Data from: Landscape genomics in Atlantic salmon (Salmo salar): searching for gene-environment interactions driving local adaptation
A growing number of studies are examining the factors driving historical and contemporary evolution in wild populations. By combining surveys of genomic variation with a comprehensive assessment of environmental parameters, such studies can increase our understanding of the genomic and geographical...
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Online Access: | https://doi.org/10.5061/dryad.2pj70 |
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fttriple:oai:gotriple.eu:50|dedup_wf_001::ea187f65d3843af1d7182f2b992567dc 2023-05-15T15:30:31+02:00 Data from: Landscape genomics in Atlantic salmon (Salmo salar): searching for gene-environment interactions driving local adaptation Bourret, Vincent Dionne, Mélanie Kent, Matthew Peter Lien, Sigbjørn Bernatchez, Louis Vincent, Bourret Kent, Matthew P. 2020-07-17 https://doi.org/10.5061/dryad.2pj70 undefined unknown Dryad https://dx.doi.org/10.5061/dryad.2pj70 http://dx.doi.org/10.5061/dryad.2pj70 lic_creative-commons 10.5061/dryad.2pj70 oai:easy.dans.knaw.nl:easy-dataset:83462 oai:services.nod.dans.knaw.nl:Products/dans:oai:easy.dans.knaw.nl:easy-dataset:83462 10|openaire____::9e3be59865b2c1c335d32dae2fe7b254 re3data_____::r3d100000044 10|re3data_____::84e123776089ce3c7a33db98d9cd15a8 10|re3data_____::94816e6421eeb072e7742ce6a9decc5f 10|eurocrisdris::fe4903425d9040f680d8610d9079ea14 10|openaire____::081b82f96300b6a6e3d282bad31cb6e2 10|opendoar____::8b6dd7db9af49e67306feb59a8bdc52c : Single Nucleotide Polymorphism landscape genomics local adaptation Salmo salar population genetics conservation salmonids Life sciences medicine and health care envir geo Dataset https://vocabularies.coar-repositories.org/resource_types/c_ddb1/ 2020 fttriple https://doi.org/10.5061/dryad.2pj70 2023-01-22T16:50:37Z A growing number of studies are examining the factors driving historical and contemporary evolution in wild populations. By combining surveys of genomic variation with a comprehensive assessment of environmental parameters, such studies can increase our understanding of the genomic and geographical extent of local adaptation in wild populations. We utilized a large-scale landscape genomics approach to examine adaptive and neutral differentiation across 54 North American populations of Atlantic salmon representing seven previously defined genetically distinct regional groups. Over 5500 genome-wide SNPs were genotyped in 641 individuals and 28 bulk assays of 25 pooled individuals each. Genome scans, linkage map and 49 environmental variables were combined to conduct an innovative landscape genomic analysis. Our results provide valuable insight into the links between environmental variation and both neutral and potentially adaptive genetic divergence. In particular, we identified markers potentially under divergent selection, as well as associated selective environmental factors and biological functions with the observed adaptive divergence. Multivariate landscape genetic analysis revealed strong associations of both genetic and environmental structures. We found an enrichment of growth related functions among outlier markers. Climate (temperature-precipitation) and geological characteristics were significantly associated with both potentially adaptive and neutral genetic divergence and should be considered as candidate loci involved in adaptation at the regional scale in Atlantic salmon. Hence, this study significantly contributes to the improvement of tools used in modern conservation and management schemes of Atlantic salmon wild populations. Bourret_genotypesGenotype table for 640 individuals and 3118 snp markers retained in final analyses.Bourret_env_and_pca_factorsEnvironmental data used in the principal component analysis and 10 pca factors values obtained and used in the redundancy ... Dataset Atlantic salmon Salmo salar Unknown |
institution |
Open Polar |
collection |
Unknown |
op_collection_id |
fttriple |
language |
unknown |
topic |
: Single Nucleotide Polymorphism landscape genomics local adaptation Salmo salar population genetics conservation salmonids Life sciences medicine and health care envir geo |
spellingShingle |
: Single Nucleotide Polymorphism landscape genomics local adaptation Salmo salar population genetics conservation salmonids Life sciences medicine and health care envir geo Bourret, Vincent Dionne, Mélanie Kent, Matthew Peter Lien, Sigbjørn Bernatchez, Louis Vincent, Bourret Kent, Matthew P. Data from: Landscape genomics in Atlantic salmon (Salmo salar): searching for gene-environment interactions driving local adaptation |
topic_facet |
: Single Nucleotide Polymorphism landscape genomics local adaptation Salmo salar population genetics conservation salmonids Life sciences medicine and health care envir geo |
description |
A growing number of studies are examining the factors driving historical and contemporary evolution in wild populations. By combining surveys of genomic variation with a comprehensive assessment of environmental parameters, such studies can increase our understanding of the genomic and geographical extent of local adaptation in wild populations. We utilized a large-scale landscape genomics approach to examine adaptive and neutral differentiation across 54 North American populations of Atlantic salmon representing seven previously defined genetically distinct regional groups. Over 5500 genome-wide SNPs were genotyped in 641 individuals and 28 bulk assays of 25 pooled individuals each. Genome scans, linkage map and 49 environmental variables were combined to conduct an innovative landscape genomic analysis. Our results provide valuable insight into the links between environmental variation and both neutral and potentially adaptive genetic divergence. In particular, we identified markers potentially under divergent selection, as well as associated selective environmental factors and biological functions with the observed adaptive divergence. Multivariate landscape genetic analysis revealed strong associations of both genetic and environmental structures. We found an enrichment of growth related functions among outlier markers. Climate (temperature-precipitation) and geological characteristics were significantly associated with both potentially adaptive and neutral genetic divergence and should be considered as candidate loci involved in adaptation at the regional scale in Atlantic salmon. Hence, this study significantly contributes to the improvement of tools used in modern conservation and management schemes of Atlantic salmon wild populations. Bourret_genotypesGenotype table for 640 individuals and 3118 snp markers retained in final analyses.Bourret_env_and_pca_factorsEnvironmental data used in the principal component analysis and 10 pca factors values obtained and used in the redundancy ... |
format |
Dataset |
author |
Bourret, Vincent Dionne, Mélanie Kent, Matthew Peter Lien, Sigbjørn Bernatchez, Louis Vincent, Bourret Kent, Matthew P. |
author_facet |
Bourret, Vincent Dionne, Mélanie Kent, Matthew Peter Lien, Sigbjørn Bernatchez, Louis Vincent, Bourret Kent, Matthew P. |
author_sort |
Bourret, Vincent |
title |
Data from: Landscape genomics in Atlantic salmon (Salmo salar): searching for gene-environment interactions driving local adaptation |
title_short |
Data from: Landscape genomics in Atlantic salmon (Salmo salar): searching for gene-environment interactions driving local adaptation |
title_full |
Data from: Landscape genomics in Atlantic salmon (Salmo salar): searching for gene-environment interactions driving local adaptation |
title_fullStr |
Data from: Landscape genomics in Atlantic salmon (Salmo salar): searching for gene-environment interactions driving local adaptation |
title_full_unstemmed |
Data from: Landscape genomics in Atlantic salmon (Salmo salar): searching for gene-environment interactions driving local adaptation |
title_sort |
data from: landscape genomics in atlantic salmon (salmo salar): searching for gene-environment interactions driving local adaptation |
publisher |
Dryad |
publishDate |
2020 |
url |
https://doi.org/10.5061/dryad.2pj70 |
genre |
Atlantic salmon Salmo salar |
genre_facet |
Atlantic salmon Salmo salar |
op_source |
10.5061/dryad.2pj70 oai:easy.dans.knaw.nl:easy-dataset:83462 oai:services.nod.dans.knaw.nl:Products/dans:oai:easy.dans.knaw.nl:easy-dataset:83462 10|openaire____::9e3be59865b2c1c335d32dae2fe7b254 re3data_____::r3d100000044 10|re3data_____::84e123776089ce3c7a33db98d9cd15a8 10|re3data_____::94816e6421eeb072e7742ce6a9decc5f 10|eurocrisdris::fe4903425d9040f680d8610d9079ea14 10|openaire____::081b82f96300b6a6e3d282bad31cb6e2 10|opendoar____::8b6dd7db9af49e67306feb59a8bdc52c |
op_relation |
https://dx.doi.org/10.5061/dryad.2pj70 http://dx.doi.org/10.5061/dryad.2pj70 |
op_rights |
lic_creative-commons |
op_doi |
https://doi.org/10.5061/dryad.2pj70 |
_version_ |
1766360963474259968 |