The Basidiomycota constitutes a major phylum of the kingdom Fungi and is second in species numbers to the Ascomycota.The present work provides an overview of all validly published,currently used basidiomycete genera t...The Basidiomycota constitutes a major phylum of the kingdom Fungi and is second in species numbers to the Ascomycota.The present work provides an overview of all validly published,currently used basidiomycete genera to date in a single document.An outline of all genera of Basidiomycota is provided,which includes 1928 currently used genera names,with 1263 synonyms,which are distributed in 241 families,68 orders,18 classes and four subphyla.We provide brief notes for each accepted genus including information on classification,number of accepted species,type species,life mode,habitat,distribution,and sequence information.Furthermore,three phylogenetic analyses with combined LSU,SSU,5.8s,rpb1,rpb2,and ef1 datasets for the subphyla Agaricomycotina,Pucciniomycotina and Ustilaginomycotina are conducted,respectively.Divergence time estimates are provided to the family level with 632 species from 62 orders,168 families and 605 genera.Our study indicates that the divergence times of the subphyla in Basidiomycota are 406-430 Mya,classes are 211-383 Mya,and orders are 99-323 Mya,which are largely consistent with previous studies.In this study,all phylogenetically supported families were dated,with the families of Agaricomycotina diverging from 27-178 Mya,Pucciniomycotina from 85-222 Mya,and Ustilaginomycotina from 79-177 Mya.Divergence times as additional criterion in ranking provide additional evidence to resolve taxonomic problems in the Basidiomycota taxonomic system,and also provide a better understanding of their phylogeny and evolution.展开更多
This article is the ninth in the series of Fungal Diversity Notes,where 107 taxa distributed in three phyla,nine classes,31 orders and 57 families are described and illustrated.Taxa described in the present study incl...This article is the ninth in the series of Fungal Diversity Notes,where 107 taxa distributed in three phyla,nine classes,31 orders and 57 families are described and illustrated.Taxa described in the present study include 12 new genera,74 new species,three new combinations,two reference specimens,a re-circumscription of the epitype,and 15 records of sexualasexual morph connections,new hosts and new geographical distributions.Twelve new genera comprise Brunneofusispora,Brunneomurispora,Liua,Lonicericola,Neoeutypella,Paratrimmatostroma,Parazalerion,Proliferophorum,Pseudoastrosphaeriellopsis,Septomelanconiella,Velebitea and Vicosamyces.Seventy-four new species are Agaricus memnonius,A.langensis,Aleurodiscus patagonicus,Amanita flavoalba,A.subtropicana,Amphisphaeria mangrovei,Baorangia major,Bartalinia kunmingensis,Brunneofusispora sinensis,Brunneomurispora lonicerae,Capronia camelliaeyunnanensis,Clavulina thindii,Coniochaeta simbalensis,Conlarium thailandense,Coprinus trigonosporus,Liua muriformis,Cyphellophora filicis,Cytospora ulmicola,Dacrymyces invisibilis,Dictyocheirospora metroxylonis,Distoseptispora thysanolaenae,Emericellopsis koreana,Galiicola baoshanensis,Hygrocybe lucida,Hypoxylon teeravasati,Hyweljonesia indica,Keissleriella caraganae,Lactarius olivaceopallidus,Lactifluus midnapurensis,Lembosia brigadeirensis,Leptosphaeria urticae,Lonicericola hyaloseptispora,Lophiotrema mucilaginosis,Marasmiellus bicoloripes,Marasmius indojasminodorus,Micropeltis phetchaburiensis,Mucor orantomantidis,Murilentithecium lonicerae,Neobambusicola brunnea,Neoeutypella baoshanensis,Neoroussoella heveae,Neosetophoma lonicerae,Ophiobolus malleolus,Parabambusicola thysanolaenae,Paratrimmatostroma kunmingensis,Parazalerion indica,Penicillium dokdoense,Peroneutypa mangrovei,Phaeosphaeria cycadis,Phanerochaete australosanguinea,Plectosphaerella kunmingensis,Plenodomus artemisiae,P.lijiangensis,Proliferophorum thailandicum,Pseudoastrosphaeriellopsis kaveriana,Pseudohelicomyces menglunicus,Pseudoplagiostoma mangiferae,Robillarda mangiferae,Roussoella elaeicola,Russula choptae,R.uttarakhandia,Septomelanconiella thailandica,Spencermartinsia acericola,Sphaerellopsis isthmospora,Thozetella lithocarpi,Trechispora echinospora,Tremellochaete atlantica,Trichoderma koreanum,T.pinicola,T.rugulosum,Velebitea chrysotexta,Vicosamyces venturisporus,Wojnowiciella kunmingensis and Zopfiella indica.Three new combinations are Baorangia rufomaculata,Lanmaoa pallidorosea and Wojnowiciella rosicola.The reference specimens of Canalisporium kenyense and Tamsiniella labiosa are designated.The epitype of Sarcopeziza sicula is re-circumscribed based on cyto-and histochemical analyses.The sexual-asexual morph connection of Plenodomus sinensis is reported from ferns and Cirsium for the first time.In addition,the new host records and country records are Amanita altipes,A.melleialba,Amarenomyces dactylidis,Chaetosphaeria panamensis,Coniella vitis,Coprinopsis kubickae,Dothiorella sarmentorum,Leptobacillium leptobactrum var.calidus,Muyocopron lithocarpi,Neoroussoella solani,Periconia cortaderiae,Phragmocamarosporium hederae,Sphaerellopsis paraphysata and Sphaeropsis eucalypticola.展开更多
The advantages and disadvantages of giving a valid name to a sequence of DNA detected from environmental specimens is presently a hot debate amongst the mycological community.The idea of using intracellular DNA("...The advantages and disadvantages of giving a valid name to a sequence of DNA detected from environmental specimens is presently a hot debate amongst the mycological community.The idea of using intracellular DNA("mgDNA")from environmental samples as holotypes seems at face value,to be a good idea,considering the expansion of knowledge among these‘dark taxa’or‘dark matter fungi’that it could provide(i.e.sequence based taxa without physical specimens and formal nomenclature).However,the limitations of using mgDNA as holotypes needs careful thought,i.e.can we use a short mgDNA fragment,which may contain a small amount of genetic information,to allow discrimination between species?What is the point and are the potential problems of giving valid scientific names to mgDNA?Numerous mycologists and taxonomists,who have many years of experience working on the taxonomy and phylogeny of different groups of fungi,are concerned about the consequences of providing valid names to mgDNA.There has been much debate,through several publications on the considerable problems of using mgDNA as holotypes.The proponents have tried to debate the virtues of using mgDNA as holotypes.Those against have shown that identification to species using mgDNA does not work in many fungal groups,while those for have shown cases where species can be identified with mgDNA.Different disciplines have different reasons and opinions for using mgDNA as holotypes,however even groups of the same disciplines have dissimilar ideas.In this paper we explore the use of mgDNA as holotypes.We provide evidences and opinions as to the use of mgDNA as holotypes from our own experiences.In no way do we attempt to degrade the study of DNA from environmental samples and the expansion of knowledge in to the dark taxa,but relate the issues to fungal taxonomy.In fact we show the value of using sequence data from these approaches,in dealing with the discovery of already named taxa,taxa numbers and ecological roles.We discuss the advantages and the pitfalls of using mgDNA from environmental samples as holotypes.The impacts of expanding the nomenclatural concept to allow using mgDNA from environmental samples as holotypes are also discussed.We provide evidence from case studies on Botryosphaeria,Colletotrichum,Penicillium and Xylaria.The case studies show that we cannot use mgDNA due to their short fragments and the fact that most ITS sequence data presently result from environmental sequencing.We conclude from the evidence that it is highly undesirable to use mgDNA as holotypes in naming fungal species.If this approach adopted,it would result in numerous problems where species identification cannot be confirmed due to limited sequence data available for the holotypes.We also propose an alternative DNA-based system for naming DNA based species which would provide considerably less problems and should be adopted.展开更多
基金National Key R&D Program of China(Project No.2018YFD0400200)the National Natural Science Foundation of China(Project IDs:31470152,31360014 and 31970010)+20 种基金Beijing Innovative Consortium of Agriculture Research System(Project ID:BAIC05-2019)the Thailand Research funds for grant RDG6130001 entitled"Impact of climate change on fungal diversity and biogeography in the Greater Mekong Subregion"Thailand Science Research and Innovation fund for the grant DBG6280009 entitled Macrofungi diversity research from the Lancang-Mekong Watershed and surrounding areasCroatian Science Foundation for support under the project For FungiDNA(IP-2018-01-1736)the support provided by the Moravian Museum by the Ministry of Culture of the Czech Republic as part of its long-term conceptual development programme for research institutions[Grant Number DKRVO,Ref.MK000094862]National Natural Science Foundation of China(31270072)the Special Funds for the Young Scholars of Taxonomy of the Chinese Academy of Sciences(ZSBR-001)National Key Basic Research Special Foundation of China(2013FY110400)support from the Department of Science&Technology(DST),New Delhi,Indiain the form of a DST-Inspire Faculty Fellowship(DST/INSPIRE/04/2018/001906,dated 24 July,2018)State task of the V.L.Komarov Botanical Institute of the Russian Academy of Sciences(AAAA-A19-119080990059-1 and RFBR,project 19-04-00024)the National Natural Science Foundation of China(Nos.30770013,31500013)the National Project on Scientific Ground work for Basic Science of the Ministry of Science and Technology(Nos.2012FY1116002014FY210400)the Coordenacao de Aperfeic¸oamento de Pessoal de Nivel Superior(CAPES-Brazil)for the PhD scholarshipsCNPq for providing‘Produtividade em Pesquisa’(Proc.307922/2014-6 and Proc.307947/2017-3)grantCONACYT(Project 252934)COFAAIPN(Project SIP-20195222)the financial support provided for his researchesthe Coordenacao de Aperfeic¸oamento de Pessoal de Nivel Superior(CAPES-Brazil)for the PhD scholarshipsthe following sources of funding for his All-Taxa Biodiversity Inventory work at the Boston Harbor Islands National Recreation Area(Massachusetts,USA):National Park Service,Boston Harbor Now and New England Botanical Club(2017 Les Mehrhoff Botanical Research Award)the support from the Iranian Research Organization for Science and Technology Grant No.1012196004partly supported by the ELTE Institutional Excellence Program(1783-3/2018/FEKUTSRAT)of the Hungarian Ministry of Human Capacities.
文摘The Basidiomycota constitutes a major phylum of the kingdom Fungi and is second in species numbers to the Ascomycota.The present work provides an overview of all validly published,currently used basidiomycete genera to date in a single document.An outline of all genera of Basidiomycota is provided,which includes 1928 currently used genera names,with 1263 synonyms,which are distributed in 241 families,68 orders,18 classes and four subphyla.We provide brief notes for each accepted genus including information on classification,number of accepted species,type species,life mode,habitat,distribution,and sequence information.Furthermore,three phylogenetic analyses with combined LSU,SSU,5.8s,rpb1,rpb2,and ef1 datasets for the subphyla Agaricomycotina,Pucciniomycotina and Ustilaginomycotina are conducted,respectively.Divergence time estimates are provided to the family level with 632 species from 62 orders,168 families and 605 genera.Our study indicates that the divergence times of the subphyla in Basidiomycota are 406-430 Mya,classes are 211-383 Mya,and orders are 99-323 Mya,which are largely consistent with previous studies.In this study,all phylogenetically supported families were dated,with the families of Agaricomycotina diverging from 27-178 Mya,Pucciniomycotina from 85-222 Mya,and Ustilaginomycotina from 79-177 Mya.Divergence times as additional criterion in ranking provide additional evidence to resolve taxonomic problems in the Basidiomycota taxonomic system,and also provide a better understanding of their phylogeny and evolution.
基金CAS President’s International Fellowship Initiative(PIFI)for Young Staff 2019-2021(grant number 2019FY0003)the Research Fund from China Postdoctoral Science Foundation(Grant No.Y71B283261)+45 种基金the Yunnan Provincial Department of Human Resources and Social Security(Grant No.Y836181261)National Science Foundation of China(NSFC)project code 31850410489 for financial research supportthe Foreign Experts Bureau of Yunnan Province,Foreign Talents Program(2018,Grant No.YNZ2018002)Thailand Research grants entitled Biodiversity,phylogeny and role of fungal endophytes on above parts of Rhizophora apiculata and Nypa fruticans(Grant No:RSA5980068)the future of specialist fungi in a changing climate:baseline data for generalist and specialist fungi associated with ants,Rhododendron species and Dracaena species(Grant No:DBG6080013)Impact of climate change on fungal diversity and biogeography in the Greater Mekong Subregion(Grant No:RDG6130001)the Key Research Program of Frontier Sciences of the Chinese Academy of Sciences(Grant No.QYZDY-SSW-SMC014)the National Science Foundation of China and the Chinese Academy of Sciences for financial support under the following grants:41761144055,41771063 and Y4ZK111B01the Fonds de la Recherche Scientifique-FNRS(Belgium)for travel grantsCAS President’s International Fellowship Initiative(PIFI)for funding his postdoctoral research(Grant No.2018PC0006)the National Science Foundation of China(NSFC,project code 31750110478)CAS President’s International Fellowship Initiative(PIFI)for funding his postdoctoral research(Grant No.2019PC0008)supported under the Distinguished Scientist Fellowship Program(DSFP),King Saud University,Kingdom of Saudi Arabia.the Kerala State Council for Science,Technology and Environment(KSCSTE)in the form of a PhD fellowship(Grant No.001/FSHP/2011/CSTE)the Principal Chief Conservator of forests,Kerala State,for granting permission(No.WL10-4937/2012,dated 03-10-2013)to collect agarics from the forests of Keralathe Council of Scientific&Industrial Research(CSIR),New Delhi,India,in the form of an award of CSIR Research Associateship(09/043(0178)2K17 dated:31/03/2017)the National Natural Science Foundation of China(Project ID:31470152 and 31360014)the Foundation of Innovative Group of Edible Mushrooms Industry of Beijing(Project ID:BAIC05-2017)the 5th batch of Postdoctoral Orientation Training Personnel in Yunnan Province and the 64th batch of China Postdoctoral Science FoundationCNPq for the Ph.D scholarship of RLMA(140283/2016-1)Pos-Graduacao em Biologia de Fungos(UFPE,Brazil)Capes(Capes-SIU 008/13)CNPq(PQ 307601/2015-3)FACEPE(APQ 0375-2.03/15)for funding the researchfinancial support from the Agreement ENDESA and San Ignacio de Huinay Foundations and Consejo Superior de Investigaciones Cientificas,CSIC(Projects No.2011HUIN10,2013CL0012,2014CL0011)the AECID(Agencia Espanola de Cooperacion Internacional para el Desarrollo)and Plan Nacional I+D+i project no.CGL2015-67459-Psupported by a Predoctoral Grant from the Ministerio de Economıa y Competitividad(Spain)(BES-2016-077793)Croatian Science Foundation for their partial support under the project HRZZ-IP-2018-01-1736(ForFungiDNA)supported by the Graduate Program for the Undiscovered Taxa of Koreathe Project on Survey and Discovery of Indigenous Fungal Species of Korea funded by NIBR and Project on Discovery of Fungi from Freshwater and Collection of Fungarium funded by NNIBR of the Ministry of Environment(MOE)in part carried out with the support of Cooperative Research Program for Agriculture Science and Technology Development(PJ013744)Rural Development Administration,and BK21 PLUS program funded by Ministry of Education,Republic of Koreathe CASTWAS for the PhD Fellowship.Sanjay K.Singh,Paras Nath Singh,Shiwali Rana and Frank Kwekucher Ackah thank Director,MACS,Agharkar Research Institute,Pune,India for providing facilities.Shiwali Rana and Frank Kwekucher Ackah thank UGC(Junior Research Fellowship)and DST,Govt.of India(CV Raman Fellowship for African Researchers),respectively.Gen-Nuo Wang,Huang Zhang,Wei Dong and Xian-Dong Yu thank the National Natural Science Foundation of China(Project ID:NSF 31500017).Bandarupalli Devadatha and V.Venkateswara Sarma thank The Ministry of Earth sciences,Govt.of India(Sanction order:MOES/36/OO1S/Extra/40/2014/PC-IV dt.14.1.2015)for a funding of the project,T,District Forest Office,Tiruvarur,Tamil Nadu and PCCF(Head of Forest Force),Chennai,Tamil Nadu Forest Department for providing permission to collect samples from Muthupet mangroves,and Department of Biotechnology,Pondicherry University is thanked for providing the facilities.Myung Soo Park,Seung-Yoon Oh and Young Woon Lim thank the Marine Bio Resource Bank Program of the Ministry of Ocean&Fisheries,Korea.Olinto Pereira thanks the CAPES,CNPq and FAPEMIG for financial support.Neven Matocˇec,Ivana Kusˇan and Margita Jadan express their gratitude to Livio Lorenzon,Enrico Bizio and Raffaella Trabucco(MCVE)for their kind help with loan of Sarcopeziza sicula type materialparts of their research were financed by Public Institutions Sjeverni Velebit National Park and Paklenica National Parkthe National Natural Science Foundation of China(No.NSFC 31760013,NSFC 31260087,NSFC 31460561)the Scientific Research Foundation of Yunnan Provincial Department of Education(2017ZZX186)utilization of endophytes and the Thousand Talents Plan,Youth Project of Yunnan Provincesthe National Natural Science Foundation of China(No.31760014)and the Science and Technology Foundation of Guizhou Province(No.[2017]5788)Thailand Research Fund(TRF)Grant No MRG6080089 for financial research supportThe Royal Golden Jubilee Ph.D.Program(PHD60K0147)under Thailand Research Fund,for financial research supports on project entitle"Fungi on limestone outcrops from southern Thailand to lower himalyas"the National Research Council of Thailand(Grant No.61215320023,61215320013)the Thailand Research Fund(Grant No.TRG6180001)for research financial supportthe Thailand Research Fund(RTA 5880006)Chiang Mai University for partially support this research workChina-Thailand Joint Lab on Microbial Biotechnology(Most KY201701011)for financial supportthe Mushroom Research Foundation for research financial support and PhD Fellowships.
文摘This article is the ninth in the series of Fungal Diversity Notes,where 107 taxa distributed in three phyla,nine classes,31 orders and 57 families are described and illustrated.Taxa described in the present study include 12 new genera,74 new species,three new combinations,two reference specimens,a re-circumscription of the epitype,and 15 records of sexualasexual morph connections,new hosts and new geographical distributions.Twelve new genera comprise Brunneofusispora,Brunneomurispora,Liua,Lonicericola,Neoeutypella,Paratrimmatostroma,Parazalerion,Proliferophorum,Pseudoastrosphaeriellopsis,Septomelanconiella,Velebitea and Vicosamyces.Seventy-four new species are Agaricus memnonius,A.langensis,Aleurodiscus patagonicus,Amanita flavoalba,A.subtropicana,Amphisphaeria mangrovei,Baorangia major,Bartalinia kunmingensis,Brunneofusispora sinensis,Brunneomurispora lonicerae,Capronia camelliaeyunnanensis,Clavulina thindii,Coniochaeta simbalensis,Conlarium thailandense,Coprinus trigonosporus,Liua muriformis,Cyphellophora filicis,Cytospora ulmicola,Dacrymyces invisibilis,Dictyocheirospora metroxylonis,Distoseptispora thysanolaenae,Emericellopsis koreana,Galiicola baoshanensis,Hygrocybe lucida,Hypoxylon teeravasati,Hyweljonesia indica,Keissleriella caraganae,Lactarius olivaceopallidus,Lactifluus midnapurensis,Lembosia brigadeirensis,Leptosphaeria urticae,Lonicericola hyaloseptispora,Lophiotrema mucilaginosis,Marasmiellus bicoloripes,Marasmius indojasminodorus,Micropeltis phetchaburiensis,Mucor orantomantidis,Murilentithecium lonicerae,Neobambusicola brunnea,Neoeutypella baoshanensis,Neoroussoella heveae,Neosetophoma lonicerae,Ophiobolus malleolus,Parabambusicola thysanolaenae,Paratrimmatostroma kunmingensis,Parazalerion indica,Penicillium dokdoense,Peroneutypa mangrovei,Phaeosphaeria cycadis,Phanerochaete australosanguinea,Plectosphaerella kunmingensis,Plenodomus artemisiae,P.lijiangensis,Proliferophorum thailandicum,Pseudoastrosphaeriellopsis kaveriana,Pseudohelicomyces menglunicus,Pseudoplagiostoma mangiferae,Robillarda mangiferae,Roussoella elaeicola,Russula choptae,R.uttarakhandia,Septomelanconiella thailandica,Spencermartinsia acericola,Sphaerellopsis isthmospora,Thozetella lithocarpi,Trechispora echinospora,Tremellochaete atlantica,Trichoderma koreanum,T.pinicola,T.rugulosum,Velebitea chrysotexta,Vicosamyces venturisporus,Wojnowiciella kunmingensis and Zopfiella indica.Three new combinations are Baorangia rufomaculata,Lanmaoa pallidorosea and Wojnowiciella rosicola.The reference specimens of Canalisporium kenyense and Tamsiniella labiosa are designated.The epitype of Sarcopeziza sicula is re-circumscribed based on cyto-and histochemical analyses.The sexual-asexual morph connection of Plenodomus sinensis is reported from ferns and Cirsium for the first time.In addition,the new host records and country records are Amanita altipes,A.melleialba,Amarenomyces dactylidis,Chaetosphaeria panamensis,Coniella vitis,Coprinopsis kubickae,Dothiorella sarmentorum,Leptobacillium leptobactrum var.calidus,Muyocopron lithocarpi,Neoroussoella solani,Periconia cortaderiae,Phragmocamarosporium hederae,Sphaerellopsis paraphysata and Sphaeropsis eucalypticola.
基金supported by the development special funds of Shenzhen strategic emerging industries and future industries(201708021308)the Shenzhen science and technology key project(JSGG20171013091238230).
文摘The advantages and disadvantages of giving a valid name to a sequence of DNA detected from environmental specimens is presently a hot debate amongst the mycological community.The idea of using intracellular DNA("mgDNA")from environmental samples as holotypes seems at face value,to be a good idea,considering the expansion of knowledge among these‘dark taxa’or‘dark matter fungi’that it could provide(i.e.sequence based taxa without physical specimens and formal nomenclature).However,the limitations of using mgDNA as holotypes needs careful thought,i.e.can we use a short mgDNA fragment,which may contain a small amount of genetic information,to allow discrimination between species?What is the point and are the potential problems of giving valid scientific names to mgDNA?Numerous mycologists and taxonomists,who have many years of experience working on the taxonomy and phylogeny of different groups of fungi,are concerned about the consequences of providing valid names to mgDNA.There has been much debate,through several publications on the considerable problems of using mgDNA as holotypes.The proponents have tried to debate the virtues of using mgDNA as holotypes.Those against have shown that identification to species using mgDNA does not work in many fungal groups,while those for have shown cases where species can be identified with mgDNA.Different disciplines have different reasons and opinions for using mgDNA as holotypes,however even groups of the same disciplines have dissimilar ideas.In this paper we explore the use of mgDNA as holotypes.We provide evidences and opinions as to the use of mgDNA as holotypes from our own experiences.In no way do we attempt to degrade the study of DNA from environmental samples and the expansion of knowledge in to the dark taxa,but relate the issues to fungal taxonomy.In fact we show the value of using sequence data from these approaches,in dealing with the discovery of already named taxa,taxa numbers and ecological roles.We discuss the advantages and the pitfalls of using mgDNA from environmental samples as holotypes.The impacts of expanding the nomenclatural concept to allow using mgDNA from environmental samples as holotypes are also discussed.We provide evidence from case studies on Botryosphaeria,Colletotrichum,Penicillium and Xylaria.The case studies show that we cannot use mgDNA due to their short fragments and the fact that most ITS sequence data presently result from environmental sequencing.We conclude from the evidence that it is highly undesirable to use mgDNA as holotypes in naming fungal species.If this approach adopted,it would result in numerous problems where species identification cannot be confirmed due to limited sequence data available for the holotypes.We also propose an alternative DNA-based system for naming DNA based species which would provide considerably less problems and should be adopted.