Screen for Footprints of Selection during Domestication/Captive Breeding of Atlantic Salmon
Copyright © 2012 Anti Vasemagi et al. 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. peer-reviewed Domesticated animals provide a un...
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Online Access: | http://hdl.handle.net/10793/847 https://doi.org/10.1155/2012/628204 http://www.hindawi.com/journals/cfg/2012/628204/cta/ |
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ftmarineinst:oai:oar.marine.ie:10793/847 2023-05-15T15:28:48+02:00 Screen for Footprints of Selection during Domestication/Captive Breeding of Atlantic Salmon Vasemägi, Anti Nilsson, Jan McGinnity, Philip Cross, Tom O'Reilly, Patrick Glebe, Brian Peng, Bo Berg, Paul Ragnar Primmer, Craig Robert 2012 http://hdl.handle.net/10793/847 https://doi.org/10.1155/2012/628204 http://www.hindawi.com/journals/cfg/2012/628204/cta/ en eng Hindawi Publishing Corporation Comparative and Functional Genomics;2012/628204 Anti Vasemägi, Jan Nilsson, Philip McGinnity, et al., “Screen for Footprints of Selection during Domestication/Captive Breeding of Atlantic Salmon,” Comparative and Functional Genomics, vol. 2012, Article ID 628204, 14 pages, 2012. doi:10.1155/2012/628204 1531-6912 http://hdl.handle.net/10793/847 doi:10.1155/2012/628204 http://www.hindawi.com/journals/cfg/2012/628204/cta/ Footprints of Selection Domestication Captive Breeding Atlantic Salmon Monograph 2012 ftmarineinst https://doi.org/10.1155/2012/628204 2022-07-27T09:39:09Z Copyright © 2012 Anti Vasemagi et al. 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. peer-reviewed 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. Book Atlantic salmon Salmo salar Marine Institute Open Access Repository Comparative and Functional Genomics 2012 1 14 |
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English |
topic |
Footprints of Selection Domestication Captive Breeding Atlantic Salmon |
spellingShingle |
Footprints of Selection Domestication Captive Breeding Atlantic Salmon Vasemägi, Anti Nilsson, Jan McGinnity, Philip Cross, Tom O'Reilly, Patrick Glebe, Brian Peng, Bo Berg, Paul Ragnar Primmer, Craig Robert Screen for Footprints of Selection during Domestication/Captive Breeding of Atlantic Salmon |
topic_facet |
Footprints of Selection Domestication Captive Breeding Atlantic Salmon |
description |
Copyright © 2012 Anti Vasemagi et al. 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. peer-reviewed 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. |
format |
Book |
author |
Vasemägi, Anti Nilsson, Jan McGinnity, Philip Cross, Tom O'Reilly, Patrick Glebe, Brian Peng, Bo Berg, Paul Ragnar Primmer, Craig Robert |
author_facet |
Vasemägi, Anti Nilsson, Jan McGinnity, Philip Cross, Tom O'Reilly, Patrick Glebe, Brian Peng, Bo Berg, Paul Ragnar Primmer, Craig Robert |
author_sort |
Vasemägi, Anti |
title |
Screen for Footprints of Selection during Domestication/Captive Breeding of Atlantic Salmon |
title_short |
Screen for Footprints of Selection during Domestication/Captive Breeding of Atlantic Salmon |
title_full |
Screen for Footprints of Selection during Domestication/Captive Breeding of Atlantic Salmon |
title_fullStr |
Screen for Footprints of Selection during Domestication/Captive Breeding of Atlantic Salmon |
title_full_unstemmed |
Screen for Footprints of Selection during Domestication/Captive Breeding of Atlantic Salmon |
title_sort |
screen for footprints of selection during domestication/captive breeding of atlantic salmon |
publisher |
Hindawi Publishing Corporation |
publishDate |
2012 |
url |
http://hdl.handle.net/10793/847 https://doi.org/10.1155/2012/628204 http://www.hindawi.com/journals/cfg/2012/628204/cta/ |
genre |
Atlantic salmon Salmo salar |
genre_facet |
Atlantic salmon Salmo salar |
op_relation |
Comparative and Functional Genomics;2012/628204 Anti Vasemägi, Jan Nilsson, Philip McGinnity, et al., “Screen for Footprints of Selection during Domestication/Captive Breeding of Atlantic Salmon,” Comparative and Functional Genomics, vol. 2012, Article ID 628204, 14 pages, 2012. doi:10.1155/2012/628204 1531-6912 http://hdl.handle.net/10793/847 doi:10.1155/2012/628204 http://www.hindawi.com/journals/cfg/2012/628204/cta/ |
op_doi |
https://doi.org/10.1155/2012/628204 |
container_title |
Comparative and Functional Genomics |
container_volume |
2012 |
container_start_page |
1 |
op_container_end_page |
14 |
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1766359147192778752 |