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Integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (Actinopterygii)
The actinopterygians comprise nearly one-half of all extant vertebrate species and are very important for human well-being. However, the phylogenetic relationships among certain groups within the actinopterygians are still uncertain, and debates about these relationships have continued for a long ti...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group
2012
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3444750/ https://www.ncbi.nlm.nih.gov/pubmed/22993690 http://dx.doi.org/10.1038/srep00665 |
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author | Zou, Ming Guo, Baocheng Tao, Wenjing Arratia, Gloria He, Shunping |
author_facet | Zou, Ming Guo, Baocheng Tao, Wenjing Arratia, Gloria He, Shunping |
author_sort | Zou, Ming |
collection | PubMed |
description | The actinopterygians comprise nearly one-half of all extant vertebrate species and are very important for human well-being. However, the phylogenetic relationships among certain groups within the actinopterygians are still uncertain, and debates about these relationships have continued for a long time. Along with the progress achieved in sequencing technologies, phylogenetic analyses based on multi-gene sequences, termed phylogenomic approaches, are becoming increasingly common and often result in well-resolved and highly supported phylogenetic hypotheses. Based on the transcriptome sequences generated in this study and the extensive expression data currently available from public databases, we obtained alignments of 274 orthologue groups for 26 scientifically and commercially important actinopterygians, representing 17 out of 44 orders within the class Actinopterygii. Using these alignments and probabilistic methods, we recovered relationships between basal actinopterygians and teleosts, among teleosts within protacanthopterygians and related lineages, and also within acanthomorphs. These relationships were recovered with high confidence. |
format | Online Article Text |
id | pubmed-3444750 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2012 |
publisher | Nature Publishing Group |
record_format | MEDLINE/PubMed |
spelling | pubmed-34447502012-09-19 Integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (Actinopterygii) Zou, Ming Guo, Baocheng Tao, Wenjing Arratia, Gloria He, Shunping Sci Rep Article The actinopterygians comprise nearly one-half of all extant vertebrate species and are very important for human well-being. However, the phylogenetic relationships among certain groups within the actinopterygians are still uncertain, and debates about these relationships have continued for a long time. Along with the progress achieved in sequencing technologies, phylogenetic analyses based on multi-gene sequences, termed phylogenomic approaches, are becoming increasingly common and often result in well-resolved and highly supported phylogenetic hypotheses. Based on the transcriptome sequences generated in this study and the extensive expression data currently available from public databases, we obtained alignments of 274 orthologue groups for 26 scientifically and commercially important actinopterygians, representing 17 out of 44 orders within the class Actinopterygii. Using these alignments and probabilistic methods, we recovered relationships between basal actinopterygians and teleosts, among teleosts within protacanthopterygians and related lineages, and also within acanthomorphs. These relationships were recovered with high confidence. Nature Publishing Group 2012-09-18 /pmc/articles/PMC3444750/ /pubmed/22993690 http://dx.doi.org/10.1038/srep00665 Text en Copyright © 2012, Macmillan Publishers Limited. All rights reserved http://creativecommons.org/licenses/by-nc-nd/3.0/ This work is licensed under a Creative Commons Attribution-NonCommercial-No Derivative Works 3.0 Unported License. To view a copy of this license, visit http://creativecommons.org/licenses/by-nc-nd/3.0/ |
spellingShingle | Article Zou, Ming Guo, Baocheng Tao, Wenjing Arratia, Gloria He, Shunping Integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (Actinopterygii) |
title | Integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (Actinopterygii) |
title_full | Integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (Actinopterygii) |
title_fullStr | Integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (Actinopterygii) |
title_full_unstemmed | Integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (Actinopterygii) |
title_short | Integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (Actinopterygii) |
title_sort | integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (actinopterygii) |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3444750/ https://www.ncbi.nlm.nih.gov/pubmed/22993690 http://dx.doi.org/10.1038/srep00665 |
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