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Genomic‐based epidemiology reveals independent origins and gene flow of glyphosate resistance in Bassia scoparia populations across North America

Genomic‐based epidemiology can provide insight into the origins and spread of herbicide resistance mechanisms in weeds. We used kochia (Bassia scoparia) populations resistant to the herbicide glyphosate from across western North America to test the alternative hypotheses that (i) a single EPSPS gene...

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Autores principales: Ravet, Karl, Sparks, Crystal D., Dixon, Andrea L., Küpper, Anita, Westra, Eric P., Pettinga, Dean J., Tranel, Patrick J., Felix, Joel, Morishita, Don W., Jha, Prashant, Kniss, Andrew, Stahlman, Phillip W., Neve, Paul, Patterson, Eric L., Westra, Philip, Gaines, Todd A.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9297870/
https://www.ncbi.nlm.nih.gov/pubmed/34614274
http://dx.doi.org/10.1111/mec.16215
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author Ravet, Karl
Sparks, Crystal D.
Dixon, Andrea L.
Küpper, Anita
Westra, Eric P.
Pettinga, Dean J.
Tranel, Patrick J.
Felix, Joel
Morishita, Don W.
Jha, Prashant
Kniss, Andrew
Stahlman, Phillip W.
Neve, Paul
Patterson, Eric L.
Westra, Philip
Gaines, Todd A.
author_facet Ravet, Karl
Sparks, Crystal D.
Dixon, Andrea L.
Küpper, Anita
Westra, Eric P.
Pettinga, Dean J.
Tranel, Patrick J.
Felix, Joel
Morishita, Don W.
Jha, Prashant
Kniss, Andrew
Stahlman, Phillip W.
Neve, Paul
Patterson, Eric L.
Westra, Philip
Gaines, Todd A.
author_sort Ravet, Karl
collection PubMed
description Genomic‐based epidemiology can provide insight into the origins and spread of herbicide resistance mechanisms in weeds. We used kochia (Bassia scoparia) populations resistant to the herbicide glyphosate from across western North America to test the alternative hypotheses that (i) a single EPSPS gene duplication event occurred initially in the Central Great Plains and then subsequently spread to all other geographical areas now exhibiting glyphosate‐resistant kochia populations or that (ii) gene duplication occurred multiple times in independent events in a case of parallel evolution. We used qPCR markers previously developed for measuring the structure of the EPSPS tandem duplication to investigate whether all glyphosate‐resistant individuals had the same EPSPS repeat structure. We also investigated population structure using simple sequence repeat markers to determine the relatedness of kochia populations from across the Central Great Plains, Northern Plains and the Pacific Northwest. We found that the original EPSPS duplication genotype was predominant in the Central Great Plains where glyphosate resistance was first reported. We identified two additional EPSPS duplication genotypes, one having geographical associations with the Northern Plains and the other with the Pacific Northwest. The EPSPS duplication genotype from the Pacific Northwest seems likely to represent a second, independent evolutionary origin of a resistance allele. We found evidence of gene flow across populations and a general lack of population structure. The results support at least two independent evolutionary origins of glyphosate resistance in kochia, followed by substantial and mostly geographically localized gene flow to spread the resistance alleles into diverse genetic backgrounds.
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spelling pubmed-92978702022-07-21 Genomic‐based epidemiology reveals independent origins and gene flow of glyphosate resistance in Bassia scoparia populations across North America Ravet, Karl Sparks, Crystal D. Dixon, Andrea L. Küpper, Anita Westra, Eric P. Pettinga, Dean J. Tranel, Patrick J. Felix, Joel Morishita, Don W. Jha, Prashant Kniss, Andrew Stahlman, Phillip W. Neve, Paul Patterson, Eric L. Westra, Philip Gaines, Todd A. Mol Ecol Special Feature: Resistance Evolution, from Genetic Mechanism to Ecological Context Genomic‐based epidemiology can provide insight into the origins and spread of herbicide resistance mechanisms in weeds. We used kochia (Bassia scoparia) populations resistant to the herbicide glyphosate from across western North America to test the alternative hypotheses that (i) a single EPSPS gene duplication event occurred initially in the Central Great Plains and then subsequently spread to all other geographical areas now exhibiting glyphosate‐resistant kochia populations or that (ii) gene duplication occurred multiple times in independent events in a case of parallel evolution. We used qPCR markers previously developed for measuring the structure of the EPSPS tandem duplication to investigate whether all glyphosate‐resistant individuals had the same EPSPS repeat structure. We also investigated population structure using simple sequence repeat markers to determine the relatedness of kochia populations from across the Central Great Plains, Northern Plains and the Pacific Northwest. We found that the original EPSPS duplication genotype was predominant in the Central Great Plains where glyphosate resistance was first reported. We identified two additional EPSPS duplication genotypes, one having geographical associations with the Northern Plains and the other with the Pacific Northwest. The EPSPS duplication genotype from the Pacific Northwest seems likely to represent a second, independent evolutionary origin of a resistance allele. We found evidence of gene flow across populations and a general lack of population structure. The results support at least two independent evolutionary origins of glyphosate resistance in kochia, followed by substantial and mostly geographically localized gene flow to spread the resistance alleles into diverse genetic backgrounds. John Wiley and Sons Inc. 2021-10-21 2021-11 /pmc/articles/PMC9297870/ /pubmed/34614274 http://dx.doi.org/10.1111/mec.16215 Text en © 2021 The Authors. Molecular Ecology published by John Wiley & Sons Ltd. https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Special Feature: Resistance Evolution, from Genetic Mechanism to Ecological Context
Ravet, Karl
Sparks, Crystal D.
Dixon, Andrea L.
Küpper, Anita
Westra, Eric P.
Pettinga, Dean J.
Tranel, Patrick J.
Felix, Joel
Morishita, Don W.
Jha, Prashant
Kniss, Andrew
Stahlman, Phillip W.
Neve, Paul
Patterson, Eric L.
Westra, Philip
Gaines, Todd A.
Genomic‐based epidemiology reveals independent origins and gene flow of glyphosate resistance in Bassia scoparia populations across North America
title Genomic‐based epidemiology reveals independent origins and gene flow of glyphosate resistance in Bassia scoparia populations across North America
title_full Genomic‐based epidemiology reveals independent origins and gene flow of glyphosate resistance in Bassia scoparia populations across North America
title_fullStr Genomic‐based epidemiology reveals independent origins and gene flow of glyphosate resistance in Bassia scoparia populations across North America
title_full_unstemmed Genomic‐based epidemiology reveals independent origins and gene flow of glyphosate resistance in Bassia scoparia populations across North America
title_short Genomic‐based epidemiology reveals independent origins and gene flow of glyphosate resistance in Bassia scoparia populations across North America
title_sort genomic‐based epidemiology reveals independent origins and gene flow of glyphosate resistance in bassia scoparia populations across north america
topic Special Feature: Resistance Evolution, from Genetic Mechanism to Ecological Context
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9297870/
https://www.ncbi.nlm.nih.gov/pubmed/34614274
http://dx.doi.org/10.1111/mec.16215
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