Contributions of rpb2 and tef1 to the phylogeny of mushrooms and allies (Basidiomycota, Fungi)
Matheny, P. Brandon; Wang, Zheng; Binder, Manfred; Curtis, Judd M.; Lim, Young Woon; Nilsson, R. Henrik; Hughes, Karen W.; Hofstetter, Valerie; Ammirati, Joseph F.; Schoch, Conrad L.; Langer, Ewald; Langer, Gitta; McLaughlin, David J.; Wilson, Andrew W.; Froslev, Tobias; Ge, Zai-Wei; Kerrigan, Richard W.; Slot, Jason C.; Yang, Zhu-Liang; Baroni, Timothy J.; Fischer, Michael; Hosaka, Kentaro; Matsuura, Kenji; Seidl, Michelle T.; Vauras, Jukka; Hibbett, David S.
AbstractA phylogeny of the fungal phylum Basidiomycota. is presented based on a survey of 160 taxa and five nuclear genes. Two genes, rpb2, and tef1, are presented in detail. The rpb2 gene is more variable than tef1 and recovers well-supported clades at shallow and deep taxonomic levels. The tef1 gene recovers some deep and ordinal-level relationships but with greater branch support from nucleotides compared to amino acids. Intron placement is dynamic in tef1, often lineage-specific, and diagnostic for many clades. Introns are fewer in rpb2 and tend to be highly conserved by position. When both protein-coding loci are combined with sequences of nuclear ribosomal RNA genes, 18 inclusive clades of Basidiomycota are strongly supported by Bayesian posterior probabilities and 16 by parsimony bootstrapping. These numbers are greater than produced by single genes and combined ribosomal RNA gene regions. Combination of nrDNA with amino acid sequences, or exons with third codon positions removed, produces strong measures of support, particularly for deep internodes of Basidiomycota, which have been difficult to resolve with confidence using nrDNA data alone. This study produces strong boostrap support and significant posterior probabilities for the first time for the following monophyletic groups: (1) Ustilagino-mycetes plus Hymenomycetes, (2) an inclusive cluster of hymenochaetoid, corticioid, polyporoid, Thelephorales, russuloid, athelioid, Boletales, and euagarics clades, (3) Thelephorales plus the polyporoid clade, (4) the polyporoid clade, and (5) the cantharelloid clade. Strong support is also recovered for the basal position of the Dacrymycetales in the Hymenomycetidae and paraphyly of the Exobasidiomycetidae. (C) 2006 Elsevier Inc. All rights reserved.
KeywordBasidiomycota Ef1-alpha Fungi Introns Rna Polymerase Ii Systematics
Subject AreaBiochemistry & Molecular Biology ; Evolutionary Biology ; Genetics & Heredity
Indexed BySCI
WOS IDWOS:000246918800008
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Document Type期刊论文
Affiliation1.Clark Univ, Dept Biol, Worcester, MA 01610 USA
2.Univ British Columbia, Dept Wood Sci, Vancouver, BC V6T 1Z4, Canada
3.Univ Gothenburg, Dept Plant & Environm Sci, SE-40530 Gothenburg, Sweden
4.Univ Tennessee, Dept Bot, Knoxville, TN 37996 USA
5.Duke Univ, Dept Biol, Durham, NC 27708 USA
6.Univ Washington, Dept Biol, Seattle, WA 98195 USA
7.Oregon State Univ, Corvallis, OR 97331 USA
8.Univ Kassel, Inst Biol, D-34132 Kassel, Germany
9.Univ Minnesota, Dept Plant Biol, St Paul, MN 55108 USA
10.Univ Copenhagen, Dept Microbiol, Inst Biol, DK-1353 Copenhagen K, Denmark
11.Chinese Acad Sci, Kunming Inst Bot, Kunming 650204, Peoples R China
12.Sylvan Res, Kittanning, PA 16201 USA
13.SUNY Coll Cortland, Dept Biol Sci, Cortland, NY 13045 USA
14.Staat Weinbauinst Freiburg, D-79100 Freiburg, Germany
15.Field Museum Nat Hist, Dept Bot, Chicago, IL 60605 USA
16.Okayama Univ, Fac Agr, Okayama 7008530, Japan
17.Environm Microbiol Lab Inc, Bellevue, WA 98004 USA
18.Univ Turku, Herbarium, FI-20014 Turku, Finland
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Matheny, P. Brandon,Wang, Zheng,Binder, Manfred,et al. Contributions of rpb2 and tef1 to the phylogeny of mushrooms and allies (Basidiomycota, Fungi)[J]. MOLECULAR PHYLOGENETICS AND EVOLUTION,2007,43(2):430-451.
APA Matheny, P. Brandon.,Wang, Zheng.,Binder, Manfred.,Curtis, Judd M..,Lim, Young Woon.,...&Hibbett, David S..(2007).Contributions of rpb2 and tef1 to the phylogeny of mushrooms and allies (Basidiomycota, Fungi).MOLECULAR PHYLOGENETICS AND EVOLUTION,43(2),430-451.
MLA Matheny, P. Brandon,et al."Contributions of rpb2 and tef1 to the phylogeny of mushrooms and allies (Basidiomycota, Fungi)".MOLECULAR PHYLOGENETICS AND EVOLUTION 43.2(2007):430-451.
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