A nuclear phylogenomic study of the angiosperm order Myrtales, exploring the potential and limitations of the universal Angiosperms353 probe set
Premise To further advance the understanding of the species‐rich, economically and ecologically important angiosperm order Myrtales in the rosid clade, comprising nine families, approximately 400 genera and almost 14,000 species occurring on all continents (except Antarctica), we tested the Angiospe...
Published in: | American Journal of Botany |
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Language: | English |
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Online Access: | http://dx.doi.org/10.1002/ajb2.1699 https://onlinelibrary.wiley.com/doi/pdf/10.1002/ajb2.1699 https://onlinelibrary.wiley.com/doi/full-xml/10.1002/ajb2.1699 |
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crwiley:10.1002/ajb2.1699 2024-06-23T07:47:40+00:00 A nuclear phylogenomic study of the angiosperm order Myrtales, exploring the potential and limitations of the universal Angiosperms353 probe set Maurin, Olivier Anest, Artemis Bellot, Sidonie Biffin, Edward Brewer, Grace Charles‐Dominique, Tristan Cowan, Robyn S. Dodsworth, Steven Epitawalage, Niroshini Gallego, Berta Giaretta, Augusto Goldenberg, Renato Gonçalves, Deise J.P. Graham, Shirley Hoch, Peter Mazine, Fiorella Low, Yee Wen McGinnie, Catherine Michelangeli, Fabián A. Morris, Sarah Penneys, Darin S. Pérez Escobar, Oscar Alejandro Pillon, Yohan Pokorny, Lisa Shimizu, Gustavo Staggemeier, Vanessa G. Thornhill, Andrew H. Tomlinson, Kyle W. Turner, Ian M. Vasconcelos, Thais Wilson, Peter G. Zuntini, Alexandre R. Baker, William J. Forest, Félix Lucas, Eve Dr Mortimer and Theresa Sackler Foundation Garfield Weston Foundation Coordenação de Aperfeiçoamento de Pessoal de Nível Superior 2021 http://dx.doi.org/10.1002/ajb2.1699 https://onlinelibrary.wiley.com/doi/pdf/10.1002/ajb2.1699 https://onlinelibrary.wiley.com/doi/full-xml/10.1002/ajb2.1699 en eng Wiley http://creativecommons.org/licenses/by/4.0/ American Journal of Botany volume 108, issue 7, page 1087-1111 ISSN 0002-9122 1537-2197 journal-article 2021 crwiley https://doi.org/10.1002/ajb2.1699 2024-06-13T04:20:56Z Premise To further advance the understanding of the species‐rich, economically and ecologically important angiosperm order Myrtales in the rosid clade, comprising nine families, approximately 400 genera and almost 14,000 species occurring on all continents (except Antarctica), we tested the Angiosperms353 probe kit. Methods We combined high‐throughput sequencing and target enrichment with the Angiosperms353 probe kit to evaluate a sample of 485 species across 305 genera (76% of all genera in the order). Results Results provide the most comprehensive phylogenetic hypothesis for the order to date. Relationships at all ranks, such as the relationship of the early‐diverging families, often reflect previous studies, but gene conflict is evident, and relationships previously found to be uncertain often remain so. Technical considerations for processing HTS data are also discussed. Conclusions High‐throughput sequencing and the Angiosperms353 probe kit are powerful tools for phylogenomic analysis, but better understanding of the genetic data available is required to identify genes and gene trees that account for likely incomplete lineage sorting and/or hybridization events. Article in Journal/Newspaper Antarc* Antarctica Wiley Online Library American Journal of Botany 108 7 1087 1111 |
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Open Polar |
collection |
Wiley Online Library |
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crwiley |
language |
English |
description |
Premise To further advance the understanding of the species‐rich, economically and ecologically important angiosperm order Myrtales in the rosid clade, comprising nine families, approximately 400 genera and almost 14,000 species occurring on all continents (except Antarctica), we tested the Angiosperms353 probe kit. Methods We combined high‐throughput sequencing and target enrichment with the Angiosperms353 probe kit to evaluate a sample of 485 species across 305 genera (76% of all genera in the order). Results Results provide the most comprehensive phylogenetic hypothesis for the order to date. Relationships at all ranks, such as the relationship of the early‐diverging families, often reflect previous studies, but gene conflict is evident, and relationships previously found to be uncertain often remain so. Technical considerations for processing HTS data are also discussed. Conclusions High‐throughput sequencing and the Angiosperms353 probe kit are powerful tools for phylogenomic analysis, but better understanding of the genetic data available is required to identify genes and gene trees that account for likely incomplete lineage sorting and/or hybridization events. |
author2 |
Dr Mortimer and Theresa Sackler Foundation Garfield Weston Foundation Coordenação de Aperfeiçoamento de Pessoal de Nível Superior |
format |
Article in Journal/Newspaper |
author |
Maurin, Olivier Anest, Artemis Bellot, Sidonie Biffin, Edward Brewer, Grace Charles‐Dominique, Tristan Cowan, Robyn S. Dodsworth, Steven Epitawalage, Niroshini Gallego, Berta Giaretta, Augusto Goldenberg, Renato Gonçalves, Deise J.P. Graham, Shirley Hoch, Peter Mazine, Fiorella Low, Yee Wen McGinnie, Catherine Michelangeli, Fabián A. Morris, Sarah Penneys, Darin S. Pérez Escobar, Oscar Alejandro Pillon, Yohan Pokorny, Lisa Shimizu, Gustavo Staggemeier, Vanessa G. Thornhill, Andrew H. Tomlinson, Kyle W. Turner, Ian M. Vasconcelos, Thais Wilson, Peter G. Zuntini, Alexandre R. Baker, William J. Forest, Félix Lucas, Eve |
spellingShingle |
Maurin, Olivier Anest, Artemis Bellot, Sidonie Biffin, Edward Brewer, Grace Charles‐Dominique, Tristan Cowan, Robyn S. Dodsworth, Steven Epitawalage, Niroshini Gallego, Berta Giaretta, Augusto Goldenberg, Renato Gonçalves, Deise J.P. Graham, Shirley Hoch, Peter Mazine, Fiorella Low, Yee Wen McGinnie, Catherine Michelangeli, Fabián A. Morris, Sarah Penneys, Darin S. Pérez Escobar, Oscar Alejandro Pillon, Yohan Pokorny, Lisa Shimizu, Gustavo Staggemeier, Vanessa G. Thornhill, Andrew H. Tomlinson, Kyle W. Turner, Ian M. Vasconcelos, Thais Wilson, Peter G. Zuntini, Alexandre R. Baker, William J. Forest, Félix Lucas, Eve A nuclear phylogenomic study of the angiosperm order Myrtales, exploring the potential and limitations of the universal Angiosperms353 probe set |
author_facet |
Maurin, Olivier Anest, Artemis Bellot, Sidonie Biffin, Edward Brewer, Grace Charles‐Dominique, Tristan Cowan, Robyn S. Dodsworth, Steven Epitawalage, Niroshini Gallego, Berta Giaretta, Augusto Goldenberg, Renato Gonçalves, Deise J.P. Graham, Shirley Hoch, Peter Mazine, Fiorella Low, Yee Wen McGinnie, Catherine Michelangeli, Fabián A. Morris, Sarah Penneys, Darin S. Pérez Escobar, Oscar Alejandro Pillon, Yohan Pokorny, Lisa Shimizu, Gustavo Staggemeier, Vanessa G. Thornhill, Andrew H. Tomlinson, Kyle W. Turner, Ian M. Vasconcelos, Thais Wilson, Peter G. Zuntini, Alexandre R. Baker, William J. Forest, Félix Lucas, Eve |
author_sort |
Maurin, Olivier |
title |
A nuclear phylogenomic study of the angiosperm order Myrtales, exploring the potential and limitations of the universal Angiosperms353 probe set |
title_short |
A nuclear phylogenomic study of the angiosperm order Myrtales, exploring the potential and limitations of the universal Angiosperms353 probe set |
title_full |
A nuclear phylogenomic study of the angiosperm order Myrtales, exploring the potential and limitations of the universal Angiosperms353 probe set |
title_fullStr |
A nuclear phylogenomic study of the angiosperm order Myrtales, exploring the potential and limitations of the universal Angiosperms353 probe set |
title_full_unstemmed |
A nuclear phylogenomic study of the angiosperm order Myrtales, exploring the potential and limitations of the universal Angiosperms353 probe set |
title_sort |
nuclear phylogenomic study of the angiosperm order myrtales, exploring the potential and limitations of the universal angiosperms353 probe set |
publisher |
Wiley |
publishDate |
2021 |
url |
http://dx.doi.org/10.1002/ajb2.1699 https://onlinelibrary.wiley.com/doi/pdf/10.1002/ajb2.1699 https://onlinelibrary.wiley.com/doi/full-xml/10.1002/ajb2.1699 |
genre |
Antarc* Antarctica |
genre_facet |
Antarc* Antarctica |
op_source |
American Journal of Botany volume 108, issue 7, page 1087-1111 ISSN 0002-9122 1537-2197 |
op_rights |
http://creativecommons.org/licenses/by/4.0/ |
op_doi |
https://doi.org/10.1002/ajb2.1699 |
container_title |
American Journal of Botany |
container_volume |
108 |
container_issue |
7 |
container_start_page |
1087 |
op_container_end_page |
1111 |
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1802651802686980096 |