Resolving fine‐scale population structure and fishery exploitation using sequenced microsatellites in a northern fish
The resiliency of populations and species to environmental change is dependent on the maintenance of genetic diversity, and as such, quantifying diversity is central to combating ongoing widespread reductions in biodiversity. With the advent of next‐generation sequencing, several methods now exist f...
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ftpubmed:oai:pubmedcentral.nih.gov:7232759 2023-05-15T14:30:07+02:00 Resolving fine‐scale population structure and fishery exploitation using sequenced microsatellites in a northern fish Layton, Kara K. S. Dempson, Brian Snelgrove, Paul V. R. Duffy, Steven J. Messmer, Amber M. Paterson, Ian G. Jeffery, Nicholas W. Kess, Tony Horne, John B. Salisbury, Sarah J. Ruzzante, Daniel E. Bentzen, Paul Côté, David Nugent, Cameron M. Ferguson, Moira M. Leong, Jong S. Koop, Ben F. Bradbury, Ian R. 2020-02-20 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7232759/ https://doi.org/10.1111/eva.12922 en eng John Wiley and Sons Inc. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7232759/ http://dx.doi.org/10.1111/eva.12922 © 2020 The Authors. Evolutionary Applications published by John Wiley & Sons Ltd. This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. CC-BY Evol Appl Original Articles Text 2020 ftpubmed https://doi.org/10.1111/eva.12922 2020-05-24T00:39:01Z The resiliency of populations and species to environmental change is dependent on the maintenance of genetic diversity, and as such, quantifying diversity is central to combating ongoing widespread reductions in biodiversity. With the advent of next‐generation sequencing, several methods now exist for resolving fine‐scale population structure, but the comparative performance of these methods for genetic assignment has rarely been tested. Here, we evaluate the performance of sequenced microsatellites and a single nucleotide polymorphism (SNP) array to resolve fine‐scale population structure in a critically important salmonid in north eastern Canada, Arctic Charr (Salvelinus alpinus). We also assess the utility of sequenced microsatellites for fisheries applications by quantifying the spatial scales of movement and exploitation through genetic assignment of fishery samples to rivers of origin and comparing these results with a 29‐year tagging dataset. Self‐assignment and simulation‐based analyses of 111 genome‐wide microsatellite loci and 500 informative SNPs from 28 populations of Arctic Charr in north‐eastern Canada identified largely river‐specific genetic structure. Despite large differences (~4X) in the number of loci surveyed between panels, mean self‐assignment accuracy was similar with the microsatellite loci and the SNP panel (>90%). Subsequent analysis of 996 fishery‐collected samples using the microsatellite panel revealed that larger rivers contribute greater numbers of individuals to the fishery and that coastal fisheries largely exploit individuals originating from nearby rivers, corroborating results from traditional tagging experiments. Our results demonstrate the efficacy of sequence‐based microsatellite genotyping to advance understanding of fine‐scale population structure and harvest composition in northern and understudied species. Text Arctic charr Arctic Salvelinus alpinus PubMed Central (PMC) Arctic Canada Evolutionary Applications 13 5 1055 1068 |
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PubMed Central (PMC) |
op_collection_id |
ftpubmed |
language |
English |
topic |
Original Articles |
spellingShingle |
Original Articles Layton, Kara K. S. Dempson, Brian Snelgrove, Paul V. R. Duffy, Steven J. Messmer, Amber M. Paterson, Ian G. Jeffery, Nicholas W. Kess, Tony Horne, John B. Salisbury, Sarah J. Ruzzante, Daniel E. Bentzen, Paul Côté, David Nugent, Cameron M. Ferguson, Moira M. Leong, Jong S. Koop, Ben F. Bradbury, Ian R. Resolving fine‐scale population structure and fishery exploitation using sequenced microsatellites in a northern fish |
topic_facet |
Original Articles |
description |
The resiliency of populations and species to environmental change is dependent on the maintenance of genetic diversity, and as such, quantifying diversity is central to combating ongoing widespread reductions in biodiversity. With the advent of next‐generation sequencing, several methods now exist for resolving fine‐scale population structure, but the comparative performance of these methods for genetic assignment has rarely been tested. Here, we evaluate the performance of sequenced microsatellites and a single nucleotide polymorphism (SNP) array to resolve fine‐scale population structure in a critically important salmonid in north eastern Canada, Arctic Charr (Salvelinus alpinus). We also assess the utility of sequenced microsatellites for fisheries applications by quantifying the spatial scales of movement and exploitation through genetic assignment of fishery samples to rivers of origin and comparing these results with a 29‐year tagging dataset. Self‐assignment and simulation‐based analyses of 111 genome‐wide microsatellite loci and 500 informative SNPs from 28 populations of Arctic Charr in north‐eastern Canada identified largely river‐specific genetic structure. Despite large differences (~4X) in the number of loci surveyed between panels, mean self‐assignment accuracy was similar with the microsatellite loci and the SNP panel (>90%). Subsequent analysis of 996 fishery‐collected samples using the microsatellite panel revealed that larger rivers contribute greater numbers of individuals to the fishery and that coastal fisheries largely exploit individuals originating from nearby rivers, corroborating results from traditional tagging experiments. Our results demonstrate the efficacy of sequence‐based microsatellite genotyping to advance understanding of fine‐scale population structure and harvest composition in northern and understudied species. |
format |
Text |
author |
Layton, Kara K. S. Dempson, Brian Snelgrove, Paul V. R. Duffy, Steven J. Messmer, Amber M. Paterson, Ian G. Jeffery, Nicholas W. Kess, Tony Horne, John B. Salisbury, Sarah J. Ruzzante, Daniel E. Bentzen, Paul Côté, David Nugent, Cameron M. Ferguson, Moira M. Leong, Jong S. Koop, Ben F. Bradbury, Ian R. |
author_facet |
Layton, Kara K. S. Dempson, Brian Snelgrove, Paul V. R. Duffy, Steven J. Messmer, Amber M. Paterson, Ian G. Jeffery, Nicholas W. Kess, Tony Horne, John B. Salisbury, Sarah J. Ruzzante, Daniel E. Bentzen, Paul Côté, David Nugent, Cameron M. Ferguson, Moira M. Leong, Jong S. Koop, Ben F. Bradbury, Ian R. |
author_sort |
Layton, Kara K. S. |
title |
Resolving fine‐scale population structure and fishery exploitation using sequenced microsatellites in a northern fish |
title_short |
Resolving fine‐scale population structure and fishery exploitation using sequenced microsatellites in a northern fish |
title_full |
Resolving fine‐scale population structure and fishery exploitation using sequenced microsatellites in a northern fish |
title_fullStr |
Resolving fine‐scale population structure and fishery exploitation using sequenced microsatellites in a northern fish |
title_full_unstemmed |
Resolving fine‐scale population structure and fishery exploitation using sequenced microsatellites in a northern fish |
title_sort |
resolving fine‐scale population structure and fishery exploitation using sequenced microsatellites in a northern fish |
publisher |
John Wiley and Sons Inc. |
publishDate |
2020 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7232759/ https://doi.org/10.1111/eva.12922 |
geographic |
Arctic Canada |
geographic_facet |
Arctic Canada |
genre |
Arctic charr Arctic Salvelinus alpinus |
genre_facet |
Arctic charr Arctic Salvelinus alpinus |
op_source |
Evol Appl |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7232759/ http://dx.doi.org/10.1111/eva.12922 |
op_rights |
© 2020 The Authors. Evolutionary Applications published by John Wiley & Sons Ltd. This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.1111/eva.12922 |
container_title |
Evolutionary Applications |
container_volume |
13 |
container_issue |
5 |
container_start_page |
1055 |
op_container_end_page |
1068 |
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1766304029473767424 |