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Citation for Study 18957

Citation title: "A phylum-level phylogenetic classification of zygomycete fungi based on genome-scale data".

Study name: "A phylum-level phylogenetic classification of zygomycete fungi based on genome-scale data".

This study is part of submission 18957 (Status: Published).

Citation

Spatafora J.W., Chang Y., Benny G., Lazarus K., Smith M.E., Berbee M.L., Bonito G., Corradi N., Grigoriev I.V., Gryganskyi A.P., James T.Y., O'donnell K., Taylor T.N., Uehling J.K., Vilgalys R., White M.M., & Stajich J.E. 2016. A phylum-level phylogenetic classification of zygomycete fungi based on genome-scale data. Mycologia, 108(5): 1028-1046.

Authors

• Spatafora J.W.
• Chang Y.
• Benny G.
• Lazarus K.
• Smith M.E.
• Berbee M.L.
• Bonito G.
• Corradi N.
• Grigoriev I.V.
• Gryganskyi A.P. 919 667 8734
• James T.Y.
• O'donnell K. 309-681-6383
• Taylor T.N.
• Uehling J.K.
• Vilgalys R.
• White M.M.
• Stajich J.E. (submitter) 951-827-2363

Abstract

Zygomycete fungi were classified as a single phylum, Zygomycota, based on sexual reproduction by zygospores, frequent asexual reproduction by sporangia, absence of multicellular sporocarps, and production of coenocytic hyphae, all with some exceptions. Molecular phylogenies based on one or a few genes did not support the monophyly of the phylum, however, and the phylum was subsequently abandoned. Here we present phylogenetic analyses of a genome-scale data set for 46 taxa, including 25 zygomycetes and 192 proteins, and we demonstrate that zygomycetes comprise two major clades that form a paraphyletic grade. A formal phylogenetic classification is proposed herein and includes two phyla, six subphyla, four classes and 16 orders. On the basis of these results, the phyla Mucoromycota and Zoopagomycota are circumscribed. Zoopagomycota comprises Entomophtoromycotina, Kickxellomycotina and Zoopagomycotina; it constitutes the earliest diverging lineage of zygomycetes and contains species that are primarily parasites and pathogens of small animals (e.g. amoeba, insects, etc.) and other fungi, i.e. mycoparasites. Mucoromycota comprises Glomeromycotina, Mortierellomycotina, and Mucoromycotina and is sister to Dikarya. It is the more derived clade of zygomycetes and mainly consists of mycorrhizal fungi, root endophytes, and decomposers of plant material. Evolution of trophic modes, morphology, and analysis of genome-scale data are discussed.

Keywords

fungi, zygomycete, Zoopagomycota, Mucoromycota, Mortierellomycotina, Glomeromycotina, Mucoromycotina, Entomophtoromycotina, Kickxellomycotina, Zoopagomycotina

External links

• DOI: 10.3852/16-042
• PMID: 27738200
• Other URL: http://www.mycologia.org/content/108/5/1028.short

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S18957
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref25624,
  	 author = {Joseph W. Spatafora and Ying  Chang and Gerald L.  Benny and Katy  Lazarus and Matthew E Smith and Mary L. Berbee and Gregory   Bonito and Nicolas  Corradi and Igor  V Grigoriev and Andrii P. Gryganskyi and Timothy Y. James and Kerry  O'Donnell and Thomas N Taylor and Jessie Karen Uehling and Rytas  Vilgalys and Merlin M. White and Jason E Stajich},
  	 title = {A phylum-level phylogenetic classification of zygomycete fungi based on genome-scale data},
  	 year = {2016},
  	 keywords = {fungi, zygomycete, Zoopagomycota, Mucoromycota, Mortierellomycotina, Glomeromycotina, Mucoromycotina, Entomophtoromycotina, Kickxellomycotina, Zoopagomycotina},
  	 doi = {10.3852/16-042},
  	 url = {http://www.mycologia.org/content/108/5/1028.short},
  	 pmid = {27738200},
  	 journal = {Mycologia},
  	 volume = {108},
  	 number = {5},
  	 pages = {1028--1046},
  	 abstract = {Zygomycete fungi were classified as a single phylum, Zygomycota, based on sexual reproduction by zygospores, frequent asexual reproduction by sporangia, absence of multicellular sporocarps, and production of coenocytic hyphae, all with some exceptions. Molecular phylogenies based on one or a few genes did not support the monophyly of the phylum, however, and the phylum was subsequently abandoned. Here we present phylogenetic analyses of a genome-scale data set for 46 taxa, including 25 zygomycetes and 192 proteins, and we demonstrate that zygomycetes comprise two major clades that form a paraphyletic grade. A formal phylogenetic classification is proposed herein and includes two phyla, six subphyla, four classes and 16 orders. On the basis of these results, the phyla Mucoromycota and Zoopagomycota are circumscribed. Zoopagomycota comprises Entomophtoromycotina, Kickxellomycotina and Zoopagomycotina; it constitutes the earliest diverging lineage of zygomycetes and contains species that are primarily parasites and pathogens of small animals (e.g. amoeba, insects, etc.) and other fungi, i.e. mycoparasites. Mucoromycota comprises Glomeromycotina, Mortierellomycotina, and Mucoromycotina and is sister to Dikarya. It is the more derived clade of zygomycetes and mainly consists of mycorrhizal fungi, root endophytes, and decomposers of plant material. Evolution of trophic modes, morphology, and analysis of genome-scale data are discussed.}
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 25624
  AU  - Spatafora,Joseph W.
  AU  - Chang,Ying 
  AU  - Benny,Gerald L. 
  AU  - Lazarus,Katy 
  AU  - Smith,Matthew E
  AU  - Berbee,Mary L.
  AU  - Bonito,Gregory  
  AU  - Corradi,Nicolas 
  AU  - Grigoriev,Igor  V
  AU  - Gryganskyi,Andrii P.
  AU  - James,Timothy Y.
  AU  - O'Donnell,Kerry 
  AU  - Taylor,Thomas N
  AU  - Uehling,Jessie Karen
  AU  - Vilgalys,Rytas 
  AU  - White,Merlin M.
  AU  - Stajich,Jason E
  T1  - A phylum-level phylogenetic classification of zygomycete fungi based on genome-scale data
  PY  - 2016
  KW  - fungi
  KW  - zygomycete
  KW  - Zoopagomycota
  KW  - Mucoromycota
  KW  - Mortierellomycotina
  KW  - Glomeromycotina
  KW  - Mucoromycotina
  KW  - Entomophtoromycotina
  KW  - Kickxellomycotina
  KW  - Zoopagomycotina
  UR  - http://www.mycologia.org/content/108/5/1028.short
  N2  - Zygomycete fungi were classified as a single phylum, Zygomycota, based on sexual reproduction by zygospores, frequent asexual reproduction by sporangia, absence of multicellular sporocarps, and production of coenocytic hyphae, all with some exceptions. Molecular phylogenies based on one or a few genes did not support the monophyly of the phylum, however, and the phylum was subsequently abandoned. Here we present phylogenetic analyses of a genome-scale data set for 46 taxa, including 25 zygomycetes and 192 proteins, and we demonstrate that zygomycetes comprise two major clades that form a paraphyletic grade. A formal phylogenetic classification is proposed herein and includes two phyla, six subphyla, four classes and 16 orders. On the basis of these results, the phyla Mucoromycota and Zoopagomycota are circumscribed. Zoopagomycota comprises Entomophtoromycotina, Kickxellomycotina and Zoopagomycotina; it constitutes the earliest diverging lineage of zygomycetes and contains species that are primarily parasites and pathogens of small animals (e.g. amoeba, insects, etc.) and other fungi, i.e. mycoparasites. Mucoromycota comprises Glomeromycotina, Mortierellomycotina, and Mucoromycotina and is sister to Dikarya. It is the more derived clade of zygomycetes and mainly consists of mycorrhizal fungi, root endophytes, and decomposers of plant material. Evolution of trophic modes, morphology, and analysis of genome-scale data are discussed.
  L3  - 10.3852/16-042
  JF  - Mycologia
  VL  - 108
  IS  - 5
  SP  - 1028
  EP  - 1046
  ER  -