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Evolution of genomic variation in the burrowing owl in response to recent colonization of urban areas

When a species successfully colonizes an urban habitat it can be expected that its population rapidly adapts to the new environment but also experiences demographic perturbations. It is, therefore, essential to gain an understanding of the population structure and the demographic history of the urba...

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Autores principales: Mueller, Jakob C., Kuhl, Heiner, Boerno, Stefan, Tella, Jose L., Carrete, Martina, Kempenaers, Bart
Formato: Online Artículo Texto
Lenguaje:English
Publicado: The Royal Society 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5966595/
https://www.ncbi.nlm.nih.gov/pubmed/29769357
http://dx.doi.org/10.1098/rspb.2018.0206
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author Mueller, Jakob C.
Kuhl, Heiner
Boerno, Stefan
Tella, Jose L.
Carrete, Martina
Kempenaers, Bart
author_facet Mueller, Jakob C.
Kuhl, Heiner
Boerno, Stefan
Tella, Jose L.
Carrete, Martina
Kempenaers, Bart
author_sort Mueller, Jakob C.
collection PubMed
description When a species successfully colonizes an urban habitat it can be expected that its population rapidly adapts to the new environment but also experiences demographic perturbations. It is, therefore, essential to gain an understanding of the population structure and the demographic history of the urban and neighbouring rural populations before studying adaptation at the genome level. Here, we investigate populations of the burrowing owl (Athene cunicularia), a species that colonized South American cities just a few decades ago. We assembled a high-quality genome of the burrowing owl and re-sequenced 137 owls from three urban–rural population pairs at 17-fold median sequencing coverage per individual. Our data indicate that each city was independently colonized by a limited number of founders and that restricted gene flow occurred between neighbouring urban and rural populations, but not between urban populations of different cities. Using long-range linkage disequilibrium statistics in an approximate Bayesian computation approach, we estimated consistently lower population sizes in the recent past for the urban populations in comparison to the rural ones. The current urban populations all show reduced standing variation in rare single nucleotide polymorphisms (SNPs), but with different subsets of rare SNPs in different cities. This lowers the potential for local adaptation based on rare variants and makes it harder to detect consistent signals of selection in the genome.
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spelling pubmed-59665952018-05-24 Evolution of genomic variation in the burrowing owl in response to recent colonization of urban areas Mueller, Jakob C. Kuhl, Heiner Boerno, Stefan Tella, Jose L. Carrete, Martina Kempenaers, Bart Proc Biol Sci Special Feature When a species successfully colonizes an urban habitat it can be expected that its population rapidly adapts to the new environment but also experiences demographic perturbations. It is, therefore, essential to gain an understanding of the population structure and the demographic history of the urban and neighbouring rural populations before studying adaptation at the genome level. Here, we investigate populations of the burrowing owl (Athene cunicularia), a species that colonized South American cities just a few decades ago. We assembled a high-quality genome of the burrowing owl and re-sequenced 137 owls from three urban–rural population pairs at 17-fold median sequencing coverage per individual. Our data indicate that each city was independently colonized by a limited number of founders and that restricted gene flow occurred between neighbouring urban and rural populations, but not between urban populations of different cities. Using long-range linkage disequilibrium statistics in an approximate Bayesian computation approach, we estimated consistently lower population sizes in the recent past for the urban populations in comparison to the rural ones. The current urban populations all show reduced standing variation in rare single nucleotide polymorphisms (SNPs), but with different subsets of rare SNPs in different cities. This lowers the potential for local adaptation based on rare variants and makes it harder to detect consistent signals of selection in the genome. The Royal Society 2018-05-16 2018-05-16 /pmc/articles/PMC5966595/ /pubmed/29769357 http://dx.doi.org/10.1098/rspb.2018.0206 Text en © 2018 The Authors. http://creativecommons.org/licenses/by/4.0/ Published by the Royal Society under the terms of the Creative Commons Attribution License http://creativecommons.org/licenses/by/4.0/, which permits unrestricted use, provided the original author and source are credited.
spellingShingle Special Feature
Mueller, Jakob C.
Kuhl, Heiner
Boerno, Stefan
Tella, Jose L.
Carrete, Martina
Kempenaers, Bart
Evolution of genomic variation in the burrowing owl in response to recent colonization of urban areas
title Evolution of genomic variation in the burrowing owl in response to recent colonization of urban areas
title_full Evolution of genomic variation in the burrowing owl in response to recent colonization of urban areas
title_fullStr Evolution of genomic variation in the burrowing owl in response to recent colonization of urban areas
title_full_unstemmed Evolution of genomic variation in the burrowing owl in response to recent colonization of urban areas
title_short Evolution of genomic variation in the burrowing owl in response to recent colonization of urban areas
title_sort evolution of genomic variation in the burrowing owl in response to recent colonization of urban areas
topic Special Feature
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5966595/
https://www.ncbi.nlm.nih.gov/pubmed/29769357
http://dx.doi.org/10.1098/rspb.2018.0206
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