Basidiomycota is one of the major phyla in the fungal tree of life.The outline of Basidiomycota provides essential taxonomic information for researchers and workers in mycology.In this study,we present a time-framed p...Basidiomycota is one of the major phyla in the fungal tree of life.The outline of Basidiomycota provides essential taxonomic information for researchers and workers in mycology.In this study,we present a time-framed phylogenomic tree with 487 species of Basidiomycota from 127 families,47 orders,14 classes and four subphyla;we update the outline of Basidiomycota based on the phylogenomic relationships and the taxonomic studies since 2019;and we provide notes for each order and discuss the history,defining characteristics,evolution,justification of orders,problems,significance,and plates.Our phylogenomic analysis suggests that the subphyla diverged in a time range of 443-490 Myr(million years),classes in a time range of 312-412 Myr,and orders in a time range of 102-361 Myr.Families diverged in a time range of 50-289 Myr,76-224 Myr,and 62-156 Myr in Agaricomycotina,Pucciniomycotina,and Ustilaginomycotina,respectively.Based on the phylogenomic relationships and divergence times,we propose a new suborder Mycenineae in Agaricales to accommodate Mycenaceae.In the current outline of Basidiomycota,there are four subphyla,20 classes,77 orders,297 families,and 2134 genera accepted.When building a robust taxonomy of Basidiomycota in the genomic era,the generation of molecular phylogenetic data has become relatively easier.Finding phenotypical characters,especially those that can be applied for identification and classification,however,has become increasingly challenging.展开更多
Fungi are one of the most diverse groups of organisms with an estimated number of species in the range of 2–3 million.The higher-level ranking of fungi has been discussed in the framework of molecular phylogenetics s...Fungi are one of the most diverse groups of organisms with an estimated number of species in the range of 2–3 million.The higher-level ranking of fungi has been discussed in the framework of molecular phylogenetics since Hibbett et al.,and the definition and the higher ranks(e.g.,phyla)of the‘true fungi’have been revised in several subsequent publications.Rapid accumulation of novel genomic data and the advancements in phylogenetics now facilitate a robust and precise foundation for the higher-level classification within the kingdom.This study provides an updated classification of the kingdom Fungi,drawing upon a comprehensive phylogenomic analysis of Holomycota,with which we outline well-supported nodes of the fungal tree and explore more contentious groupings.We accept 19 phyla of Fungi,viz.Aphelidiomycota,Ascomycota,Basidiobolomycota,Basidiomycota,Blastocladiomycota,Calcarisporiellomycota,Chytridiomycota,Entomophthoromycota,Entorrhizomycota,Glomeromycota,Kickxellomycota,Monoblepharomycota,Mortierellomycota,Mucoromycota,Neocallimastigomycota,Olpidiomycota,Rozellomycota,Sanchytriomycota,and Zoopagomycota.In the phylogenies,Caulochytriomycota resides in Chytridiomycota;thus,the former is regarded as a synonym of the latter,while Caulochytriomycetes is viewed as a class in Chytridiomycota.We provide a description of each phylum followed by its classes.A new subphylum,Sanchytriomycotina Karpov is introduced as the only subphylum in Sanchytriomycota.The subclass Pneumocystomycetidae Kirk et al.in Pneumocystomycetes,Ascomycota is invalid and thus validated.Placements of fossil fungi in phyla and classes are also discussed,providing examples.展开更多
Fungi are one of the most diverse groups of organisms with an estimated number of species in the range of 2-3 million.The higher-level ranking of fungi has been discussed in the framework of molecular phylogenetics si...Fungi are one of the most diverse groups of organisms with an estimated number of species in the range of 2-3 million.The higher-level ranking of fungi has been discussed in the framework of molecular phylogenetics since Hibbett et al.,and the definition and the higher ranks(e.g.,phyla)of the‘true fungi’have been revised in several subsequent publications.Rapid accumulation of novel genomic data and the advancements in phylogenetics now facilitate a robust and precise foundation for the higher-level classification within the kingdom.This study provides an updated classification of the kingdom Fungi,drawing upon a comprehensive phylogenomic analysis of Holomycota,with which we outline well-supported nodes of the fungal tree and explore more contentious groupings.We accept 19 phyla of Fungi,viz.Aphelidiomycota,Ascomycota,Basidiobolomycota,Basidiomycota,Blastocladiomycota,Calcarisporiellomycota,Chytridiomycota,Entomophthoromycota,Entorrhizomycota,Glomeromycota,Kickxellomycota,Monoblepharomycota,Mortierellomycota,Mucoromycota,Neocal-limastigomycota,Olpidiomycota,Rozellomycota,Sanchytriomycota,and Zoopagomycota.In the phylogenies,Caulochy-triomycota resides in Chytridiomycota;thus,the former is regarded as a synonym of the latter,while Caulochytriomycetes is viewed as a class in Chytridiomycota.We provide a description of each phylum followed by its classes.A new subphylum,Sanchytriomycotina Karpov is introduced as the only subphylum in Sanchytriomycota.The subclass Pneumocystomycetidae Kirk et al.in Pneumocystomycetes,Ascomycota is invalid and thus validated.Placements of fossil fungi in phyla and classes are also discussed,providing examples.展开更多
基金provided by National Natural Science Foundation of China(Grant nos.32100011,31961143010,31970010,31470152)China Postdoctoral Science Foundation(Grant no.2021M693361)+3 种基金National Key R&D Program of China project”Accurate identification and innovative utilization of germplasm resources of edible mushrooms suitable for factory cultivation(Grant no.2022YFD1200605)Beijing Innovation Consortium of Agriculture Research System(Grant no.BAIC03-01)Biological Resources Programme,Chinese Academy of Sciences(Grant no.KFJ-BRP-009-003)Survey of Wildlife Resources in Key Areas of Tibet(Grant no.ZL202203601).
文摘Basidiomycota is one of the major phyla in the fungal tree of life.The outline of Basidiomycota provides essential taxonomic information for researchers and workers in mycology.In this study,we present a time-framed phylogenomic tree with 487 species of Basidiomycota from 127 families,47 orders,14 classes and four subphyla;we update the outline of Basidiomycota based on the phylogenomic relationships and the taxonomic studies since 2019;and we provide notes for each order and discuss the history,defining characteristics,evolution,justification of orders,problems,significance,and plates.Our phylogenomic analysis suggests that the subphyla diverged in a time range of 443-490 Myr(million years),classes in a time range of 312-412 Myr,and orders in a time range of 102-361 Myr.Families diverged in a time range of 50-289 Myr,76-224 Myr,and 62-156 Myr in Agaricomycotina,Pucciniomycotina,and Ustilaginomycotina,respectively.Based on the phylogenomic relationships and divergence times,we propose a new suborder Mycenineae in Agaricales to accommodate Mycenaceae.In the current outline of Basidiomycota,there are four subphyla,20 classes,77 orders,297 families,and 2134 genera accepted.When building a robust taxonomy of Basidiomycota in the genomic era,the generation of molecular phylogenetic data has become relatively easier.Finding phenotypical characters,especially those that can be applied for identification and classification,however,has become increasingly challenging.
基金provide by National Natural Science Foundation of China(Nos.32460002,31960005,32000009,32170019,NSFC 32260004)ussian Science Foundation(Nos.24-44-00099,23-74-00071,24-44-00099)+14 种基金National Research Council of Thailand(No.N42A650547)National Institute of Nursing Research(1P20GM152333-01)National Science Foundation(2029478)Japan Society for the Promotion of Science(JSPS,23K05900)National Science Foundation of China(32150410362)Croatian Science Foundation(HRZZIP-2022-10-5219)RSF(21-74-20089)ZIN RAS(122031100260-0)Science and Technology Human Resource Development Project(R3RJ2)Asian Development Bank,Conselho Naional de Desenvolvimento Científico e Tecnológico(306632/2022-5),zygosporic fungi in the Atlantic Forest of Pernambuco and Paraiba,Brazil(FACEPE–APQ-1346-2.12/22),Agriculture Sci-Tech Renovation(XJNKYWDZC–2022004)Research Foundation—Flanders(1206024N),FWF(P31038)Talent Recruitment Plan of Yunnan Province“High-End Foreign Experts,National Centre for Research and Development,Poland”(Tango-IV-C/0005/2019)CAS President’s International Fellowship Initiative(2021FYB0005)Smart Yunnan Project(E13K281261)High-Level Talent Recruitment Plan of Yunnan Provinces.
文摘Fungi are one of the most diverse groups of organisms with an estimated number of species in the range of 2–3 million.The higher-level ranking of fungi has been discussed in the framework of molecular phylogenetics since Hibbett et al.,and the definition and the higher ranks(e.g.,phyla)of the‘true fungi’have been revised in several subsequent publications.Rapid accumulation of novel genomic data and the advancements in phylogenetics now facilitate a robust and precise foundation for the higher-level classification within the kingdom.This study provides an updated classification of the kingdom Fungi,drawing upon a comprehensive phylogenomic analysis of Holomycota,with which we outline well-supported nodes of the fungal tree and explore more contentious groupings.We accept 19 phyla of Fungi,viz.Aphelidiomycota,Ascomycota,Basidiobolomycota,Basidiomycota,Blastocladiomycota,Calcarisporiellomycota,Chytridiomycota,Entomophthoromycota,Entorrhizomycota,Glomeromycota,Kickxellomycota,Monoblepharomycota,Mortierellomycota,Mucoromycota,Neocallimastigomycota,Olpidiomycota,Rozellomycota,Sanchytriomycota,and Zoopagomycota.In the phylogenies,Caulochytriomycota resides in Chytridiomycota;thus,the former is regarded as a synonym of the latter,while Caulochytriomycetes is viewed as a class in Chytridiomycota.We provide a description of each phylum followed by its classes.A new subphylum,Sanchytriomycotina Karpov is introduced as the only subphylum in Sanchytriomycota.The subclass Pneumocystomycetidae Kirk et al.in Pneumocystomycetes,Ascomycota is invalid and thus validated.Placements of fossil fungi in phyla and classes are also discussed,providing examples.
基金provide by National Natural Science Foundation of China(Nos.32460002,31960005,32000009,32170019,NSFC 32260004)Russian Science Foundation(Nos.24-44-00099,23-74-00071,24-44-00099)+17 种基金National Research Council of Thailand(No.N42A650547)National Institute of Nursing Research(1P20GM152333-01)National Science Foundation(2029478)Japan Society for the Promotion of Science(JSPS,23K05900)National Science Foundation of China(32150410362)Croatian Science Foundation(HRZZ-IP-2022-10-5219)RSF(21-74-20089)ZIN RAS(122031100260-0)Science and Technology Human Resource Development Project(R3RJ2)Asian Development Bank,Conselho Naional de Desenvolvimento Científico e Tecnológico(306632/2022-5)zygosporic fungi in the Atlantic Forest of Pernambuco and Paraíba,Brazil(FACEPE-APQ-1346-2.12/22)Agriculture Sci-Tech Renovation(XJNKYWDZC-2022004)Research Foundation-Flanders(1206024N)FWF(P31038)Talent Recruitment Plan of Yunnan Province“High-End Foreign Experts”,National Centre for Research and Development,Poland(Tango-Ⅳ-C/0005/2019)CAS President’s International Fellowship Initiative(2021FYB0005)Smart Yunnan Project(E13K281261)High-Level Talent Recruitment Plan of Yunnan Provinces.
文摘Fungi are one of the most diverse groups of organisms with an estimated number of species in the range of 2-3 million.The higher-level ranking of fungi has been discussed in the framework of molecular phylogenetics since Hibbett et al.,and the definition and the higher ranks(e.g.,phyla)of the‘true fungi’have been revised in several subsequent publications.Rapid accumulation of novel genomic data and the advancements in phylogenetics now facilitate a robust and precise foundation for the higher-level classification within the kingdom.This study provides an updated classification of the kingdom Fungi,drawing upon a comprehensive phylogenomic analysis of Holomycota,with which we outline well-supported nodes of the fungal tree and explore more contentious groupings.We accept 19 phyla of Fungi,viz.Aphelidiomycota,Ascomycota,Basidiobolomycota,Basidiomycota,Blastocladiomycota,Calcarisporiellomycota,Chytridiomycota,Entomophthoromycota,Entorrhizomycota,Glomeromycota,Kickxellomycota,Monoblepharomycota,Mortierellomycota,Mucoromycota,Neocal-limastigomycota,Olpidiomycota,Rozellomycota,Sanchytriomycota,and Zoopagomycota.In the phylogenies,Caulochy-triomycota resides in Chytridiomycota;thus,the former is regarded as a synonym of the latter,while Caulochytriomycetes is viewed as a class in Chytridiomycota.We provide a description of each phylum followed by its classes.A new subphylum,Sanchytriomycotina Karpov is introduced as the only subphylum in Sanchytriomycota.The subclass Pneumocystomycetidae Kirk et al.in Pneumocystomycetes,Ascomycota is invalid and thus validated.Placements of fossil fungi in phyla and classes are also discussed,providing examples.
