A1 Refereed original research article in a scientific journal
Population genomics reveals repeated signals of adaptive divergence in the Atlantic salmon of north-eastern Europe
Authors: Ksenia J. Zueva, Jaakko Lumme, Alexey E. Veselov, Craig R. Primmer, Victoria L. Pritchard
Publisher: Wiley
Publication year: 2020
Journal: Journal of Evolutionary Biology
Journal name in source: JOURNAL OF EVOLUTIONARY BIOLOGY
Journal acronym: J EVOLUTION BIOL
Number of pages: 13
ISSN: 1010-061X
eISSN: 1420-9101
DOI: https://doi.org/10.1111/jeb.13732
Self-archived copy’s web address: https://helda.helsinki.fi/bitstream/10138/336001/1/Zueva_JEB2020_final.pdf
Abstract
Our ability to examine genetic variation across entire genomes has 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 north-eastern 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.
Our ability to examine genetic variation across entire genomes has 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 north-eastern 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.
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