Accuracy of Assignment of Atlantic Salmon (Salmo salar L.) to Rivers and Regions in Scotland and Northeast England Based on Single Nucleotide Polymorphism (SNP) Markers
Understanding the habitat use patterns of migratory fish, such as Atlantic salmon (Salmo salar L.), and the natural and anthropogenic impacts on them, is aided by the ability to identify individuals to their stock of origin. Presented here are the results of an analysis of informative single nucleot...
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ftpubmed:oai:pubmedcentral.nih.gov:5056707 2023-05-15T15:30:08+02:00 Accuracy of Assignment of Atlantic Salmon (Salmo salar L.) to Rivers and Regions in Scotland and Northeast England Based on Single Nucleotide Polymorphism (SNP) Markers Gilbey, John Cauwelier, Eef Coulson, Mark W. Stradmeyer, Lee Sampayo, James N. Armstrong, Anja Verspoor, Eric Corrigan, Laura Shelley, Jonathan Middlemas, Stuart 2016-10-10 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5056707/ http://www.ncbi.nlm.nih.gov/pubmed/27723810 https://doi.org/10.1371/journal.pone.0164327 en eng Public Library of Science http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5056707/ http://www.ncbi.nlm.nih.gov/pubmed/27723810 http://dx.doi.org/10.1371/journal.pone.0164327 © 2016 Gilbey et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. CC-BY Research Article Text 2016 ftpubmed https://doi.org/10.1371/journal.pone.0164327 2016-10-30T00:05:57Z Understanding the habitat use patterns of migratory fish, such as Atlantic salmon (Salmo salar L.), and the natural and anthropogenic impacts on them, is aided by the ability to identify individuals to their stock of origin. Presented here are the results of an analysis of informative single nucleotide polymorphic (SNP) markers for detecting genetic structuring in Atlantic salmon in Scotland and NE England and their ability to allow accurate genetic stock identification. 3,787 fish from 147 sites covering 27 rivers were screened at 5,568 SNP markers. In order to identify a cost-effective subset of SNPs, they were ranked according to their ability to differentiate between fish from different rivers. A panel of 288 SNPs was used to examine both individual assignments and mixed stock fisheries and eighteen assignment units were defined. The results improved greatly on previously available methods and, for the first time, fish caught in the marine environment can be confidently assigned to geographically coherent units within Scotland and NE England, including individual rivers. As such, this SNP panel has the potential to aid understanding of the various influences acting upon Atlantic salmon on their marine migrations, be they natural environmental variations and/or anthropogenic impacts, such as mixed stock fisheries and interactions with marine power generation installations. Text Atlantic salmon Salmo salar PubMed Central (PMC) PLOS ONE 11 10 e0164327 |
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Research Article Gilbey, John Cauwelier, Eef Coulson, Mark W. Stradmeyer, Lee Sampayo, James N. Armstrong, Anja Verspoor, Eric Corrigan, Laura Shelley, Jonathan Middlemas, Stuart Accuracy of Assignment of Atlantic Salmon (Salmo salar L.) to Rivers and Regions in Scotland and Northeast England Based on Single Nucleotide Polymorphism (SNP) Markers |
topic_facet |
Research Article |
description |
Understanding the habitat use patterns of migratory fish, such as Atlantic salmon (Salmo salar L.), and the natural and anthropogenic impacts on them, is aided by the ability to identify individuals to their stock of origin. Presented here are the results of an analysis of informative single nucleotide polymorphic (SNP) markers for detecting genetic structuring in Atlantic salmon in Scotland and NE England and their ability to allow accurate genetic stock identification. 3,787 fish from 147 sites covering 27 rivers were screened at 5,568 SNP markers. In order to identify a cost-effective subset of SNPs, they were ranked according to their ability to differentiate between fish from different rivers. A panel of 288 SNPs was used to examine both individual assignments and mixed stock fisheries and eighteen assignment units were defined. The results improved greatly on previously available methods and, for the first time, fish caught in the marine environment can be confidently assigned to geographically coherent units within Scotland and NE England, including individual rivers. As such, this SNP panel has the potential to aid understanding of the various influences acting upon Atlantic salmon on their marine migrations, be they natural environmental variations and/or anthropogenic impacts, such as mixed stock fisheries and interactions with marine power generation installations. |
format |
Text |
author |
Gilbey, John Cauwelier, Eef Coulson, Mark W. Stradmeyer, Lee Sampayo, James N. Armstrong, Anja Verspoor, Eric Corrigan, Laura Shelley, Jonathan Middlemas, Stuart |
author_facet |
Gilbey, John Cauwelier, Eef Coulson, Mark W. Stradmeyer, Lee Sampayo, James N. Armstrong, Anja Verspoor, Eric Corrigan, Laura Shelley, Jonathan Middlemas, Stuart |
author_sort |
Gilbey, John |
title |
Accuracy of Assignment of Atlantic Salmon (Salmo salar L.) to Rivers and Regions in Scotland and Northeast England Based on Single Nucleotide Polymorphism (SNP) Markers |
title_short |
Accuracy of Assignment of Atlantic Salmon (Salmo salar L.) to Rivers and Regions in Scotland and Northeast England Based on Single Nucleotide Polymorphism (SNP) Markers |
title_full |
Accuracy of Assignment of Atlantic Salmon (Salmo salar L.) to Rivers and Regions in Scotland and Northeast England Based on Single Nucleotide Polymorphism (SNP) Markers |
title_fullStr |
Accuracy of Assignment of Atlantic Salmon (Salmo salar L.) to Rivers and Regions in Scotland and Northeast England Based on Single Nucleotide Polymorphism (SNP) Markers |
title_full_unstemmed |
Accuracy of Assignment of Atlantic Salmon (Salmo salar L.) to Rivers and Regions in Scotland and Northeast England Based on Single Nucleotide Polymorphism (SNP) Markers |
title_sort |
accuracy of assignment of atlantic salmon (salmo salar l.) to rivers and regions in scotland and northeast england based on single nucleotide polymorphism (snp) markers |
publisher |
Public Library of Science |
publishDate |
2016 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5056707/ http://www.ncbi.nlm.nih.gov/pubmed/27723810 https://doi.org/10.1371/journal.pone.0164327 |
genre |
Atlantic salmon Salmo salar |
genre_facet |
Atlantic salmon Salmo salar |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5056707/ http://www.ncbi.nlm.nih.gov/pubmed/27723810 http://dx.doi.org/10.1371/journal.pone.0164327 |
op_rights |
© 2016 Gilbey et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.1371/journal.pone.0164327 |
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PLOS ONE |
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11 |
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10 |
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e0164327 |
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