Data from: RAD sequencing and genomic simulations resolve hybrid origins within North American Canis
Top predators are disappearing worldwide, significantly changing ecosystems that depend on top-down regulation. Conflict with humans remains the primary roadblock for large carnivore conservation, but for the eastern wolf (Canis lycaon), disagreement over its evolutionary origins presents a signific...
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fttriple:oai:gotriple.eu:50|dedup_wf_001::17287cdbecd09695e06b7f3cd707c58c 2023-05-15T15:50:03+02:00 Data from: RAD sequencing and genomic simulations resolve hybrid origins within North American Canis Rutledge, Linda Y. Devillard, S. Boone, J. Q. Hohenlohe, P. A. White, B. N. Rutledge, L. Y. 2017-01-01 https://doi.org/10.5061/DRYAD.PR318 undefined unknown Dryad https://dx.doi.org/10.5061/DRYAD.PR318 http://dx.doi.org/10.5061/dryad.pr318 lic_creative-commons 10.5061/DRYAD.PR318 oai:easy.dans.knaw.nl:easy-dataset:98867 oai:services.nod.dans.knaw.nl:Products/dans:oai:easy.dans.knaw.nl:easy-dataset:98867 10|openaire____::9e3be59865b2c1c335d32dae2fe7b254 re3data_____::r3d100000044 10|re3data_____::94816e6421eeb072e7742ce6a9decc5f 10|re3data_____::84e123776089ce3c7a33db98d9cd15a8 10|eurocrisdris::fe4903425d9040f680d8610d9079ea14 10|opendoar____::8b6dd7db9af49e67306feb59a8bdc52c Eastern wolf evolution taxonomy conservation Canis lycaon Canis lupus Canis latrans Life sciences medicine and health care envir geo Dataset https://vocabularies.coar-repositories.org/resource_types/c_ddb1/ 2017 fttriple https://doi.org/10.5061/DRYAD.PR318 https://doi.org/10.5061/dryad.pr318 2023-01-22T17:41:30Z Top predators are disappearing worldwide, significantly changing ecosystems that depend on top-down regulation. Conflict with humans remains the primary roadblock for large carnivore conservation, but for the eastern wolf (Canis lycaon), disagreement over its evolutionary origins presents a significant barrier to conservation in Canada and has impeded protection for grey wolves (Canis lupus) in the USA. Here, we use 127 235 single-nucleotide polymorphisms (SNPs) identified from restriction-site associated DNA sequencing (RAD-seq) of wolves and coyotes, in combination with genomic simulations, to test hypotheses of hybrid origins of Canis types in eastern North America. A principal components analysis revealed no evidence to support eastern wolves, or any other Canis type, as the product of grey wolf × western coyote hybridization. In contrast, simulations that included eastern wolves as a distinct taxon clarified the hybrid origins of Great Lakes-boreal wolves and eastern coyotes. Our results support the eastern wolf as a distinct genomic cluster in North America and help resolve hybrid origins of Great Lakes wolves and eastern coyotes. The data provide timely information that will shed new light on the debate over wolf conservation in eastern North America. MetaData_Quality_VCFThis file contains 1) metadata that describes each sample used, 2) quality scores from sequencing on Illumina platform, and 3) an initial VCF file with individual genotypes compiled from the raw sequencing data (refer to methods in publication for a description of genotypes used to generate the PCA in the manuscript).Eastern Wolf Raw DataThis file contains raw Illumina sequence data for the Eastern Wolves (Canis lycaon). Please check the metadata to confirm and cross-reference sample IDs.EasternWolfRawData.zipEastern Coyote Raw DataThis file contains raw Illumina sequence data for the Eastern Coyotes (Canis latrans var.). Please check the metadata to confirm and cross-reference sample IDs.EasternCoyoteRawData.zipGreat Lakes Boreal Wolf ... Dataset Canis lupus Unknown Canada |
institution |
Open Polar |
collection |
Unknown |
op_collection_id |
fttriple |
language |
unknown |
topic |
Eastern wolf evolution taxonomy conservation Canis lycaon Canis lupus Canis latrans Life sciences medicine and health care envir geo |
spellingShingle |
Eastern wolf evolution taxonomy conservation Canis lycaon Canis lupus Canis latrans Life sciences medicine and health care envir geo Rutledge, Linda Y. Devillard, S. Boone, J. Q. Hohenlohe, P. A. White, B. N. Rutledge, L. Y. Data from: RAD sequencing and genomic simulations resolve hybrid origins within North American Canis |
topic_facet |
Eastern wolf evolution taxonomy conservation Canis lycaon Canis lupus Canis latrans Life sciences medicine and health care envir geo |
description |
Top predators are disappearing worldwide, significantly changing ecosystems that depend on top-down regulation. Conflict with humans remains the primary roadblock for large carnivore conservation, but for the eastern wolf (Canis lycaon), disagreement over its evolutionary origins presents a significant barrier to conservation in Canada and has impeded protection for grey wolves (Canis lupus) in the USA. Here, we use 127 235 single-nucleotide polymorphisms (SNPs) identified from restriction-site associated DNA sequencing (RAD-seq) of wolves and coyotes, in combination with genomic simulations, to test hypotheses of hybrid origins of Canis types in eastern North America. A principal components analysis revealed no evidence to support eastern wolves, or any other Canis type, as the product of grey wolf × western coyote hybridization. In contrast, simulations that included eastern wolves as a distinct taxon clarified the hybrid origins of Great Lakes-boreal wolves and eastern coyotes. Our results support the eastern wolf as a distinct genomic cluster in North America and help resolve hybrid origins of Great Lakes wolves and eastern coyotes. The data provide timely information that will shed new light on the debate over wolf conservation in eastern North America. MetaData_Quality_VCFThis file contains 1) metadata that describes each sample used, 2) quality scores from sequencing on Illumina platform, and 3) an initial VCF file with individual genotypes compiled from the raw sequencing data (refer to methods in publication for a description of genotypes used to generate the PCA in the manuscript).Eastern Wolf Raw DataThis file contains raw Illumina sequence data for the Eastern Wolves (Canis lycaon). Please check the metadata to confirm and cross-reference sample IDs.EasternWolfRawData.zipEastern Coyote Raw DataThis file contains raw Illumina sequence data for the Eastern Coyotes (Canis latrans var.). Please check the metadata to confirm and cross-reference sample IDs.EasternCoyoteRawData.zipGreat Lakes Boreal Wolf ... |
format |
Dataset |
author |
Rutledge, Linda Y. Devillard, S. Boone, J. Q. Hohenlohe, P. A. White, B. N. Rutledge, L. Y. |
author_facet |
Rutledge, Linda Y. Devillard, S. Boone, J. Q. Hohenlohe, P. A. White, B. N. Rutledge, L. Y. |
author_sort |
Rutledge, Linda Y. |
title |
Data from: RAD sequencing and genomic simulations resolve hybrid origins within North American Canis |
title_short |
Data from: RAD sequencing and genomic simulations resolve hybrid origins within North American Canis |
title_full |
Data from: RAD sequencing and genomic simulations resolve hybrid origins within North American Canis |
title_fullStr |
Data from: RAD sequencing and genomic simulations resolve hybrid origins within North American Canis |
title_full_unstemmed |
Data from: RAD sequencing and genomic simulations resolve hybrid origins within North American Canis |
title_sort |
data from: rad sequencing and genomic simulations resolve hybrid origins within north american canis |
publisher |
Dryad |
publishDate |
2017 |
url |
https://doi.org/10.5061/DRYAD.PR318 |
geographic |
Canada |
geographic_facet |
Canada |
genre |
Canis lupus |
genre_facet |
Canis lupus |
op_source |
10.5061/DRYAD.PR318 oai:easy.dans.knaw.nl:easy-dataset:98867 oai:services.nod.dans.knaw.nl:Products/dans:oai:easy.dans.knaw.nl:easy-dataset:98867 10|openaire____::9e3be59865b2c1c335d32dae2fe7b254 re3data_____::r3d100000044 10|re3data_____::94816e6421eeb072e7742ce6a9decc5f 10|re3data_____::84e123776089ce3c7a33db98d9cd15a8 10|eurocrisdris::fe4903425d9040f680d8610d9079ea14 10|opendoar____::8b6dd7db9af49e67306feb59a8bdc52c |
op_relation |
https://dx.doi.org/10.5061/DRYAD.PR318 http://dx.doi.org/10.5061/dryad.pr318 |
op_rights |
lic_creative-commons |
op_doi |
https://doi.org/10.5061/DRYAD.PR318 https://doi.org/10.5061/dryad.pr318 |
_version_ |
1766385051406172160 |