Cargando…
Impact of long‐term chromosomal shuffling on the multispecies coalescent analysis of two anthropoid primate lineages
Multispecies coalescent (MSC) theory assumes that gene trees inferred from individual loci are independent trials of the MSC process. As genes might be physically close in syntenic associations spanning along chromosome regions, these assumptions might be flawed in evolutionary lineages with substan...
Autores principales: | , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley and Sons Inc.
2017
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5773316/ https://www.ncbi.nlm.nih.gov/pubmed/29375791 http://dx.doi.org/10.1002/ece3.3736 |
_version_ | 1783293546211573760 |
---|---|
author | Schrago, Carlos G. Mello, Beatriz Pereira, Anieli G. Furtado, Carolina Seuánez, Hector N. |
author_facet | Schrago, Carlos G. Mello, Beatriz Pereira, Anieli G. Furtado, Carolina Seuánez, Hector N. |
author_sort | Schrago, Carlos G. |
collection | PubMed |
description | Multispecies coalescent (MSC) theory assumes that gene trees inferred from individual loci are independent trials of the MSC process. As genes might be physically close in syntenic associations spanning along chromosome regions, these assumptions might be flawed in evolutionary lineages with substantial karyotypic shuffling. Neotropical primates (NP) represent an ideal case for assessing the performance of MSC methods in such scenarios because chromosome diploid number varies significantly in this lineage. To this end, we investigated the effect of sequence length on the theoretical expectations of MSC model, as well as the results of coalescent‐based tree inference methods. This was carried out by comparing NP with hominids, a lineage in which chromosome macrostructure has been stable for at least 15 million years. We found that departure from the MSC model in Neotropical primates decreased with smaller sequence fragments, where sites sharing the same evolutionary history were more frequently found than in longer fragments. This scenario probably resulted from extensive karyotypic rearrangement occurring during the radiation of NP, contrary to the comparatively stable chromosome evolution in hominids. |
format | Online Article Text |
id | pubmed-5773316 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | John Wiley and Sons Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-57733162018-01-26 Impact of long‐term chromosomal shuffling on the multispecies coalescent analysis of two anthropoid primate lineages Schrago, Carlos G. Mello, Beatriz Pereira, Anieli G. Furtado, Carolina Seuánez, Hector N. Ecol Evol Original Research Multispecies coalescent (MSC) theory assumes that gene trees inferred from individual loci are independent trials of the MSC process. As genes might be physically close in syntenic associations spanning along chromosome regions, these assumptions might be flawed in evolutionary lineages with substantial karyotypic shuffling. Neotropical primates (NP) represent an ideal case for assessing the performance of MSC methods in such scenarios because chromosome diploid number varies significantly in this lineage. To this end, we investigated the effect of sequence length on the theoretical expectations of MSC model, as well as the results of coalescent‐based tree inference methods. This was carried out by comparing NP with hominids, a lineage in which chromosome macrostructure has been stable for at least 15 million years. We found that departure from the MSC model in Neotropical primates decreased with smaller sequence fragments, where sites sharing the same evolutionary history were more frequently found than in longer fragments. This scenario probably resulted from extensive karyotypic rearrangement occurring during the radiation of NP, contrary to the comparatively stable chromosome evolution in hominids. John Wiley and Sons Inc. 2017-12-20 /pmc/articles/PMC5773316/ /pubmed/29375791 http://dx.doi.org/10.1002/ece3.3736 Text en © 2017 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd. This is an open access article under the terms of the Creative Commons Attribution (http://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Original Research Schrago, Carlos G. Mello, Beatriz Pereira, Anieli G. Furtado, Carolina Seuánez, Hector N. Impact of long‐term chromosomal shuffling on the multispecies coalescent analysis of two anthropoid primate lineages |
title | Impact of long‐term chromosomal shuffling on the multispecies coalescent analysis of two anthropoid primate lineages |
title_full | Impact of long‐term chromosomal shuffling on the multispecies coalescent analysis of two anthropoid primate lineages |
title_fullStr | Impact of long‐term chromosomal shuffling on the multispecies coalescent analysis of two anthropoid primate lineages |
title_full_unstemmed | Impact of long‐term chromosomal shuffling on the multispecies coalescent analysis of two anthropoid primate lineages |
title_short | Impact of long‐term chromosomal shuffling on the multispecies coalescent analysis of two anthropoid primate lineages |
title_sort | impact of long‐term chromosomal shuffling on the multispecies coalescent analysis of two anthropoid primate lineages |
topic | Original Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5773316/ https://www.ncbi.nlm.nih.gov/pubmed/29375791 http://dx.doi.org/10.1002/ece3.3736 |
work_keys_str_mv | AT schragocarlosg impactoflongtermchromosomalshufflingonthemultispeciescoalescentanalysisoftwoanthropoidprimatelineages AT mellobeatriz impactoflongtermchromosomalshufflingonthemultispeciescoalescentanalysisoftwoanthropoidprimatelineages AT pereiraanielig impactoflongtermchromosomalshufflingonthemultispeciescoalescentanalysisoftwoanthropoidprimatelineages AT furtadocarolina impactoflongtermchromosomalshufflingonthemultispeciescoalescentanalysisoftwoanthropoidprimatelineages AT seuanezhectorn impactoflongtermchromosomalshufflingonthemultispeciescoalescentanalysisoftwoanthropoidprimatelineages |