Data from: Genome-wide signatures of local selection in the panmictic European eel
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 European eel individuals (glass eels) from eight locations between 34 and 64oN, we examined the patterns o...
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ftdryad:oai:v1.datadryad.org:10255/dryad.62622 2023-05-15T16:52:28+02:00 Data from: Genome-wide signatures of local selection in the panmictic European eel Pujolar, Jose Martin Jacobsen, Magnus W. Als, Thomas D. Frydenberg, Jane Munch, Kasper Jónsson, Bjarni Jian, Jianbo B. Cheng, Ling Maes, Gregory E. Bernatchez, Louis Hansen, Michael M. 2014-04-14T19:13:10Z http://hdl.handle.net/10255/dryad.62622 https://doi.org/10.5061/dryad.s8v7q unknown doi:10.5061/dryad.s8v7q/1 doi:10.5061/dryad.s8v7q/2 doi:10.1111/mec.12753 PMID:24750353 doi:10.5061/dryad.s8v7q Pujolar JM, Jacobsen MW, Als TD, Frydenberg J, Munch K, Jónsson B, Jian JB, Cheng L, Maes GE, Bernatchez L, Hansen MM (2014) Genome-wide signatures of local selection in the panmictic European eel. Molecular Ecology 23(10): 2514-2528. http://hdl.handle.net/10255/dryad.62622 Local Adaptation Panmixia Spatially Varying Selection Article 2014 ftdryad https://doi.org/10.5061/dryad.s8v7q https://doi.org/10.5061/dryad.s8v7q/1 https://doi.org/10.5061/dryad.s8v7q/2 https://doi.org/10.1111/mec.12753 2020-01-01T15:07:45Z 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 European eel individuals (glass eels) from eight locations between 34 and 64oN, we examined the patterns of genome-wide genetic diversity across locations. We tested for local selection by searching for increased population differentiation using FST-based outlier tests and by testing for significant associations between allele frequencies and environmental variables. The overall low genetic differentiation found (FST = 0.0007) indicates that most of the genome is homogenized by gene flow, providing further evidence for genomic panmixia in the European eel. The lack of genetic substructuring was consistent at both nuclear and mitochondrial SNPs. Using an extensive number of diagnostic SNPs, results showed a low occurrence of hybrids between European and American 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 SNPs showed high genetic differentiation consistent with single-generation signatures of spatially varying selection acting on glass eels. After screening 50 354 SNPs, a total of 754 potentially locally selected SNPs 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 that removes any effects of diversifying selection from each new generation. Article in Journal/Newspaper Iceland Dryad Digital Repository (Duke University) |
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Open Polar |
collection |
Dryad Digital Repository (Duke University) |
op_collection_id |
ftdryad |
language |
unknown |
topic |
Local Adaptation Panmixia Spatially Varying Selection |
spellingShingle |
Local Adaptation Panmixia Spatially Varying Selection Pujolar, Jose Martin Jacobsen, Magnus W. Als, Thomas D. Frydenberg, Jane Munch, Kasper Jónsson, Bjarni Jian, Jianbo B. Cheng, Ling Maes, Gregory E. Bernatchez, Louis Hansen, Michael M. Data from: Genome-wide signatures of local selection in the panmictic European eel |
topic_facet |
Local Adaptation Panmixia Spatially Varying Selection |
description |
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 European eel individuals (glass eels) from eight locations between 34 and 64oN, we examined the patterns of genome-wide genetic diversity across locations. We tested for local selection by searching for increased population differentiation using FST-based outlier tests and by testing for significant associations between allele frequencies and environmental variables. The overall low genetic differentiation found (FST = 0.0007) indicates that most of the genome is homogenized by gene flow, providing further evidence for genomic panmixia in the European eel. The lack of genetic substructuring was consistent at both nuclear and mitochondrial SNPs. Using an extensive number of diagnostic SNPs, results showed a low occurrence of hybrids between European and American 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 SNPs showed high genetic differentiation consistent with single-generation signatures of spatially varying selection acting on glass eels. After screening 50 354 SNPs, a total of 754 potentially locally selected SNPs 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 that removes any effects of diversifying selection from each new generation. |
format |
Article in Journal/Newspaper |
author |
Pujolar, Jose Martin Jacobsen, Magnus W. Als, Thomas D. Frydenberg, Jane Munch, Kasper Jónsson, Bjarni Jian, Jianbo B. Cheng, Ling Maes, Gregory E. Bernatchez, Louis Hansen, Michael M. |
author_facet |
Pujolar, Jose Martin Jacobsen, Magnus W. Als, Thomas D. Frydenberg, Jane Munch, Kasper Jónsson, Bjarni Jian, Jianbo B. Cheng, Ling Maes, Gregory E. Bernatchez, Louis Hansen, Michael M. |
author_sort |
Pujolar, Jose Martin |
title |
Data from: Genome-wide signatures of local selection in the panmictic European eel |
title_short |
Data from: Genome-wide signatures of local selection in the panmictic European eel |
title_full |
Data from: Genome-wide signatures of local selection in the panmictic European eel |
title_fullStr |
Data from: Genome-wide signatures of local selection in the panmictic European eel |
title_full_unstemmed |
Data from: Genome-wide signatures of local selection in the panmictic European eel |
title_sort |
data from: genome-wide signatures of local selection in the panmictic european eel |
publishDate |
2014 |
url |
http://hdl.handle.net/10255/dryad.62622 https://doi.org/10.5061/dryad.s8v7q |
genre |
Iceland |
genre_facet |
Iceland |
op_relation |
doi:10.5061/dryad.s8v7q/1 doi:10.5061/dryad.s8v7q/2 doi:10.1111/mec.12753 PMID:24750353 doi:10.5061/dryad.s8v7q Pujolar JM, Jacobsen MW, Als TD, Frydenberg J, Munch K, Jónsson B, Jian JB, Cheng L, Maes GE, Bernatchez L, Hansen MM (2014) Genome-wide signatures of local selection in the panmictic European eel. Molecular Ecology 23(10): 2514-2528. http://hdl.handle.net/10255/dryad.62622 |
op_doi |
https://doi.org/10.5061/dryad.s8v7q https://doi.org/10.5061/dryad.s8v7q/1 https://doi.org/10.5061/dryad.s8v7q/2 https://doi.org/10.1111/mec.12753 |
_version_ |
1766042763639390208 |