A nuclear phylogenomic study of the angiosperm order Myrtales, exploring the potential and limitations of the universal Angiosperms353 probe set
The premise of this study is to further advance the understanding of the species-rich, economically and ecologically important Myrtales, an angiosperm order in the rosid clade comprising nine families, approximately 400 genera and almost 14000 species occurring on all continents (except Antarctica)....
Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
---|---|
Format: | Other/Unknown Material |
Language: | English |
Published: |
Zenodo
2021
|
Subjects: | |
Online Access: | https://doi.org/10.5281/zenodo.6382185 |
id |
ftzenodo:oai:zenodo.org:6382185 |
---|---|
record_format |
openpolar |
spelling |
ftzenodo:oai:zenodo.org:6382185 2024-09-15T17:41:34+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 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. Thornhil, Andrew Tomlinson, Kyle W. Turner, Ian Vasconcelos, Thais Wilson, Peter G. Zuntini, Alexandre R. Baker, William J. Forest, Félix Lucas, Eve 2021-07-01 https://doi.org/10.5281/zenodo.6382185 eng eng Zenodo https://doi.org/10.5281/zenodo.4268316 https://doi.org/10.5281/zenodo.6382185 oai:zenodo.org:6382185 info:eu-repo/semantics/openAccess Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/legalcode American Journal of Botany, 108(7), 1–25, (2021-07-01) Myrtales Angiosperms353 Alzateaceae Combretaceae Crypteroniaceae Lythraceae Melastomataceae Myrtaceae Onagraceae Penaeaceae Vochysiaceae Phylogenomics Target Capture info:eu-repo/semantics/other 2021 ftzenodo https://doi.org/10.5281/zenodo.638218510.5281/zenodo.4268316 2024-07-27T07:18:29Z The premise of this study is to further advance the understanding of the species-rich, economically and ecologically important Myrtales, an angiosperm order in the rosid clade comprising nine families, approximately 400 genera and almost 14000 species occurring on all continents (except Antarctica). The potential of High Throughput Sequencing (HTS) and target enrichment with the Angiosperms353 probe kit is evaluated on a sample of 485 species in 305 genera (76% of all genera in the order). Results provide technical considerations for processing HTS data and 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. HTS and the Angiosperms353 probe kit are powerful tools for phylogenomic analysis, but better understanding of the genetic data available is required to enable selection of genes and gene trees that account for incomplete lineage sorting and hybridisation events. Maurin, O., A. Anest, S. Bellot, E. Biffin, G. Brewer, T. Charles-Dominique, R. S. Cowan, S. Dodsworth, et al. 2021. A nuclear phylogenomic study of the angiosperm order Myrtales, exploring the potential and limitations of the universal Angiosperms353 probe set. American Journal of Botany 108(7): 1-25 doi:10.1002/ajb2.1699 Other/Unknown Material Antarc* Antarctica Zenodo |
institution |
Open Polar |
collection |
Zenodo |
op_collection_id |
ftzenodo |
language |
English |
topic |
Myrtales Angiosperms353 Alzateaceae Combretaceae Crypteroniaceae Lythraceae Melastomataceae Myrtaceae Onagraceae Penaeaceae Vochysiaceae Phylogenomics Target Capture |
spellingShingle |
Myrtales Angiosperms353 Alzateaceae Combretaceae Crypteroniaceae Lythraceae Melastomataceae Myrtaceae Onagraceae Penaeaceae Vochysiaceae Phylogenomics Target Capture Maurin, Olivier Anest, Artemis Bellot, Sidonie Biffin, Edward Brewer, Grace Charles-Dominique, Tristan 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. Thornhil, Andrew Tomlinson, Kyle W. Turner, Ian 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 |
topic_facet |
Myrtales Angiosperms353 Alzateaceae Combretaceae Crypteroniaceae Lythraceae Melastomataceae Myrtaceae Onagraceae Penaeaceae Vochysiaceae Phylogenomics Target Capture |
description |
The premise of this study is to further advance the understanding of the species-rich, economically and ecologically important Myrtales, an angiosperm order in the rosid clade comprising nine families, approximately 400 genera and almost 14000 species occurring on all continents (except Antarctica). The potential of High Throughput Sequencing (HTS) and target enrichment with the Angiosperms353 probe kit is evaluated on a sample of 485 species in 305 genera (76% of all genera in the order). Results provide technical considerations for processing HTS data and 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. HTS and the Angiosperms353 probe kit are powerful tools for phylogenomic analysis, but better understanding of the genetic data available is required to enable selection of genes and gene trees that account for incomplete lineage sorting and hybridisation events. Maurin, O., A. Anest, S. Bellot, E. Biffin, G. Brewer, T. Charles-Dominique, R. S. Cowan, S. Dodsworth, et al. 2021. A nuclear phylogenomic study of the angiosperm order Myrtales, exploring the potential and limitations of the universal Angiosperms353 probe set. American Journal of Botany 108(7): 1-25 doi:10.1002/ajb2.1699 |
format |
Other/Unknown Material |
author |
Maurin, Olivier Anest, Artemis Bellot, Sidonie Biffin, Edward Brewer, Grace Charles-Dominique, Tristan 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. Thornhil, Andrew Tomlinson, Kyle W. Turner, Ian Vasconcelos, Thais Wilson, Peter G. Zuntini, Alexandre R. Baker, William J. Forest, Félix Lucas, Eve |
author_facet |
Maurin, Olivier Anest, Artemis Bellot, Sidonie Biffin, Edward Brewer, Grace Charles-Dominique, Tristan 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. Thornhil, Andrew Tomlinson, Kyle W. Turner, Ian 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 |
Zenodo |
publishDate |
2021 |
url |
https://doi.org/10.5281/zenodo.6382185 |
genre |
Antarc* Antarctica |
genre_facet |
Antarc* Antarctica |
op_source |
American Journal of Botany, 108(7), 1–25, (2021-07-01) |
op_relation |
https://doi.org/10.5281/zenodo.4268316 https://doi.org/10.5281/zenodo.6382185 oai:zenodo.org:6382185 |
op_rights |
info:eu-repo/semantics/openAccess Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/legalcode |
op_doi |
https://doi.org/10.5281/zenodo.638218510.5281/zenodo.4268316 |
_version_ |
1810487793222156288 |