Data from: A genomewide catalogue of single nucleotide polymorphisms in white-beaked and Atlantic white-sided dolphins
The field of population genetics is rapidly moving into population genomics as the quantity of data generated by high-throughput sequencing platforms increases. In this study, we used restriction-site-associated DNA sequencing (RADSeq) to recover genomewide genotypes from 70 white-beaked (Lagenorhyn...
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ftzenodo:oai:zenodo.org:4934851 2024-09-15T18:05:44+00:00 Data from: A genomewide catalogue of single nucleotide polymorphisms in white-beaked and Atlantic white-sided dolphins Fernández, Ruth Schubert, Mikkel Vargas-Velázquez, A. M. Brownlow, Andrew Víkingsson, Gisli A. Siebert, Ursula Jensen, Lasse Fast Øien, Nils Wall, Dave Rogan, Emer Mikkelsen, Bjarni Dabin, Willy Guillot, Gilles Orlando, Ludovic Alfarhan, A. H. Alquraishi, S. A. Al-Rasheid, K. A. S. 2015-05-08 https://doi.org/10.5061/dryad.sd28r unknown Zenodo https://doi.org/10.1111/1755-0998.12427 https://zenodo.org/communities/dryad https://doi.org/10.5061/dryad.sd28r oai:zenodo.org:4934851 info:eu-repo/semantics/openAccess Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode Atlantic white-sided dolphin Lagenorhynchus albirostris white-beaked dolphin SNPs Legenorhynchus albirostris structure file Lagenorhynchus acutus cetacean info:eu-repo/semantics/other 2015 ftzenodo https://doi.org/10.5061/dryad.sd28r10.1111/1755-0998.12427 2024-07-27T04:36:45Z The field of population genetics is rapidly moving into population genomics as the quantity of data generated by high-throughput sequencing platforms increases. In this study, we used restriction-site-associated DNA sequencing (RADSeq) to recover genomewide genotypes from 70 white-beaked (Lagenorhynchus albirostris) and 43 Atlantic white-sided dolphins (L. acutus) gathered throughout their north-east Atlantic distribution range. Both species are at a high risk of being negatively affected by climate change. Here, we provide a resource of 38 240 RAD-tags and 52 981 nuclear SNPs shared between both species. We have estimated overall higher levels of nucleotide diversity in white-sided (π = 0.0492 ± 0.0006%) than in white-beaked dolphins (π = 0.0300 ± 0.0004%). White-sided dolphins sampled in the Faroe Islands, belonging to two pods (N = 7 and N = 11), showed similar levels of diversity (π = 0.0317 ± 0.0007% and 0.0267 ± 0.0006%, respectively) compared to unrelated individuals of the same species sampled elsewhere (e.g. π = 0.0285 ± 0.0007% for 11 Scottish individuals). No evidence of higher levels of kinship within pods can be derived from our analyses. When identifying the most likely number of genetic clusters among our sample set, we obtained an estimate of two to four clusters, corresponding to both species and possibly, two further clusters within each species. A higher diversity and lower population structuring was encountered in white-sided dolphins from the north-east Atlantic, in line with their preference for pelagic waters, as opposed to white-beaked dolphins that have a more patchy distribution, mainly across continental shelves. structure file Genome-wide SNP catalogue in Lagenorhynchus spp Tab Separated Values File in "Structure" format. This file was used to run the software "Admixture". Missing data=0, A=1, C=2, G=3, T=4. vcf file Genome-wide SNP catalogue in Lagenorhynchus spp Variant Call Format (vcf) file containing all the SNPs found within the 113 sampled dolphins (N=40 Lagenorhynchus ... Other/Unknown Material Faroe Islands Lagenorhynchus albirostris North East Atlantic White-beaked dolphin Zenodo |
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Atlantic white-sided dolphin Lagenorhynchus albirostris white-beaked dolphin SNPs Legenorhynchus albirostris structure file Lagenorhynchus acutus cetacean |
spellingShingle |
Atlantic white-sided dolphin Lagenorhynchus albirostris white-beaked dolphin SNPs Legenorhynchus albirostris structure file Lagenorhynchus acutus cetacean Fernández, Ruth Schubert, Mikkel Vargas-Velázquez, A. M. Brownlow, Andrew Víkingsson, Gisli A. Siebert, Ursula Jensen, Lasse Fast Øien, Nils Wall, Dave Rogan, Emer Mikkelsen, Bjarni Dabin, Willy Guillot, Gilles Orlando, Ludovic Alfarhan, A. H. Alquraishi, S. A. Al-Rasheid, K. A. S. Data from: A genomewide catalogue of single nucleotide polymorphisms in white-beaked and Atlantic white-sided dolphins |
topic_facet |
Atlantic white-sided dolphin Lagenorhynchus albirostris white-beaked dolphin SNPs Legenorhynchus albirostris structure file Lagenorhynchus acutus cetacean |
description |
The field of population genetics is rapidly moving into population genomics as the quantity of data generated by high-throughput sequencing platforms increases. In this study, we used restriction-site-associated DNA sequencing (RADSeq) to recover genomewide genotypes from 70 white-beaked (Lagenorhynchus albirostris) and 43 Atlantic white-sided dolphins (L. acutus) gathered throughout their north-east Atlantic distribution range. Both species are at a high risk of being negatively affected by climate change. Here, we provide a resource of 38 240 RAD-tags and 52 981 nuclear SNPs shared between both species. We have estimated overall higher levels of nucleotide diversity in white-sided (π = 0.0492 ± 0.0006%) than in white-beaked dolphins (π = 0.0300 ± 0.0004%). White-sided dolphins sampled in the Faroe Islands, belonging to two pods (N = 7 and N = 11), showed similar levels of diversity (π = 0.0317 ± 0.0007% and 0.0267 ± 0.0006%, respectively) compared to unrelated individuals of the same species sampled elsewhere (e.g. π = 0.0285 ± 0.0007% for 11 Scottish individuals). No evidence of higher levels of kinship within pods can be derived from our analyses. When identifying the most likely number of genetic clusters among our sample set, we obtained an estimate of two to four clusters, corresponding to both species and possibly, two further clusters within each species. A higher diversity and lower population structuring was encountered in white-sided dolphins from the north-east Atlantic, in line with their preference for pelagic waters, as opposed to white-beaked dolphins that have a more patchy distribution, mainly across continental shelves. structure file Genome-wide SNP catalogue in Lagenorhynchus spp Tab Separated Values File in "Structure" format. This file was used to run the software "Admixture". Missing data=0, A=1, C=2, G=3, T=4. vcf file Genome-wide SNP catalogue in Lagenorhynchus spp Variant Call Format (vcf) file containing all the SNPs found within the 113 sampled dolphins (N=40 Lagenorhynchus ... |
format |
Other/Unknown Material |
author |
Fernández, Ruth Schubert, Mikkel Vargas-Velázquez, A. M. Brownlow, Andrew Víkingsson, Gisli A. Siebert, Ursula Jensen, Lasse Fast Øien, Nils Wall, Dave Rogan, Emer Mikkelsen, Bjarni Dabin, Willy Guillot, Gilles Orlando, Ludovic Alfarhan, A. H. Alquraishi, S. A. Al-Rasheid, K. A. S. |
author_facet |
Fernández, Ruth Schubert, Mikkel Vargas-Velázquez, A. M. Brownlow, Andrew Víkingsson, Gisli A. Siebert, Ursula Jensen, Lasse Fast Øien, Nils Wall, Dave Rogan, Emer Mikkelsen, Bjarni Dabin, Willy Guillot, Gilles Orlando, Ludovic Alfarhan, A. H. Alquraishi, S. A. Al-Rasheid, K. A. S. |
author_sort |
Fernández, Ruth |
title |
Data from: A genomewide catalogue of single nucleotide polymorphisms in white-beaked and Atlantic white-sided dolphins |
title_short |
Data from: A genomewide catalogue of single nucleotide polymorphisms in white-beaked and Atlantic white-sided dolphins |
title_full |
Data from: A genomewide catalogue of single nucleotide polymorphisms in white-beaked and Atlantic white-sided dolphins |
title_fullStr |
Data from: A genomewide catalogue of single nucleotide polymorphisms in white-beaked and Atlantic white-sided dolphins |
title_full_unstemmed |
Data from: A genomewide catalogue of single nucleotide polymorphisms in white-beaked and Atlantic white-sided dolphins |
title_sort |
data from: a genomewide catalogue of single nucleotide polymorphisms in white-beaked and atlantic white-sided dolphins |
publisher |
Zenodo |
publishDate |
2015 |
url |
https://doi.org/10.5061/dryad.sd28r |
genre |
Faroe Islands Lagenorhynchus albirostris North East Atlantic White-beaked dolphin |
genre_facet |
Faroe Islands Lagenorhynchus albirostris North East Atlantic White-beaked dolphin |
op_relation |
https://doi.org/10.1111/1755-0998.12427 https://zenodo.org/communities/dryad https://doi.org/10.5061/dryad.sd28r oai:zenodo.org:4934851 |
op_rights |
info:eu-repo/semantics/openAccess Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode |
op_doi |
https://doi.org/10.5061/dryad.sd28r10.1111/1755-0998.12427 |
_version_ |
1810443245536149504 |