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Dataset associated with “Investigating the origins and evolution of a glyphosate-resistant weed invasion in South America”

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dc.contributor.authorGaines, T.
dc.contributor.authorSlavov, G.
dc.contributor.authorHughes, D.
dc.contributor.authorKuepper, A.
dc.contributor.authorSparks, C.
dc.contributor.authorOliva, J.
dc.contributor.authorVila-Aiub, M.
dc.contributor.authorGarcia, M. A.
dc.contributor.authorMerotto, A.
dc.contributor.authorNeve, P.
dc.coverage.spatialCórdoba, Argentinaen_US
dc.coverage.spatialSan Luis, Argentinaen_US
dc.coverage.spatialMato Grosso, Brazilen_US
dc.coverage.spatialColonia, Uruguayen_US
dc.coverage.spatialPaysandú, Uruguayen_US
dc.coverage.spatialRio Negro, Uruguayen_US
dc.coverage.spatialArizona, USAen_US
dc.coverage.spatialColorado, USAen_US
dc.coverage.spatialGeorgia, USAen_US
dc.coverage.spatialKansas, USAen_US
dc.coverage.spatialNorth Carolina, USAen_US
dc.coverage.spatialTennessee, USAen_US
dc.coverage.temporal2017-2019en_US
dc.date.accessioned2021-08-02T15:51:28Z
dc.date.available2021-08-02T15:51:28Z
dc.date.issued2021
dc.descriptionVCF file from UNEAK on RAD-Seq data containing 4,659 SNPs that can be used to reproduce all analyses, with a bit of formatting for STRUCTURE, smartpca, PLINK, and BA3.en_US
dc.descriptionDepartment of Agricultural Biology
dc.description.abstractThe global invasion, and subsequent spread and evolution of weeds provides unique opportunities to address fundamental questions in evolutionary and invasion ecology. Amaranthus palmeri is a widespread glyphosate-resistant (GR) weed in the USA. Since 2015, GR populations of A. palmeri have been confirmed in South America, raising questions about introduction pathways and the importance of pre- versus post-invasion evolution of GR traits. We used RAD-Seq genotyping to characterize genetic structure of populations from Brazil, Argentina, Uruguay and the USA. We also quantified gene copy number of the glyphosate target, 5-enolpyruvyl-3-shikimate phosphate synthase (EPSPS) and the presence of an extra-chromosomal circular DNA (eccDNA) replicon known to confer GR in USA populations. Populations in Brazil, Argentina, and Uruguay were only weakly differentiated (pairwise FST  0.043) in comparison to USA populations (mean pairwise FST = 0.161, range = 0.068-0.258), suggesting a single major invasion event. However, elevated EPSPS copy number and the EPSPS replicon were identified in all populations from Brazil and Uruguay, but only in a single Argentinean population. These observations are consistent with independent in situ evolution of glyphosate resistance in Argentina, followed by some limited recent migration of the eccDNA based mechanism from Brazil to Argentina. Taken together, our results are consistent with an initial introduction of A. palmeri into South America sometime before the 1980s, and local evolution of GR in Argentina, followed by a secondary invasion of GR A. palmeri with the unique eccDNA based mechanism from the USA into Brazil and Uruguay during the 2010’s.en_US
dc.description.sponsorshipThis work was funded by a Biotechnology & Biological Sciences Research (BBSRC) Council Global Challenge Research Fund Impact Accelerator award to PN. At the time of receipt PN and TAG were also in receipt of a BBSRC USA-UK international partnering award (BB/N022319/1). PN and GTS were also funded by the Smart Crop Protection (SCP) strategic programme (BBS/OS/CP/000001) funded through the BBSRC’s Industrial Strategy Challenge Fund.en_US
dc.format.mediumZIP
dc.format.mediumPDF
dc.format.mediumVCF
dc.identifier.urihttps://hdl.handle.net/10217/232637
dc.identifier.urihttp://dx.doi.org/10.25675/10217/232637
dc.languageEnglishen_US
dc.language.isoengen_US
dc.publisherColorado State University. Librariesen_US
dc.relation.ispartofResearch Data
dc.relation.isreferencedbyGaines, T. A., Slavov, G. T., Hughes, D., Küpper, A., Sparks, C. D., Oliva, J., Vila-Aiub, M. M., Garcia, M. A., Merotto, A., & Neve, P. (2021). Investigating the origins and evolution of a glyphosate-resistant weed invasion in South America. Molecular Ecology, 30, 5360– 5372. https://doi.org/10.1111/mec.16221en_US
dc.rights.licenseThe material is open access and distributed under the terms and conditions of the Creative Commons Public Domain "No rights reserved" (https://creativecommons.org/share-your-work/public-domain/cc0/).
dc.rights.urihttps://creativecommons.org/share-your-work/public-domain/cc0/
dc.subjectPalmer amaranthen_US
dc.subjectAmaranthus palmerien_US
dc.subjectherbicide resistanceen_US
dc.subjectRAD-Seqen_US
dc.subjectpopulation genomicsen_US
dc.titleDataset associated with “Investigating the origins and evolution of a glyphosate-resistant weed invasion in South America”en_US
dc.typeDataseten_US

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