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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ftdoajarticles:oai:doaj.org/article:e345b7d7891643cdb5a5ced431bf8bae 2023-05-15T15:27:46+02:00 Assessing SNP-markers to study population mixing and ecological adaptation in Baltic cod. Peggy Weist Franziska M Schade Malte Damerau Julia M I Barth Jan Dierking Carl André Christoph Petereit Thorsten Reusch Sissel Jentoft Reinhold Hanel Uwe Krumme 2019-01-01T00:00:00Z https://doi.org/10.1371/journal.pone.0218127 https://doaj.org/article/e345b7d7891643cdb5a5ced431bf8bae EN eng Public Library of Science (PLoS) https://doi.org/10.1371/journal.pone.0218127 https://doaj.org/toc/1932-6203 1932-6203 doi:10.1371/journal.pone.0218127 https://doaj.org/article/e345b7d7891643cdb5a5ced431bf8bae PLoS ONE, Vol 14, Iss 6, p e0218127 (2019) Medicine R Science Q article 2019 ftdoajarticles https://doi.org/10.1371/journal.pone.0218127 2022-12-31T11:50:32Z 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 and Öresund) 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 Directory of Open Access Journals: DOAJ Articles PLOS ONE 14 6 e0218127 |
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Medicine R Science Q Peggy Weist Franziska M Schade Malte Damerau Julia M I Barth Jan Dierking Carl André Christoph Petereit Thorsten Reusch Sissel Jentoft Reinhold Hanel Uwe Krumme Assessing SNP-markers to study population mixing and ecological adaptation in Baltic cod. |
topic_facet |
Medicine R Science Q |
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 and Öresund) 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 |
Peggy Weist Franziska M Schade Malte Damerau Julia M I Barth Jan Dierking Carl André Christoph Petereit Thorsten Reusch Sissel Jentoft Reinhold Hanel Uwe Krumme |
author_facet |
Peggy Weist Franziska M Schade Malte Damerau Julia M I Barth Jan Dierking Carl André Christoph Petereit Thorsten Reusch Sissel Jentoft Reinhold Hanel Uwe Krumme |
author_sort |
Peggy Weist |
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. |
publisher |
Public Library of Science (PLoS) |
publishDate |
2019 |
url |
https://doi.org/10.1371/journal.pone.0218127 https://doaj.org/article/e345b7d7891643cdb5a5ced431bf8bae |
genre |
atlantic cod Gadus morhua |
genre_facet |
atlantic cod Gadus morhua |
op_source |
PLoS ONE, Vol 14, Iss 6, p e0218127 (2019) |
op_relation |
https://doi.org/10.1371/journal.pone.0218127 https://doaj.org/toc/1932-6203 1932-6203 doi:10.1371/journal.pone.0218127 https://doaj.org/article/e345b7d7891643cdb5a5ced431bf8bae |
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 |
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e0218127 |
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