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

Vasemägi, Anti; Nilsson, Jan; McGinnity, Philip; Cross, Thomas F.; O'Reilly, Patrick; Glebe, Brian; Peng, Bo; Ragnar Berg, Paul; Primmer, Craig Robert

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

dc.contributor.author	Vasemägi, Anti
dc.contributor.author	Nilsson, Jan
dc.contributor.author	McGinnity, Philip
dc.contributor.author	Cross, Thomas F.
dc.contributor.author	O'Reilly, Patrick
dc.contributor.author	Glebe, Brian
dc.contributor.author	Peng, Bo
dc.contributor.author	Ragnar Berg, Paul
dc.contributor.author	Primmer, Craig Robert
dc.contributor.funder	Academy of Finland	en
dc.contributor.funder	Eesti Teadusfondi	en
dc.contributor.funder	European Science Foundation	en
dc.contributor.funder	Marine Institute	en
dc.date.accessioned	2018-03-28T10:28:36Z
dc.date.available	2018-03-28T10:28:36Z
dc.date.issued	2012-11
dc.date.updated	2018-03-14T11:47:34Z
dc.description.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.	en
dc.description.sponsorship	Eesti Teadusfondi (Grant nos. 6802, 8215, 7348); European Science Foundation (Research Networking Programme ConGen); Marine Institute (Beaufort Marine Research Award in Fish Population Genetics)	en
dc.description.status	Peer reviewed	en
dc.description.version	Published Version	en
dc.format.mimetype	application/pdf	en
dc.identifier.articleid	628204
dc.identifier.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	en
dc.identifier.doi	10.1155/2012/628204
dc.identifier.issn	1531-6912
dc.identifier.issn	1532-6268
dc.identifier.journaltitle	Comparative and Functional Genomics	en
dc.identifier.uri	https://hdl.handle.net/10468/5710
dc.language.iso	en	en
dc.publisher	Hindawi Publishing Corporation	en
dc.rights	© 2012, the Authors. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.	en
dc.rights.uri	https://creativecommons.org/licenses/by/4.0/	en
dc.subject	Molecular population-genetics	en
dc.subject	Positive selection	en
dc.subject	Salar L.	en
dc.subject	Soft sweeps	en
dc.subject	Maize domestication	en
dc.subject	Genomic region	en
dc.subject	Body weight	en
dc.subject	Baltic Sea	en
dc.subject	Wild	en
dc.subject	Adaptation	en
dc.title	Screen for footprints of selection during domestication/captive breeding of Atlantic salmon	en
dc.type	Article (peer-reviewed)	en