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Citation for Study 2137

Citation title: "The Ascomycota Tree of Life: A Phylum-wide Phylogeny Clarifies the Origin and Evolution of Fundamental Reproductive and Ecological Traits.".

This study was previously identified under the legacy study ID S2141 (Status: Published).

Citation

Schoch C.L., Sung G., L?pez-gir?ldez F., Townsend J., Miadlikowska J.M., Hofstetter V., Robbertse B., Matheny P.B., Kauff F., Wang Z., Andrie R., Trippe K., Ciuffetti L., Wynn A., Fraker E., Hodkinson B., Bonito G., Groenewald J.Z., Arzanlou M., Hoog S., Crous P.W., Hewitt D., Pfister D., Peterson K., Gryzenhout M., Wingfield M.J., Aptroot A., Suh S., Blackwell M., Hillis D.M., Griffith G., Castlebury L., Rossman A., Lumbsch H., L?cking R., B?del B., Diederich P., Ertz D., Geiser D., Hosaka K., Inderbitzin P., Kohlmeyer J., Volkmann-kohlmeyer B., Mostert L., O'donnell K., Sipman H., Rogers J., Shoemaker R., Sugiyama J., Summerbell R., Untereiner W., Johnston P., Stenroos S., Zuccaro A., Dyer P., Crittenden P., Yahr R., Cole M., Hansen K., Trappe J., Lutzoni F., & Spatafora J. 2009. The Ascomycota Tree of Life: A Phylum-wide Phylogeny Clarifies the Origin and Evolution of Fundamental Reproductive and Ecological Traits. Systematic Biology, 58(2): 224-239.

Authors

• Schoch C.L.
• Sung G.
• L?pez-gir?ldez F.
• Townsend J.
• Miadlikowska J.M. 9196607287
• Hofstetter V.
• Robbertse B.
• Matheny P.B. 865-974-8896
• Kauff F.
• Wang Z.
• Andrie R.
• Trippe K.
• Ciuffetti L.
• Wynn A.
• Fraker E.
• Hodkinson B.
• Bonito G.
• Groenewald J.Z. +31302122600
• Arzanlou M.
• Hoog S.
• Crous P.W.
• Hewitt D.
• Pfister D.
• Peterson K.
• Gryzenhout M.
• Wingfield M.J.
• Aptroot A.
• Suh S.
• Blackwell M.
• Hillis D.M. 512-471-5792
• Griffith G.
• Castlebury L.
• Rossman A.
• Lumbsch H.
• L?cking R.
• B?del B.
• Diederich P.
• Ertz D.
• Geiser D.
• Hosaka K.
• Inderbitzin P.
• Kohlmeyer J.
• Volkmann-kohlmeyer B.
• Mostert L. +27 021 808 3397
• O'donnell K. 309-681-6383
• Sipman H.
• Rogers J.
• Shoemaker R.
• Sugiyama J.
• Summerbell R.
• Untereiner W.
• Johnston P. +64 9 574 4714
• Stenroos S.
• Zuccaro A.
• Dyer P.
• Crittenden P.
• Yahr R.
• Cole M.
• Hansen K. +46 (0)8 5195 4248
• Trappe J.
• Lutzoni F.
• Spatafora J.

Abstract

We present a 6-gene, 420-species maximum likelihood phylogeny of the Ascomycota, the largest phylum of Fungi. This analysis is the most taxonomically complete to date with species sampled from all 15 currently circumscribed classes. A number of superclass level nodes that have previously evaded resolution and were unnamed in classifications of the Fungi are resolved for the first time. Here we extend a pre-existing rankless classification to these nodes and discuss their importance in systematics and evolution of the Fungi. Based on the 6-gene phylogeny we conducted a phylogenetic informativeness analysis of all six genes and a series of ancestral character state reconstructions that focused on morphology and development of fruiting bodies, ascus dehiscence, and evolution of nutritional modes and ecologies. A gene-by-gene assessment of phylogenetic informativeness yielded higher levels of informativeness for protein genes (RPB1, RPB2, TEF1) as compared to the ribosomal genes, which have been the standard bearer in fungal systematics. A reconstruction of fruiting body characters is consistent with two origins for multicellular sexual reproductive structures in the Ascomycota, once in the common ancestor of Pezizomycotina and once in the common ancestor of Neolectomycetes. This is the first report of this finding and highlights the complicated nature of assessing homology of morphological traits across Fungi. Furthermore, ancestral reconstruction supports the exposed hymenium of the apothecium as the primitive ascocarp morphology for the Pezizomycotina with multiple derivations of the partially or completely enclosed ascocarps. Ascus dehiscence is most informative at the class level within the Pezizomycotina with superclass nodes reconstructed equivocally. Character state reconstructions support terrestrial, saprobic ecology as ancestral with multiple derivations and ecological shifts toward marine habitats and plant and animal associations. Importantly, these analyses support multiple origins of lichenization events with the loss of lichenization as less frequent and limited to terminal, closely related species.

External links

• DOI: 10.1093/sysbio/syp020

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S2137
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref17424,
  	 author = {Conrad Lamoraal Schoch and G. H.  Sung and Francesc  L?pez-Gir?ldez and Jeffrey P.  Townsend and Jolanta Maria Miadlikowska and Valerie  Hofstetter and Barbara  Robbertse and Patrick Brandon Matheny and Frank  Kauff and Zheng  Wang and Rachael M.  Andrie and K.  Trippe and Lynda M.  Ciuffetti and A.  Wynn and Emily  Fraker and Brendan P.  Hodkinson and Gregory  Bonito and  Johannes (Ewald) Zacharias Groenewald and Mahdi  Arzanlou and S. d.  Hoog and Pedro W. Crous and David  Hewitt and Donald H.  Pfister and Kristin R.  Peterson and Marieka  Gryzenhout and Michael J Wingfield and Andr?  Aptroot and S. O.  Suh and Meredith  Blackwell and David M Hillis and Gareth W.  Griffith and Lisa A.  Castlebury and Amy Y.  Rossman and H. Thorsten  Lumbsch and Robert  L?cking and Burkhard  B?del and Paul  Diederich and Damien  Ertz and David M.  Geiser and Kentaro  Hosaka and Patrik  Inderbitzin and Jan  Kohlmeyer and Brigitte  Volkmann-Kohlmeyer and Lizel  Mostert and Kerry  O'Donnell and Harrie  Sipman and Jack D.  Rogers and Robert A.  Shoemaker and Junta  Sugiyama and Richard C.  Summerbell and Wendy A.  Untereiner and Peter  Johnston and Soili  Stenroos and Alga  Zuccaro and Paul S.  Dyer and Peter D.  Crittenden and Rebecca  Yahr and Mariette S.  Cole and Karen  Hansen and James M.  Trappe and Francois M.  Lutzoni and Joseph W.  Spatafora},
  	 title = {The Ascomycota Tree of Life: A Phylum-wide Phylogeny Clarifies the Origin and Evolution of Fundamental Reproductive and Ecological Traits.},
  	 year = {2009},
  	 keywords = {},
  	 doi = {10.1093/sysbio/syp020},
  	 url = {},
  	 pmid = {},
  	 journal = {Systematic Biology},
  	 volume = {58},
  	 number = {2},
  	 pages = {224--239},
  	 abstract = {We present a 6-gene, 420-species maximum likelihood phylogeny of the Ascomycota, the largest phylum of Fungi. This analysis is the most taxonomically complete to date with species sampled from all 15 currently circumscribed classes. A number of superclass level nodes that have previously evaded resolution and were unnamed in classifications of the Fungi are resolved for the first time. Here we extend a pre-existing rankless classification to these nodes and discuss their importance in systematics and evolution of the Fungi. Based on the 6-gene phylogeny we conducted a phylogenetic informativeness analysis of all six genes and a series of ancestral character state reconstructions that focused on morphology and development of fruiting bodies, ascus dehiscence, and evolution of nutritional modes and ecologies. A gene-by-gene assessment of phylogenetic informativeness yielded higher levels of informativeness for protein genes (RPB1, RPB2, TEF1) as compared to the ribosomal genes, which have been the standard bearer in fungal systematics. A reconstruction of fruiting body characters is consistent with two origins for multicellular sexual reproductive structures in the Ascomycota, once in the common ancestor of Pezizomycotina and once in the common ancestor of Neolectomycetes. This is the first report of this finding and highlights the complicated nature of assessing homology of morphological traits across Fungi. Furthermore, ancestral reconstruction supports the exposed hymenium of the apothecium as the primitive ascocarp morphology for the Pezizomycotina with multiple derivations of the partially or completely enclosed ascocarps. Ascus dehiscence is most informative at the class level within the Pezizomycotina with superclass nodes reconstructed equivocally. Character state reconstructions support terrestrial, saprobic ecology as ancestral with multiple derivations and ecological shifts toward marine habitats and plant and animal associations. Importantly, these analyses support multiple origins of lichenization events with the loss of lichenization as less frequent and limited to terminal, closely related species.}
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 17424
  AU  - Schoch,Conrad Lamoraal
  AU  - Sung,G. H. 
  AU  - L?pez-Gir?ldez,Francesc 
  AU  - Townsend,Jeffrey P. 
  AU  - Miadlikowska,Jolanta Maria
  AU  - Hofstetter,Valerie 
  AU  - Robbertse,Barbara 
  AU  - Matheny,Patrick Brandon
  AU  - Kauff,Frank 
  AU  - Wang,Zheng 
  AU  - Andrie,Rachael M. 
  AU  - Trippe,K. 
  AU  - Ciuffetti,Lynda M. 
  AU  - Wynn,A. 
  AU  - Fraker,Emily 
  AU  - Hodkinson,Brendan P. 
  AU  - Bonito,Gregory 
  AU  - Groenewald, Johannes (Ewald) Zacharias
  AU  - Arzanlou,Mahdi 
  AU  - Hoog,S. d. 
  AU  - Crous,Pedro W.
  AU  - Hewitt,David 
  AU  - Pfister,Donald H. 
  AU  - Peterson,Kristin R. 
  AU  - Gryzenhout,Marieka 
  AU  - Wingfield,Michael J
  AU  - Aptroot,Andr? 
  AU  - Suh,S. O. 
  AU  - Blackwell,Meredith 
  AU  - Hillis,David M
  AU  - Griffith,Gareth W. 
  AU  - Castlebury,Lisa A. 
  AU  - Rossman,Amy Y. 
  AU  - Lumbsch,H. Thorsten 
  AU  - L?cking,Robert 
  AU  - B?del,Burkhard 
  AU  - Diederich,Paul 
  AU  - Ertz,Damien 
  AU  - Geiser,David M. 
  AU  - Hosaka,Kentaro 
  AU  - Inderbitzin,Patrik 
  AU  - Kohlmeyer,Jan 
  AU  - Volkmann-Kohlmeyer,Brigitte 
  AU  - Mostert,Lizel 
  AU  - O'Donnell,Kerry 
  AU  - Sipman,Harrie 
  AU  - Rogers,Jack D. 
  AU  - Shoemaker,Robert A. 
  AU  - Sugiyama,Junta 
  AU  - Summerbell,Richard C. 
  AU  - Untereiner,Wendy A. 
  AU  - Johnston,Peter 
  AU  - Stenroos,Soili 
  AU  - Zuccaro,Alga 
  AU  - Dyer,Paul S. 
  AU  - Crittenden,Peter D. 
  AU  - Yahr,Rebecca 
  AU  - Cole,Mariette S. 
  AU  - Hansen,Karen 
  AU  - Trappe,James M. 
  AU  - Lutzoni,Francois M. 
  AU  - Spatafora,Joseph W. 
  T1  - The Ascomycota Tree of Life: A Phylum-wide Phylogeny Clarifies the Origin and Evolution of Fundamental Reproductive and Ecological Traits.
  PY  - 2009
  KW  - 
  UR  - http://dx.doi.org/10.1093/sysbio/syp020
  N2  - We present a 6-gene, 420-species maximum likelihood phylogeny of the Ascomycota, the largest phylum of Fungi. This analysis is the most taxonomically complete to date with species sampled from all 15 currently circumscribed classes. A number of superclass level nodes that have previously evaded resolution and were unnamed in classifications of the Fungi are resolved for the first time. Here we extend a pre-existing rankless classification to these nodes and discuss their importance in systematics and evolution of the Fungi. Based on the 6-gene phylogeny we conducted a phylogenetic informativeness analysis of all six genes and a series of ancestral character state reconstructions that focused on morphology and development of fruiting bodies, ascus dehiscence, and evolution of nutritional modes and ecologies. A gene-by-gene assessment of phylogenetic informativeness yielded higher levels of informativeness for protein genes (RPB1, RPB2, TEF1) as compared to the ribosomal genes, which have been the standard bearer in fungal systematics. A reconstruction of fruiting body characters is consistent with two origins for multicellular sexual reproductive structures in the Ascomycota, once in the common ancestor of Pezizomycotina and once in the common ancestor of Neolectomycetes. This is the first report of this finding and highlights the complicated nature of assessing homology of morphological traits across Fungi. Furthermore, ancestral reconstruction supports the exposed hymenium of the apothecium as the primitive ascocarp morphology for the Pezizomycotina with multiple derivations of the partially or completely enclosed ascocarps. Ascus dehiscence is most informative at the class level within the Pezizomycotina with superclass nodes reconstructed equivocally. Character state reconstructions support terrestrial, saprobic ecology as ancestral with multiple derivations and ecological shifts toward marine habitats and plant and animal associations. Importantly, these analyses support multiple origins of lichenization events with the loss of lichenization as less frequent and limited to terminal, closely related species.
  L3  - 10.1093/sysbio/syp020
  JF  - Systematic Biology
  VL  - 58
  IS  - 2
  SP  - 224
  EP  - 239
  ER  -