Screen for footprints of selection during domestication/captive breeding of Atlantic salmon

Domesticated animals provide a unique opportunity to identify genomic targets of artificial selection to the captive environment. Here, we screened three independent domesticated/captive Atlantic salmon (Salmo salar) strains and their wild progenitor populations in an effort to detect potential sign...

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Bibliographic Details
Published in:Comparative and Functional Genomics
Main Authors: Vasemägi, Anti, Nilsson, Jan, McGinnity, Philip, Cross, Thomas F., O'Reilly, Patrick, Glebe, Brian, Peng, Bo, Ragnar Berg, Paul, Primmer, Craig Robert
Format: Article in Journal/Newspaper
Language:English
Published: Hindawi Publishing Corporation 2012
Subjects:
Molecular population-genetics
Positive selection
Salar L
Soft sweeps
Maize domestication
Genomic region
Body weight
Baltic Sea
Wild
Adaptation
Atlantic salmon
Salmo salar
Online Access:http://hdl.handle.net/10468/5710
https://doi.org/10.1155/2012/628204
Description
Summary:Domesticated animals provide a unique opportunity to identify genomic targets of artificial selection to the captive environment. Here, we screened three independent domesticated/captive Atlantic salmon (Salmo salar) strains and their wild progenitor populations in an effort to detect potential signals of domestication selection by typing of 261 SNPs and 70 microsatellite loci. By combining information from four different neutrality tests, in total ten genomic regions showed signs of directional selection based on multiple sources of evidence. Most of the identified candidate regions were rather small ranging from zero to a few centimorgans (cM) in the female Atlantic salmon linkage map. We also evaluated how adaptation from standing variation affects adjacent SNP and microsatellite variation along the chromosomes and, by using forward simulations with strong selection, we were able to generate genetic differentiation patterns comparable to the observed data. This study highlights the significance of standing genetic variation during the early stages of adaptation and represents a useful step towards identifying functional variants involved in domestication of Atlantic salmon.

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