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Introducing Trait Networks to Elucidate the Fluidity of Organismal Evolution Using Palaeontological Data
Explaining the evolution of animals requires ecological, developmental, paleontological, and phylogenetic considerations because organismal traits are affected by complex evolutionary processes. Modeling a plurality of processes, operating at distinct time-scales on potentially interdependent traits...
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/PMC6761957/ https://www.ncbi.nlm.nih.gov/pubmed/31504500 http://dx.doi.org/10.1093/gbe/evz182 |
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author | Lord, Etienne Pathmanathan, Jananan S Corel, Eduardo Makarenkov, Vladimir Lopez, Philippe Bouchard, Frédéric Bhattacharya, Debashish Antoine, Pierre-Olivier Le Guyader, Hervé Lapointe, François-Joseph Bapteste, Eric |
author_facet | Lord, Etienne Pathmanathan, Jananan S Corel, Eduardo Makarenkov, Vladimir Lopez, Philippe Bouchard, Frédéric Bhattacharya, Debashish Antoine, Pierre-Olivier Le Guyader, Hervé Lapointe, François-Joseph Bapteste, Eric |
author_sort | Lord, Etienne |
collection | PubMed |
description | Explaining the evolution of animals requires ecological, developmental, paleontological, and phylogenetic considerations because organismal traits are affected by complex evolutionary processes. Modeling a plurality of processes, operating at distinct time-scales on potentially interdependent traits, can benefit from approaches that are complementary treatments to phylogenetics. Here, we developed an inclusive network approach, implemented in the command line software ComponentGrapher, and analyzed trait co-occurrence of rhinocerotoid mammals. We identified stable, unstable, and pivotal traits, as well as traits contributing to complexes, that may follow to a common developmental regulation, that point to an early implementation of the postcranial Bauplan among rhinocerotoids. Strikingly, most identified traits are highly dissociable, used repeatedly in distinct combinations and in different taxa, which usually do not form clades. Therefore, the genes encoding these traits are likely recruited into novel gene regulation networks during the course of evolution. Our evo-systemic framework, generalizable to other evolved organizations, supports a pluralistic modeling of organismal evolution, including trees and networks. |
format | Online Article Text |
id | pubmed-6761957 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-67619572019-10-02 Introducing Trait Networks to Elucidate the Fluidity of Organismal Evolution Using Palaeontological Data Lord, Etienne Pathmanathan, Jananan S Corel, Eduardo Makarenkov, Vladimir Lopez, Philippe Bouchard, Frédéric Bhattacharya, Debashish Antoine, Pierre-Olivier Le Guyader, Hervé Lapointe, François-Joseph Bapteste, Eric Genome Biol Evol Research Article Explaining the evolution of animals requires ecological, developmental, paleontological, and phylogenetic considerations because organismal traits are affected by complex evolutionary processes. Modeling a plurality of processes, operating at distinct time-scales on potentially interdependent traits, can benefit from approaches that are complementary treatments to phylogenetics. Here, we developed an inclusive network approach, implemented in the command line software ComponentGrapher, and analyzed trait co-occurrence of rhinocerotoid mammals. We identified stable, unstable, and pivotal traits, as well as traits contributing to complexes, that may follow to a common developmental regulation, that point to an early implementation of the postcranial Bauplan among rhinocerotoids. Strikingly, most identified traits are highly dissociable, used repeatedly in distinct combinations and in different taxa, which usually do not form clades. Therefore, the genes encoding these traits are likely recruited into novel gene regulation networks during the course of evolution. Our evo-systemic framework, generalizable to other evolved organizations, supports a pluralistic modeling of organismal evolution, including trees and networks. Oxford University Press 2019-09-05 /pmc/articles/PMC6761957/ /pubmed/31504500 http://dx.doi.org/10.1093/gbe/evz182 Text en © The Author(s) 2019. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Article Lord, Etienne Pathmanathan, Jananan S Corel, Eduardo Makarenkov, Vladimir Lopez, Philippe Bouchard, Frédéric Bhattacharya, Debashish Antoine, Pierre-Olivier Le Guyader, Hervé Lapointe, François-Joseph Bapteste, Eric Introducing Trait Networks to Elucidate the Fluidity of Organismal Evolution Using Palaeontological Data |
title | Introducing Trait Networks to Elucidate the Fluidity of Organismal Evolution Using Palaeontological Data |
title_full | Introducing Trait Networks to Elucidate the Fluidity of Organismal Evolution Using Palaeontological Data |
title_fullStr | Introducing Trait Networks to Elucidate the Fluidity of Organismal Evolution Using Palaeontological Data |
title_full_unstemmed | Introducing Trait Networks to Elucidate the Fluidity of Organismal Evolution Using Palaeontological Data |
title_short | Introducing Trait Networks to Elucidate the Fluidity of Organismal Evolution Using Palaeontological Data |
title_sort | introducing trait networks to elucidate the fluidity of organismal evolution using palaeontological data |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6761957/ https://www.ncbi.nlm.nih.gov/pubmed/31504500 http://dx.doi.org/10.1093/gbe/evz182 |
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