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Molecular signatures of divergence and selection in closely related pine taxa

Efforts to detect loci under selection in plants have mostly focussed on single species. However, assuming that intraspecific divergence may lead to speciation, comparisons of genetic variation within and among recently diverged taxa can help to locate such genes. In this study, coalescent and outli...

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Autores principales: Wachowiak, Witold, Zaborowska, Julia, Łabiszak, Bartosz, Perry, Annika, Zucca, Giovanni M., González-Martínez, Santiago C., Cavers, Stephen
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Berlin Heidelberg 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6404648/
https://www.ncbi.nlm.nih.gov/pubmed/30930708
http://dx.doi.org/10.1007/s11295-018-1296-3
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author Wachowiak, Witold
Zaborowska, Julia
Łabiszak, Bartosz
Perry, Annika
Zucca, Giovanni M.
González-Martínez, Santiago C.
Cavers, Stephen
author_facet Wachowiak, Witold
Zaborowska, Julia
Łabiszak, Bartosz
Perry, Annika
Zucca, Giovanni M.
González-Martínez, Santiago C.
Cavers, Stephen
author_sort Wachowiak, Witold
collection PubMed
description Efforts to detect loci under selection in plants have mostly focussed on single species. However, assuming that intraspecific divergence may lead to speciation, comparisons of genetic variation within and among recently diverged taxa can help to locate such genes. In this study, coalescent and outlier detection methods were used to assess nucleotide polymorphism and divergence at 79 nuclear gene fragments (1212 SNPs) in 16 populations (153 individuals) of the closely related, but phenotypically and ecologically distinct, pine taxa Pinus mugo, P. uliginosa and P. uncinata across their European distributions. Simultaneously, mitochondrial DNA markers, which are maternally inherited in pines and distributed by seeds at short geographic distance, were used to assess genetic relationships of the focal populations and taxa. The majority of nuclear loci showed homogenous patterns of variation between the taxa due to a high number of shared SNPs and haplotypes, similar levels of polymorphism, and low net divergence. However, against this common genetic background and an overall low population structure within taxa at mitochondrial markers, we identified several genes showing signatures of selection, accompanied by significant intra- and interspecific divergence. Our results indicate that loci involved in species divergence may be involved in intraspecific local adaptation. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1007/s11295-018-1296-3) contains supplementary material, which is available to authorized users.
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spelling pubmed-64046482019-03-27 Molecular signatures of divergence and selection in closely related pine taxa Wachowiak, Witold Zaborowska, Julia Łabiszak, Bartosz Perry, Annika Zucca, Giovanni M. González-Martínez, Santiago C. Cavers, Stephen Tree Genet. Genomes Original Article Efforts to detect loci under selection in plants have mostly focussed on single species. However, assuming that intraspecific divergence may lead to speciation, comparisons of genetic variation within and among recently diverged taxa can help to locate such genes. In this study, coalescent and outlier detection methods were used to assess nucleotide polymorphism and divergence at 79 nuclear gene fragments (1212 SNPs) in 16 populations (153 individuals) of the closely related, but phenotypically and ecologically distinct, pine taxa Pinus mugo, P. uliginosa and P. uncinata across their European distributions. Simultaneously, mitochondrial DNA markers, which are maternally inherited in pines and distributed by seeds at short geographic distance, were used to assess genetic relationships of the focal populations and taxa. The majority of nuclear loci showed homogenous patterns of variation between the taxa due to a high number of shared SNPs and haplotypes, similar levels of polymorphism, and low net divergence. However, against this common genetic background and an overall low population structure within taxa at mitochondrial markers, we identified several genes showing signatures of selection, accompanied by significant intra- and interspecific divergence. Our results indicate that loci involved in species divergence may be involved in intraspecific local adaptation. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1007/s11295-018-1296-3) contains supplementary material, which is available to authorized users. Springer Berlin Heidelberg 2018-10-28 2018 /pmc/articles/PMC6404648/ /pubmed/30930708 http://dx.doi.org/10.1007/s11295-018-1296-3 Text en © The Author(s) 2018 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided 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.
spellingShingle Original Article
Wachowiak, Witold
Zaborowska, Julia
Łabiszak, Bartosz
Perry, Annika
Zucca, Giovanni M.
González-Martínez, Santiago C.
Cavers, Stephen
Molecular signatures of divergence and selection in closely related pine taxa
title Molecular signatures of divergence and selection in closely related pine taxa
title_full Molecular signatures of divergence and selection in closely related pine taxa
title_fullStr Molecular signatures of divergence and selection in closely related pine taxa
title_full_unstemmed Molecular signatures of divergence and selection in closely related pine taxa
title_short Molecular signatures of divergence and selection in closely related pine taxa
title_sort molecular signatures of divergence and selection in closely related pine taxa
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6404648/
https://www.ncbi.nlm.nih.gov/pubmed/30930708
http://dx.doi.org/10.1007/s11295-018-1296-3
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