Data from: Targeted re-sequencing of coding DNA sequences for SNP discovery in non-model species ...
Targeted capture coupled with high throughput sequencing can be used to gain information about nuclear sequence variation at hundreds to thousands of loci. Divergent reference capture makes use of molecular data of one species to enrich target loci in other (related) species. This is particularly va...
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Online Access: | https://dx.doi.org/10.5061/dryad.3f4jr01 https://datadryad.org/stash/dataset/doi:10.5061/dryad.3f4jr01 |
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ftdatacite:10.5061/dryad.3f4jr01 2024-02-04T10:05:19+01:00 Data from: Targeted re-sequencing of coding DNA sequences for SNP discovery in non-model species ... Förster, Daniel W. Bull, James K. Lenz, Dorina Autenrieth, Marijke Paijmans, Johanna L.A. Kraus, Robert H.S. Nowak, Carsten Bayerl, Helmut Kuehn, Ralph Saveljev, Alexander P. Sindičić, Magda Hofreiter, Michael Schmidt, Krzysztof Fickel, Joerns Paijmans, Johanna L. A. Kraus, Robert H. S. 2018 https://dx.doi.org/10.5061/dryad.3f4jr01 https://datadryad.org/stash/dataset/doi:10.5061/dryad.3f4jr01 en eng Dryad https://dx.doi.org/10.1111/1755-0998.12924 Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode cc0-1.0 genetic monitoring CDS Eurasian lynx Lynx lynx single-nucleotide polymorphism hybridization capture Dataset dataset 2018 ftdatacite https://doi.org/10.5061/dryad.3f4jr0110.1111/1755-0998.12924 2024-01-05T00:42:33Z Targeted capture coupled with high throughput sequencing can be used to gain information about nuclear sequence variation at hundreds to thousands of loci. Divergent reference capture makes use of molecular data of one species to enrich target loci in other (related) species. This is particularly valuable for non-model organisms, for which often no a priori knowledge exists regarding these loci. Here, we have used targeted capture to obtain data for 809 nuclear coding DNA sequences (CDS) in a non-model organism, the Eurasian lynx Lynx lynx, using baits designed with the help of the published genome of a related model organism (the domestic cat Felis catus). Using this approach, we were able to survey intraspecific variation at hundreds of nuclear loci in L. lynx across the species’ European range. A large set of bi-allelic candidate SNPs was then evaluated using a high throughput SNP-genotyping platform (Fluidigm), which we then reduced to a final 96 SNP-panel based on assay performance and reliability; ... : CDS-baits and SNP dataThis ZIP folder contains bait sequences (FASTA), the 96 SNP-panel, SNP genotypes (Illumina and Fluidigm), and an R script. Details can be found in the READ ME file.DRYAD.zip ... Dataset Lynx Lynx lynx lynx DataCite Metadata Store (German National Library of Science and Technology) |
institution |
Open Polar |
collection |
DataCite Metadata Store (German National Library of Science and Technology) |
op_collection_id |
ftdatacite |
language |
English |
topic |
genetic monitoring CDS Eurasian lynx Lynx lynx single-nucleotide polymorphism hybridization capture |
spellingShingle |
genetic monitoring CDS Eurasian lynx Lynx lynx single-nucleotide polymorphism hybridization capture Förster, Daniel W. Bull, James K. Lenz, Dorina Autenrieth, Marijke Paijmans, Johanna L.A. Kraus, Robert H.S. Nowak, Carsten Bayerl, Helmut Kuehn, Ralph Saveljev, Alexander P. Sindičić, Magda Hofreiter, Michael Schmidt, Krzysztof Fickel, Joerns Paijmans, Johanna L. A. Kraus, Robert H. S. Data from: Targeted re-sequencing of coding DNA sequences for SNP discovery in non-model species ... |
topic_facet |
genetic monitoring CDS Eurasian lynx Lynx lynx single-nucleotide polymorphism hybridization capture |
description |
Targeted capture coupled with high throughput sequencing can be used to gain information about nuclear sequence variation at hundreds to thousands of loci. Divergent reference capture makes use of molecular data of one species to enrich target loci in other (related) species. This is particularly valuable for non-model organisms, for which often no a priori knowledge exists regarding these loci. Here, we have used targeted capture to obtain data for 809 nuclear coding DNA sequences (CDS) in a non-model organism, the Eurasian lynx Lynx lynx, using baits designed with the help of the published genome of a related model organism (the domestic cat Felis catus). Using this approach, we were able to survey intraspecific variation at hundreds of nuclear loci in L. lynx across the species’ European range. A large set of bi-allelic candidate SNPs was then evaluated using a high throughput SNP-genotyping platform (Fluidigm), which we then reduced to a final 96 SNP-panel based on assay performance and reliability; ... : CDS-baits and SNP dataThis ZIP folder contains bait sequences (FASTA), the 96 SNP-panel, SNP genotypes (Illumina and Fluidigm), and an R script. Details can be found in the READ ME file.DRYAD.zip ... |
format |
Dataset |
author |
Förster, Daniel W. Bull, James K. Lenz, Dorina Autenrieth, Marijke Paijmans, Johanna L.A. Kraus, Robert H.S. Nowak, Carsten Bayerl, Helmut Kuehn, Ralph Saveljev, Alexander P. Sindičić, Magda Hofreiter, Michael Schmidt, Krzysztof Fickel, Joerns Paijmans, Johanna L. A. Kraus, Robert H. S. |
author_facet |
Förster, Daniel W. Bull, James K. Lenz, Dorina Autenrieth, Marijke Paijmans, Johanna L.A. Kraus, Robert H.S. Nowak, Carsten Bayerl, Helmut Kuehn, Ralph Saveljev, Alexander P. Sindičić, Magda Hofreiter, Michael Schmidt, Krzysztof Fickel, Joerns Paijmans, Johanna L. A. Kraus, Robert H. S. |
author_sort |
Förster, Daniel W. |
title |
Data from: Targeted re-sequencing of coding DNA sequences for SNP discovery in non-model species ... |
title_short |
Data from: Targeted re-sequencing of coding DNA sequences for SNP discovery in non-model species ... |
title_full |
Data from: Targeted re-sequencing of coding DNA sequences for SNP discovery in non-model species ... |
title_fullStr |
Data from: Targeted re-sequencing of coding DNA sequences for SNP discovery in non-model species ... |
title_full_unstemmed |
Data from: Targeted re-sequencing of coding DNA sequences for SNP discovery in non-model species ... |
title_sort |
data from: targeted re-sequencing of coding dna sequences for snp discovery in non-model species ... |
publisher |
Dryad |
publishDate |
2018 |
url |
https://dx.doi.org/10.5061/dryad.3f4jr01 https://datadryad.org/stash/dataset/doi:10.5061/dryad.3f4jr01 |
genre |
Lynx Lynx lynx lynx |
genre_facet |
Lynx Lynx lynx lynx |
op_relation |
https://dx.doi.org/10.1111/1755-0998.12924 |
op_rights |
Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode cc0-1.0 |
op_doi |
https://doi.org/10.5061/dryad.3f4jr0110.1111/1755-0998.12924 |
_version_ |
1789974403073703936 |