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Data from: Homogenization of populations in the wildflower Texas bluebonnet (Lupinus texensis) Turner, Kathryn G.; Huang, Daisie I.; Cronk, Quentin C.B.; Rieseberg, Loren H.
Description
<b>Abstract</b><br/>Wildflowers seeds are routinely spread along highways and thoroughfares throughout North America as part of federal beautification policy, but the genetic effect of the introduction of these cultivated populations on wild populations of the same species is unknown. Interbreeding may occur between these seeded and wild populations, resulting in several possible outcomes. Here we sample 187 individuals in 12 matched pairs of neighboring wild and seeded populations of the Texas bluebonnet (Lupinus texensis), a species popular in commercially available wildflower seed mixes used by both the Texas Department of Transportation and the public. We use genotyping by sequencing to identify 11,741 genome-wide single nucleotide polymorphisms, as well as a smaller number of SNPs from the chloroplast genome, to analyze population structure and genetic diversity within and between the populations. We find a striking lack of population structure both between wild and seeded populations and amongst wild populations. STRUCTURE analyses indicate that all populations are apparently panmictic. This pattern may be explained by extensive swamping of wild populations by seeded germplasm and increased dispersal of semi-domesticated seed across this species’ core native range by humans. We discuss the possible negative and positive ramifications of homogenization on the evolutionary future of this popular wildflower species.; <b>Usage notes</b><br /><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">Supplementary tables and figures</h4><div class="o-metadata__file-description">Supplementary material for "Homogenization of populations in the wildflower Texas bluebonnet (Lupinus texensis)."</div><div class="o-metadata__file-name">Bluebonnet_supmat_rev.pdf</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">Main parameters for STRUCTURE run K=1 to K=5</h4><div class="o-metadata__file-name">mainparams</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">STRUCTURE input file</h4><div class="o-metadata__file-name">dDoccat.FinalSNP.structure</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">Unfiltered SNPs</h4><div class="o-metadata__file-name">TotalRawSNPs.vcf.gz</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">Filtered SNPs</h4><div class="o-metadata__file-name">dDoccat.FinalSNP.vcf</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">De novo reference assembly</h4><div class="o-metadata__file-name">reference.fasta.gz</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">Data files for chloroplast haplotype analysis</h4><div class="o-metadata__file-name">chloroplast.zip</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">Code repository</h4><div class="o-metadata__file-description">Github repository storing bash, dDocent, R, and other scripts used in this paper.</div></div>
Item Metadata
Title |
Data from: Homogenization of populations in the wildflower Texas bluebonnet (Lupinus texensis)
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Creator | |
Date Issued |
2021-05-19
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Description |
<b>Abstract</b><br/>Wildflowers seeds are routinely spread along highways and thoroughfares throughout North America as part of federal beautification policy, but the genetic effect of the introduction of these cultivated populations on wild populations of the same species is unknown. Interbreeding may occur between these seeded and wild populations, resulting in several possible outcomes. Here we sample 187 individuals in 12 matched pairs of neighboring wild and seeded populations of the Texas bluebonnet (Lupinus texensis), a species popular in commercially available wildflower seed mixes used by both the Texas Department of Transportation and the public. We use genotyping by sequencing to identify 11,741 genome-wide single nucleotide polymorphisms, as well as a smaller number of SNPs from the chloroplast genome, to analyze population structure and genetic diversity within and between the populations. We find a striking lack of population structure both between wild and seeded populations and amongst wild populations. STRUCTURE analyses indicate that all populations are apparently panmictic. This pattern may be explained by extensive swamping of wild populations by seeded germplasm and increased dispersal of semi-domesticated seed across this species’ core native range by humans. We discuss the possible negative and positive ramifications of homogenization on the evolutionary future of this popular wildflower species.; <b>Usage notes</b><br /><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">Supplementary tables and figures</h4><div class="o-metadata__file-description">Supplementary material for "Homogenization of populations in the wildflower Texas bluebonnet (Lupinus texensis)."</div><div class="o-metadata__file-name">Bluebonnet_supmat_rev.pdf</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">Main parameters for STRUCTURE run K=1 to K=5</h4><div class="o-metadata__file-name">mainparams</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">STRUCTURE input file</h4><div class="o-metadata__file-name">dDoccat.FinalSNP.structure</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">Unfiltered SNPs</h4><div class="o-metadata__file-name">TotalRawSNPs.vcf.gz</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">Filtered SNPs</h4><div class="o-metadata__file-name">dDoccat.FinalSNP.vcf</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">De novo reference assembly</h4><div class="o-metadata__file-name">reference.fasta.gz</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">Data files for chloroplast haplotype analysis</h4><div class="o-metadata__file-name">chloroplast.zip</br></div><div class="o-metadata__file-name"></div></div><div class="o-metadata__file-usage-entry"><h4 class="o-heading__level3-file-title">Code repository</h4><div class="o-metadata__file-description">Github repository storing bash, dDocent, R, and other scripts used in this paper.</div></div>
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Notes |
Dryad version number: 1</p> Version status: submitted</p> Dryad curation status: Published</p> Dryad preserve curation status: True</p> Sharing link: https://datadryad.org/stash/share/BRBbaueDn_t2uYShf6YODu4WZL4n4miQZYkxuW-z5y0</p> Loosen validation: True</p> Skip Datacite update: True</p> Storage size: 571959500</p> Visibility: public</p> Skip emails: True</p> |
Date Available |
2020-06-24
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Provider |
University of British Columbia Library
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License |
This dataset is made available under a Creative Commons CC0 license with the following additional/modified terms and conditions: CC0 Waiver
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DOI |
10.14288/1.0397548
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URI | |
Publisher DOI | |
Grant Funding Agency |
National Science Foundation
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Rights URI | |
Aggregated Source Repository |
Dataverse
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Item Media
Item Citations and Data
Licence
This dataset is made available under a Creative Commons CC0 license with the following additional/modified terms and conditions: CC0 Waiver