Transatlantic secondary contact in Atlantic Salmon, comparing microsatellites, a single nucleotide polymorphism array and restriction‐site associated DNA sequencing for the resolution of complex spatial structure
Abstract Identification of discrete and unique assemblages of individuals or populations is central to the management of exploited species. Advances in population genomics provide new opportunities for re‐evaluating existing conservation units but comparisons among approaches remain rare. We compare...
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crwiley:10.1111/mec.13395 2024-09-15T17:56:01+00:00 Transatlantic secondary contact in Atlantic Salmon, comparing microsatellites, a single nucleotide polymorphism array and restriction‐site associated DNA sequencing for the resolution of complex spatial structure Bradbury, Ian R. Hamilton, Lorraine C. Dempson, Brian Robertson, Martha J. Bourret, Vincent Bernatchez, Louis Verspoor, Eric Genomics Research and Development Initiative of Fisheries and Oceans Canada 2015 http://dx.doi.org/10.1111/mec.13395 https://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1111%2Fmec.13395 https://onlinelibrary.wiley.com/doi/pdf/10.1111/mec.13395 en eng Wiley http://onlinelibrary.wiley.com/termsAndConditions#vor http://doi.wiley.com/10.1002/tdm_license_1.1 Molecular Ecology volume 24, issue 20, page 5130-5144 ISSN 0962-1083 1365-294X journal-article 2015 crwiley https://doi.org/10.1111/mec.13395 2024-08-27T04:27:06Z Abstract Identification of discrete and unique assemblages of individuals or populations is central to the management of exploited species. Advances in population genomics provide new opportunities for re‐evaluating existing conservation units but comparisons among approaches remain rare. We compare the utility of RAD ‐seq, a single nucleotide polymorphism ( SNP ) array and a microsatellite panel to resolve spatial structuring under a scenario of possible trans‐Atlantic secondary contact in a threatened Atlantic Salmon, Salmo salar , population in southern Newfoundland. Bayesian clustering indentified two large groups subdividing the existing conservation unit and multivariate analyses indicated significant similarity in spatial structuring among the three data sets. mt DNA alleles diagnostic for European ancestry displayed increased frequency in southeastern Newfoundland and were correlated with spatial structure in all marker types. Evidence consistent with introgression among these two groups was present in both SNP data sets but not the microsatellite data. Asymmetry in the degree of introgression was also apparent in SNP data sets with evidence of gene flow towards the east or European type. This work highlights the utility of RAD ‐seq based approaches for the resolution of complex spatial patterns, resolves a region of trans‐Atlantic secondary contact in Atlantic Salmon in Newfoundland and demonstrates the utility of multiple marker comparisons in identifying dynamics of introgression. Article in Journal/Newspaper Atlantic salmon Newfoundland Salmo salar Wiley Online Library Molecular Ecology 24 20 5130 5144 |
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Open Polar |
collection |
Wiley Online Library |
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crwiley |
language |
English |
description |
Abstract Identification of discrete and unique assemblages of individuals or populations is central to the management of exploited species. Advances in population genomics provide new opportunities for re‐evaluating existing conservation units but comparisons among approaches remain rare. We compare the utility of RAD ‐seq, a single nucleotide polymorphism ( SNP ) array and a microsatellite panel to resolve spatial structuring under a scenario of possible trans‐Atlantic secondary contact in a threatened Atlantic Salmon, Salmo salar , population in southern Newfoundland. Bayesian clustering indentified two large groups subdividing the existing conservation unit and multivariate analyses indicated significant similarity in spatial structuring among the three data sets. mt DNA alleles diagnostic for European ancestry displayed increased frequency in southeastern Newfoundland and were correlated with spatial structure in all marker types. Evidence consistent with introgression among these two groups was present in both SNP data sets but not the microsatellite data. Asymmetry in the degree of introgression was also apparent in SNP data sets with evidence of gene flow towards the east or European type. This work highlights the utility of RAD ‐seq based approaches for the resolution of complex spatial patterns, resolves a region of trans‐Atlantic secondary contact in Atlantic Salmon in Newfoundland and demonstrates the utility of multiple marker comparisons in identifying dynamics of introgression. |
author2 |
Genomics Research and Development Initiative of Fisheries and Oceans Canada |
format |
Article in Journal/Newspaper |
author |
Bradbury, Ian R. Hamilton, Lorraine C. Dempson, Brian Robertson, Martha J. Bourret, Vincent Bernatchez, Louis Verspoor, Eric |
spellingShingle |
Bradbury, Ian R. Hamilton, Lorraine C. Dempson, Brian Robertson, Martha J. Bourret, Vincent Bernatchez, Louis Verspoor, Eric Transatlantic secondary contact in Atlantic Salmon, comparing microsatellites, a single nucleotide polymorphism array and restriction‐site associated DNA sequencing for the resolution of complex spatial structure |
author_facet |
Bradbury, Ian R. Hamilton, Lorraine C. Dempson, Brian Robertson, Martha J. Bourret, Vincent Bernatchez, Louis Verspoor, Eric |
author_sort |
Bradbury, Ian R. |
title |
Transatlantic secondary contact in Atlantic Salmon, comparing microsatellites, a single nucleotide polymorphism array and restriction‐site associated DNA sequencing for the resolution of complex spatial structure |
title_short |
Transatlantic secondary contact in Atlantic Salmon, comparing microsatellites, a single nucleotide polymorphism array and restriction‐site associated DNA sequencing for the resolution of complex spatial structure |
title_full |
Transatlantic secondary contact in Atlantic Salmon, comparing microsatellites, a single nucleotide polymorphism array and restriction‐site associated DNA sequencing for the resolution of complex spatial structure |
title_fullStr |
Transatlantic secondary contact in Atlantic Salmon, comparing microsatellites, a single nucleotide polymorphism array and restriction‐site associated DNA sequencing for the resolution of complex spatial structure |
title_full_unstemmed |
Transatlantic secondary contact in Atlantic Salmon, comparing microsatellites, a single nucleotide polymorphism array and restriction‐site associated DNA sequencing for the resolution of complex spatial structure |
title_sort |
transatlantic secondary contact in atlantic salmon, comparing microsatellites, a single nucleotide polymorphism array and restriction‐site associated dna sequencing for the resolution of complex spatial structure |
publisher |
Wiley |
publishDate |
2015 |
url |
http://dx.doi.org/10.1111/mec.13395 https://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1111%2Fmec.13395 https://onlinelibrary.wiley.com/doi/pdf/10.1111/mec.13395 |
genre |
Atlantic salmon Newfoundland Salmo salar |
genre_facet |
Atlantic salmon Newfoundland Salmo salar |
op_source |
Molecular Ecology volume 24, issue 20, page 5130-5144 ISSN 0962-1083 1365-294X |
op_rights |
http://onlinelibrary.wiley.com/termsAndConditions#vor http://doi.wiley.com/10.1002/tdm_license_1.1 |
op_doi |
https://doi.org/10.1111/mec.13395 |
container_title |
Molecular Ecology |
container_volume |
24 |
container_issue |
20 |
container_start_page |
5130 |
op_container_end_page |
5144 |
_version_ |
1810432238814232576 |