Four dimeric diketopiperazine stereoisomers (1-4) including two new ones (1-2) had been isolated from the culture broth of one marine-derived fungus Aspergillus sp. Z3, which was found in the gut of a marine isopod Ligia exotica. The planner structures and absolute configurations of the new compounds were determined by combination of NMR, HRESIMS, electronic circular dichroism calculation, Marfey's method as well as single-crystal X-ray diffraction. Their cytotoxicity against the prostate cancer PC3 cell line was assayed by the MTT method.
{"title":"Novel indole diketopiperazine stereoisomers from a marine-derived fungus <i>Aspergillus</i> sp.","authors":"Xinyang Li, Jinzhong Xu, Pinmei Wang, Wanjing Ding","doi":"10.1080/21501203.2022.2069173","DOIUrl":"10.1080/21501203.2022.2069173","url":null,"abstract":"<p><p>Four dimeric diketopiperazine stereoisomers (<b>1-4</b>) including two new ones (<b>1-2</b>) had been isolated from the culture broth of one marine-derived fungus <i>Aspergillus</i> sp. Z3, which was found in the gut of a marine isopod <i>Ligia exotica</i>. The planner structures and absolute configurations of the new compounds were determined by combination of NMR, HRESIMS, electronic circular dichroism calculation, Marfey's method as well as single-crystal X-ray diffraction. Their cytotoxicity against the prostate cancer PC3 cell line was assayed by the MTT method.</p>","PeriodicalId":18833,"journal":{"name":"Mycology","volume":null,"pages":null},"PeriodicalIF":4.6,"publicationDate":"2022-04-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9930829/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9314926","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2022-04-03DOI: 10.1080/21501203.2022.2058638
Hongyi Shen, D. Bao, D. J. Bhat, H. Su, Zong-Long Luo
ABSTRACT Yunnan Province is one of the rich biodiversity hotspots with abundant resources of lignicolous freshwater fungi. A total of 281 species of lignicolous freshwater fungi from 1986 to the present in Yunnan Province. They are mostly distributed in the classes Dothideomycetes and Sordariomycetes, a few species in the Eurotiomycetes and Leotiomycetes, and rarely reported in Orbiliomycetes and Pezizomycetes. Lignicolous freshwater fungi can decompose lignocellulose substrates and release energy and nutrients, and thus playing an important role in freshwater environment. This study briefly reviewed the biodiversity and taxonomic status of lignicolous freshwater fungi in Yunnan, the ecological functions of lignicolous freshwater fungi, factors affecting community distribution, application status, and research difficulties.
{"title":"Lignicolous freshwater fungi in Yunnan Province, China: an overview","authors":"Hongyi Shen, D. Bao, D. J. Bhat, H. Su, Zong-Long Luo","doi":"10.1080/21501203.2022.2058638","DOIUrl":"https://doi.org/10.1080/21501203.2022.2058638","url":null,"abstract":"ABSTRACT Yunnan Province is one of the rich biodiversity hotspots with abundant resources of lignicolous freshwater fungi. A total of 281 species of lignicolous freshwater fungi from 1986 to the present in Yunnan Province. They are mostly distributed in the classes Dothideomycetes and Sordariomycetes, a few species in the Eurotiomycetes and Leotiomycetes, and rarely reported in Orbiliomycetes and Pezizomycetes. Lignicolous freshwater fungi can decompose lignocellulose substrates and release energy and nutrients, and thus playing an important role in freshwater environment. This study briefly reviewed the biodiversity and taxonomic status of lignicolous freshwater fungi in Yunnan, the ecological functions of lignicolous freshwater fungi, factors affecting community distribution, application status, and research difficulties.","PeriodicalId":18833,"journal":{"name":"Mycology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2022-04-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"46879144","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2022-03-17eCollection Date: 2022-01-01DOI: 10.1080/21501203.2022.2050825
Shalene da Silva da Silva Santos, Angela Aparecida da da Silva, Julio Cesar Polonio, Andressa Domingos Polli, Ravely Casarotti Orlandelli, João Arthur Dos Santos Dos Santos Oliveira, José Usan Torres Brandão Filho, João Lúcio Azevedo, João Alencar Pamphile
The protective and growth-promoting activities of Colletrotrichum and Diaporthe endophytes on tomato plants (Lycopersicon esculentum Mill.) are underexplored. We screened 40 endophytic fungi associated with Mexican shrimp plant (Justicia brandegeana) using an in vitro dual culture assay for Fusarium oxysporum, one of the most important phytopathogens of tomato plants. The three best antagonists, Colletotrichum siamense (JB224.g1), C. siamense (JB252.g1), and Diaporthe masirevicii (JB270), were identified based on multilocus sequence analysis. They were assessed in vitro for their inhibition of F. oxysporum and phosphate solubilisation capacity, and for the production of indole acetic acid. Greenhouse experiments verified the growth-promoting effects of these endophytes and the suppression of F. oxysporum symptoms in tomato plants. Under greenhouse conditions, the JB252.g1 and JB270 isolates showed positive results for seedling emergence speed. The radicular system depth of plants inoculated with JB270 was greater than that in uninoculated plants (27.21 vs 21.95 cm). The soil plant analysis development chlorophyll metre (SPAD) index showed statistically significant results, especially for the endophyte JB224.g1 (36.99) compared to the control plants (30.90) and plants infected solely with F. oxysporum (33.64).
炭疽菌(Colletrotrichum)和Diaporthe内生菌对番茄(lycopersiicon esculentum Mill.)的保护和促生长作用尚未得到充分的研究。采用番茄植物最重要的病原菌之一尖孢镰刀菌(Fusarium oxysporum)的体外双培养试验,筛选了40种与墨西哥对虾(Justicia brandegeana)相关的内生真菌。通过多位点序列分析,确定了3种最佳拮抗剂,分别是炭疽杆菌(Colletotrichum siamense, JB224.g1)、C. siamense (JB252.g1)和麻氏Diaporthe masirevicii (JB270)。在体外评估了它们对尖孢菌的抑制作用和磷酸盐的增溶能力,以及吲哚乙酸的生产能力。温室试验证实了这些内生菌对番茄植株的促生长作用和对尖孢镰刀菌症状的抑制作用。在温室条件下,JB252。g1和JB270分离株的出苗速度呈阳性。JB270接种植株的根系深度大于未接种植株(27.21 cm vs 21.95 cm)。土壤植物分析发育叶绿素计(SPAD)指数具有显著的统计学意义,尤其是内生植物JB224。g1(36.99)与对照植株(30.90)和单纯感染尖孢镰刀菌植株(33.64)比较,差异有统计学意义。
{"title":"Influence of plant growth-promoting endophytes <i>Colletotrichum siamense</i> and <i>Diaporthe masirevici</i> on tomato plants (<i>Lycopersicon esculentum</i> Mill.).","authors":"Shalene da Silva da Silva Santos, Angela Aparecida da da Silva, Julio Cesar Polonio, Andressa Domingos Polli, Ravely Casarotti Orlandelli, João Arthur Dos Santos Dos Santos Oliveira, José Usan Torres Brandão Filho, João Lúcio Azevedo, João Alencar Pamphile","doi":"10.1080/21501203.2022.2050825","DOIUrl":"https://doi.org/10.1080/21501203.2022.2050825","url":null,"abstract":"<p><p>The protective and growth-promoting activities of <i>Colletrotrichum</i> and <i>Diaporthe</i> endophytes on tomato plants (<i>Lycopersicon esculentum</i> Mill.) are underexplored. We screened 40 endophytic fungi associated with Mexican shrimp plant (<i>Justicia brandegeana</i>) using an <i>in vitro</i> dual culture assay for <i>Fusarium oxysporum</i>, one of the most important phytopathogens of tomato plants. The three best antagonists, <i>Colletotrichum siamense</i> (JB224.g1), <i>C. siamense</i> (JB252.g1), and <i>Diaporthe masirevicii</i> (JB270), were identified based on multilocus sequence analysis. They were assessed <i>in vitro</i> for their inhibition of <i>F. oxysporum</i> and phosphate solubilisation capacity, and for the production of indole acetic acid. Greenhouse experiments verified the growth-promoting effects of these endophytes and the suppression of <i>F. oxysporum</i> symptoms in tomato plants. Under greenhouse conditions, the JB252.g1 and JB270 isolates showed positive results for seedling emergence speed. The radicular system depth of plants inoculated with JB270 was greater than that in uninoculated plants (27.21 vs 21.95 cm). The soil plant analysis development chlorophyll metre (SPAD) index showed statistically significant results, especially for the endophyte JB224.g1 (36.99) compared to the control plants (30.90) and plants infected solely with <i>F. oxysporum</i> (33.64).</p>","PeriodicalId":18833,"journal":{"name":"Mycology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2022-03-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9673798/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40485812","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2022-02-22eCollection Date: 2022-01-01DOI: 10.1080/21501203.2022.2036841
Baosong Chen, Jinghan Lin, Ao Xu, Dan Yu, Dorji Phurbu, Huanqin Dai, Yi Li, Hongwei Liu
Ophiocordyceps sinensis is a well-known entomogenous fungus with its fruiting bodies or cultural mycelium as food and herbal medicines in Asia. While metabolites which could responsible for its potent pharmaceutical effects has long remained to be elucidated. In this work, chemical investigation on the solid culture of O. sinensis strain LY34 led to the discovery of six digalactosyldiacylglycerols (DGDGS, 1-6) including one new. The structure of compound 1 was determined based on the comprehensive spectra analysis, including NMR, MSn, IR, and chemical derivatisation. Bioactivity studies showed a weak cytotoxicity of compounds 1-6 against 293 T cell and medium anti-inflammatory activity of compounds 1 and 2 on Raw 264.7 cell. The discovery of DGDGs in O. sinensis provides new insight into the pharmacologically active substances.
{"title":"Glyceroglycolipids from the solid culture of <i>Ophiocordyceps sinensis</i> strain LY34 isolated from Tibet of China.","authors":"Baosong Chen, Jinghan Lin, Ao Xu, Dan Yu, Dorji Phurbu, Huanqin Dai, Yi Li, Hongwei Liu","doi":"10.1080/21501203.2022.2036841","DOIUrl":"https://doi.org/10.1080/21501203.2022.2036841","url":null,"abstract":"<p><p><i>Ophiocordyceps sinensis</i> is a well-known entomogenous fungus with its fruiting bodies or cultural mycelium as food and herbal medicines in Asia. While metabolites which could responsible for its potent pharmaceutical effects has long remained to be elucidated. In this work, chemical investigation on the solid culture of <i>O. sinensis</i> strain LY34 led to the discovery of six digalactosyldiacylglycerols (DGDGS, <b>1-6</b>) including one new. The structure of compound <b>1</b> was determined based on the comprehensive spectra analysis, including NMR, MS<sup>n</sup>, IR, and chemical derivatisation. Bioactivity studies showed a weak cytotoxicity of compounds <b>1-6</b> against 293 T cell and medium anti-inflammatory activity of compounds <b>1</b> and <b>2</b> on Raw 264.7 cell. The discovery of DGDGs in <i>O. sinensis</i> provides new insight into the pharmacologically active substances.</p>","PeriodicalId":18833,"journal":{"name":"Mycology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2022-02-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9354630/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40689134","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
3,4-Dihydroxy-2,2-dimethyl-chroman derivatives have diverse physiological properties. A polyketone (3S,4S)-3,4-Dihydroxy-6-methoxy-2,2-dimethylchromom (3S,4S-DMD) with antibacterial activity was isolated from the solid culture of rare edible fungus Panus lecomtei. However, the yield of 3S,4S-DMD in solid culture of P. lecomtei is very low and the production period are too long. In this work, efficient accumulation of 3S,4S-DMD in P. lecomtei by submerged fermentation is studied. The key fermentation factors of P. lecomtei for 3S,4S-DMD production were optimised by single-factor experiment successively, and then a Box-Behnken design (BBD) experiment was carried out to further enhance 3S,4S-DMD production. A maximum 3S,4S-DMD yield of 196.3 mg/L was obtained at 25.78 g/L glucose, 1.67 g/L MgSO4 · 7H2O, 40°C and 197 r/min, respectively, which increased by 1.3-fold in comparison with that in the non-optimised fermentation conditions. Furthermore, an enhanced yield of 3S,4S-DMD (261.6 mg/L) was obtained in 5-L agitated fermenter. The 3S,4S-DMD productivity in flask and fermenter reached to 7.26 and 8.07 mg/g per day, respectively, which considerably increased by over 121-fold in comparison with that in the solid fermentation (0.06 mg/g per day). This study presents a potential method for the production of 3S,4S-DMD by submerged fermentation.
{"title":"Optimization for the production of a polyketone <i>3S,4S-</i>DMD from <i>Panus lecomtei</i> (Agaricomycetes) by submerged fermentation.","authors":"Si-Xian Wang, Ping Huang, Hongwei Liu, Yucheng Dai, Xiao-Ling Wang, Gao-Qiang Liu","doi":"10.1080/21501203.2022.2036842","DOIUrl":"https://doi.org/10.1080/21501203.2022.2036842","url":null,"abstract":"<p><p>3,4-Dihydroxy-2,2-dimethyl-chroman derivatives have diverse physiological properties. A polyketone (3<i>S</i>,4<i>S</i>)-3,4-Dihydroxy-6-methoxy-2,2-dimethylchromom (<i>3S,4S-</i>DMD) with antibacterial activity was isolated from the solid culture of rare edible fungus <i>Panus lecomtei</i>. However, the yield of <i>3S,4S-</i>DMD in solid culture of <i>P. lecomtei</i> is very low and the production period are too long. In this work, efficient accumulation of 3<i>S</i>,4<i>S-</i>DMD in <i>P. lecomtei</i> by submerged fermentation is studied. The key fermentation factors of <i>P. lecomtei</i> for <i>3S,4S-</i>DMD production were optimised by single-factor experiment successively, and then a Box-Behnken design (BBD) experiment was carried out to further enhance <i>3S,4S-</i>DMD production. A maximum <i>3S,4S-</i>DMD yield of 196.3 mg/L was obtained at 25.78 g/L glucose, 1.67 g/L MgSO<sub>4</sub> · 7H<sub>2</sub>O, 40°C and 197 r/min, respectively, which increased by 1.3-fold in comparison with that in the non-optimised fermentation conditions. Furthermore, an enhanced yield of <i>3S,4S-</i>DMD (261.6 mg/L) was obtained in 5-L agitated fermenter. The <i>3S,4S</i>-DMD productivity in flask and fermenter reached to 7.26 and 8.07 mg/g per day, respectively, which considerably increased by over 121-fold in comparison with that in the solid fermentation (0.06 mg/g per day). This study presents a potential method for the production of <i>3S,4S</i>-DMD by submerged fermentation.</p>","PeriodicalId":18833,"journal":{"name":"Mycology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2022-02-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9354644/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40689133","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2022-02-14eCollection Date: 2022-01-01DOI: 10.1080/21501203.2022.2035005
Bin Lu, Feng-Ming Zhang, Fu-Qiang Yu, Andrea C Rinaldi
The production of a distinct profile of volatile organic compounds plays a crucial role in the ecology of hypogeous Ascomycetes, and is also key to their gastronomic relevance. In this study, we explored the aroma components of two rarely investigated Chinese desert truffles, namely Mattirolomyces terfezioides and Choiromyces cerebriformis, using headspace solid-phase microextraction (HS-SPME) coupled with gas chromatography-mass spectrometry (GC-MS). Our investigation revealed the significant presence of sulphur-containing volatiles in the aroma of M. terfezioides but not in C. cerebriformis. We discussed available information on the distribution of these interesting truffles in China and their use as choice food by local people.
{"title":"Ethnobiological notes and volatile profiles of two rare Chinese desert truffles.","authors":"Bin Lu, Feng-Ming Zhang, Fu-Qiang Yu, Andrea C Rinaldi","doi":"10.1080/21501203.2022.2035005","DOIUrl":"https://doi.org/10.1080/21501203.2022.2035005","url":null,"abstract":"<p><p>The production of a distinct profile of volatile organic compounds plays a crucial role in the ecology of hypogeous Ascomycetes, and is also key to their gastronomic relevance. In this study, we explored the aroma components of two rarely investigated Chinese desert truffles, namely <i>Mattirolomyces terfezioides</i> and <i>Choiromyces cerebriformis</i>, using headspace solid-phase microextraction (HS-SPME) coupled with gas chromatography-mass spectrometry (GC-MS). Our investigation revealed the significant presence of sulphur-containing volatiles in the aroma of <i>M. terfezioides</i> but not in <i>C. cerebriformis</i>. We discussed available information on the distribution of these interesting truffles in China and their use as choice food by local people.</p>","PeriodicalId":18833,"journal":{"name":"Mycology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2022-02-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9354632/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40609161","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Plant-based secondary metabolite production system is well established. However, host-endophyte interaction in the production of secondary metabolite is a new less exploited area that is overcoming barriers and evolving as one of the prospective fields. Endophytes such as bacteria or fungi have the ability to produce some of the secondary metabolites that mimic the plant metabolites therefore escaping the host defence system. Coumarin is one such metabolite with immense biological functions. Most of the studies have demonstrated coumarin production from fungal endophytes but not bacterial endophytes. Herein, we present an overview of all the coumarin derivatives produced from endophytic sources and their biosynthetic pathways. Furthermore, the review also throws light on the isolation of these coumarins and different derivatives with respect to their biological activity. The biotransformation of coumarin derivatives by the action of endophytic fungi is also elaborated. The present review provides an insight on the challenges faced in the coumarin production through fungal endophytes.
{"title":"Plants and endophytes - a partnership for the coumarin production through the microbial systems.","authors":"Chandrashekar Srinivasa, Govindappa Mellappa, Shashank M Patil, Ramith Ramu, Bhargav Shreevatsa, Chandan Dharmashekar, Shiva Prasad Kollur, Asad Syed, Chandan Shivamallu","doi":"10.1080/21501203.2022.2027537","DOIUrl":"https://doi.org/10.1080/21501203.2022.2027537","url":null,"abstract":"<p><p>Plant-based secondary metabolite production system is well established. However, host-endophyte interaction in the production of secondary metabolite is a new less exploited area that is overcoming barriers and evolving as one of the prospective fields. Endophytes such as bacteria or fungi have the ability to produce some of the secondary metabolites that mimic the plant metabolites therefore escaping the host defence system. Coumarin is one such metabolite with immense biological functions. Most of the studies have demonstrated coumarin production from fungal endophytes but not bacterial endophytes. Herein, we present an overview of all the coumarin derivatives produced from endophytic sources and their biosynthetic pathways. Furthermore, the review also throws light on the isolation of these coumarins and different derivatives with respect to their biological activity. The biotransformation of coumarin derivatives by the action of endophytic fungi is also elaborated. The present review provides an insight on the challenges faced in the coumarin production through fungal endophytes.</p>","PeriodicalId":18833,"journal":{"name":"Mycology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2022-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9673776/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40485815","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2022-01-03DOI: 10.1080/21501203.2021.2017045
Xueyan Hu, Yun Zhang, Minghao Du, E. Yang
ABSTRACT Emerging evidence showed that lncRNAs play important roles in a wide range of biological processes of fungi such as Saccharomyces cerevisiae. However, systemic identification of lncRNAs in non-model fungi is a challenging task as the efficiency of rRNA removal has been proved to be affected by mismatches of universal rRNA-targeting probes of commercial kits, which forces deeper sequencing depth and increases costs. Here, we developed a low-cost and simple rRNA depletion method (rProbe) that could efficiently remove more than 99% rRNA in both yeast and mycelium samples of Talaromyces marneffei. The efficiency and robustness of rProbe were demonstrated to outperform the Illumina Ribo-Zero kit. Using rProbe RNA-seq, we identified 115 differentially expressed lncRNAs and constructed lncRNA-mRNA co-expression network related to dimorphic switch of T. marneffei. Our rRNA removal method has the potential to be a useful tool to explore non-coding transcriptomes of non-model fungi by adjusting rRNA probe sequences species specifically.
{"title":"Efficient and specific DNA oligonucleotide rRNA probe-based rRNA removal in Talaromyces marneffei","authors":"Xueyan Hu, Yun Zhang, Minghao Du, E. Yang","doi":"10.1080/21501203.2021.2017045","DOIUrl":"https://doi.org/10.1080/21501203.2021.2017045","url":null,"abstract":"ABSTRACT Emerging evidence showed that lncRNAs play important roles in a wide range of biological processes of fungi such as Saccharomyces cerevisiae. However, systemic identification of lncRNAs in non-model fungi is a challenging task as the efficiency of rRNA removal has been proved to be affected by mismatches of universal rRNA-targeting probes of commercial kits, which forces deeper sequencing depth and increases costs. Here, we developed a low-cost and simple rRNA depletion method (rProbe) that could efficiently remove more than 99% rRNA in both yeast and mycelium samples of Talaromyces marneffei. The efficiency and robustness of rProbe were demonstrated to outperform the Illumina Ribo-Zero kit. Using rProbe RNA-seq, we identified 115 differentially expressed lncRNAs and constructed lncRNA-mRNA co-expression network related to dimorphic switch of T. marneffei. Our rRNA removal method has the potential to be a useful tool to explore non-coding transcriptomes of non-model fungi by adjusting rRNA probe sequences species specifically.","PeriodicalId":18833,"journal":{"name":"Mycology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2022-01-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"44679446","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2021-12-27eCollection Date: 2022-01-01DOI: 10.1080/21501203.2021.2002452
Bingjie Liu, Rong Fu, Bing Wu, Xingzhong Liu, Meichun Xiang
Rock-inhabiting fungi (RIF) constitute an ecological group associated with terrestrial rocks. This association is generally restricted to the persistent colonisation of rocks and peculiar morphological features based on melanisation and slow growth, which endow RIF with significance in eukaryotic biology, special status in ecology, and exotic potential in biotechnology. There is a need to achieve a better understanding of the hidden biodiversity, antistress biology, origin and convergent evolution of RIF, which will facilitate cultural relic preservation, exploitation of the biogeochemical cycle of rock elements and biotechnology applications. This review focuses on summarising the current knowledge of rock-inhabiting fungi, with particular reference to terminology, biodiversity and geographic distribution, origin and evolution, and stress adaptation mechanisms. We especially teased out the definition through summing up the terms related to rock-inhabting fungi, and also provided a checklist of rock-inhabiting fungal taxa recorded following updated classification schemes.
{"title":"Rock-inhabiting fungi: terminology, diversity, evolution and adaptation mechanisms.","authors":"Bingjie Liu, Rong Fu, Bing Wu, Xingzhong Liu, Meichun Xiang","doi":"10.1080/21501203.2021.2002452","DOIUrl":"https://doi.org/10.1080/21501203.2021.2002452","url":null,"abstract":"<p><p>Rock-inhabiting fungi (RIF) constitute an ecological group associated with terrestrial rocks. This association is generally restricted to the persistent colonisation of rocks and peculiar morphological features based on melanisation and slow growth, which endow RIF with significance in eukaryotic biology, special status in ecology, and exotic potential in biotechnology. There is a need to achieve a better understanding of the hidden biodiversity, antistress biology, origin and convergent evolution of RIF, which will facilitate cultural relic preservation, exploitation of the biogeochemical cycle of rock elements and biotechnology applications. This review focuses on summarising the current knowledge of rock-inhabiting fungi, with particular reference to terminology, biodiversity and geographic distribution, origin and evolution, and stress adaptation mechanisms. We especially teased out the definition through summing up the terms related to rock-inhabting fungi, and also provided a checklist of rock-inhabiting fungal taxa recorded following updated classification schemes.</p>","PeriodicalId":18833,"journal":{"name":"Mycology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2021-12-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8856086/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39939495","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2021-12-22eCollection Date: 2022-01-01DOI: 10.1080/21501203.2021.2013969
Li Jia-Xin, He Mao-Qiang, Zhao Rui-Lin
Cystoderma comprises the species with heavily universal veil remnants on basidiomes, weakly to strongly amyloid basidiospores, evanescent floccose-scaly ring zone or persistent membranous ring, which were often encountered in forests and grassland. However, they were less studied than other mushroom groups mainly because of its unclearly phylogenetic position. In this study, we gathered 16 specimens from Southwest and Northwest China, where were the richest biodiversity areas in China, and produced their ITS and nrLSU sequences. The related morphological examinations and molecular phylogenetic analysis showed they belonged to eight species, of which four were new species, and named as Cystoderma lilaceum, C. pseudoamianthinum, C. rugosolateritium, C. subglobisporum, and of which two were new records from China, and they were C. granosum, C. subvinaceum. New species and new records were described in details and discussed with other species. This study not only showed the novel geographical distributions as well as high species diversity of Cystoderma in China, but also provided more research data for the further studies in mushrooms systematics.
{"title":"A review of <i>Cystoderma</i> (Agaricales/Basidiomycota) from China with four new species and two new records.","authors":"Li Jia-Xin, He Mao-Qiang, Zhao Rui-Lin","doi":"10.1080/21501203.2021.2013969","DOIUrl":"https://doi.org/10.1080/21501203.2021.2013969","url":null,"abstract":"<p><p><i>Cystoderma</i> comprises the species with heavily universal veil remnants on basidiomes, weakly to strongly amyloid basidiospores, evanescent floccose-scaly ring zone or persistent membranous ring, which were often encountered in forests and grassland. However, they were less studied than other mushroom groups mainly because of its unclearly phylogenetic position. In this study, we gathered 16 specimens from Southwest and Northwest China, where were the richest biodiversity areas in China, and produced their ITS and nrLSU sequences. The related morphological examinations and molecular phylogenetic analysis showed they belonged to eight species, of which four were new species, and named as <i>Cystoderma lilaceum, C. pseudoamianthinum, C. rugosolateritium, C. subglobisporum</i>, and of which two were new records from China, and they were <i>C. granosum, C. subvinaceum</i>. New species and new records were described in details and discussed with other species. This study not only showed the novel geographical distributions as well as high species diversity of <i>Cystoderma</i> in China, but also provided more research data for the further studies in mushrooms systematics.</p>","PeriodicalId":18833,"journal":{"name":"Mycology","volume":null,"pages":null},"PeriodicalIF":4.2,"publicationDate":"2021-12-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9354646/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40689132","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}