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Priors and Posteriors in Bayesian Timing of Divergence Analyses: The Age of Butterflies Revisited
The need for robust estimates of times of divergence is essential for downstream analyses, yet assessing this robustness is still rare. We generated a time-calibrated genus-level phylogeny of butterflies (Papilionoidea), including 994 taxa, up to 10 gene fragments and an unprecedented set of 12 foss...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6893297/ https://www.ncbi.nlm.nih.gov/pubmed/30690622 http://dx.doi.org/10.1093/sysbio/syz002 |
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author | Chazot, Nicolas Wahlberg, Niklas Freitas, André Victor Lucci Mitter, Charles Labandeira, Conrad Sohn, Jae-Cheon Sahoo, Ranjit Kumar Seraphim, Noemy de Jong, Rienk Heikkilä, Maria |
author_facet | Chazot, Nicolas Wahlberg, Niklas Freitas, André Victor Lucci Mitter, Charles Labandeira, Conrad Sohn, Jae-Cheon Sahoo, Ranjit Kumar Seraphim, Noemy de Jong, Rienk Heikkilä, Maria |
author_sort | Chazot, Nicolas |
collection | PubMed |
description | The need for robust estimates of times of divergence is essential for downstream analyses, yet assessing this robustness is still rare. We generated a time-calibrated genus-level phylogeny of butterflies (Papilionoidea), including 994 taxa, up to 10 gene fragments and an unprecedented set of 12 fossils and 10 host-plant node calibration points. We compared marginal priors and posterior distributions to assess the relative importance of the former on the latter. This approach revealed a strong influence of the set of priors on the root age but for most calibrated nodes posterior distributions shifted from the marginal prior, indicating significant information in the molecular data set. Using a very conservative approach we estimated an origin of butterflies at 107.6 Ma, approximately equivalent to the latest Early Cretaceous, with a credibility interval ranging from 89.5 Ma (mid Late Cretaceous) to 129.5 Ma (mid Early Cretaceous). In addition, we tested the effects of changing fossil calibration priors, tree prior, different sets of calibrations and different sampling fractions but our estimate remained robust to these alternative assumptions. With 994 genera, this tree provides a comprehensive source of secondary calibrations for studies on butterflies. |
format | Online Article Text |
id | pubmed-6893297 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-68932972019-12-10 Priors and Posteriors in Bayesian Timing of Divergence Analyses: The Age of Butterflies Revisited Chazot, Nicolas Wahlberg, Niklas Freitas, André Victor Lucci Mitter, Charles Labandeira, Conrad Sohn, Jae-Cheon Sahoo, Ranjit Kumar Seraphim, Noemy de Jong, Rienk Heikkilä, Maria Syst Biol Regular Articles The need for robust estimates of times of divergence is essential for downstream analyses, yet assessing this robustness is still rare. We generated a time-calibrated genus-level phylogeny of butterflies (Papilionoidea), including 994 taxa, up to 10 gene fragments and an unprecedented set of 12 fossils and 10 host-plant node calibration points. We compared marginal priors and posterior distributions to assess the relative importance of the former on the latter. This approach revealed a strong influence of the set of priors on the root age but for most calibrated nodes posterior distributions shifted from the marginal prior, indicating significant information in the molecular data set. Using a very conservative approach we estimated an origin of butterflies at 107.6 Ma, approximately equivalent to the latest Early Cretaceous, with a credibility interval ranging from 89.5 Ma (mid Late Cretaceous) to 129.5 Ma (mid Early Cretaceous). In addition, we tested the effects of changing fossil calibration priors, tree prior, different sets of calibrations and different sampling fractions but our estimate remained robust to these alternative assumptions. With 994 genera, this tree provides a comprehensive source of secondary calibrations for studies on butterflies. Oxford University Press 2019-09 2019-02-25 /pmc/articles/PMC6893297/ /pubmed/30690622 http://dx.doi.org/10.1093/sysbio/syz002 Text en © The Author(s) 2019. Published by Oxford University Press on behalf of the Society of Systematic Biologists. http://creativecommons.org/licenses/by-nc/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
spellingShingle | Regular Articles Chazot, Nicolas Wahlberg, Niklas Freitas, André Victor Lucci Mitter, Charles Labandeira, Conrad Sohn, Jae-Cheon Sahoo, Ranjit Kumar Seraphim, Noemy de Jong, Rienk Heikkilä, Maria Priors and Posteriors in Bayesian Timing of Divergence Analyses: The Age of Butterflies Revisited |
title | Priors and Posteriors in Bayesian Timing of Divergence Analyses: The Age of Butterflies Revisited |
title_full | Priors and Posteriors in Bayesian Timing of Divergence Analyses: The Age of Butterflies Revisited |
title_fullStr | Priors and Posteriors in Bayesian Timing of Divergence Analyses: The Age of Butterflies Revisited |
title_full_unstemmed | Priors and Posteriors in Bayesian Timing of Divergence Analyses: The Age of Butterflies Revisited |
title_short | Priors and Posteriors in Bayesian Timing of Divergence Analyses: The Age of Butterflies Revisited |
title_sort | priors and posteriors in bayesian timing of divergence analyses: the age of butterflies revisited |
topic | Regular Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6893297/ https://www.ncbi.nlm.nih.gov/pubmed/30690622 http://dx.doi.org/10.1093/sysbio/syz002 |
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