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Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota

Ascomycota, the largest and most well-studied phylum of fungi, contains three subphyla: Saccharomycotina (budding yeasts), Pezizomycotina (filamentous fungi), and Taphrinomycotina (fission yeasts). Despite its importance, we lack a comprehensive genome-scale phylogeny or understanding of the similar...

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Autores principales: Shen, Xing-Xing, Steenwyk, Jacob L., LaBella, Abigail L., Opulente, Dana A., Zhou, Xiaofan, Kominek, Jacek, Li, Yuanning, Groenewald, Marizeth, Hittinger, Chris T., Rokas, Antonis
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Association for the Advancement of Science 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7673691/
https://www.ncbi.nlm.nih.gov/pubmed/33148650
http://dx.doi.org/10.1126/sciadv.abd0079
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author Shen, Xing-Xing
Steenwyk, Jacob L.
LaBella, Abigail L.
Opulente, Dana A.
Zhou, Xiaofan
Kominek, Jacek
Li, Yuanning
Groenewald, Marizeth
Hittinger, Chris T.
Rokas, Antonis
author_facet Shen, Xing-Xing
Steenwyk, Jacob L.
LaBella, Abigail L.
Opulente, Dana A.
Zhou, Xiaofan
Kominek, Jacek
Li, Yuanning
Groenewald, Marizeth
Hittinger, Chris T.
Rokas, Antonis
author_sort Shen, Xing-Xing
collection PubMed
description Ascomycota, the largest and most well-studied phylum of fungi, contains three subphyla: Saccharomycotina (budding yeasts), Pezizomycotina (filamentous fungi), and Taphrinomycotina (fission yeasts). Despite its importance, we lack a comprehensive genome-scale phylogeny or understanding of the similarities and differences in the mode of genome evolution within this phylum. By examining 1107 genomes from Saccharomycotina (332), Pezizomycotina (761), and Taphrinomycotina (14) species, we inferred a robust genome-wide phylogeny that resolves several contentious relationships and estimated that the Ascomycota last common ancestor likely originated in the Ediacaran period. Comparisons of genomic properties revealed that Saccharomycotina and Pezizomycotina differ greatly in their genome properties and enabled inference of the direction of evolutionary change. The Saccharomycotina typically have smaller genomes, lower guanine-cytosine contents, lower numbers of genes, and higher rates of molecular sequence evolution compared with Pezizomycotina. These results provide a robust evolutionary framework for understanding the diversity and ecological lifestyles of the largest fungal phylum.
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spelling pubmed-76736912020-11-24 Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota Shen, Xing-Xing Steenwyk, Jacob L. LaBella, Abigail L. Opulente, Dana A. Zhou, Xiaofan Kominek, Jacek Li, Yuanning Groenewald, Marizeth Hittinger, Chris T. Rokas, Antonis Sci Adv Research Articles Ascomycota, the largest and most well-studied phylum of fungi, contains three subphyla: Saccharomycotina (budding yeasts), Pezizomycotina (filamentous fungi), and Taphrinomycotina (fission yeasts). Despite its importance, we lack a comprehensive genome-scale phylogeny or understanding of the similarities and differences in the mode of genome evolution within this phylum. By examining 1107 genomes from Saccharomycotina (332), Pezizomycotina (761), and Taphrinomycotina (14) species, we inferred a robust genome-wide phylogeny that resolves several contentious relationships and estimated that the Ascomycota last common ancestor likely originated in the Ediacaran period. Comparisons of genomic properties revealed that Saccharomycotina and Pezizomycotina differ greatly in their genome properties and enabled inference of the direction of evolutionary change. The Saccharomycotina typically have smaller genomes, lower guanine-cytosine contents, lower numbers of genes, and higher rates of molecular sequence evolution compared with Pezizomycotina. These results provide a robust evolutionary framework for understanding the diversity and ecological lifestyles of the largest fungal phylum. American Association for the Advancement of Science 2020-11-04 /pmc/articles/PMC7673691/ /pubmed/33148650 http://dx.doi.org/10.1126/sciadv.abd0079 Text en Copyright © 2020 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works. Distributed under a Creative Commons Attribution NonCommercial License 4.0 (CC BY-NC). https://creativecommons.org/licenses/by-nc/4.0/ https://creativecommons.org/licenses/by-nc/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial license (https://creativecommons.org/licenses/by-nc/4.0/) , which permits use, distribution, and reproduction in any medium, so long as the resultant use is not for commercial advantage and provided the original work is properly cited.
spellingShingle Research Articles
Shen, Xing-Xing
Steenwyk, Jacob L.
LaBella, Abigail L.
Opulente, Dana A.
Zhou, Xiaofan
Kominek, Jacek
Li, Yuanning
Groenewald, Marizeth
Hittinger, Chris T.
Rokas, Antonis
Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota
title Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota
title_full Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota
title_fullStr Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota
title_full_unstemmed Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota
title_short Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota
title_sort genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum ascomycota
topic Research Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7673691/
https://www.ncbi.nlm.nih.gov/pubmed/33148650
http://dx.doi.org/10.1126/sciadv.abd0079
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