Open AccessSingle nucleotide polymorphisms to discriminate different classes of hybrid between wild Atlantic salmon and aquaculture escapees
Author(s) -
Pritchard Victoria L.,
Erkinaro Jaakko,
Kent Matthew P.,
Niemelä Eero,
Orell Panu,
Lien Sigbjørn,
Primmer Craig R.
Publication year - 2016
Publication title -
evolutionary applications
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.776
H-Index - 68
ISSN - 1752-4571
DOI - 10.1111/eva.12407
Subject(s) - biology , aquaculture , fishery , single nucleotide polymorphism , atlantic cod , salmonidae , salmo , fish <actinopterygii> , ecology , gene , genetics , genotype , gadus
Many wild Atlantic salmon ( Salmo salar ) populations are threatened by introgressive hybridization from domesticated fish that have escaped from aquaculture facilities. A detailed understanding of the hybridization dynamics between wild salmon and aquaculture escapees requires discrimination of different hybrid classes; however, markers currently available to discriminate the two types of parental genome have limited power to do this. Using a high‐density Atlantic salmon single nucleotide polymorphism ( SNP ) array, in combination with pooled‐sample allelotyping and an F st outlier approach, we identified 200 SNP s that differentiated an important Atlantic salmon stock from the escapees potentially hybridizing with it. By simulating multiple generations of wild–escapee hybridization, involving wild populations in two major phylogeographic lineages and a genetically diverse set of escapees, we showed that both the complete set of SNP s and smaller subsets could reliably assign individuals to different hybrid classes up to the third hybrid (F3) generation. This set of markers will be a useful tool for investigating the genetic interactions between native wild fish and aquaculture escapees in many Atlantic salmon populations.