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Assembling the fungal tree of life: progress, classification, and evolution of subcellular traits
Author(s) -
Lutzoni François,
Kauff Frank,
Cox Cymon J.,
McLaughlin David,
Celio Gail,
Dentinger Bryn,
Padamsee Mahajabeen,
Hibbett David,
James Timothy Y.,
Baloch Elisabeth,
Grube Martin,
Reeb Valérie,
Hofstetter Valérie,
Schoch Conrad,
Arnold A. Elizabeth,
Miadlikowska Jolanta,
Spatafora Joseph,
Johnson Desiree,
Hambleton Sarah,
Crockett Michael,
Shoemaker Robert,
Sung GiHo,
Lücking Robert,
Lumbsch Thorsten,
O'Donnell Kerry,
Binder Manfred,
Diederich Paul,
Ertz Damien,
Gueidan Cécile,
Hansen Karen,
Harris Richard C.,
Hosaka Kentaro,
Lim YoungWoon,
Matheny Brandon,
Nishida Hiromi,
Pfister Don,
Rogers Jack,
Rossman Amy,
Schmitt Imke,
Sipman Harrie,
Stone Jeffrey,
Sugiyama Junta,
Yahr Rebecca,
Vilgalys Rytas
Publication year - 2004
Publication title -
american journal of botany
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.218
H-Index - 151
eISSN - 1537-2197
pISSN - 0002-9122
DOI - 10.3732/ajb.91.10.1446
Subject(s) - biology , basidiomycota , ascomycota , phylogenetic tree , locus (genetics) , phylogenetics , evolutionary biology , chytridiomycota , botany , genetics , gene
Based on an overview of progress in molecular systematics of the true fungi (Fungi/Eumycota) since 1990, little overlap was found among single‐locus data matrices, which explains why no large‐scale multilocus phylogenetic analysis had been undertaken to reveal deep relationships among fungi. As part of the project “Assembling the Fungal Tree of Life” (AFTOL), results of four Bayesian analyses are reported with complementary bootstrap assessment of phylogenetic confidence based on (1) a combined two‐locus data set (nucSSU and nucLSU rDNA) with 558 species representing all traditionally recognized fungal phyla (Ascomycota, Basidiomycota, Chytridiomycota, Zygomycota) and the Glomeromycota, (2) a combined three‐locus data set (nucSSU, nucLSU, and mitSSU rDNA) with 236 species, (3) a combined three‐locus data set (nucSSU, nucLSU rDNA, and RPB2 ) with 157 species, and (4) a combined four‐locus data set (nucSSU, nucLSU, mitSSU rDNA, and RPB2 ) with 103 species. Because of the lack of complementarity among single‐locus data sets, the last three analyses included only members of the Ascomycota and Basidiomycota. The four‐locus analysis resolved multiple deep relationships within the Ascomycota and Basidiomycota that were not revealed previously or that received only weak support in previous studies. The impact of this newly discovered phylogenetic structure on supraordinal classifications is discussed. Based on these results and reanalysis of subcellular data, current knowledge of the evolution of septal features of fungal hyphae is synthesized, and a preliminary reassessment of ascomal evolution is presented. Based on previously unpublished data and sequences from GenBank, this study provides a phylogenetic synthesis for the Fungi and a framework for future phylogenetic studies on fungi.