Data from: Detecting genotypic changes associated with selective mortality at sea in Atlantic salmon: polygenic multi-locus analysis surpasses genome scan ...

• Main Authors: Bourret, Vincent, Dionne, Mélanie, Bernatchez, Louis
• Format: Dataset
• Language: English
• Published: Dryad 2014
• Subjects: single nucleotide polymorphism; Mortality at sea; Salmo salar; Contemporary Evolution; Atlantic salmon
• Online Access: https://dx.doi.org/10.5061/dryad.j86v9; https://datadryad.org/stash/dataset/doi:10.5061/dryad.j86v9

Wild populations of Atlantic salmon have declined worldwide. While the causes for this decline may be complex and numerous, increased mortality at sea is predicted to be one of the major contributing factors. Examining the potential changes occurring in the genome-wide composition of populations during this migration has the potential to tease apart some of the factors influencing marine mortality. Here, we genotyped 5568 SNPs in Atlantic salmon populations representing two distinct regional genetic groups and across two cohorts to test for differential allelic and genotypic frequencies between juveniles (smolts) migrating to sea and adults (grilses) returning to freshwater after one year at sea. Given the complexity of the traits potentially associated with sea mortality, we contrasted the outcomes of a single-locus FST based genome scan method with a new multi-locus framework to test for genetically-based differential mortality at sea. While numerous outliers were identified by the single-locus analysis, ... : Genotypes_PowerMarkerGenotype file for 2923 SNPs retained for analyses performed in the article.Donnees_genet SAS 2923Input file for SAS analysesSAS Discriminant AnalysisSAS analyses ScriptsScript_covariance_allelic_effectScript for covariance of allelic effect analysisDonnees_genet_2923One of two input files for the delta p analysisDelta_PTwo of two input files for delta p analysisScript_Delta pScript for delta p analysis (figure construction) ...