Screen for footprints of selection during domestication/captive breeding of Atlantic salmon
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Supporting information. Marker and genetic map information.
Supporting information. Marker and genetic map information.
Date
2012-11
Authors
Vasemägi, Anti
Nilsson, Jan
McGinnity, Philip
Cross, Thomas F.
O'Reilly, Patrick
Glebe, Brian
Peng, Bo
Ragnar Berg, Paul
Primmer, Craig Robert
Journal Title
Journal ISSN
Volume Title
Publisher
Hindawi Publishing Corporation
Published Version
Abstract
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.
Description
Keywords
Molecular population-genetics , Positive selection , Salar L. , Soft sweeps , Maize domestication , Genomic region , Body weight , Baltic Sea , Wild , Adaptation
Citation
Vasemägi, A., Nilsson, J., McGinnity, P., Cross, T., O'Reilly, P., Glebe, B., Peng, B., Ragnar Berg, P. and Primmer, C. R. (2012) 'Screen for footprints of selection during domestication/captive breeding of Atlantic salmon', Comparative and Functional Genomics, 2012, 628204 (14pp). doi:10.1155/2012/628204