2', 'Halomonas sp. HL-48', 'Marinobacter sp. HL-58', 'Oceanicaulis sp. HL-87', 'Porphyrobacter sp. HL-46', 'Curtobacterium sp. S6', 'Spirochaeta lutea', 'Pantoea sp. PSNIH2', 'Pantoea sp. PSNIH1', 'Psychroserpens jangbogonensis', 'Exiguobacterium sp. AB2', 'Rhodoferax saidenbachensis ED16', 'Cadophora sp. DSE1049', 'Selenomonas sp. AE3005', 'Ferriphaselus sp. R-1', 'Ghiorsea bivora', 'Mitosporidium daphniae', 'Martelella endophytica', 'Candidatus Sodalis pierantonius str. SOPE', 'Clostridium sp. HMP27', 'Desulfosporosinus sp. HMP52', 'Corynebacterium sp. ATCC 6931', 'Pseudomonas sp. Ant30-3', 'Deinococcus sp. RL', 'Trichoderma guizhouense', 'Flavobacterium gilvum', 'Flavobacterium seoulense', 'Gammaproteobacteria bacterium MFB021', 'Arthrobacter sp. PAMC 25486', 'Mesoaciditoga lauensis cd-1655R = DSM 25116', 'Pseudomonas sp. WCS374', 'Penicillium cf. griseofulvum UFMGCB 6741', 'Candidatus Evansia muelleri', 'Cyanobium sp. CACIAM 14', 'Listeriaceae bacterium FSL A5-0209', 'Prochlorococcus sp. MIT 0601', 'Prochlorococcus sp. MIT 0602', 'Prochlorococcus sp. MIT 0701', 'Bacillus rubiinfantis', 'Clostridium sp. CL-6', 'Clostridium sp. CL-2', 'Bacillus andreraoultii', 'Pseudomonas saudiphocaensis', 'Clostridium amazonitimonense', 'Candidatus Moduliflexus flocculans', 'Candidatus Vecturithrix granuli', 'Paenibacillus sp. TCA20', 'Rhizobium sp. YR295', 'Rhizobium sp. YR519', 'Chryseobacterium sp. CF284', 'Rhizobium sp. CF097', 'Rhizobium sp. CF394', 'Rhizobium sp. OK494', 'Luteibacter sp. 9143', 'Luteibacter sp. 9135', 'Massilia sp. 9096', 'Burkholderia sp. 9120', 'Campylobacter sp. RM16704', 'Paenibacillus tyrfis', 'Prochlorococcus sp. MIT 0604', 'Prochlorococcus sp. MIT 0801', 'Oribacterium parvum ACB8', 'Oribacterium asaccharolyticum ACB7', 'Alistipes inops', 'Devosia sp. LC5', 'Methylotenera sp. L2L1', 'Pseudomonas sp. AAC', 'Sphingopyxis sp. LC81', 'Bosea sp. LC85', 'Massilia sp. LC238', 'Veillonella seminalis ACS-216-V-Col6b', 'Polaromonas sp. CG9_12', 'Halomonas sp. KO116', 'Chitinivibrio alkaliphilus ACht1', 'Blochmannia endosymbiont of Polyrhachis (Hedomyrma) turneri', 'Blochmannia endosymbiont of Camponotus (Colobopsis) obliquus', 'Candidatus Schmidhempelia bombi str. Bimp', 'Thermococcus eurythermalis', 'Flavobacterium sp. Fl', 'Butyrivibrio sp. AE3004', 'Rachicladosporium antarcticum', 'Jeotgalibacillus malaysiensis', 'Candidatus Arthromitus sp. SFB-mouse-NL', 'Acinetobacter sp. HR7', 'Pseudorhizobium pelagicum', 'Candidatus Nitrosopumilus koreensis AR1', 'Bosea sp. UNC402CLCol', 'Ruminococcus sp. HUN007', 'Sphingopyxis fribergensis', 'Porphyromonas sp. COT-239 OH1446', 'Porphyromonas sp. COT-290 OH860', 'Shewanella mangrovi', 'Idiomarina atlantica', 'Vibrio sp. ER1A', 'Porphyromonadaceae bacterium COT-184 OH4590', 'Anopheles coluzzii', 'Oscillibacter sp. ER4', 'Candidatus Thermochlorobacteriaceae bacterium GBChlB', 'Chloroflexus sp. MS-G', 'Sphingobium sp. ba1', 'Ceraceosorus guamensis', 'Pseudomonas sp. ML96', 'Serratia sp. Ag1', 'Planococcus sp. PAMC 21323', 'Rickettsiales bacterium Ac37b', 'Thalassospira australica', 'Acinetobacter seifertii', 'Palleronia rufa', 'Coriobacteriaceae bacterium 68-1-3', 'Torrubiella hemipterigena', 'Achromobacter sp. RTa', 'Rhizobium sp. YS-1r', 'Devosia sp. 17-2-E-8', 'Thalassotalea sp. ND16A', 'Paenibacillus sp. FSL P4-0081', 'Paenibacillus sp. FSL R5-0345', 'Paenibacillus sp. FSL R5-0912', 'Paenibacillus sp. FSL R7-0273', 'Paenibacillus sp. FSL R7-0331', 'Paenibacillus sp. FSL H7-0357', 'Paenibacillus sp. FSL H7-0737', 'Sphingopyxis sp. MWB1', 'Sulfurospirillum sp. SCADC', 'Sulfuricurvum sp. MLSB', 'Alteromonas sp. LOR', 'Micromonospora sp. HK10', 'Aquabacterium sp. NJ1', 'Sphingobacterium sp. ML3W', 'Treponema sp. OMZ 838', 'Deinococcus sp. YIM 77859', 'Clostridium sp. KNHs214', 'Myxosarcina sp. GI1', 'Candidatus Izimaplasma sp. HR1', 'Candidatus Izimaplasma sp. HR2', 'Oleiagrimonas soli', 'Lactobacillus sp. wkB10', 'Lactobacillus sp. wkB8', 'Sphingomonas sp. 35-24ZXX', 'Hoeflea sp. BAL378', 'Francisella sp. FSC1006', 'Helicobacter sp. MIT 11-5569', 'Campylobacter sp. MIT 97-5078', 'Sphingomonas taxi', 'Sphingomonas sp. 37zxx', 'Sphingobacteriaceae bacterium DW12', 'Thermofilum uzonense', 'Listeria booriae', 'Caenorhabditis tropicalis', 'Fermentimonas caenicola', 'Rhodococcus sp. B7740', 'Shewanella sp. ECSMB14101', 'Sulfurospirillum sp. MES', 'Rugosibacter aromaticivorans', 'Bacillus sp. X1(2014)', 'Paenibacillus sp. IHBB 10380', 'Paracoccus sp. PAMC 22219', 'Phaeobacter sp. S60', 'Jaminaea rosea', 'Bacillus sp. BH072', 'Bacillus sp. YP1', 'Candidatus Methanoplasma termitum', 'Dickeya undicola', 'Nitrosopumilus adriaticus', 'Pseudomonas sp. HMSC05H02', 'Neisseria sp. HMSC06F02', 'Candidatus Methylopumilus planktonicus', 'Nitrosopumilus piranensis', 'Fusobacterium hwasookii ChDC F128', 'Myroides sp. A21', 'Agrobacterium arsenijevicii', 'Pseudomonas sp. 10B238', 'Haloarcula sp. CBA1115', 'Enterobacteriaceae bacterium ATCC 29904', 'Candidatus Nitrosotenuis cloacae', 'Halanaeroarchaeum sulfurireducens', 'Sinocyclocheilus anshuiensis', 'Candidatus Filomicrobium marinum', 'Sphingomonas hengshuiensis', 'Pseudomonas sp. MRSN12121', 'Vibrio sp. S234-5', 'Psychromicrobium lacuslunae', 'Bacillus sp. LM 4-2', 'Sulfuricella sp. T08', 'Verrucomicrobia bacterium IMCC26134', 'Chania multitudinisentens RB-25', 'Bacillus paralicheniformis ATCC 9945a', 'Metarhizium rileyi RCEF 4871', 'Metarhizium majus ARSEF 297', 'Blattabacterium cuenoti BPAA', 'Lachancea quebecensis', 'Emmonsia sp. CAC-2015a', 'Blastomyces percursus', 'Phialophora attinorum', 'Violaceomyces palustris', 'Paramormyrops kingsleyae', 'Blastomyces gilchristii SLH14081', 'Pseudomicrostroma glucosiphilum', 'Wallemia mellicola CBS 633.66', 'Baudoinia panamericana UAMH 10762', 'Leucoagaricus sp. SymC.cos', 'Pezoloma ericae', 'Neocallimastix californiae', 'Piromyces finnis', 'Anaeromyces robustus', 'Mesorhizobium erdmanii USDA 3471', 'Nematocida displodere', 'Enterobacter roggenkampii EC_38VIM1', 'Edwardsiella anguillarum ET080813', 'Gopherus evgoodei', 'Dacryopinax primogenitus', 'Cryptococcus gattii VGII LA55', 'Cryptococcus gattii VGIV IND107', 'Amphiamblys sp. WSBS2006', 'Carlito syrichta', 'Pseudocercospora fijiensis CIRAD86', 'Testicularia cyperi', 'Xanthomonas cannabis pv. phaseoli', 'Planoprotostelium fungivorum', 'Fortiea contorta PCC 7126', 'Pectobacterium parmentieri WPP163', 'Geobacillus genomosp. 3', 'Bifiguratus adelaidae', 'Emergomyces pasteurianus Ep9510', 'Dinothrombium tinctorium', 'Rachicladosporium sp. CCFEE 5018', 'Xanthomonas phaseoli pv. phaseoli', 'Cordyceps sp. RAO-2017', 'Ophiocordyceps camponoti-rufipedis', 'Ooceraea biroi', 'Malassezia vespertilionis', 'Coniella lustricola', 'Globisporangium ultimum DAOM BR144', 'Blastomyces silverae', 'Mesorhizobium japonicum MAFF 303099', 'Rutstroemia sp. NJR-2017a WRK4', 'Rutstroemia sp. NJR-2017a BVV2', 'Rutstroemia sp. NJR-2017a BBW', 'Cervus hanglu yarkandensis', 'Lactobacillus paragasseri JV-V03', 'Photorhabdus laumondii subsp. laumondii TTO1', 'Pyrrhoderma noxium', 'Hondaea fermentalgiana', 'Yamadazyma tenuis ATCC 10573', 'Hyaloscypha bicolor E', 'Hyaloscypha variabilis F', 'Nothophytophthora sp. Chile5', 'Strigops habroptila', 'Fusarium odoratissimum NRRL 54006', 'Gloeothece citriformis PCC 7424', 'Gloeothece verrucosa PCC 7822', 'Crocosphaera subtropica ATCC 51142', 'Crocosphaera chwakensis CCY0110', 'Rippkaea orientalis PCC 8802', 'Thermothielavioides terrestris NRRL 8126', 'Podospora anserina S mat+', 'Dacryopinax sp. DJM 731 SSP-1', 'Akanthomyces lecanii RCEF 1005', 'Fusarium vanettenii 77-13-4']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', consistency_score_threshold: Fraction = 0.5, filter_consistency_score: bool = True, non_unique_mode: Literal['first', 'last', 'random', 'none'] = 'first', remove_unmapped_genes: bool = False, inplace: bool = True)

Map genes to their nearest orthologs in a different species using the PhylomeDB database. This function generates a table describing all matching discovered ortholog pairs (both unique and non-unique) and returns it, and can also translate the genes in this data table into their nearest ortholog, as well as remove unmapped genes.

param map_to_organism

organism name or NCBI taxon ID of the target species for ortholog mapping.

type map_to_organism

str or int

param map_from_organism

organism name or NCBI taxon ID of the input genes’ source species.

type map_from_organism

str or int

param gene_id_type

the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

type gene_id_type

str or ‘auto’ (default=’auto’)

` :param consistency_score_threshold: the minimum consistency score required for an ortholog mapping to be considered valid. Consistency scores are calculated by PhylomeDB and represent the confidence of the ortholog mapping. setting consistency_score_threshold to 0 will keep all mappings. You can read more about PhylomeDB consistency score on the PhylomeDB website: orthology.phylomedb.org/help

type consistency_score_threshold

float between 0 and 1 (default=0.5)

param filter_consistency_score

if True (default), when encountering non-unique ortholog mappings, RNAlysis will only keep the mappings with the highest consistency score.

type filter_consistency_score

bool (default=True)

param non_unique_mode

How to handle non-unique mappings. ‘first’ will keep the first mapping found for each gene; ‘last’ will keep the last; ‘random’ will keep a random mapping; and ‘none’ will discard all non-unique mappings.

type non_unique_mode

‘first’, ‘last’, ‘random’, or ‘none’ (default=’first’)

param remove_unmapped_genes

if True, rows with gene names/IDs that could not be mapped to an ortholog will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

type remove_unmapped_genes

bool (default=False)

type inplace

bool (default=True)

param inplace

If True (default), filtering will be applied to the current Filter object. If False, the function will return a new Filter instance and the current instance will not be affected.

return

DataFrame describing all discovered mappings (unique and otherwise). If inplace=True, returns a filtered instance of the Filter object as well.

non_categorical_enrichment(attributes: Union[List[str], str, List[int], int, Literal['all']] = None, alpha: Fraction = 0.05, parametric_test: bool = False, biotype: Union[str, List[str], Literal['all']] = 'all', background_genes: Union[Set[str], Filter, FeatureSet] = None, attr_ref_path: Union[str, Path, Literal['predefined']] = 'predefined', biotype_ref_path: Union[str, Path, Literal['predefined']] = 'predefined', plot_log_scale: bool = True, plot_style: Literal['interleaved', 'overlap'] = 'overlap', n_bins: PositiveInt = 50, save_csv: bool = False, fname=None, return_fig: bool = False, gui_mode: bool = False) → Union[DataFrame, Tuple[DataFrame, List[Figure]]]

Calculates enrichment and depletion of the FeatureSet for user-defined non-categorical attributes against a background set using either a one-sample T-test or Sign test. The attributes are drawn from an Attribute Reference Table. The background set is determined by either the input variable ‘background_genes’, or by the input variable ‘biotype’ and a Biotype Reference Table. P-values are corrected for multiple comparisons using the Benjamini–Hochberg step-up procedure (original FDR method).

Parameters

• attributes (str, int, iterable (list, tuple, set, etc) of str/int, or 'all'.) – An iterable of attribute names or attribute numbers (according to their order in the Attribute Reference Table). If ‘all’, all of the attributes in the Attribute Reference Table will be used. If None, a manual input prompt will be raised.

• alpha (float between 0 and 1 (default=0.05)) – Indicates the FDR threshold for significance.

• parametric_test (bool (default=False)) – if True, performs a parametric statistical test (one-sample t-test). If False (default), performs a non-parametric statistical test (sign test).

• biotype (str specifying a specific biotype, list/set of strings each specifying a biotype, or 'all' (default='protein_coding')) – determines the background genes by their biotype. Requires specifying a Biotype Reference Table. ‘all’ will include all genomic features in the reference table, ‘protein_coding’ will include only protein-coding genes from the reference table, etc. Cannot be specified together with ‘background_genes’.

• background_genes (set of feature indices, filtering.Filter object, or enrichment.FeatureSet object (default=None)) – a set of specific feature indices to be used as background genes. Cannot be specified together with ‘biotype’.

• attr_ref_path (str or pathlib.Path (default='predefined')) – the path of the Attribute Reference Table from which user-defined attributes will be drawn.

• biotype_ref_path (str or pathlib.Path (default='predefined')) – the path of the Biotype Reference Table. Will be used to generate background set if ‘biotype’ is specified.

• plot_log_scale (bool (default=True)) – if True (default), the Y-axis of the enrichment plot will be logarithmic. Otherwise, the Y-axis of the enrichment plot will be linear.

• plot_style ('overlap' or 'interleaved' (default='overlap')) – ‘interleaved’ will plot an interleaved histogram. ‘overlap’ will plot a semi-transparent histogram where the obsreved and expected are overlapping.

• n_bins (int larger than 0 (default=50)) – the number of bins to display in the enrichment plot histograms

• save_csv (bool (default=False)) – If True, will save the results to a .csv file, under the name specified in ‘fname’.

• fname (str or pathlib.Path (default=None)) – The full path and name of the file to which to save the results. For example: ‘C:/dir/file’. No ‘.csv’ suffix is required. If None (default), fname will be requested in a manual prompt.

• return_fig (bool (default=False)) – if True, returns a matplotlib Figure object in addition to the results DataFrame.

Return type

pd.DataFrame (default) or Tuple[pd.DataFrame, matplotlib.figure.Figure]

Returns

a pandas DataFrame with the indicated attribute names as rows/index; and a matplotlib Figure, if ‘return_figure’ is set to True.

Example plot of non_categorical_enrichment(plot_style`=’overlap’)

Example plot of non_categorical_enrichment(plot_style=’interleaved’)

pop()

Remove and return an arbitrary set element. Raises KeyError if the set is empty.

ranked_genes

a vector of feature names/indices ordered by rank

remove()

Remove an element from a set; it must be a member.

If the element is not a member, raise a KeyError.

save_txt(fname: Union[str, Path])

Save the list of features in the FeatureSet object under the specified filename and path.

Parameters

fname (str or pathlib.Path) – full filename/path for the output file. Can include the ‘.txt’ suffix but doesn’t have to.

set_name

single_set_enrichment(attributes: Union[List[str], str, List[int], int, Literal['all']], alpha: Fraction = 0.05, min_positive_genes: PositiveInt = 10, lowest_cutoff: Fraction = 0.25, attr_ref_path: Union[str, Path, Literal['predefined']] = 'predefined', exclude_unannotated_genes: bool = True, return_nonsignificant: bool = True, save_csv: bool = False, fname=None, return_fig: bool = False, plot_horizontal: bool = True, show_expected: bool = False, plot_style: Literal['bar', 'lollipop'] = 'bar', parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False)

Calculates enrichment and depletion of the sorted RankedSet for user-defined attributes WITHOUT a background set, using the generalized Minimum Hypergeometric Test (XL-mHG, developed by Prof. Zohar Yakhini and colleagues and generalized by Florian Wagner). The attributes are drawn from an Attribute Reference Table. P-values are calculated using using the generalized Minimum Hypergeometric Test. P-values are corrected for multiple comparisons using the Benjamini–Hochberg step-up procedure (original FDR method). In plots, for the clarity of display, complete depletion (linear enrichment = 0) appears with the smallest value in the scale.

Parameters

• attributes (str, int, iterable (list, tuple, set, etc) of str/int, or 'all'.) – An iterable of attribute names or attribute numbers (according to their order in the Attribute Reference Table). If ‘all’, all of the attributes in the Attribute Reference Table will be used. If None, a manual input prompt will be raised.

• alpha (float between 0 and 1) – Indicates the FDR threshold for significance.

• attr_ref_path (str or pathlib.Path (default='predefined')) – path of the Attribute Reference Table from which user-defined attributes will be drawn.

• exclude_unannotated_genes (bool (default=True)) – if True, genes that have no annotation associated with them will be excluded from the enrichment analysis. This is the recommended practice for enrichment analysis, since keeping unannotated genes in the analysis increases the chance of discovering spurious enrichment results.

• return_nonsignificant (bool (default=True)) – if True (default), the results DataFrame will include all tested attributes - both significant and non-significant ones. If False, only significant attributes will be returned.

• save_csv (bool, default False) – If True, will save the results to a .csv file, under the name specified in ‘fname’.

• fname (str or pathlib.Path) – The full path and name of the file to which to save the results. For example: ‘C:/dir/file’. No ‘.csv’ suffix is required. If None (default), fname will be requested in a manual prompt.

• return_fig (bool (default=False)) – if True, returns a matplotlib Figure object in addition to the results DataFrame.

• plot_horizontal (bool (default=True)) – if True, results will be plotted with a horizontal bar plot. Otherwise, results will be plotted with a vertical plot.

• show_expected (bool (default=False)) – if True, the observed/expected values will be shown on the plot.

• plot_style ('bar' or 'lollipop' (default='bar')) – style for the plot. Either ‘bar’ for a bar plot or ‘lollipop’ for a lollipop plot in which the lollipop size indicates the size of the observed gene set.

• parallel_backend (Literal[PARALLEL_BACKENDS] (default='loky')) – Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise.

Return type

pd.DataFrame (default) or Tuple[pd.DataFrame, matplotlib.figure.Figure]

Returns

a pandas DataFrame with the indicated attribute names as rows/index; and a matplotlib Figure, if ‘return_figure’ is set to True.

Example plot of single_set_enrichment()

Example plot of single_set_enrichment(plot_horizontal = False)

single_set_go_enrichment(organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', alpha: Fraction = 0.05, min_positive_genes: PositiveInt = 10, lowest_cutoff: Fraction = 0.25, propagate_annotations: Literal['classic', 'elim', 'weight', 'all.m', 'no'] = 'elim', aspects: Union[Literal['any', 'biological_process', 'cellular_component', 'molecular_function'], Iterable[Literal['biological_process', 'cellular_component', 'molecular_function']]] = 'any', evidence_types: Union[Literal['any', 'experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = 'any', excluded_evidence_types: Union[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic'], Iterable[Literal['experimental', 'phylogenetic', 'computational', 'author', 'curator', 'electronic']]] = (), databases: Union[str, Iterable[str], Literal['any']] = 'any', excluded_databases: Union[str, Iterable[str]] = (), qualifiers: Union[Literal['any', 'not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'any', excluded_qualifiers: Union[Literal['not', 'contributes_to', 'colocalizes_with'], Iterable[Literal['not', 'contributes_to', 'colocalizes_with']]] = 'not', exclude_unannotated_genes: bool = True, return_nonsignificant: bool = False, save_csv: bool = False, fname=None, return_fig: bool = False, plot_horizontal: bool = True, show_expected: bool = False, plot_style: Literal['bar', 'lollipop'] = 'bar', plot_ontology_graph: bool = True, ontology_graph_format: Literal['pdf', 'png', 'svg', 'none'] = 'none', parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False) → Union[DataFrame, Tuple[DataFrame, Figure]]

Calculates enrichment and depletion of the sorted RankedSet for Gene Ontology (GO) terms WITHOUT a background set, using the generalized Minimum Hypergeometric Test (XL-mHG, developed by Prof. Zohar Yakhini and colleagues and generalized by Florian Wagner). The GO terms and annotations are drawn via the GO Solr search engine GOlr, using the search terms defined by the user. P-values are calculated using the generalized Minimum Hypergeometric Test. P-values are corrected for multiple comparisons using the Benjamini–Hochberg step-up procedure (original FDR method). In plots, for the clarity of display, complete depletion (linear enrichment = 0) appears with the smallest value in the scale.

Parameters

• organism (str or int) – organism name or NCBI taxon ID for which the function will fetch GO annotations.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the GOLR server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• alpha (float between 0 and 1) – Indicates the FDR threshold for significance.

• min_positive_genes (a positive int (default=10)) – the minimum number of ‘positive’ genes (genes that match the given attribute) for the enrichment to be considered a valid enrichment. All hypergeometric cutoffs with a smaller number of ‘positive’ genes will not be tested. This is the ‘X’ parameter of the XL-mHG nonparametric test. For example: a value of 10 means that a valid enrichment must have at least 10 ‘positive’ genes to be considered real enrichment.

• lowest_cutoff (float between 0 and 1 (default=0.25)) – the lowest cutoff of the hypergeometric that will be tested. This determines the ‘L’ parameter of the XL-mHG nonparametric test. For example: a value of 1 means that every cutoff will be tested. A value of 0.25 means that every cutoff that compares the top 25% or smaller of the list to the rest of the list will be tested.

• propagate_annotations ('classic', 'elim', 'weight', 'all.m', or 'no' (default='elim')) – determines the propagation method of GO annotations. ‘no’ does not propagate annotations at all; ‘classic’ propagates all annotations up to the DAG tree’s root; ‘elim’ terminates propagation at nodes which show significant enrichment; ‘weight’ performs propagation in a weighted manner based on the significance of children nodes relatively to their parents; and ‘allm’ uses a combination of all proopagation methods. To read more about the propagation methods, see Alexa et al: https://pubmed.ncbi.nlm.nih.gov/16606683/

• aspects (str, Iterable of str, 'biological_process', 'molecular_function', 'cellular_component', or 'any' (default='any')) – only annotations from the specified GO aspects will be included in the analysis. Legal aspects are ‘biological_process’ (P), ‘molecular_function’ (F), and ‘cellular_component’ (C).

• evidence_types (str, Iterable of str, 'experimental', 'phylogenetic' ,'computational', 'author', 'curator', 'electronic', or 'any' (default='any')) – only annotations with the specified evidence types will be included in the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/

• excluded_evidence_types (str, Iterable of str, 'experimental', 'phylogenetic' ,'computational', 'author', 'curator', 'electronic', or None (default=None)) – annotations with the specified evidence types will be excluded from the analysis. For a full list of legal evidence codes and evidence code categories see the GO Consortium website: http://geneontology.org/docs/guide-go-evidence-codes/

• databases – only annotations from the specified databases will be included in the analysis. For a full list of legal databases see the GO Consortium website:

http://amigo.geneontology.org/xrefs :type databases: str, Iterable of str, or ‘any’ (default) :param excluded_databases: annotations from the specified databases will be excluded from the analysis. For a full list of legal databases see the GO Consortium website: http://amigo.geneontology.org/xrefs :type excluded_databases: str, Iterable of str, or None (default) :param qualifiers: only annotations with the speficied qualifiers will be included in the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type qualifiers: str, Iterable of str, or ‘any’ (default) :param excluded_qualifiers: annotations with the speficied qualifiers will be excluded from the analysis. Legal qualifiers are ‘not’, ‘contributes_to’, and/or ‘colocalizes_with’. :type excluded_qualifiers: str, Iterable of str, or None (default=’not’) :param exclude_unannotated_genes: if True, genes that have no annotation associated with them will be excluded from the enrichment analysis. This is the recommended practice for enrichment analysis, since keeping unannotated genes in the analysis increases the chance of discovering spurious enrichment results. :type exclude_unannotated_genes: bool (deafult=True) :param return_nonsignificant: if True, the results DataFrame will include all tested GO terms - both significant and non-significant terms. If False (default), only significant GO terms will be returned. :type return_nonsignificant: bool (default=False) :type save_csv: bool, default False :param save_csv: If True, will save the results to a .csv file, under the name specified in ‘fname’. :type fname: str or pathlib.Path :param fname: The full path and name of the file to which to save the results. For example: ‘C:/dir/file’. No ‘.csv’ suffix is required. If None (default), fname will be requested in a manual prompt. :type return_fig: bool (default=False) :param return_fig: if True, returns a matplotlib Figure object in addition to the results DataFrame. :type plot_horizontal: bool (default=True) :param plot_horizontal: if True, results will be plotted with a horizontal bar plot. Otherwise, results will be plotted with a vertical plot. :param show_expected: if True, the observed/expected values will be shown on the plot. :type show_expected: bool (default=False) :param plot_style: style for the plot. Either ‘bar’ for a bar plot or ‘lollipop’ for a lollipop plot in which the lollipop size indicates the size of the observed gene set. :type plot_style: ‘bar’ or ‘lollipop’ (default=’bar’) :type plot_ontology_graph: bool (default=True) :param plot_ontology_graph: if True, will generate an ontology graph depicting the significant GO terms and their parent nodes. :type ontology_graph_format: ‘pdf’, ‘png’, ‘svg’, or None (default=None) :param ontology_graph_format: if ontology_graph_format is not ‘none’, the ontology graph will additonally be generated in the specified file format. :type parallel_backend: Literal[PARALLEL_BACKENDS] (default=’loky’) :param parallel_backend: Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise. :rtype: pd.DataFrame (default) or Tuple[pd.DataFrame, matplotlib.figure.Figure] :return: a pandas DataFrame with the indicated attribute names as rows/index; and a matplotlib Figure, if ‘return_figure’ is set to True.

Example plot of single_set_go_enrichment(plot_ontology_graph=True)

Example plot of single_set_go_enrichment()

Example plot of single_set_go_enrichment(plot_horizontal = False)

single_set_kegg_enrichment(organism: Union[str, int, Literal['auto'], Literal['Arabodopsis thaliana', 'Caenorhabditis elegans', 'Danio rerio', 'Drosophila melanogaster', 'Escherichia coli', 'Homo sapiens', 'Mus musculus', 'Saccharomyces cerevisiae', 'Schizosaccharomyces pombe']] = 'auto', gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', alpha: Fraction = 0.05, min_positive_genes: PositiveInt = 10, lowest_cutoff: Fraction = 0.25, exclude_unannotated_genes: bool = True, return_nonsignificant: bool = False, save_csv: bool = False, fname=None, return_fig: bool = False, plot_horizontal: bool = True, show_expected: bool = False, plot_style: Literal['bar', 'lollipop'] = 'bar', plot_pathway_graphs: bool = True, pathway_graphs_format: Literal['pdf', 'png', 'svg', 'none'] = 'none', parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False) → Union[DataFrame, Tuple[DataFrame, Figure]]

Calculates enrichment and depletion of the sorted RankedSet for Kyoto Encyclopedia of Genes and Genomes (KEGG) curated pathways WITHOUT a background set, using the generalized Minimum Hypergeometric Test (XL-mHG, developed by Prof. Zohar Yakhini and colleagues and generalized by Florian Wagner). P-values are calculated using the generalized Minimum Hypergeometric Test. P-values are corrected for multiple comparisons using the Benjamini–Hochberg step-up procedure (original FDR method). In plots, for the clarity of display, complete depletion (linear enrichment = 0) appears with the smallest value in the scale.

Parameters

• organism (str or int) – organism name or NCBI taxon ID for which the function will fetch GO annotations.

• gene_id_type (str or 'auto' (default='auto')) – the identifier type of the genes/features in the FeatureSet object (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). If the annotations fetched from the KEGG server do not match your gene_id_type, RNAlysis will attempt to map the annotations’ gene IDs to your identifier type. For a full list of legal ‘gene_id_type’ names, see the UniProt website: https://www.uniprot.org/help/api_idmapping

• alpha (float between 0 and 1) – Indicates the FDR threshold for significance.

• min_positive_genes (a positive int (default=10)) – the minimum number of ‘positive’ genes (genes that match the given attribute) for the enrichment to be considered a valid enrichment. All hypergeometric cutoffs with a smaller number of ‘positive’ genes will not be tested. This is the ‘X’ parameter of the XL-mHG nonparametric test. For example: a value of 10 means that a valid enrichment must have at least 10 ‘positive’ genes to be considered real enrichment.

• lowest_cutoff (float between 0 and 1 (default=0.25)) – the lowest cutoff of the hypergeometric that will be tested. This determines the ‘L’ parameter of the XL-mHG nonparametric test. For example: a value of 1 means that every cutoff will be tested. A value of 0.25 means that every cutoff that compares the top 25% or smaller of the list to the rest of the list will be tested.

• min_positive_genes – the minimum number of ‘positive’ genes (genes that match the given attribute) for the enrichment to be considered a valid enrichment. All hypergeometric cutoffs with a smaller number of ‘positive’ genes will not be tested. This is the ‘X’ parameter of the XL-mHG nonparametric test. For example: a value of 10 means that a valid enrichment must have at least 10 ‘positive’ genes to be considered real enrichment.

• lowest_cutoff – the lowest cutoff of the hypergeometric that will be tested. This determines the ‘L’ parameter of the XL-mHG nonparametric test. For example: a value of 1 means that every cutoff will be tested. A value of 0.25 means that every cutoff that compares the top 25% or smaller of the list to the rest of the list will be tested.

• exclude_unannotated_genes (bool (deafult=True)) – if True, genes that have no annotation associated with them will be excluded from the enrichment analysis. This is the recommended practice for enrichment analysis, since keeping unannotated genes in the analysis increases the chance of discovering spurious enrichment results.

• return_nonsignificant (bool (default=False)) – if True, the results DataFrame will include all tested GO terms - both significant and non-significant terms. If False (default), only significant KEGG pathways will be returned.

• save_csv (bool, default False) – If True, will save the results to a .csv file, under the name specified in ‘fname’.

• fname (str or pathlib.Path) – The full path and name of the file to which to save the results. For example: ‘C:/dir/file’. No ‘.csv’ suffix is required. If None (default), fname will be requested in a manual prompt.

• return_fig (bool (default=False)) – if True, returns a matplotlib Figure object in addition to the results DataFrame.

• plot_horizontal (bool (default=True)) – if True, results will be plotted with a horizontal bar plot. Otherwise, results will be plotted with a vertical plot.

• show_expected (bool (default=False)) – if True, the observed/expected values will be shown on the plot.

• plot_style ('bar' or 'lollipop' (default='bar')) – style for the plot. Either ‘bar’ for a bar plot or ‘lollipop’ for a lollipop plot in which the lollipop size indicates the size of the observed gene set.

• plot_pathway_graphs (bool (default=True)) – if True, will generate pathway graphs depicting the significant KEGG pathways.

• pathway_graphs_format ('pdf', 'png', 'svg', or None (default=None)) – if pathway_graphs_format is not ‘none’, the pathway graphs will additonally be generated in the specified file format.

• parallel_backend (Literal[PARALLEL_BACKENDS] (default='loky')) – Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise.

Return type

pd.DataFrame (default) or Tuple[pd.DataFrame, matplotlib.figure.Figure]

Returns

a pandas DataFrame with the indicated attribute names as rows/index; and a matplotlib Figure, if ‘return_figure’ is set to True.

Example plot of single_set_kegg_enrichment(plot_pathway_graphs=True)

Example plot of single_set_kegg_enrichment()

Example plot of single_set_kegg_enrichment(plot_horizontal = False)

symmetric_difference(other: Union[set, FeatureSet]) → FeatureSet

Calculates the set symmetric difference of the indices from two FeatureSet objects (the indices that appear in EXACTLY ONE of the FeatureSet objects, and not both/neither). A-symmetric difference-B is equivalent to (A-difference-B)-union-(B-difference-A).

Parameters

other (FeatureSet, RankedSet or set) – A second object against which the current object will be compared.

Returns

a new FeatureSet with elements in either this FeatureSet or the other object, but not both.

Return type

FeatureSet

Examples

>>> from rnalysis import enrichment
>>> en = enrichment.FeatureSet({'WBGene00000001','WBGene00000002','WBGene00000006'}, 'set name')
>>> en2 = enrichment.FeatureSet({'WBGene00000004','WBGene00000001'})
>>> en.symmetric_difference(en2)
>>> print(en)
FeatureSet: set name
{'WBGene00000002', 'WBGene00000006', 'WBGene00000004'}

symmetric_difference_update()

Update a set with the symmetric difference of itself and another.

translate_gene_ids(translate_to: Union[str, Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']], translate_from: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', remove_unmapped_genes: bool = False, inplace: bool = True) → FeatureSet

Translates gene names/IDs from one type to another. Mapping is done using the UniProtKB Gene ID Mapping service. You can choose to optionally drop from the table all rows that failed to be translated.

Parameters

• translate_to (str) – the gene ID type to translate gene names/IDs to. For example: UniProtKB, Ensembl, Wormbase.

• translate_from (str or 'auto' (default='auto')) – the gene ID type to translate gene names/IDs from. For example: UniProtKB, Ensembl, Wormbase. If translate_from=’auto’, RNAlysis will attempt to automatically determine the gene ID type of the features in the table.

• remove_unmapped_genes (bool (default=False)) – if True, rows with gene names/IDs that could not be translated will be dropped from the table. Otherwise, they will remain in the table with their original gene name/ID.

Returns

returns a new and translated FeatureSet.

union(*others: Union[set, FeatureSet]) → FeatureSet

Calculates the set union of the indices from multiple FeatureSet objects (the indices that exist in at least one of the FeatureSet objects).

Parameters

others (FeatureSet or set) – The objects against which the current object will be compared.

Returns

a new FeatureSet with elements from this FeatureSet and all other objects.

Return type

FeatureSet

Examples

>>> from rnalysis import enrichment
>>> en = enrichment.FeatureSet({'WBGene00000004','WBGene00000005','WBGene00000006'}, 'set name')
>>> en2 = enrichment.FeatureSet({'WBGene00000004','WBGene00000001'})
>>> s = {'WBGene00000001','WBGene00000002','WBGene00000003'}
>>> en.union(s, en2)
>>> print(en)
FeatureSet: set name
{'WBGene00000003', 'WBGene00000004', 'WBGene00000001', 'WBGene00000002', 'WBGene00000006', 'WBGene00000005'}

update()

Update a set with the union of itself and others.

user_defined_enrichment(attributes: Union[List[str], str, List[int], int, Literal['all']], statistical_test: Literal['fisher', 'hypergeometric', 'randomization'] = 'fisher', alpha: Fraction = 0.05, biotype: Union[str, List[str], Literal['all']] = 'all', background_genes: Union[Set[str], Filter, FeatureSet] = None, attr_ref_path: Union[str, Path, Literal['predefined']] = 'predefined', biotype_ref_path: Union[str, Path, Literal['predefined']] = 'predefined', exclude_unannotated_genes: bool = True, return_nonsignificant: bool = True, save_csv: bool = False, fname=None, return_fig: bool = False, plot_horizontal: bool = True, show_expected: bool = False, plot_style: Literal['bar', 'lollipop'] = 'bar', randomization_reps: PositiveInt = 10000, random_seed: Optional[int] = None, parallel_backend: Literal['multiprocessing', 'loky', 'threading', 'sequential'] = 'loky', gui_mode: bool = False) → Union[DataFrame, Tuple[DataFrame, Figure]]

Calculates enrichment and depletion of the FeatureSet for user-defined attributes against a background set. The attributes are drawn from an Attribute Reference Table. The background set is determined by either the input variable ‘background_genes’, or by the input variable ‘biotype’ and a Biotype Reference Table. P-values are corrected for multiple comparisons using the Benjamini–Hochberg step-up procedure (original FDR method). In plots, for the clarity of display, complete depletion (linear enrichment score = 0) appears with the smallest value in the scale.

Parameters

• attributes (str, int, iterable (list, tuple, set, etc) of str/int, or 'all'.) – An iterable of attribute names or attribute numbers (according to their order in the Attribute Reference Table). If ‘all’, all of the attributes in the Attribute Reference Table will be used. If None, a manual input prompt will be raised.

• statistical_test ('fisher', 'hypergeometric' or 'randomization' (default='fisher')) – determines the statistical test to be used for enrichment analysis. Note that some propagation methods support only some of the available statistical tests.

• alpha (float between 0 and 1 (default=0.05)) – Indicates the FDR threshold for significance.

• attr_ref_path (str or pathlib.Path (default='predefined')) – the path of the Attribute Reference Table from which user-defined attributes will be drawn.

• biotype_ref_path (str or pathlib.Path (default='predefined')) – the path of the Biotype Reference Table. Will be used to generate background set if ‘biotype’ is specified.

• biotype (str specifying a specific biotype, list/set of strings each specifying a biotype, or 'all' (default='protein_coding')) – determines the background genes by their biotype. Requires specifying a Biotype Reference Table. ‘all’ will include all genomic features in the reference table, ‘protein_coding’ will include only protein-coding genes from the reference table, etc. Cannot be specified together with ‘background_genes’.

• background_genes (set of feature indices, filtering.Filter object, or enrichment.FeatureSet object (default=None)) – a set of specific feature indices to be used as background genes. Cannot be specified together with ‘biotype’.

• exclude_unannotated_genes (bool (deafult=True)) – if True, genes that have no annotation associated with them will be excluded from the enrichment analysis. This is the recommended practice for enrichment analysis, since keeping unannotated genes in the analysis increases the chance of discovering spurious enrichment results.

• return_nonsignificant (bool (default=True)) – if True (default), the results DataFrame will include all tested attributes - both significant and non-significant ones. If False, only significant attributes will be returned.

• save_csv (bool (default=False)) – If True, will save the results to a .csv file, under the name specified in ‘fname’.

• fname (str or pathlib.Path (default=None)) – The full path and name of the file to which to save the results. For example: ‘C:/dir/file’. No ‘.csv’ suffix is required. If None (default), fname will be requested in a manual prompt.

• return_fig (bool (default=False)) – if True, returns a matplotlib Figure object in addition to the results DataFrame.

• plot_horizontal (bool (default=True)) – if True, results will be plotted with a horizontal bar plot. Otherwise, results will be plotted with a vertical plot.

• show_expected (bool (default=False)) – if True, the observed/expected values will be shown on the plot.

• plot_style ('bar' or 'lollipop' (default='bar')) – style for the plot. Either ‘bar’ for a bar plot or ‘lollipop’ for a lollipop plot in which the lollipop size indicates the size of the observed gene set.

• randomization_reps (int larger than 0 (default=10000)) – if using a randomization test, determine how many randomization repititions to run. Otherwise, this parameter will not affect the analysis.

• parallel_backend (Literal[PARALLEL_BACKENDS] (default='loky')) – Determines the babckend used to run the analysis. if parallel_backend not ‘sequential’, will calculate the statistical tests using parallel processing. In most cases parallel processing will lead to shorter computation time, but does not affect the results of the analysis otherwise.

Return type

pd.DataFrame (default) or Tuple[pd.DataFrame, matplotlib.figure.Figure]

Returns

a pandas DataFrame with the indicated attribute names as rows/index; and a matplotlib Figure, if ‘return_figure’ is set to True.

Example plot of user_defined_enrichment()

Example plot of user_defined_enrichment(plot_horizontal = False)

rnalysis.enrichment._fetch_sets(objs: dict, ref: Union[str, Path, Literal['predefined']] = 'predefined')

Receives the ‘objs’ input from enrichment.upset_plot() and enrichment.venn_diagram(), and turns the values in it into python sets.

Parameters

• objs (a dictionary, where the keys are names of sets, and the values are either python sets, FeatureSets or names of columns in the Attribute Reference Table.) – the ‘objs’ input given to the function enrichment.upset_plot() or enrichment.venn_diagram().

• ref (str or pathlib.Path (default='predefined')) – the path of the Attribute Reference Table from which user-defined attributes will be drawn, if such attributes are included in ‘objs’.

Returns

a dictionary, where the keys are names of sets and the values are python sets of feature indices.

rnalysis.enrichment.enrichment_bar_plot(results_table_path: Union[str, Path], alpha: Fraction = 0.05, enrichment_score_column: Union[str, Literal['log2_fold_enrichment', 'log2_enrichment_score']] = 'log2_fold_enrichment', n_bars: Union[PositiveInt, Literal['all']] = 'all', title: str = 'Enrichment results', center_bars: bool = True, plot_horizontal: bool = True, ylabel: Union[str, Literal['$\\log_2$(Fold Enrichment)', '$\\log_2$(Enrichment Score)']] = '$\\log_2$(Fold Enrichment)', ylim: Union[float, Literal['auto']] = 'auto', plot_style: Literal['bar', 'lollipop'] = 'bar', show_expected: bool = False) → Figure

Generate an enrichment bar-plot based on an enrichment results table. For the clarity of display, complete depletion (linear enrichment = 0) appears with the smallest value in the scale.

Parameters

• results_table_path (str or Path) – Path to the results table returned by enrichment functions.

• alpha (float between 0 and 1 (default=0.05)) – the threshold for statistical significance. Used to draw significance asterisks on the graph.

• enrichment_score_column (str (default='log2_fold_enrichment')) – name of the table column containing enrichment scores.

• n_bars (int > 1 or 'all' (default='all')) – number of bars to display in the bar plot. If n_bars=’all’, all the results will be displayed on the graph. Otherwise, only the top n results will be displayed on the graph.

• title (str) – plot title.

• plot_horizontal (bool (default=True)) – if True, results will be plotted with a horizontal bar plot. Otherwise, results will be plotted with a vertical plot.

• ylabel (str (default=r"$log_2$(Fold Enrichment)")) – plot y-axis label.

• center_bars (bool (default=True)) – if True, center the bars around Y=0. Otherwise, ylim is determined by min/max values.

• ylim (float or 'auto' (default='auto')) – set the Y-axis limits. If ylim`=’auto’, determines the axis limits automatically based on the data. If `ylim is a number, set the Y-axis limits to [-ylim, ylim].

• plot_style ('bar' or 'lollipop' (default='bar')) – style for the plot. Either ‘bar’ for a bar plot or ‘lollipop’ for a lollipop plot in which the lollipop size indicates the size of the observed gene set.

• show_expected (bool (default=False)) – if True, the observed/expected values will be shown on the plot.

Returns

Figure object containing the bar plot

Return type

matplotlib.figure.Figure instance

rnalysis.enrichment.gene_ontology_graph(aspect: Literal['biological_process', 'cellular_component', 'molecular_function'], results_table_path: Union[str, Path], enrichment_score_column: Union[str, Literal['log2_fold_enrichment', 'log2_enrichment_score']] = 'log2_fold_enrichment', title: Union[str, Literal['auto']] = 'auto', ylabel: str = '$\\log_2$(Fold Enrichment)', graph_format: Literal['pdf', 'png', 'svg', 'none'] = 'none', dpi: PositiveInt = 300) → Optional[Figure]

Generate a GO enrichment ontology graph based on an enrichment results table.

Parameters

• aspect ('biological_process', 'molecular_function', or 'cellular_component') – The GO aspect to generate an ontology graph for.

• results_table_path (str or Path) – Path to the results table returned by enrichment functions.

• enrichment_score_column (str (default='log2_fold_enrichment')) – name of the table column that contains the enrichment scores.

• title (str or 'auto' (default='auto')) – plot title.

• ylabel (str (default=r"$log_2$(Fold Enrichment)")) – plot y-axis label.

• graph_format ('pdf', 'png', 'svg', or 'none' (default='none')) – if graph_format is not ‘none’, the ontology graph will additonally be generated in the specified file format.

• dpi (int (default=300)) – resolution of the ontology graph in DPI (dots per inch).

rnalysis.enrichment.kegg_pathway_graph(pathway_id: str, marked_genes: Optional[Sequence[str]], gene_id_type: Union[str, Literal['auto'], Literal['UniProtKB AC/ID', 'UniParc', 'UniRef50', 'UniRef90', 'UniRef100', 'Gene Name', 'CRC64', 'Ensembl', 'Ensembl Genomes', 'Ensembl Genomes Protein', 'Ensembl Genomes Transcript', 'Ensembl Protein', 'Ensembl Transcript', 'GeneID', 'KEGG', 'PATRIC', 'UCSC', 'WBParaSite', 'WBParaSite Transcript/Protein', 'ArachnoServer', 'Araport', 'CGD', 'ConoServer', 'dictyBase', 'EchoBASE', 'euHCVdb', 'FlyBase', 'GeneCards', 'GeneReviews', 'HGNC', 'LegioList', 'Leproma', 'MaizeGDB', 'MGI', 'MIM', 'neXtProt', 'OpenTargets', 'Orphanet', 'PharmGKB', 'PomBase', 'PseudoCAP', 'RGD', 'SGD', 'TubercuList', 'VEuPathDB', 'VGNC', 'WormBase', 'WormBase Protein', 'WormBase Transcript', 'Xenbase', 'ZFIN', 'eggNOG', 'GeneTree', 'HOGENOM', 'OMA', 'OrthoDB', 'TreeFam', 'CCDS', 'EMBL/GenBank/DDBJ', 'EMBL/GenBank/DDBJ CDS', 'GI number', 'PIR', 'RefSeq Nucleotide', 'RefSeq Protein', 'ChiTaRS', 'GeneWiki', 'GenomeRNAi', 'PHI-base', 'CollecTF', 'BioCyc', 'PlantReactome', 'Reactome', 'UniPathway', 'CPTAC', 'ProteomicsDB']] = 'auto', title: Union[str, Literal['auto']] = 'auto', ylabel: str = '', graph_format: Literal['pdf', 'png', 'svg', 'none'] = 'none', dpi: PositiveInt = 300) → Optional[Figure]

Generate a KEGG Pathway graph.

Parameters

• pathway_id (str) – KEGG ID of the pathway to be plotted.

• marked_genes (sequence of str or None) – a set of genes/genomic features to be highlighted on the pathway graph. The gene ID type of those genes should match the parameter gene_id_type.

• gene_id_type – the identifier type you want to use when displaying genes in the graph (for example: ‘UniProtKB’, ‘WormBase’, ‘RNACentral’, ‘Entrez Gene ID’). :type gene_id_type: str or ‘auto’ (default=’auto’)

• title (str or 'auto' (default='auto')) – plot title.

• ylabel (str (default=r"$log_2$(Fold Enrichment)")) – plot y-axis label.

• graph_format ('pdf', 'png', 'svg', or 'none' (default='none')) – if graph_format is not ‘none’, the ontology graph will additonally be generated in the specified file format.

• dpi (int (default=300)) – resolution of the ontology graph in DPI (dots per inch).

rnalysis.enrichment.upset_plot(objs: Dict[str, Union[str, FeatureSet, Set[str]]], set_colors: ColorList = ('black',), title: str = 'UpSet Plot', title_fontsize: float = 20, show_percentages: bool = True, attr_ref_table_path: Union[str, Path, Literal['predefined']] = 'predefined', fig: Figure = None) → Figure

Generate an UpSet plot of 2 or more sets, FeatureSets or attributes from the Attribute Reference Table.

Parameters

• objs (a dictionary with 2 or more entries, where the keys are the names of the sets, and the values are either a FeatureSet, a python set of feature indices, or a name of a column in the Attribute Reference Table. For example: {'first set':{'gene1','gene2','gene3'}, 'second set':'name_of_attribute_from_reference_table'}) – the FeatureSets, python sets or user-defined attributes to plot.

• set_colors (Iterable of colors (default=('black',)) – Iif one color is supplied, this will determine the color of all sets on the plot. If multiple colors are supplied, this will determine the color of each set on the plot, and the subset colors will be determined by mixing.

• title (str) – determines the title of the plot.

• title_fontsize (float (default=20)) – font size for the plot’s title

• show_percentages (bool (default=True)) – if True, shows the percentage that each set or subset takes out of the entire dataset.

• attr_ref_table_path (str or pathlib.Path (default='predefined')) – the path of the Attribute Reference Table from which user-defined attributes will be drawn, if such attributes are included in ‘objs’.

• fig (matplotlib.Figure) – optionally, supply your own Figure to generate the plot onto.

Returns

plt.Figure

Example plot of upset_plot()

rnalysis.enrichment.venn_diagram(objs: Dict[str, Union[str, FeatureSet, Set[str]]], title: Union[str, Literal['default']] = 'default', attr_ref_table_path: Union[str, Path, Literal['predefined']] = 'predefined', set_colors: ColorList = ('r', 'g', 'b'), transparency: Fraction = 0.4, weighted: bool = True, add_outline: bool = True, linecolor: Color = 'black', linestyle: Literal['solid', 'dashed'] = 'solid', linewidth: float = 2.0, title_fontsize: float = 14, set_fontsize: float = 12, subset_fontsize: float = 10, normalize_to: float = 1.0, fig: Figure = None) → Figure

Generate a Venn diagram of 2 to 3 sets, FeatureSets or attributes from the Attribute Reference Table.

Parameters

• objs (a dictionary with 2-3 entries, where the keys are the names of the sets, and the values are either a FeatureSet, a python set of feature indices, or a name of a column in the Attribute Reference Table. For example: {'first set':{'gene1','gene2','gene3'}, 'second set':'name_of_attribute_from_reference_table'}) – the FeatureSets, python sets or user-defined attributes to plot.

• set_colors (tuple of matplotlib-format colors, the same size as 'objs') – determines the colors of the circles in the diagram.

• attr_ref_table_path (str or pathlib.Path (default='predefined')) – the path of the Attribute Reference Table from which user-defined attributes will be drawn, if such attributes are included in ‘objs’.

• title (str or 'default' (default='default')) – determines the title of the plot.

• transparency (a float between 0 and 1) – determines the opacity of the circles. Opacity of 0 is completely transparent, while opacity of 1 is completely opaque.

• weighted (bool (default=True)) – if True, the plot will be area-weighted.

• add_outline (bool (default=True)) – if True, adds an outline to the circles.

• linecolor (matplotlib-format color (default='black')) – Determines the color of the circles’ outline.

• linestyle ('solid' or 'dashed' (default='solid')) – the style of the circles’ outline.

• linewidth (float (default=2.0)) – the widdth of the circles’ outlines.

• title_fontsize (float (default=14)) – font size for the plot’s title.

• set_fontsize (float (default=12)) – font size for the set labels.

• subset_fontsize (float (default=10)) – font size for the subset labels.

• fig (matplotlib.Figure) – optionally, supply your own Figure to generate the plot onto.

• normalize_to – the total (on-axes) area of the circles to be drawn. Sometimes tuning it (together

with the overall fiture size) may be useful to fit the text labels better. :type normalize_to: float (default=1.0) :return: a tuple of a VennDiagram object; and a list of 2-3 Circle patches.

Example plot of venn_diagram()

rnalysis.general module

This module contains general-purpose functions. Those include saving Filter objects and result tables, reading and updating the settings file, parsing common types of genomic feature indices, etc.

rnalysis.general.parse_gene_name_string(string)

Receives a string that contains gene names (like ‘daf-2’ or ‘lin15B’). Parses the string into a set of gene names. The format of a gene name is a sequence consisting of the expression ‘[a-z]{3,4}’, the character ‘-’, and the expression ‘[A-Z,0-9]{1,4}’. :type string: str :param string: The string to be parsed. Can be any format of string. :return: a set of the WBGene indices that appear in the given string.

Examples

>>> from rnalysis import general
>>> string = 'saeg-2 lin-15B cyp-23A1lin-15A WBGene12345678%GHF5H.3'
>>> parsed = general.parse_gene_name_string(string)
>>> print(parsed)
{'saeg-2', 'lin-15B', 'cyp-23A1', 'lin-15A'}

rnalysis.general.parse_sequence_name_string(string)

Receives a string that contains sequence names (such as ‘Y55D5A.5’). Parses the string into a set of WBGene indices. The format of a sequence name is a sequence consisting of the expression ‘[A-Z,0-9]{5,6}’, the character ‘.’, and a digit. :type string: str :param string: The string to be parsed. Can be any format of string. :return: a set of the WBGene indices that appear in the given string.

Examples

>>> from rnalysis import general
>>> string = 'CELE_Y55D5A.5T23G5.6WBGene00000000 daf-16^^ZK662.4 '
>>> parsed = general.parse_sequence_name_string(string)
>>> print(parsed)
{'Y55D5A.5', 'T23G5.6', 'ZK662.4'}

rnalysis.general.parse_wbgene_string(string)

Receives a string that contains WBGene indices. Parses the string into a set of WBGene indices. The format of a WBGene index is ‘WBGene’ and exactly 8 digits. :type string: str :param string: The string to be parsed. Can be any format of string. :return: a set of the WBGene indices that appear in the given string.

Examples

>>> from rnalysis import general
>>> string =  '''WBGene WBGenes WBGene12345678, WBGene98765432WBGene00000000& the geneWBGene44444444daf-16A5gHB.5
... WBGene55555555'''
>>> parsed = general.parse_wbgene_string(string)
>>> print(parsed)
{'WBGene12345678', 'WBGene44444444', 'WBGene98765432', 'WBGene55555555', 'WBGene00000000'}

rnalysis.general.print_settings_file()

Print the current setting file configuration.

Examples

>>> from rnalysis import general
>>> general.print_settings_file()
Attribute Reference Table used: my_attribute_reference_table_path
Biotype Reference Table used: my_biotype_reference_table_path

rnalysis.general.reset_settings_file()

Resets the local settings by deleting the local settings file. Warning: this action is irreversible!

rnalysis.general.save_to_csv(df: Union[DataFrame, Filter], filename: str)

save a pandas DataFrame or Filter object to csv. :type df: Filter object or pandas DataFrame :param df: object to be saved :type filename: str :param filename: name for the saved file. Specify full path to control the directory where the file will be saved.

rnalysis.general.set_attr_ref_table_path(path: str = None)

Defines/updates the Attribute Reference Table path in the settings file. :param path: the path you wish to set as the Attribute Reference Table path :type path: str

Examples

>>> from rnalysis import general
>>> path="my_attribute_reference_table_path"
>>> general.set_attr_ref_table_path(path)
Attribute Reference Table path set as: my_attribute_reference_table_path

rnalysis.general.set_biotype_ref_table_path(path: str = None)

Defines/updates the Biotype Reference Table path in the settings file. :param path: the path you wish to set as the Biotype Reference Table path :type path: str

Examples

>>> from rnalysis import general
>>> path="my_biotype_reference_table_path"
>>> general.set_biotype_ref_table_path(path)
Biotype Reference Table path set as: my_biotype_reference_table_path

rnalysis.utils module

This module contains various utility functions. This module is used mainly by other modules, and is meant for internal use only.