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Two New Species and Three New Records of Ascomycetes in Korea
Abstract
During a survey of plant-inhabiting fungi and water niches from Korea, noteworthy fungi were collected; among them, two new species, Paracamarosporium noviaquum sp. nov. and Phyllosticta gwangjuensis sp. nov., are described based on morphology and multi-gene phylogenies. Paracamarosporium noviaquum was characterized by its production of 1-celled and 2-celled conidia, forming conidiomata on only potato dextrose agar medium. Phyllosticta gwangjuensis was characterized by conidia hyaline, ovoid to ellipsoid shape, rounded at both ends, containing numerous guttulae or with a single large central guttule. Additional species were identified as Cosmospora lavitskiae, Monochaetia cameliae, and Roussoella doimaesalongensis, which are reported as new record species from Korea. Detailed descriptions and illustrations of these taxa are provided herein.
1. Introduction
Fungi represent an integral part of the biomass of any natural environment. They act as predators, pathogens, and parasites to a myriad of other organisms and can be found living in symbiotic associations with plants, algae, and animals [1]. Ascomycota is the largest phylum in the kingdom Fungi and contains 92,724 species (Catalog of Life: http://www.catalogueoflife.org/annual-checklist/2019/; accessed September 20 2021). The phylum contains 3 subphyla and 20 classes [2]. Dothideomycetes is the largest and most ecologically diverse class of Ascomycota [3,4]. Currently, 36 orders, 167 families, 2102 genera, and 31,033 species are recognized (Catalog of Life: http://www.catalogueoflife.org/annual-checklist/2019/; accessed September 20 2021). Species of Dothideomycetes are found worldwide in terrestrial, freshwater, and marine habitats and are characterized mainly by bitunicate asci, usually with fissitunicate dehiscence [4–6]. Many members of Dothideomycetes are important plant pathogens [7–9], whereas some species are used in biotechnological applications [10,11]. Sordariomycetes is the second largest class of Ascomycota [3,12]. A total of 47 orders, 127 families, 1975 genera, and 23,187 species are currently recognized (Catalog of Life: http://www.catalogueoflife.org/annual-checklist/2019/; accessed September 20 2021). Sordariomycetes species are characterized by nonlichenized, perithecial ascomata, and inoperculate unitunicate or nonfissitunicate asci [12,13]. Members in this class are found in both terrestrial and aquatic habitats [12,14,15]. Some species of Sordariomycetes are economically important as biocontrol agents [16–18], and others produce a wide range of chemically diverse metabolites important in medicinal applications [19].
Hawksworth [20] estimated that there are approximately 1.5 million fungal species on Earth. However, an updated estimate of the number of fungal species is between 2.2 and 3.8 million [21], and aquatic fungal diversity has been estimated at 3000–4145 species [22,23]. Thus, a vast number of species remain to be discovered and described in aquatic habitats. Additionally, the importance of these organisms in secondary metabolite production has also been recognized [24,25].
In recent years, endophytic fungi have attracted increasing attention. Some researchers have shown that these organisms are an excellent source of biologically active compounds [26,27]; thus, exploring endophytic fungi that inhabit plants would provide opportunities for the discovery of new metabolites with potential bioactivity.
Despite the increasing number of investigations into the occurrence and distribution of fungi inhabiting plant and aquatic habitats, many new species of Dothideomycetes and Sordariomycetes remain undiscovered and uncharacterized in Korea [28–31].
The aim of this study was therefore to improve our understanding of the occurrence and distribution of species belonging to Sordariomycetes and Dothideomycetes from Korea and to describe two new species, Paracamarosporium noviaquum sp. nov., and Phyllosticta gwangjuensis sp. nov. This is also the first report of Cosmospora lavitskiae, Monochaetia cameliae, and Roussoella doimaesalongensis in Korea.
2. Materials and methods
2.1. Sample collection
Freshwater samples were collected from Wonhyo valley (35°09′01.2″N, 126°59′24.6″E) located in the Mudeung Mt., Gwangju, rainwater around Asiatic toad (Bufo gargarizans) in a garden located in Kunryang-ri (36°26′16.2″N, 126°46′04.6″E), Cheongyang-eup, Cheongyang, Chungnam Province, and pondwater at Hanbat arboretum (36°21′56.4″N, 127°23′16.3″E) located in Daejeon. Seawater samples were collected at Kkotji Beach (36°29′49.1″N, 126°20′06.0″E), Anmyeondo Island, Chungnam Province. The samples were collected in sterile plastic bags or sterile 50-mL Falcon tubes and transferred to the laboratory.
Fresh and healthy leaves of Torreya nucifera were collected from the arboretum of Chonnam National University (35°10′20.3″N, 126°53′56.4″E) located in Gwangju, Korea. Materials were kept in zip-lock bags while they were transferred to the laboratory. Fungal isolation was carried out within 24h of collection.
2.2. Isolation of fungal strains
To isolate fungi from leaves samples, the plant leaves were washed thoroughly in running tap water. Leaf tissue pieces were cut into small fragments (0.5×0.5cm) using a sterilized blade. The cut segments were surface sterilized by immersing in 70% (v/v) ethanol for 60s, and then placed in 2% sodium hypochlorite for 60s, and a final rinsing using sterile distilled water three times. Samples were dried on sterilized filter paper. Small fragments were placed on potato dextrose agar (PDA; 39g PDA; Becton, Dickinson and Co., Sparks, MD, USA, and 1L deionized water) medium with antibiotic (100mg/L streptomycin sulfate) and incubated at 25°C until fungal growth emerged from the plant segments. Hyphal tips were transferred to new PDA plate.
Fungal isolation from water samples were conducted following our previous methods [32]. The cultures were maintained in PDA slant tubes and in 20% glycerol at −80°C at the Environmental Microbiology Laboratory Fungarium, Chonnam National University, Gwangju, Korea. Type specimens were deposited at Chonnam National University Herbarium, Gwangju, Korea as inactive dried cultures. Information on all isolates used in this study is shown in Table 1.
Table 1.
GenBank accession no. | |||
---|---|---|---|
Species | Strain number | Source | ITS/LSU/RPB2/ACT/TEF1 |
Cosmospora lavitskiae | CNUFC TKB240= NNIBRFG31607 | Rainwater | OK285197/–/OK431604 |
Monochaetia cameliae | CNUFC KOW41= QWJQFGC000000439 | Seawater | OK285198 |
Paracamarosporium noviaquum | CNUFC MSW24-4= CNFG_3191 | Freshwater | OK285193/OK315641 |
Pa. noviaquum | CNUFC MSW24-4-1 | Freshwater | OK285194/OK315642 |
Phyllosticta gwangjuensis | CNUFC NJ1-12= IMYKFGC000000079 | Leaf of Torreya nucifera | OK285195/–/–/OM001471/OM038511 |
P. gwangjuensis | CNUFC NJ1-12-1 | Leaf of Torreya nucifera | OK285196/–/–OM001472/OM038512 |
Roussoella doimaesalongensis | CNUFC WT16= NNIBRFG31619 | Pondwater | OK285199/OK315643 |
2.3. Morphological studies
The strains were inoculated onto PDA, malt extract agar (MEA; 20g of malt extract and 20g of agar in 1L of deionized water), and oatmeal agar (OA; 30g of oatmeal and 20g of agar in 1L of deionized water). The plates were incubated at 25°C in the dark for 7days. Colony characters were recorded after 7days. For morphological observation, fragments were removed from cultures and placed on microscope slides with lactic acid (60%) and observed under light a microscopy (Olympus BX53, Tokyo, Japan). Scanning electron microscopy was performed as described previously [32].
2.4. DNA extraction, polymerase chain reaction, purification, and sequencing
Genomic DNA was extracted from fresh fungal mycelia that were grown on cellophane at 25°C for 5days using the SolgTM Genomic DNA Preparation Kit (Solgent Co. Ltd., Daejeon, Korea). The ITS and LSU regions were amplified using the primer pairs V9G and ITS4 [33], and LROR and LR5 [34,35], respectively. Second largest subunit of RNA polymerase (RPB2) was amplified using the primer pairs RPB2-5F and RPB2-7cR [36]. The actin (ACT) gene was amplified using the primer pairs ACT-512F and ACT-783R [37]. To amplify the elongation factor (TEF1) gene region, the primer pairs EF1-728F and EF1-986R [37] were used. Polymerase chain reaction (PCR) amplification of the ITS, LSU, RPB2, ACT, and TEF1 gene regions was performed according to the conditions described by Liu et al. [36], Carbone and Kohn [37], and Nguyen et al. [38]. The quality of PCR products was assessed using 1% agarose gel electrophoresis. The PCR products were purified with the Accuprep PCR Purification Kit (Bioneer Corp., Daejeon, Korea), and sequencing was performed using the same PCR primers with the ABI PRISM 3730XL Genetic Analyzer (Applied Biosystems, Foster City, CA, USA) at Macrogen (Daejeon, Korea).
2.5. Phylogenetic analyses
Sequences for the selected strains were retrieved from GenBank, and aligned using MAFFT (http://mafft.cbrc.jp/alignment/server) with the L-INS-I algorithm. Aligned sequences were automatically trimmed using trimAl [39] with the gappyout method. Phylogenetic reconstructions by the maximum likelihood (ML) method were conducted using RAxML-HPC2 on XSEDE on the online CIPRES Portal (https://www.phylo.org/portal2) with 1000 bootstrap replicates and the GTRGAMMA model of nucleotide substitution. A Bayesian inference (BI) analysis was performed with MrBayes 3.2.2 [40] using a Markov Chain Monte Carlo algorithm. BI analysis was conducted with 1×106 generations, a burning value of 25%. The trees were visualized using FigTree v. 1.3.1 [41]. Values less than 0.95 BI posterior probability (BPP) and 70% ML bootstrap (MLBS) are not shown. The newly obtained sequences were deposited in the GenBank database with the accession numbers shown in Table 1.
3. Results
3.1. Molecular phylogeny
In the phylogenetic analysis based on the combined ITS and LSU sequence data, Paracamarosporium noviaquum forms a distinct linage from Pa. fungicola with 100% MLBS and 1 BPP support values (Figure 1). Multi-gene phylogenetic analysis of the combined ITS, ACT, and TEF1 dataset indicated that Phyllosticta gwangjuensis is related to P. aucubae-japonicae with 91% MLBS and 1 BPP support values (Figure 2). Phylogenetic analysis of the combined ITS and RPB2 dataset indicated that our strain CNUFC TKB240 clustered together with Cosmospora lavitskiae CBS 530.68 (ex-type) with 100% MLBS and 1 BPP support values (Figure 3). Phylogenetic analysis of ITS sequence showed that our strain CNUFC KOW41 clustered among Monochaetia camelliae strains (ICMP 10669, PSH2000I-151, and ATCC 60625) with 100% MLBS and 1 BPP support values (Figure 4). The phylogenetic analysis of the combined ITS and LSU sequence dataset showed that CNUFC WT16 clusters with the ex-type strain of Roussoella doimaesalongensis MFLUCC 14-0585 with 99% MLBS and 0.99 BPP support values (Figure 5).
3.2. Taxonomy
Paracamarosporium noviaquum Hyang B. Lee, H.J. Lim and T.T.T. Nguyen sp. nov.
Index Fungorum number: 557725 (Figure 6).
Etymology: Named after the source of freshwater, where this fungus was collected.
Description: Colonies initially white to smoke gray and then slightly brown to bluish green, floccose, sulcate; reverse dark brown in the center. Conidiomata observed after 1 month, superficial or immersed, dark brown to black, eustromatic, composed of a tissue of textura angularis-globulosa, sometimes with central papillate ostioles, 66–480×57–348μm. Conidiogenous cells formed from inner cells all over the conidiomatal wall, discrete, phialidic, hyaline, ampulliform, 5–8 (–10) × 3.5–5μm. 1-celled conidia irregular, colorless, ovoid to ellipsoid shape, broadly rounded at both ends, (3.5-)4–5.5×2.5–3.5μm. 2-celled conidia produced after nearly 3months, brown, cylindrical, reniform, 7.5–10×3.0–4.5μm.
Culture characteristics: CNUFC MSW24-4 showed varying growth rates at 25°C on PDA, MEA, and OA, reaching 23, 32.5, and 31.5mm after 21days, respectively. The optimal growth temperature was around 25°C, with no growth at 35°C.
Material examined: REPUBLIC OF KOREA, South Jeolla Province, Gwangju, Wonhyo valley located in the Mudeung Mt. (35°09'01.2"N, 126°59'24.6"E), from freshwater, January 2017, H.B. Lee, CNUFC HT17024 (holotype), ex-type living culture (CNUFC MSW24-4).
Notes: The multigene analysis (Figure 1) indicates that Paracamarosporium noviaquum is closely related to Pa. fungicola (Verkley & Wicklow) Wijayaw & Hyde. These two species have similar morphological characteristics of conidiomata, conidiogenous cells, and conidia. However, Pa. noviaquum differs from Pa. fungicola by producing conidiomata on PDA medium only and has smaller 1-celled conidia and larger 2-celled conidia. Moreover, Pa. noviaquum grew slower than Pa. fungicola on all media after 21days (MEA 35–38mm; PDA: 60–63mm; OA: 65mm) [42].
Phyllosticta gwangjuensis Hyang B. Lee, H.J. Lim and T.T.T. Nguyen sp. nov.
Index Fungorum number: 557003 (Figure 7).
Etymology: Refers to the location from where the strain was isolated.
Description: Colonies black to dark gray, colorless, flat with irregular margin; reverse black to dark gray. Conidiomata pycnidial, dark brown to black, usually aggregated, sometimes decentralized, subglobose, irregular, and exuding opaque conidial masses. Conidiogenous cells cylindrical, subcylindrical, ampulliform, hyaline, (7.5–)8.5–22.5(–23.5)×(3–)3.5–5.5(–6) μm. Conidia hyaline, ovoid to ellipsoid shape, rounded at both ends, containing numerous guttulae or with a single large central guttule, (8.5–)10–13.5×7–9(–9.5) μm. Appendages hyaline, straight, flexible, deciduous, (4.5–)5–29 (–43.5) μm long.
Culture characteristics: CNUFC NJ1-12 showed different growth at 25°C on PDA, MEA, and OA, reaching 34mm, 28mm and 27.5mm at 14days, respectively. The optimal growth temperature was observed around 25°C, with no growth at 35°C.
Material examined: REPUBLIC OF KOREA, South Jeolla Province, Gwangju, Chonnam National University arboretum (35°10′20.3″N, 126°53′56.4″E), from leaf of Torreya nucifera, November 2018, H.B. Lee, holotype (CNUFC HT18112), ex-type living culture (CNUFC NJ1-12).
Notes: The multigene analysis (Figure 2) indicates that Phyllosticta gwangjuensis is closely related to P. aucubae-japonicae [43]. Phyllosticta gwangjuensis has similar morphology to P. aucubae-japonicae, but this species is distinguished by producing longer conidiogenous cells and appendages than those by P. aucubae-japonicae, and conidia contain numerous guttulae or with a single large central guttule.
Cosmospora lavitskiae (Zhdanova) Gräfenhan & Seifert 2011 (Figure 8).
≡ Gliomastix lavitskiae Zhdanova, Mikrobiol. Zh. 28: 37. 1966.
Description: Colonies grew slowly on PDA, texture velvety, slightly raised at center, yellow, irregular margin, soluble pigment, and reached 15mm in diameter after 7days at 25°C; reverse umber. Conidiophores unbranched, with a terminal whorl of one to three phialides. Phialides monophialidic, cylindrical, 40–62(–70.5) μm long, 2–3μm wide at base, 1.5–2µm wide at apex. Conidia ellipsoidal, smooth, hyaline, 3.5–5.5×2.0–2.5µm.
Notes: The observed characteristics were mostly similar to those previously described for Cosmospora lavitskiae [44], although there was a difference in the size of phialides and conidia. The size of phialides and conidia described by Zhdanova [44] were 31–50µm long and 3.5–6×1–3µm, respectively, whereas our isolates were 40–62(–70.5) and 3.5–5.5×2.0–2.5µm, respectively. Cosmospora lavitskiae are isolated from soil rhizosphere of Zea mays and found on xylariaceous fungus [44–46]. The strain in this study was isolated from freshwater samples.
Specimen examined: REPUBLIC OF KOREA, Chungnam Province, Cheongyang, Cheongyang-eup, Kunryang-ri (36°26'16.2"N 126°46'04.6"E), from rainwater around Bufo gargarizans, June 1 2020, J.S. Kim (culture CNUFC TKB240).
Monochaetia camelliae Miles, Mycologia 18: 167 (1926) (Figure 9).
Description: Colonies grew fast on PDA, white in color, and reached 70mm in diameter after 7days at 25°C; reverse yellowish white in color. Conidiogenous cells subcylindrical, hyaline, smooth. Conidia fusoid, mostly four-septate, occasionally three-septate, usually not constricted at the septa, measured (11–)16.5–20×4–6μm, bearing appendages. Appendage tubular, attenuated, and single; apical appendages single, straight, or oblique, variable in size, 9–16μm long.
Notes: The morphological descriptions of CNUFC KOW41 matched well with the previously described species of Monochaetia camelliae [47]. However, our observations showed that the size of conidia of type species described by Miles [47] was narrower than that of our isolate CNUFC KOW41. Monochaetia camelliae were described as four-septate [47], whereas they were three to four septate in our strain. Monochaetia camelliae is commonly isolated from leaves of Camellia japonica, C. hongkongensis, and C. pitardii [47,48]. The Korean isolate CNUFC KOW41 was found in seawater samples.
Specimen examined: REPUBLIC OF KOREA, Chungnam Province, Anmyeondo Island, Kkotji Beach (36°29′49.1″N, 126°20′06.0″E), from seawater, May 2019, H.B. Lee (culture CNUFC KOW41).
Roussoella doimaesalongensis Thambug. & K.D. Hyde, Mycosphere 8 (4): 782 (2017) (Figure 10).
Description: Colonies grew slowly on PDA, brownish green, surface velvety, white to near the margin, and reached 32mm in diameter after 7days at 25°C; reverse grayish black with lighter edges. Hyphae 1.5–3μm wide, septate, brown in color. Chlamydospores 2.5–8.5μm, globose to subglobose, intercalary, or terminal.
Notes: Based on the current phylogenetic analysis, our strains were grouped within the same clade as Roussoella doimaesalongensis (ex-type strain) (Figure 5). Roussoella doimaesalongensis is found on decaying bamboo culms from Thailand [49]. The Korean isolate CNUFC WT16 was isolated from freshwater samples. All attempts to induce sporulation failed.
Specimen examined: REPUBLIC OF KOREA, Daejeon, Hanbat arboretum (36°21′56.4″N, 127°23′16.3″E), from pondwater, February 2020, H.B. Lee (culture CNUFC WT16).
4. Discussion
In this study, two new species and three new records in Dothideomycetes and Sordariomycetes are described and illustrated. Our phylogenetic analysis based on ITS and LSU rDNA dataset indicated Paracamarosporium noviaquum is closely related to Pa. fungicola (Figure 1), which also has both 1-celled and 2-celled conidia. However, Pa. noviaquum has smaller 1-celled conidia and larger 2-celled conidia, and producing conidiomata on PDA medium only. Growth on MEA, PDA, and OA at 25°C can be easily used to distinguish between Pa. noviaquum and Pa. fungicola [42]. Wijayawardene et al. [50] introduced genus Paracamarosporium to accommodate Camarosporium psoraleae, which is characterized by paraphyses and microconidia. Crous et al. [51] transferred Microdiplodia hawaiiensis and Camarosporium leucadendri to Paracamarosporium as Pa. hawaiiense and Pa. leucadendri, respectively. In 2016, Wijayawardene et al. [52] transferred Paraconiothyrium fungicola to genus Paracamarosporium as a new combination. Recently, two species, namely, Pa. tamaricis and Pa. mamanes, were added to this genus [53,54]. Currently, this genus consists of seven species (Index Fungorum 2021; www.indexfungorum.org). Several potentially novel secondary metabolites have been detected in the species Pa. leucadendri [55]. Thus, further studies are needed to isolate and identify secondary metabolites from new species, Pa. noviaquum.
Phyllosticta gwangjuensis is phylogenetically related to P. aucubae-japonicae (Figure 2). However, P. gwangjuensis produces longer conidiogenous cells and appendages. Especially, P. gwangjuensis has a large guttule in the conidia. The genus Phyllosticta was first described by Persoon [56] and typified by P. convallariae Pers. The main morphological characteristics of the genus are pycnidia and conidia with a single apical appendage [57]. Species of Phyllosticta are well known as plant pathogens, forming black spots on the leaf, steam, or fruit, and have been found as endophytes or saprobes [58–61]. Additionally, several species of this genus have been associated with Torreya nucifera [62]. It seems that Phyllosticta species are widely distributed and appear to have different hosts. These results suggest that there may be a large number of undescribed species, both endophytes and pathogens, from Torreya nucifera.
The strain CNUFC TKB240 clustered with Cosmospora lavitskiae CBS 530.68 (type species), with well-supported branches, in full agreement with a previous study conducted by Gräfenhan et al. [45]. Cosmospora is the genus in the family Nectriaceae (Hypocreales, Sordariomycetes) and was introduced by Rabenhorst [63] with the type species C. coccinea [64]. Currently, there are 49 accepted species in this genus (Index Fungorum 2021). Cosmospora lavitskiae was first isolated from soil rhizosphere of Zea mays [45]. Cosmospora lavitskiae has been recorded for the first time in Korea, and this is also the first report from a rainwater.
Phylogenetic analysis based on ITS sequence indicated the CNUFC KOW41 strain was clustered with other strains of M. cameliae (Figure 4). The results of our molecular analysis were consistent with the phylogeny presented by Liu et al. [48]. The genus Monochaetia was introduced by Allescher in 1902 [65]. Monochaetia belongs to the family Sporocadaceae (Amphisphaeriales, Sordariomycetes), characterized by three- to five-septate hyaline to brown conidia with single apical and basal appendages [66]. Species of Monochaetia are often found to be plant pathogens that cause post-harvest losses. Some species, such as M. karstenii produces different metabolites such as cyclohexenone derivatives, cinnamic acid, isooxazoline 3-phenyl-benzodiazepine, 2-propenoic acid, 3-phenyl-(E)-dodecene, and 3-undecen-1-yne (E) with antimicrobial and antioxidant activity [67]. Monochaetia sp. Tbp-2 can produce paclitaxel [68]. Therefore, it is possible that a vast number of novel metabolites remain to be discovered from this genus.
Phylogenetic analysis based on ITS and LSU sequences showed that CNUFC WT16 clustered within the same clade with Roussoella doimaesalongensis MFLUCC 14-0584 (Figure 5). Roussoella is a genus in the family Roussoellaceae (Pleosporales, Dothideomycetes) and typified by R. nitidula. This genus was introduced by Saccardo and Paoletti [69]. Roussoella is characterized by immersed clypeate ascostromata, pseudoparaphyses embedded in a gelatinous matrix, bitunicate asci, and ornamented, two-celled, brown, longitudinally striate ascospores [70,71]. Species of Roussoella can be found on bamboo and woody plants and in seawater [49,71–74]. Currently, 39 species of Roussoella are listed in Index Fungorum (2021). The asexual morph of Roussoella doimaesalongensis was found only on the host substrates in nature [49]. Attempts to stimulate sporulation of our strain isolated from freshwater were unsuccessful. Many nutritional factors are effective in fungal sporulation such as sources of carbon and nitrogen, as well as microelements [75,76]. Some fungi have specific carbon and nitrogen requirements for sporulation [76–78]. Thus, in the course of studying this species, we attempted to use different culture media and varying conditions to induce sporulation; however, all attempts to induce sporulation failed. Poli et al. [74] have previously reported that Roussoella spp. isolated from seawater failed to sporulate.
The knowledge of taxonomy, distribution, and ecology of Dothideomycetes and Sordariomycetes is still poor in Korea. More works are needed to better understand the diversity and ecology of these taxa.
References
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Nucleotide Sequences (Showing 15 of 15)
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- (1 citation) ENA - OK285198
- (1 citation) ENA - OK285199
- (1 citation) ENA - OM038511
- (1 citation) ENA - OM038512
- (1 citation) ENA - OK431604
- (1 citation) ENA - OK315643
- (1 citation) ENA - OK315641
- (1 citation) ENA - OK315642
- (1 citation) ENA - OM001471
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