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Panoramic Insights into Microevolution and Macroevolution of A Prevotella copri-containing Lineage in Primate Guts

Genomics, Proteomics & Bioinformatics 2022年第2期20卷 334-349页

作者： Hao Li Jan P.Meier-Kolthoff Canxin Hu Zhongjie Wang Jun Zhu Wei Zheng Yun Tian Feng Guo School of Life Sciences Xiamen UniversityXiamen 361102China Department of Bioinformatics Leibniz Institute DSMZ–German Collection of Microorganisms and Cell CulturesD-38124 BraunschweigGermany Fujian Provincial Universities Key Laboratory of Microbial Resource Xiamen UniversityXiamen 361102China

Prevotella copri and its related taxa are widely detected in mammalian gut microbiomes and have been linked with an enterotype in ***,their microevolution and macroevolution among hosts are poorly *** this study,extensively collected marker genes and genomes were analyzed to trace their evolutionary history,host specificity,and biogeographic *** based on marker genes and genomes suggest that a ***-containing lineage(PCL)harbors diverse species in higher ***,*** in the human gut consisted of multiple groups exhibiting high genomic divergence and conspicuous but non-strict biogeographic *** African strains with high genomic divergence from other strains were phylogenetically located at the root of the species,indicating the co-evolutionary history of *** and Homo ***,although long-term co-evolution between PCL and higher primates was revealed,sporadic signals of co-speciation and extensive host jumping of PCL members were suggested among higher *** and phylogenetic analyses indicated that *** and other PCL species found in domesticated mammals had been recently transmitted from ***,strong evidence was found on the extensively horizontal transfer of genes(e.g.,genes encoding carbohydrate-active enzymes)among sympatric *** groups and PCL species in the same primate *** study provides panoramic insights into the combined effects of vertical and horizontal transmission,as well as potential niche adaptation,on the microevolutionary and macroevolutionary history for an enterotyperepresentative lineage.

关键词： Prevotella copri Co-speciation Gut microbiome Host Biogeography

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High quality genome sequences of thirteen Hypoxylaceae(Ascomycota)strengthen the phylogenetic family backbone and enable the discovery of new taxa

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Fungal Diversity 2021年第1期106卷 7-28页

作者： Daniel Wibberg Marc Stadler Christopher Lambert Boyke Bunk Cathrin Spröer Christian Rückert Jörn Kalinowski Russell JCox Eric Kuhnert Center for Biotechnology(CeBiTec) Bielefeld UniversityUniversitätsstraße 2733615 BielefeldGermany Department Microbial Drugs Helmholtz Centre for Infection Research(HZI)and German Centre for Infection Research(DZIF)Partner Site Hannover-BraunschweigInhoffenstrasse 738124 BraunschweigGermany leibniz-institute dsmz-german collection of microorganisms and cell cultures Inhoffenstraße 7B38124 BraunschweigGermany Centre of Biomolecular Drug Research(BMWZ) Institute for Organic ChemistryLeibniz University HannoverSchneiderberg 3830167 HannoverGermany

The Hypoxylaceae(Xylariales,Ascomycota)is a diverse family of mainly saprotrophic fungi,which commonly occur in angiosperm-dominated forests around the *** their importance in forest and plant ecology as well as a prolific source of secondary metabolites and enzymes,genome sequences of related taxa are scarce and usually derived from envi-ronmental *** address this lack of knowledge thirteen taxonomically well-defined representatives of the family and one member of the closely related Xylariaceae were genome sequenced using combinations of Illumina and Oxford nanopore technologies or PacBio *** workflow leads to high quality draft genome sequences with an average N50 of 3.0 Mbp.A backbone phylogenomic tree was calculated based on the amino acid sequences of 4912 core genes reflecting the current accepted taxonomic concept of the Hypoxylaceae.A Percentage of Conserved Proteins(POCP)analysis revealed that 70%of the proteins are conserved within the family,a value with potential application for the definition of family boundaries within the order ***,Hypomontagnella spongiphila is proposed as a new marine derived lineage of *** based on in-depth genomic comparison and morphological differences of the *** results showed that both species share 95%of their genes corresponding to more than 700 strain-specific *** difference is not reflected by standard taxonomic assessments(morphology of sexual and asexual morph,chemotaxonomy,phylogeny),preventing species delimitation based on traditional *** changes are likely to be the result of environmental adaptations and selective pressure,the driving force of *** data provide an important starting point for the establishment of a stable phylogeny of the Xylariales;they enable studies on evolution,ecological behavior and biosynthesis of natural products;and they significantly advance the taxonomy of fungi.

关键词： AAI ANI Cazyme Oxford nanopore Phylogenomics POCP Xylariales

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Trends in yeast diversity discovery

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Fungal Diversity 2022年第3期114卷 491-537页

作者： Teun Boekhout Anthony S.Amend Fouad El Baidouri Toni Gabaldón József Geml Moritz Mittelbach Vincent Robert Chen Shuhui Tan Benedetta Turchetti Duong Vu Qi-Ming Wang Andrey Yurkov Westerdijk institute of Fungal Biodiversity Uppsalalaan 83584CT UtrechtThe Netherlands institute of Biodiversity and Ecosystems Dynamics(IBED) University of AmsterdamSciencepark 9041098 XH AmsterdamThe Netherlands School of Life Sciences University of Hawaii at Manoa2538 McCarthy MallEdmonson 216HonoluluHI 96822USA Barcelona Supercomputing Centre(BSC-CNS) Jordi Girona2908034 BarcelonaSpain institute for Research in Biomedicine(IRB Barcelona) The Barcelona Institute of Science and TechnologyBaldiri Reixac1008028 BarcelonaSpain Catalan Institution for Research and Advanced Studies(ICREA) BarcelonaSpain MTA-EKE Lendület Environmental Microbiome Research Group Eszterházy Károly UniversityLeányka u.6.3300 EgerHungary Senate Department for the Environment Transport and Climate ProtectionBerlinGermany The Yeasts Foundation UtrechtThe Netherlands Department of Agriculture Food and Environmental SciencesUniversity of PerugiaPerugiaItaly Industrial Yeasts collection DBVPG University of PerugiaPerugiaItaly College of Life Sciences Institute of Life Sciences and Green DevelopmentHebei UniversityBaoding 071002HebeiChina leibniz institute dsmz-german collection of microorganisms and cell cultures BrunswickGermany

Yeasts,usually defined as unicellular fungi,occur in various fungal ***,they are not a taxonomic unit,but rather represent a fungal lifestyle shared by several unrelated *** the discovery of new yeast species occurs at an increasing speed,at the current rate it will likely take hundreds of years,if ever,before they will all be *** parts of the earth,including many threatened habitats,remain unsampled for yeasts and many others are only superficially *** habitats,such as glaciers,are home to a specific community of cold-adapted yeasts,and,hence,there is some urgency to study such environments at locations where they might disappear soon due to anthropogenic climate *** same is true for yeast communities in various natural forests that are impacted by deforestation and forest *** countries of the so-called Global South have not been sampled for yeasts,despite their economic ***,extensive research activity in Asia,especially China,has yielded many taxonomic *** genomics stud-ies have demonstrated the presence of yeast species with a hybrid origin,many of them isolated from clinical or industrial ***-metabarcoding studies have demonstrated the prevalence,and in some cases dominance,of yeast species in soils and marine waters worldwide,including some surprising distributions,such as the unexpected and likely common presence of Malassezia yeasts in marine habitats.

关键词： Yeasts Ascomycota Basidiomycota Diversity CBD Nagoya protocol Soil DNA-metabarcoding Marine Malassezia Cold environments China

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The evolving species concepts used for yeasts:from phenotypes and genomes to speciation networks

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Fungal Diversity 2021年第4期109卷 27-55页

作者： Teun Boekhout M.Catherine Aime Dominik Begerow Toni Gabaldón Joseph Heitman Martin Kemler Kantarawee Khayhan Marc-AndréLachance Edward J.Louis Sheng Sun Duong Vu Andrey Yurkov Westerdijk Fungal Biodiversity institute UtrechtThe Netherlands institute of Biodiversity and Ecosystem Dynamics(IBED) University of AmsterdamAmsterdamThe Netherlands Dept Botany and Plant Pathology College of AgriculturePurdue UniversityWest LafayetteIN 47907USA Evolution of Plants and Fungi Ruhr-University Bochum44801 BochumGermany Barcelona Supercomputing Centre(BSC-CNS) Jordi Girona2908034 BarcelonaSpain institute for Research in Biomedicine(IRB Barcelona) The Barcelona Institute of Science and TechnologyBaldiri Reixac1008028 BarcelonaSpain Catalan Institution for Research and Advanced Studies(ICREA) BarcelonaSpain Department of Molecular Genetics and Microbiology Duke University Medical CenterDurhamNC 27710USA Department of Microbiology and Parasitology Faculty of Medical SciencesUniversity of PhayaoPhayao 56000Thailand Department of Biology University of Western OntarioLondonON N6A 5B7Canada Department of Genetics and Genome Biology Genetic Architecture of Complex TraitsUniversity of LeicesterLeicester LE17RHUK german collection of microorganisms and cell cultures Leibniz Institute DSMZBrunswickGermany

Here we review how evolving species concepts have been applied to understand yeast ***,a phenotypic species concept was utilized taking into consideration morphological aspects of colonies and cells,and growth *** the biological species concept was added,which applied data from mating *** measurements of DNA similarity between isolates were an early measure that became more broadly applied with the advent of sequencing technology,leading to a sequence-based species concept using comparisons of parts of the ribosomal *** present phylogenetic species concepts that employ sequence data of rDNA and other genes are universally applied in fungal taxonomy,including yeasts,because various studies revealed a relatively good correlation between the biological species concept and sequence *** application of genome information is becoming increasingly common,and we strongly recommend the use of complete,rather than draft genomes to improve our understanding of species and their genome and genetic *** genomes allow in-depth comparisons on the evolvability of genomes and,consequently,of the species to which they *** seems a relatively common phenomenon and has been observed in all major fungal lineages that contain *** that hybrids may greatly differ in their post-hybridization *** in-depth studies,initially using some model species or complexes may shift the traditional species concept as isolated clusters of genetically compatible isolates to a cohesive speciation network in which such clusters are interconnected by genetic processes,such as hybridization.

关键词： Fungi Species concepts Comparative genomics Hybrids Nomenclature Taxonomy

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Species diversity of Basidiomycota

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Fungal Diversity 2022年第3期114卷 281-325页

作者： Mao-Qiang He Rui-Lin Zhao Dong-Mei Liu Teodor T.Denchev Dominik Begerow Andrey Yurkov Martin Kemler Ana M.Millanes Mats Wedin A.R.McTaggart Roger G.Shivas Bart Buyck Jie Chen Alfredo Vizzini Viktor Papp Ivan V.Zmitrovich Naveed Davoodian Kevin D.Hyde State Key Laboratory of Mycology Institute of MicrobiologyChinese Academy of SciencesBeijing 100101People’s Republic of China College of Life Sciences University of Chinese Academy of SciencesHuairou DistrictBeijing 100408People’s Republic of China institute of Ecology Chinese Reserach Academy of Environmental SciencesBeijing 100012People’s Republic of China institute of Biodiversity and Ecosystem Research Bulgarian Academy of Sciences2 Gagarin St.1113 SofiaBulgaria Evolution der Pflanzen und Pilze Ruhr-Universität BochumND 03Universitätsstr.15044801 BochumGermany leibniz institute dsmz-german collection of microorganisms and cell cultures Inhoffenstraße 7B38124 BraunschweigGermany Departamento de Biología y Geología Física y Química InorgánicaUniversidad Rey Juan Carlos28933 MóstolesSpain Department of Botany Swedish Museum of Natural HistoryP.O.Box 5000710405 StockholmSweden Queensland Alliance for Agriculture and Food Innovation The University of QueenslandBrisbane 4001Australia Centre for Crop Health University of Southern QueenslandToowoomba 4350Australia Institut pour Systematique EcologieBiodiversite(ISYEBUMR 7205)Sorbonne universitéMuséum National d’Histoire Naturelle CP 39CNRSDépartement Origines et Evolution12 Rue Buffon75005 ParisFrance Facultad de Ciencias Biológicas y Agropecuarias PeñuelaUniversidad VeracruzanaAmatlán de los Reyes94945 VeracruzMéxico Dipartimento di Scienze della Vita e Biologia dei Sistemi Universitàdi TorinoViale P.A.Mattioli 2510125 TorinoItaly Department of Botany Hungarian University of Agriculture and Life Sciences1518 BudapestHungary Komarov Botanical institute Russian Academy of SciencesProfessor Popov st.2Saint PetersburgRussia 197376 Royal Botanic Gardens Victoria Birdwood AvenueMelbourneVIC 3004Australia Center of Excellence in Fungal Research Mae Fah Luang UniversityChiang Rai 57100Thailand CAS Key Laboratory for Plant Biodiversity and Biogeography of East Asia(KLPB) Kunming Institute of BotanyChinese Academy of Science

Fungi are eukaryotes that play essential roles in *** fungi,Basidiomycota is one of the major phyla with more than 40,000 described *** review species diversity of Basidiomycota from five groups with different lifestyles or habitats:saprobic in grass/forest litter,wood-decaying,yeast-like,ectomycorrhizal,and plant *** studies of Agaricus,Cantharellus,Ganoderma,Gyroporus,Russula,Tricholoma,and groups of lichenicolous yeast-like fungi,rust fungi,and smut fungi are used to determine trends in discovery of *** each case study,the number of new species published during 2009–2020 is analysed to determine the rate of *** rates differ between taxa and reflect different states of progress for species discovery in different *** results showed that lichenicolous yeast-like taxa had the highest publication rate for new species in the past two decades,and it is likely this trend will continue in the next *** species discovery rate of plant parasitic basidiomycetes was low in the past ten years,and remained constant in the past 50 *** also found that the establishment of comprehensive and robust taxonomic systems based on a joint global initiative by mycologists could promote and standardize the recognition of *** estimated that more than 54,000 species of Basidiomycota will be discovered by 2030,and estimate a total of 1.4–4.2 million species of Basidiomycota *** numbers illustrate a huge gap between the described and yet unknown diversity in Basidiomycota.

关键词： Biodiversity Fungi Species number Taxonomy

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Delimiting species in Basidiomycota:a review

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Fungal Diversity 2021年第4期109卷 181-237页

作者： Bin Cao Danny Haelewaters Nathan Schoutteten Dominik Begerow Teun Boekhout Admir J.Giachini Sergio P.Gorjón Nina Gunde-Cimerman Kevin D.Hyde Martin Kemler Guo-Jie Li Dong-Mei Liu Xin-Zhan Liu Jorinde Nuytinck Viktor Papp Anton Savchenko Kyryll Savchenko Leho Tedersoo Bart Theelen Marco Thines Michal Tomšovský Merje Toome-Heller Judith P.Urón Annemieke Verbeken Alfredo Vizzini Andrey M.Yurkov Juan Carlos Zamora Rui-Lin Zhao State Key Laboratory of Mycology Institute of MicrobiologyChinese Academy of SciencesBeijing 100101China Faculty of Science University of South Bohemia37005ČeskéBudějoviceCzech Republic Research Group Mycology Department of BiologyGhent University9000 GhentBelgium Department of Botany and Plant Pathology College of AgriculturePurdue UniversityWest LafayetteIN 47907USA Department of Geobotany Ruhr-Universität Bochum44801 BochumGermany Westerdijk Fungal Biodiversity institute 3508 AD UtrechtThe Netherlands institute of Biodiversity and Ecosystem Dynamics University of Amsterdam1090 GE AmsterdamThe Netherlands Department of Microbiology Universidade Federal de Santa CatarinaFlorianópolisSC 88040-900Brazil Department of Botany and Plant Physiology University of Salamanca37007 SalamancaSpain Department of Biology Biotechnical FacultyUniversity of Ljubljana1000 LjubljanaSlovenia Center of Excellence in Fungal Research Mae Fah Luang UniversityChiang Rai 57100Thailand Innovative institute of Plant Health Zhongkai University of Agriculture and EngineeringHaizhu DistrictGuangzhou 510225China CAS Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of ScienceKunming 650201YunnanChina Key Laboratory of Vegetable Germplasm Innovation and Utilization of Hebei Collaborative Innovation Center of VegetableCollege of HorticultureHebei Agricultural UniversityBaoding 071001Hebei ProvinceChina institute of Ecology Chinese Research Academy of Environmental SciencesBeijing 100012China Naturalis Biodiversity Center 2300 RA LeidenThe Netherlands Department of Botany Institute of AgronomyHungarian University of Agriculture and Life Sciences1518 BudapestHungary institute of Ecology&Earth Sciences University of Tartu51014 TartuEstonia Department of Biological Sciences Butler UniversityIndianapolisIN 46219USA Center of Mycology and Microbiology University of Tartu14a Ravila50411 TartuEstonia Senckenberg Biodiversity and Climate Researc

Species delimitation is one of the most fundamental processes in *** undertakings,for instance,require explicit species concepts and criteria for species delimitation in order to be relevant and ***,a perfect species concept does not exist for ***,we review the species concepts commonly used in Basidiomycota,the second largest phylum of Fungi that contains some of the best known species of mushrooms,rusts,smuts,and jelly *** general,best practice is to delimitate species,publish new taxa,and conduct taxonomic revisions based on as many independent lines of evidence as possible,that is,by applying a so-called unifying(or integrative)conceptual ***,the types of data used vary considerably from group to *** this reason we discuss the different classes of Basidiomycota,and for each provide:(i)a general introduction with difficulties faced in species recognition,(ii)species concepts and methods for species delimitation,and(iii)community recommendations and conclusions.

关键词： Biological species concept Morphological species concept Phylogenetic species concept Taxonomy

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Correction to:The evolving species concepts used for yeasts:from phenotypes and genomes to speciation networks

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Fungal Diversity 2021年第4期109卷 57-57页

The name of the second author was incorrectly captured in the initial online publication,and due to an error at the proofs stage,several proof corrections had been left *** original online article has been corrected.

关键词： proof correction corrected

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Notes for genera:Ascomycota

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Fungal Diversity 2017年第5期86卷 1-594页

作者： Nalin N.Wijayawardene Kevin D.Hyde Kunhiraman C.Rajeshkumar David L.Hawksworth Hugo Madrid Paul M.Kirk Uwe Braun Rajshree V.Singh Pedro W.Crous Martin Kukwa Robert Lücking Cletus P.Kurtzman Andrey Yurkov Danny Haelewaters Andre´Aptroot H.Thorsten Lumbsch Einar Timdal Damien Ertz Javier Etayo Alan J.L.Phillips Johannes Z.Groenewald Moslem Papizadeh Laura Selbmann Monika C.Dayarathne Gothamie Weerakoon E.B.Gareth Jones Satinee Suetrong Qing Tian Rafael F.Castanda-Ruiz Ali H.Bahkali Ka-Lai Pang Kazuaki Tanaka Dong Qin Dai Jariya Sakayaroj Martina Hujslová Lorenzo Lombard Belle D.Shenoy Ave Suija Sajeewa S.N.Maharachchikumbura Kasun M.Thambugala Dhanushka N.Wanasinghe Bharati O.Sharma Subhash Gaikwad Gargee Pandit Laura Zucconi Silvano Onofri Eleonora Egidi Huzefa A.Raja Rampai Kodsueb Marcela E.S.Caceres Sergio Perez-Ortega Patrícia O.Fiuza Josiane Santana Monteiro Larissa N.Vasilyeva Roger G.Shivas Maria Prieto Mats Wedin Ibai Olariaga Adebola Azeez Lateef Yamini Agrawal Seyed Abolhassan Shahzadeh Fazeli Mohammad Ali Amoozegar Guo Zhu Zhao Walter P.Pfliegler Gunjan Sharma Magdalena Oset Mohamed A.Abdel-Wahab Susumu Takamatsu Konstanze Bensch Nimali Indeewari de Silva AndréDe Kesel Anuruddha Karunarathna Saranyaphat Boonmee Donald H.Pfister Yong-Zhong Lu Zong-Long Luo Nattawut Boonyuen Dinushani A.Daranagama Indunil C.Senanayake Subashini C.Jayasiri Milan C.Samarakoon Xiang-Yu Zeng Mingkwan Doilom Luis Quijada Sillma Rampadarath Gabriela Heredia Asha J.Dissanayake Ruvishika S.Jayawardana Rekhani H.Perera Li Zhou Tang Chayanard Phukhamsakda Margarita Hernańdez-Restrepo Xiaoya Ma Saowaluck Tibpromma Luis F.P.Gusmao Darshani Weerahewa Samantha C.Karunarathna Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of ScienceKunming 650201YunnanPeople’s Republic of China Center of Excellence in Fungal Research Mae Fah Luang UniversityChiang Rai 57100Thailand World Agroforestry Centre East and Central AsiaKunming 650201YunnanPeople’s Republic of China Mushroom Research Foundation 128 M.3 Ban Pa Deng T.Pa PaeA.Mae TaengChiang Mai 50150Thailand National Fungal Culture collection of India(NFCCI) Biodiversity and Palaeobiology(Fungi)GroupAgharkar Research InstitutePuneMaharashtra 411004India Royal Botanic Gardens KewRichmondSurrey TW93DSUK Department of Life Sciences The Natural History MuseumCromwell RoadLondon SW75BDUK Jilin Agricultural University Changchun 130118JilinPeople’s Republic of China Centro de Geno´mica y Bioinforma´tica Facultad de CienciasUniversidad Mayor de ChileCamino La Pira´mide 5750HuechurabaSantiagoChile Martin-Luther-Universita¨t Institut fu¨r BiologieBereich Geobotanik und Botanischer GartenHerbariumNeuwerk 2106099 Halle(Saale)Germany Westerdijk Fungal Biodiversity institute Uppsalalaan 83584 CT UtrechtThe Netherlands Department of Plant Taxonomy and Nature Conservation Faculty of BiologyUniversity of Gdan´skWita Stwosza 5980-308 Gdan´skPoland Botanic Garden and Botanical Museum Königin-Luise-Str.6-814195 BerlinGermany Mycotoxin Prevention and Applied Microbiology Research Unit National Center for Agricultural Utilization ResearchAgricultural Research ServiceU.S.Department of AgriculturePeoriaIL 61604USA leibniz institute dsmz-german collection of microorganisms and cell cultures Inhoffenstraße 7B38124 BrunswickGermany Farlow Reference Library and Herbarium of Cryptogamic Botany Harvard University22 Divinity AvenueCambridgeMA 02138USA Department of Organismic and Evolutionary Biology Harvard University22 Divinity AvenueCambridgeMA 02138USA ABL Herbarium G.v.d.Veenstraat 1073762 XK SoestThe Netherlands Science&Education The Field Museum1400

Knowledge of the relationships and thus the classification of fungi,has developed rapidly with increasingly widespread use of molecular techniques,over the past 10–15 years,and continues to *** genera have been found to be polyphyletic,and their generic concepts have subsequently been *** names have thus been introduced for species which are phylogenetically distinct from the type species of particular *** ending of the separate naming of morphs of the same species in 2011,has also caused changes in fungal generic *** order to facilitate access to all important changes,it was desirable to compile these in a single *** present article provides a list of generic names of Ascomycota(approximately 6500 accepted names published to the end of 2016),including those which are *** and summaries of the changes since the last edition of‘Ainsworth&Bisby’s Dictionary of the Fungi’in 2008 are *** notes include the number of accepted species,classification,type species(with location of the type material),culture availability,life-styles,distribution,and selected publications that have appeared since *** work is intended to provide the foundation for updating the ascomycete component of the"Without prejudice list of generic names of Fungi"published in 2013,which will be developed into a list of protected generic *** will be subjected to the XIXth International Botanical Congress in Shenzhen in July 2017 agreeing to a modification in the rules relating to protected lists,and scrutiny by procedures determined by the Nomenclature Committee for Fungi(NCF).The previously invalidly published generic names Barriopsis,Collophora(as Collophorina),Cryomyces,Dematiopleospora,Heterospora(as Heterosporicola),Lithophila,Palmomyces(as Palmaria)and Saxomyces are validated,as are two previously invalid family names,Bartaliniaceae and *** species of Lalaria,which were invalidly published are trans

关键词： Article 59 Classification One name Pleomorphic fungi Taxonomy

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Notes,outline and divergence times of Basidiomycota

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Fungal Diversity 2019年第6期99卷 105-367页

作者： Mao-Qiang He Rui-Lin Zhao Kevin D.Hyde Dominik Begerow Martin Kemler Andrey Yurkov Eric H.C.McKenzie Olivier Raspe Makoto Kakishima Santiago Sanchez-Ramırez Else C.Vellinga Roy Halling Viktor Papp Ivan V.Zmitrovich Bart Buyck Damien Ertz Nalin N.Wijayawardene Bao-Kai Cui Nathan Schoutteten Xin-Zhan Liu Tai-Hui Li Yi-Jian Yao Xin-Yu Zhu An-Qi Liu Guo-Jie Li Ming-Zhe Zhang Zhi-Lin Ling Bin Cao Vladimir Antonin Teun Boekhout Bianca Denise Barbosa da Silva Eske De Crop Cony Decock Balint Dima Arun Kumar Dutta Jack W.Fell Jozsef Geml Masoomeh Ghobad-Nejhad Admir J.Giachini Tatiana B.Gibertoni Sergio P.Gorjon Danny Haelewaters Shuang-Hui He Brendan P.Hodkinson Egon Horak Tamotsu Hoshino Alfredo Justo Young Woon Lim Nelson Menolli Jr Armin Mesic Jean-Marc Moncalvo Gregory M.Mueller La szlo G.Nagy RHenrik Nilsson Machiel Noordeloos Jorinde Nuytinck Takamichi Orihara Cheewangkoon Ratchadawan Mario Rajchenberg Alexandre G.S.Silva-Filho Marcelo Aloisio Sulzbacher Zdenko Tkalcec Ricardo Valenzuela Annemieke Verbeken Alfredo Vizzini Felipe Wartchow Tie-Zheng Wei Michael WeiB Chang-Lin Zhao Paul M.Kirk State Key Laboratory of Mycology Institute of MicrobiologyChinese Academy of SciencesBeijing 100101People’s Republic of China Department of Entomology and Plant Pathology Faculty of AgricultureChiang Mai UniversityChiang Mai 50200Thailand Center of Excellence in Fungal Research Mae Fah Luang UniversityChiang Rai 57100Thailand College of Life Sciences University of Chinese Academy of SciencesHuairou DistrictBeijing 100408People’s Republic of China Ruhr-Universitat Bochum AG GeobotanikND03UniversitatsstraBe 15044801 BochumGermany leibniz institute dsmz-german collection of microorganisms and cell cultures InhoffenstraBe 7B38124 BrunswickGermany Manaaki Whenua-Landcare Research Private Bag 92170AucklandNew Zealand Research Department Meise Botanic GardenNieuwelaan 381860 MeiseBelgium Service General de l'Enseignement superieur et de la Recherche scientifique Federation Wallonie-BruxellesLavallee 11080 BrusselsBelgium University of Tsukuba TsukubaIbaraki 305-8572Japan Department of Ecology and Evolutionary Biology University of Toronto25 Willcocks St.TorontoON M5S 3B2Canada Berkeley USA institute of Systematic Botany The New York Botanical GardenBronxNY 10458-5126USA Department of Botany Szent Istvan University1518 BudapestHungary Komarov Botanical institute Russian Academy of SciencesProfessor Popov st.2Saint PetersburgRussia 197376 Institut pour Systematique Ecologie Biodiversite(ISYEB UMR 7205) Sorbonne universiteMuseum National d’Histoire Naturelle CP 39CNRSDepartement Origines et Evolution12 Rue Buffon75005 ParisFrance institute of Microbiology Beijing Forestry UniversityBeijing 100083People’s Republic of China Department of Biology Research Group MycologyGhent UniversityK.L.Ledeganckstraat 359000 GhentBelgium State Key Laboratory of Applied Microbiology Southern China Guangdong Provincial Key Laboratory of Microbial Culture Collection and ApplicationGuangdong Institute of MicrobiologyGuangzhou 510070People’s Republic of China Department of Botany Moravian Mu

The Basidiomycota constitutes a major phylum of the kingdom Fungi and is second in species numbers to the *** present work provides an overview of all validly published,currently used basidiomycete genera to date in a single *** 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 *** provide brief notes for each accepted genus including information on classification,number of accepted species,type species,life mode,habitat,distribution,and sequence ***,three phylogenetic analyses with combined LSU,SSU,5.8s,rpb1,rpb2,and ef1 datasets for the subphyla Agaricomycotina,Pucciniomycotina and Ustilaginomycotina are conducted,*** time estimates are provided to the family level with 632 species from 62 orders,168 families and 605 *** 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 *** 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 *** 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.

关键词： Classification Molecular clock Fungi Systematics Taxonomy

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