Population genomics reveals repeated signals of adaptive divergence in the Atlantic salmon of northeastern Europe
Our ability to examine genetic variation across entire genomes have enabled many studies searching for the genetic basis of local adaptation. These studies have identified numerous loci as candidates for differential local selection, however relatively few have examined the overlap among candidate l...
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ftzenodo:oai:zenodo.org:4294042 2024-09-15T17:55:56+00:00 Population genomics reveals repeated signals of adaptive divergence in the Atlantic salmon of northeastern Europe Zueva, Ksenia Lumme, Jaakko Veselov, Alexey Primmer, Craig Pritchard, Victoria 2020-11-27 https://doi.org/10.5061/dryad.sn02v6x2t unknown Zenodo https://doi.org/10.1016/j.margen.2018.01.001 https://zenodo.org/communities/dryad https://doi.org/10.5061/dryad.sn02v6x2t oai:zenodo.org:4294042 info:eu-repo/semantics/openAccess Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode Russia Local adapation major effect gene allelotying SNP chip info:eu-repo/semantics/other 2020 ftzenodo https://doi.org/10.5061/dryad.sn02v6x2t10.1016/j.margen.2018.01.001 2024-07-27T03:36:18Z Our ability to examine genetic variation across entire genomes have enabled many studies searching for the genetic basis of local adaptation. These studies have identified numerous loci as candidates for differential local selection, however relatively few have examined the overlap among candidate loci identified from independent studies of the same species in different geographic areas or evolutionary lineages. We used an allelotyping approach with a 220K SNP array to characterize the population genetic structure of Atlantic salmon in northeastern Europe and ask whether the same genomic segments emerged as outliers among populations in different geographic regions. Genome-wide data recapitulated the phylogeographic structure previously inferred from mtDNA and microsatellite markers. Independent analyses of three genetically and geographically distinct groups of populations repeatedly inferred the same 17 haploblocks to contain loci under differential local selection. The most strongly supported of these replicated haploblocks had known strong associations with life history variation or immune response in Atlantic salmon. Our results are consistent with these genomic segments harbouring large-effect loci which have a major role in Atlantic salmon diversification and are ideal targets for validation studies. A ReadMe file is included with the datasets Funding provided by: Academy of Finland Crossref Funder Registry ID: http://dx.doi.org/10.13039/501100002341 Award Number: 302873 Funding provided by: Academy of Finland Crossref Funder Registry ID: http://dx.doi.org/10.13039/501100002341 Award Number: 284941 Funding provided by: Academy of Finland Crossref Funder Registry ID: http://dx.doi.org/10.13039/501100002341 Award Number: 314254 Other/Unknown Material Atlantic salmon Zenodo |
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Russia Local adapation major effect gene allelotying SNP chip |
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Russia Local adapation major effect gene allelotying SNP chip Zueva, Ksenia Lumme, Jaakko Veselov, Alexey Primmer, Craig Pritchard, Victoria Population genomics reveals repeated signals of adaptive divergence in the Atlantic salmon of northeastern Europe |
topic_facet |
Russia Local adapation major effect gene allelotying SNP chip |
description |
Our ability to examine genetic variation across entire genomes have enabled many studies searching for the genetic basis of local adaptation. These studies have identified numerous loci as candidates for differential local selection, however relatively few have examined the overlap among candidate loci identified from independent studies of the same species in different geographic areas or evolutionary lineages. We used an allelotyping approach with a 220K SNP array to characterize the population genetic structure of Atlantic salmon in northeastern Europe and ask whether the same genomic segments emerged as outliers among populations in different geographic regions. Genome-wide data recapitulated the phylogeographic structure previously inferred from mtDNA and microsatellite markers. Independent analyses of three genetically and geographically distinct groups of populations repeatedly inferred the same 17 haploblocks to contain loci under differential local selection. The most strongly supported of these replicated haploblocks had known strong associations with life history variation or immune response in Atlantic salmon. Our results are consistent with these genomic segments harbouring large-effect loci which have a major role in Atlantic salmon diversification and are ideal targets for validation studies. A ReadMe file is included with the datasets Funding provided by: Academy of Finland Crossref Funder Registry ID: http://dx.doi.org/10.13039/501100002341 Award Number: 302873 Funding provided by: Academy of Finland Crossref Funder Registry ID: http://dx.doi.org/10.13039/501100002341 Award Number: 284941 Funding provided by: Academy of Finland Crossref Funder Registry ID: http://dx.doi.org/10.13039/501100002341 Award Number: 314254 |
format |
Other/Unknown Material |
author |
Zueva, Ksenia Lumme, Jaakko Veselov, Alexey Primmer, Craig Pritchard, Victoria |
author_facet |
Zueva, Ksenia Lumme, Jaakko Veselov, Alexey Primmer, Craig Pritchard, Victoria |
author_sort |
Zueva, Ksenia |
title |
Population genomics reveals repeated signals of adaptive divergence in the Atlantic salmon of northeastern Europe |
title_short |
Population genomics reveals repeated signals of adaptive divergence in the Atlantic salmon of northeastern Europe |
title_full |
Population genomics reveals repeated signals of adaptive divergence in the Atlantic salmon of northeastern Europe |
title_fullStr |
Population genomics reveals repeated signals of adaptive divergence in the Atlantic salmon of northeastern Europe |
title_full_unstemmed |
Population genomics reveals repeated signals of adaptive divergence in the Atlantic salmon of northeastern Europe |
title_sort |
population genomics reveals repeated signals of adaptive divergence in the atlantic salmon of northeastern europe |
publisher |
Zenodo |
publishDate |
2020 |
url |
https://doi.org/10.5061/dryad.sn02v6x2t |
genre |
Atlantic salmon |
genre_facet |
Atlantic salmon |
op_relation |
https://doi.org/10.1016/j.margen.2018.01.001 https://zenodo.org/communities/dryad https://doi.org/10.5061/dryad.sn02v6x2t oai:zenodo.org:4294042 |
op_rights |
info:eu-repo/semantics/openAccess Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode |
op_doi |
https://doi.org/10.5061/dryad.sn02v6x2t10.1016/j.margen.2018.01.001 |
_version_ |
1810432156445442048 |