Assessing SNP-markers to study population mixing and ecological adaptation in Baltic cod
Atlantic cod (Gadus morhua) is a species of great ecological and economical importance in the Baltic Sea. Here, two genetically differentiated stocks, the western and the eastern Baltic cod, display substantial mechanical mixing, hampering our understanding of cod ecology and impeding stock assessme...
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ftopenagrar:oai:www.openagrar.de:openagrar_mods_00051690 2024-09-15T17:55:34+00:00 Assessing SNP-markers to study population mixing and ecological adaptation in Baltic cod Weist, Peggy Schade, Franziska Maria Damerau, Malte Barth, Julia M. Dierking, Jan Andre, Carl Petereit, Christoph Reusch, Thorsten B. Jentoft, Sissel Hanel, Reinhold Krumme, Uwe 2019 https://doi.org/10.1371/journal.pone.0218127 https://www.openagrar.de/receive/openagrar_mods_00051690 https://www.openagrar.de/servlets/MCRFileNodeServlet/openagrar_derivate_00023649/dn061382.pdf eng eng PLOS ONE -- PLoS One -- PLoS one -- PLoS ONE -- 1932-6203 -- 2267670-3 -- http://journals.plos.org/plosone/ -- https://www.ncbi.nlm.nih.gov/pmc/journals/440/ -- http://www.bibliothek.uni-regensburg.de/ezeit/?2267670 https://doi.org/10.1371/journal.pone.0218127 https://www.openagrar.de/receive/openagrar_mods_00051690 https://www.openagrar.de/servlets/MCRFileNodeServlet/openagrar_derivate_00023649/dn061382.pdf public https://creativecommons.org/licenses/by/4.0/ info:eu-repo/semantics/openAccess Text article ddc:570 article Text doc-type:article 2019 ftopenagrar https://doi.org/10.1371/journal.pone.0218127 2024-07-08T23:56:25Z Atlantic cod (Gadus morhua) is a species of great ecological and economical importance in the Baltic Sea. Here, two genetically differentiated stocks, the western and the eastern Baltic cod, display substantial mechanical mixing, hampering our understanding of cod ecology and impeding stock assessments and management. Based on whole-genome re-sequencing data from reference samples obtained from the study area, we designed two different panels of Single Nucleotide Polymorphisms markers (SNPs), which take into account the exceptional genome architecture of cod. A minimum panel of 20 diagnostic SNPs and an extended panel (20 diagnostic and 18 biologically informative SNPs, 38 in total) were developed and validated to distinguish unambiguously between the western and the eastern Baltic cod stocks and to enable studies of local adaptation to the specific environment in the Baltic Sea, respectively. We tested both panels on cod sampled from the southern Baltic Sea (n = 603) caught in 2015 and 2016. Genotyping results showed that catches from the mixing zone in the Arkona Sea, were composed of similar proportions of individuals of the western and the eastern stock. Catches from adjacent areas to the east, the Bornholm Basin and Gdańsk Deep, were exclusively composed of eastern Baltic cod, whereas catches from adjacent western areas (Belt Sea andO¨ resund) were composed of western Baltic cod. Interestingly, the two Baltic cod stocks showed strong genetic differences at loci associated with life-history trait candidate genes, highlighting the species’ potential for ecological adaptation even at small geographical scales. The minimum and the extended panel of SNP markers presented in this study provide powerful tools for future applications in research and fisheries management to further illuminate the mixing dynamics of cod in the Baltic Sea and to better understand Baltic cod ecology. Article in Journal/Newspaper atlantic cod Gadus morhua OpenAgrar (OA) PLOS ONE 14 6 e0218127 |
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Text article ddc:570 |
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Text article ddc:570 Weist, Peggy Schade, Franziska Maria Damerau, Malte Barth, Julia M. Dierking, Jan Andre, Carl Petereit, Christoph Reusch, Thorsten B. Jentoft, Sissel Hanel, Reinhold Krumme, Uwe Assessing SNP-markers to study population mixing and ecological adaptation in Baltic cod |
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Text article ddc:570 |
description |
Atlantic cod (Gadus morhua) is a species of great ecological and economical importance in the Baltic Sea. Here, two genetically differentiated stocks, the western and the eastern Baltic cod, display substantial mechanical mixing, hampering our understanding of cod ecology and impeding stock assessments and management. Based on whole-genome re-sequencing data from reference samples obtained from the study area, we designed two different panels of Single Nucleotide Polymorphisms markers (SNPs), which take into account the exceptional genome architecture of cod. A minimum panel of 20 diagnostic SNPs and an extended panel (20 diagnostic and 18 biologically informative SNPs, 38 in total) were developed and validated to distinguish unambiguously between the western and the eastern Baltic cod stocks and to enable studies of local adaptation to the specific environment in the Baltic Sea, respectively. We tested both panels on cod sampled from the southern Baltic Sea (n = 603) caught in 2015 and 2016. Genotyping results showed that catches from the mixing zone in the Arkona Sea, were composed of similar proportions of individuals of the western and the eastern stock. Catches from adjacent areas to the east, the Bornholm Basin and Gdańsk Deep, were exclusively composed of eastern Baltic cod, whereas catches from adjacent western areas (Belt Sea andO¨ resund) were composed of western Baltic cod. Interestingly, the two Baltic cod stocks showed strong genetic differences at loci associated with life-history trait candidate genes, highlighting the species’ potential for ecological adaptation even at small geographical scales. The minimum and the extended panel of SNP markers presented in this study provide powerful tools for future applications in research and fisheries management to further illuminate the mixing dynamics of cod in the Baltic Sea and to better understand Baltic cod ecology. |
format |
Article in Journal/Newspaper |
author |
Weist, Peggy Schade, Franziska Maria Damerau, Malte Barth, Julia M. Dierking, Jan Andre, Carl Petereit, Christoph Reusch, Thorsten B. Jentoft, Sissel Hanel, Reinhold Krumme, Uwe |
author_facet |
Weist, Peggy Schade, Franziska Maria Damerau, Malte Barth, Julia M. Dierking, Jan Andre, Carl Petereit, Christoph Reusch, Thorsten B. Jentoft, Sissel Hanel, Reinhold Krumme, Uwe |
author_sort |
Weist, Peggy |
title |
Assessing SNP-markers to study population mixing and ecological adaptation in Baltic cod |
title_short |
Assessing SNP-markers to study population mixing and ecological adaptation in Baltic cod |
title_full |
Assessing SNP-markers to study population mixing and ecological adaptation in Baltic cod |
title_fullStr |
Assessing SNP-markers to study population mixing and ecological adaptation in Baltic cod |
title_full_unstemmed |
Assessing SNP-markers to study population mixing and ecological adaptation in Baltic cod |
title_sort |
assessing snp-markers to study population mixing and ecological adaptation in baltic cod |
publishDate |
2019 |
url |
https://doi.org/10.1371/journal.pone.0218127 https://www.openagrar.de/receive/openagrar_mods_00051690 https://www.openagrar.de/servlets/MCRFileNodeServlet/openagrar_derivate_00023649/dn061382.pdf |
genre |
atlantic cod Gadus morhua |
genre_facet |
atlantic cod Gadus morhua |
op_relation |
PLOS ONE -- PLoS One -- PLoS one -- PLoS ONE -- 1932-6203 -- 2267670-3 -- http://journals.plos.org/plosone/ -- https://www.ncbi.nlm.nih.gov/pmc/journals/440/ -- http://www.bibliothek.uni-regensburg.de/ezeit/?2267670 https://doi.org/10.1371/journal.pone.0218127 https://www.openagrar.de/receive/openagrar_mods_00051690 https://www.openagrar.de/servlets/MCRFileNodeServlet/openagrar_derivate_00023649/dn061382.pdf |
op_rights |
public https://creativecommons.org/licenses/by/4.0/ info:eu-repo/semantics/openAccess |
op_doi |
https://doi.org/10.1371/journal.pone.0218127 |
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PLOS ONE |
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14 |
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6 |
container_start_page |
e0218127 |
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1810431839967379456 |