10.5061/DRYAD.2PJ70
Bourret, Vincent
Université Laval
Dionne, Mélanie
Université Laval
Kent, Matthew Peter
Norwegian University of Life Sciences
Lien, Sigbjørn
Norwegian University of Life Sciences
Bernatchez, Louis
Université Laval
Vincent, Bourret
Université Laval
Data from: Landscape genomics in Atlantic salmon (Salmo salar): searching
for gene-environment interactions driving local adaptation
Dryad
dataset
2013
: Single Nucleotide Polymorphism
single nucleotide polymorphism
landscape genomics
Salmo salar
2013-04-16T13:57:11Z
2013-04-16T13:57:11Z
en
https://doi.org/10.1111/evo.12139
8072509 bytes
1
CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
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
analysis.Bourret_geological_data_detailsTable of geological data