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Model selection may not be a mandatory step for phylogeny reconstruction

Determining the most suitable model for phylogeny reconstruction constitutes a fundamental step in numerous evolutionary studies. Over the years, various criteria for model selection have been proposed, leading to debate over which criterion is preferable. However, the necessity of this procedure ha...

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Autores principales: Abadi, Shiran, Azouri, Dana, Pupko, Tal, Mayrose, Itay
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6389923/
https://www.ncbi.nlm.nih.gov/pubmed/30804347
http://dx.doi.org/10.1038/s41467-019-08822-w
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author Abadi, Shiran
Azouri, Dana
Pupko, Tal
Mayrose, Itay
author_facet Abadi, Shiran
Azouri, Dana
Pupko, Tal
Mayrose, Itay
author_sort Abadi, Shiran
collection PubMed
description Determining the most suitable model for phylogeny reconstruction constitutes a fundamental step in numerous evolutionary studies. Over the years, various criteria for model selection have been proposed, leading to debate over which criterion is preferable. However, the necessity of this procedure has not been questioned to date. Here, we demonstrate that although incongruency regarding the selected model is frequent over empirical and simulated data, all criteria lead to very similar inferences. When topologies and ancestral sequence reconstruction are the desired output, choosing one criterion over another is not crucial. Moreover, skipping model selection and using instead the most parameter-rich model, GTR+I+G, leads to similar inferences, thus rendering this time-consuming step nonessential, at least under current strategies of model selection.
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spelling pubmed-63899232019-02-27 Model selection may not be a mandatory step for phylogeny reconstruction Abadi, Shiran Azouri, Dana Pupko, Tal Mayrose, Itay Nat Commun Article Determining the most suitable model for phylogeny reconstruction constitutes a fundamental step in numerous evolutionary studies. Over the years, various criteria for model selection have been proposed, leading to debate over which criterion is preferable. However, the necessity of this procedure has not been questioned to date. Here, we demonstrate that although incongruency regarding the selected model is frequent over empirical and simulated data, all criteria lead to very similar inferences. When topologies and ancestral sequence reconstruction are the desired output, choosing one criterion over another is not crucial. Moreover, skipping model selection and using instead the most parameter-rich model, GTR+I+G, leads to similar inferences, thus rendering this time-consuming step nonessential, at least under current strategies of model selection. Nature Publishing Group UK 2019-02-25 /pmc/articles/PMC6389923/ /pubmed/30804347 http://dx.doi.org/10.1038/s41467-019-08822-w Text en © The Author(s) 2019 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Abadi, Shiran
Azouri, Dana
Pupko, Tal
Mayrose, Itay
Model selection may not be a mandatory step for phylogeny reconstruction
title Model selection may not be a mandatory step for phylogeny reconstruction
title_full Model selection may not be a mandatory step for phylogeny reconstruction
title_fullStr Model selection may not be a mandatory step for phylogeny reconstruction
title_full_unstemmed Model selection may not be a mandatory step for phylogeny reconstruction
title_short Model selection may not be a mandatory step for phylogeny reconstruction
title_sort model selection may not be a mandatory step for phylogeny reconstruction
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6389923/
https://www.ncbi.nlm.nih.gov/pubmed/30804347
http://dx.doi.org/10.1038/s41467-019-08822-w
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