Genome‐wide single‐generation signatures of local selection in the panmictic European eel
Abstract Next‐generation sequencing and the collection of genome‐wide data allow identifying adaptive variation and footprints of directional selection. Using a large SNP data set from 259 RAD ‐sequenced E uropean eel individuals (glass eels) from eight locations between 34 and 64 o N, we examined t...
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crwiley:10.1111/mec.12753 2024-09-09T19:47:51+00:00 Genome‐wide single‐generation signatures of local selection in the panmictic European eel Pujolar, J. M. Jacobsen, M. W. Als, T. D. Frydenberg, J. Munch, K. Jónsson, B. Jian, J. B. Cheng, L. Maes, G. E. Bernatchez, L. Hansen, M. M. Danish Council for Independent Research, Natural Sciences 2014 http://dx.doi.org/10.1111/mec.12753 https://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1111%2Fmec.12753 https://onlinelibrary.wiley.com/doi/pdf/10.1111/mec.12753 en eng Wiley http://onlinelibrary.wiley.com/termsAndConditions#vor http://doi.wiley.com/10.1002/tdm_license_1.1 Molecular Ecology volume 23, issue 10, page 2514-2528 ISSN 0962-1083 1365-294X journal-article 2014 crwiley https://doi.org/10.1111/mec.12753 2024-08-13T04:14:12Z Abstract Next‐generation sequencing and the collection of genome‐wide data allow identifying adaptive variation and footprints of directional selection. Using a large SNP data set from 259 RAD ‐sequenced E uropean eel individuals (glass eels) from eight locations between 34 and 64 o N, we examined the patterns of genome‐wide genetic diversity across locations. We tested for local selection by searching for increased population differentiation using F ST ‐based outlier tests and by testing for significant associations between allele frequencies and environmental variables. The overall low genetic differentiation found ( F ST = 0.0007) indicates that most of the genome is homogenized by gene flow, providing further evidence for genomic panmixia in the E uropean eel. The lack of genetic substructuring was consistent at both nuclear and mitochondrial SNP s. Using an extensive number of diagnostic SNP s, results showed a low occurrence of hybrids between E uropean and A merican eel, mainly limited to Iceland (5.9%), although individuals with signatures of introgression several generations back in time were found in mainland Europe. Despite panmixia, a small set of SNP s showed high genetic differentiation consistent with single‐generation signatures of spatially varying selection acting on glass eels. After screening 50 354 SNP s, a total of 754 potentially locally selected SNP s were identified. Candidate genes for local selection constituted a wide array of functions, including calcium signalling, neuroactive ligand–receptor interaction and circadian rhythm. Remarkably, one of the candidate genes identified is PERIOD , possibly related to differences in local photoperiod associated with the >30° difference in latitude between locations. Genes under selection were spread across the genome, and there were no large regions of increased differentiation as expected when selection occurs within just a single generation due to panmixia. This supports the conclusion that most of the genome is homogenized by gene flow ... Article in Journal/Newspaper Iceland Wiley Online Library Molecular Ecology 23 10 2514 2528 |
institution |
Open Polar |
collection |
Wiley Online Library |
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crwiley |
language |
English |
description |
Abstract Next‐generation sequencing and the collection of genome‐wide data allow identifying adaptive variation and footprints of directional selection. Using a large SNP data set from 259 RAD ‐sequenced E uropean eel individuals (glass eels) from eight locations between 34 and 64 o N, we examined the patterns of genome‐wide genetic diversity across locations. We tested for local selection by searching for increased population differentiation using F ST ‐based outlier tests and by testing for significant associations between allele frequencies and environmental variables. The overall low genetic differentiation found ( F ST = 0.0007) indicates that most of the genome is homogenized by gene flow, providing further evidence for genomic panmixia in the E uropean eel. The lack of genetic substructuring was consistent at both nuclear and mitochondrial SNP s. Using an extensive number of diagnostic SNP s, results showed a low occurrence of hybrids between E uropean and A merican eel, mainly limited to Iceland (5.9%), although individuals with signatures of introgression several generations back in time were found in mainland Europe. Despite panmixia, a small set of SNP s showed high genetic differentiation consistent with single‐generation signatures of spatially varying selection acting on glass eels. After screening 50 354 SNP s, a total of 754 potentially locally selected SNP s were identified. Candidate genes for local selection constituted a wide array of functions, including calcium signalling, neuroactive ligand–receptor interaction and circadian rhythm. Remarkably, one of the candidate genes identified is PERIOD , possibly related to differences in local photoperiod associated with the >30° difference in latitude between locations. Genes under selection were spread across the genome, and there were no large regions of increased differentiation as expected when selection occurs within just a single generation due to panmixia. This supports the conclusion that most of the genome is homogenized by gene flow ... |
author2 |
Danish Council for Independent Research, Natural Sciences |
format |
Article in Journal/Newspaper |
author |
Pujolar, J. M. Jacobsen, M. W. Als, T. D. Frydenberg, J. Munch, K. Jónsson, B. Jian, J. B. Cheng, L. Maes, G. E. Bernatchez, L. Hansen, M. M. |
spellingShingle |
Pujolar, J. M. Jacobsen, M. W. Als, T. D. Frydenberg, J. Munch, K. Jónsson, B. Jian, J. B. Cheng, L. Maes, G. E. Bernatchez, L. Hansen, M. M. Genome‐wide single‐generation signatures of local selection in the panmictic European eel |
author_facet |
Pujolar, J. M. Jacobsen, M. W. Als, T. D. Frydenberg, J. Munch, K. Jónsson, B. Jian, J. B. Cheng, L. Maes, G. E. Bernatchez, L. Hansen, M. M. |
author_sort |
Pujolar, J. M. |
title |
Genome‐wide single‐generation signatures of local selection in the panmictic European eel |
title_short |
Genome‐wide single‐generation signatures of local selection in the panmictic European eel |
title_full |
Genome‐wide single‐generation signatures of local selection in the panmictic European eel |
title_fullStr |
Genome‐wide single‐generation signatures of local selection in the panmictic European eel |
title_full_unstemmed |
Genome‐wide single‐generation signatures of local selection in the panmictic European eel |
title_sort |
genome‐wide single‐generation signatures of local selection in the panmictic european eel |
publisher |
Wiley |
publishDate |
2014 |
url |
http://dx.doi.org/10.1111/mec.12753 https://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1111%2Fmec.12753 https://onlinelibrary.wiley.com/doi/pdf/10.1111/mec.12753 |
genre |
Iceland |
genre_facet |
Iceland |
op_source |
Molecular Ecology volume 23, issue 10, page 2514-2528 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.12753 |
container_title |
Molecular Ecology |
container_volume |
23 |
container_issue |
10 |
container_start_page |
2514 |
op_container_end_page |
2528 |
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1809917249370193920 |