Data from: Y-chromosome markers for the red fox
The de novo assembly of the red fox (Vulpes vulpes) genome has facilitated the development of genomic tools for the species. Efforts to identify the population history of red foxes in North America have previously been limited by a lack of information about the red fox Y-chromosome sequence. However...
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Online Access: | https://doi.org/10.5061/DRYAD.FQ7DJ |
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fttriple:oai:gotriple.eu:50|dedup_wf_001::b8bb4fb051122ee9cc766ad879517be6 2023-05-15T17:22:12+02:00 Data from: Y-chromosome markers for the red fox Rando, Halie M. Stutchman, Jeremy T. Bastounes, Estelle R. Johnson, Jennifer L. Driscoll, Carlos A. Barr, Christina S. Trut, Lyudmila N. Sacks, Benjamin N. Kukekova, Anna V. 2017-01-01 https://doi.org/10.5061/DRYAD.FQ7DJ undefined unknown Dryad https://dx.doi.org/10.5061/DRYAD.FQ7DJ http://dx.doi.org/10.5061/dryad.fq7dj lic_creative-commons 10.5061/DRYAD.FQ7DJ oai:services.nod.dans.knaw.nl:Products/dans:oai:easy.dans.knaw.nl:easy-dataset:98289 oai:easy.dans.knaw.nl:easy-dataset:98289 10|openaire____::9e3be59865b2c1c335d32dae2fe7b254 re3data_____::r3d100000044 10|eurocrisdris::fe4903425d9040f680d8610d9079ea14 10|re3data_____::94816e6421eeb072e7742ce6a9decc5f 10|re3data_____::84e123776089ce3c7a33db98d9cd15a8 microsatellites marker development population history introgression Newfoundland Maryland Great Britain Vulpes vulpes fulva Vulpes vulpes Life sciences medicine and health care litt anthro-se Dataset https://vocabularies.coar-repositories.org/resource_types/c_ddb1/ 2017 fttriple https://doi.org/10.5061/DRYAD.FQ7DJ https://doi.org/10.5061/dryad.fq7dj 2023-01-22T17:23:04Z The de novo assembly of the red fox (Vulpes vulpes) genome has facilitated the development of genomic tools for the species. Efforts to identify the population history of red foxes in North America have previously been limited by a lack of information about the red fox Y-chromosome sequence. However, a megabase of red fox Y-chromosome sequence was recently identified over 2 scaffolds in the reference genome. Here, these scaffolds were scanned for repeated motifs, revealing 194 likely microsatellites. Twenty-three of these loci were selected for primer development and, after testing, produced a panel of 11 novel markers that were analyzed alongside 2 markers previously developed for the red fox from dog Y-chromosome sequence. The markers were genotyped in 76 male red foxes from 4 populations: 7 foxes from Newfoundland (eastern Canada), 12 from Maryland (eastern United States), and 9 from the island of Great Britain, as well as 48 foxes of known North American origin maintained on an experimental farm in Novosibirsk, Russia. The full marker panel revealed 22 haplotypes among these red foxes, whereas the 2 previously known markers alone would have identified only 10 haplotypes. The haplotypes from the 4 populations clustered primarily by continent, but unidirectional gene flow from Great Britain and farm populations may influence haplotype diversity in the Maryland population. The development of new markers has increased the resolution at which red fox Y-chromosome diversity can be analyzed and provides insight into the contribution of males to red fox population diversity and patterns of phylogeography. Raw Fragment Analysis DataThis is all of the raw data generated and analyzed for the development of a 13-microsatellite marker panel for the red fox Y-chromosome. It may be useful to researchers looking to calibrate calls made in new samples/populations using these markers. This zipped file includes all original .abi files, raw allele calls and peaks as produced with GeneMapper v3.5, a table of the final allele ... Dataset Newfoundland Unknown Canada |
institution |
Open Polar |
collection |
Unknown |
op_collection_id |
fttriple |
language |
unknown |
topic |
microsatellites marker development population history introgression Newfoundland Maryland Great Britain Vulpes vulpes fulva Vulpes vulpes Life sciences medicine and health care litt anthro-se |
spellingShingle |
microsatellites marker development population history introgression Newfoundland Maryland Great Britain Vulpes vulpes fulva Vulpes vulpes Life sciences medicine and health care litt anthro-se Rando, Halie M. Stutchman, Jeremy T. Bastounes, Estelle R. Johnson, Jennifer L. Driscoll, Carlos A. Barr, Christina S. Trut, Lyudmila N. Sacks, Benjamin N. Kukekova, Anna V. Data from: Y-chromosome markers for the red fox |
topic_facet |
microsatellites marker development population history introgression Newfoundland Maryland Great Britain Vulpes vulpes fulva Vulpes vulpes Life sciences medicine and health care litt anthro-se |
description |
The de novo assembly of the red fox (Vulpes vulpes) genome has facilitated the development of genomic tools for the species. Efforts to identify the population history of red foxes in North America have previously been limited by a lack of information about the red fox Y-chromosome sequence. However, a megabase of red fox Y-chromosome sequence was recently identified over 2 scaffolds in the reference genome. Here, these scaffolds were scanned for repeated motifs, revealing 194 likely microsatellites. Twenty-three of these loci were selected for primer development and, after testing, produced a panel of 11 novel markers that were analyzed alongside 2 markers previously developed for the red fox from dog Y-chromosome sequence. The markers were genotyped in 76 male red foxes from 4 populations: 7 foxes from Newfoundland (eastern Canada), 12 from Maryland (eastern United States), and 9 from the island of Great Britain, as well as 48 foxes of known North American origin maintained on an experimental farm in Novosibirsk, Russia. The full marker panel revealed 22 haplotypes among these red foxes, whereas the 2 previously known markers alone would have identified only 10 haplotypes. The haplotypes from the 4 populations clustered primarily by continent, but unidirectional gene flow from Great Britain and farm populations may influence haplotype diversity in the Maryland population. The development of new markers has increased the resolution at which red fox Y-chromosome diversity can be analyzed and provides insight into the contribution of males to red fox population diversity and patterns of phylogeography. Raw Fragment Analysis DataThis is all of the raw data generated and analyzed for the development of a 13-microsatellite marker panel for the red fox Y-chromosome. It may be useful to researchers looking to calibrate calls made in new samples/populations using these markers. This zipped file includes all original .abi files, raw allele calls and peaks as produced with GeneMapper v3.5, a table of the final allele ... |
format |
Dataset |
author |
Rando, Halie M. Stutchman, Jeremy T. Bastounes, Estelle R. Johnson, Jennifer L. Driscoll, Carlos A. Barr, Christina S. Trut, Lyudmila N. Sacks, Benjamin N. Kukekova, Anna V. |
author_facet |
Rando, Halie M. Stutchman, Jeremy T. Bastounes, Estelle R. Johnson, Jennifer L. Driscoll, Carlos A. Barr, Christina S. Trut, Lyudmila N. Sacks, Benjamin N. Kukekova, Anna V. |
author_sort |
Rando, Halie M. |
title |
Data from: Y-chromosome markers for the red fox |
title_short |
Data from: Y-chromosome markers for the red fox |
title_full |
Data from: Y-chromosome markers for the red fox |
title_fullStr |
Data from: Y-chromosome markers for the red fox |
title_full_unstemmed |
Data from: Y-chromosome markers for the red fox |
title_sort |
data from: y-chromosome markers for the red fox |
publisher |
Dryad |
publishDate |
2017 |
url |
https://doi.org/10.5061/DRYAD.FQ7DJ |
geographic |
Canada |
geographic_facet |
Canada |
genre |
Newfoundland |
genre_facet |
Newfoundland |
op_source |
10.5061/DRYAD.FQ7DJ oai:services.nod.dans.knaw.nl:Products/dans:oai:easy.dans.knaw.nl:easy-dataset:98289 oai:easy.dans.knaw.nl:easy-dataset:98289 10|openaire____::9e3be59865b2c1c335d32dae2fe7b254 re3data_____::r3d100000044 10|eurocrisdris::fe4903425d9040f680d8610d9079ea14 10|re3data_____::94816e6421eeb072e7742ce6a9decc5f 10|re3data_____::84e123776089ce3c7a33db98d9cd15a8 |
op_relation |
https://dx.doi.org/10.5061/DRYAD.FQ7DJ http://dx.doi.org/10.5061/dryad.fq7dj |
op_rights |
lic_creative-commons |
op_doi |
https://doi.org/10.5061/DRYAD.FQ7DJ https://doi.org/10.5061/dryad.fq7dj |
_version_ |
1766108649338437632 |