Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes

Human induced environmental change may require rapid adaptation of plant populations and crops, but the genomic basis of environmental adaptation remain poorly understood. We analysed polymorphic loci from the perennial crop Medicago sativa (alfalfa or lucerne) and the annual legume model species M....

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Autores: Blanco-Pastor, José Luis, Liberal, Isabel M., Sakiroglu, M, Wei, Y., Brummer, E. C., Andrew, R.L., Pfeil, B.E.
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2021
País:España
Institución:Consejo Superior de Investigaciones Científicas (CSIC)
Repositorio:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:digital.csic.es:10261/254994
Acceso en línea:http://hdl.handle.net/10261/254994
Access Level:acceso abierto
Palabra clave:alfalfa
Climate
Comparative genomics
conserved genes
Medicago truncatula
omnigenic model
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spelling Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genesBlanco-Pastor, José LuisLiberal, Isabel M.Sakiroglu, MWei, Y.Brummer, E. C.Andrew, R.L.Pfeil, B.E.alfalfaClimateComparative genomicsconserved genesMedicago truncatulaomnigenic modelHuman induced environmental change may require rapid adaptation of plant populations and crops, but the genomic basis of environmental adaptation remain poorly understood. We analysed polymorphic loci from the perennial crop Medicago sativa (alfalfa or lucerne) and the annual legume model species M. truncatula to search for a common set of candidate genes that might contribute to adaptation to abiotic stress in both annual and perennial Medicago species. We identified a set of candidate genes of adaptation associated with environmental gradients along the distribution of the two Medicago species. Candidate genes for each species were detected in homologous genomic linkage blocks using genome-environment (GEA) and genome-phenotype association analyses. Hundreds of GEA candidate genes were species-specific, of these, 13.4% (M. sativa) and 24% (M. truncatula) were also significantly associated with phenotypic traits. A set of 168 GEA candidates were shared by both species, which was 25.4% more than expected by chance. When combined, they explained a high proportion of variance for certain phenotypic traits associated with adaptation. Genes with highly conserved functions dominated among the shared candidates and were enriched in gene ontology terms that have shown to play a central role in drought avoidance and tolerance mechanisms by means of cellular shape modifications and other functions associated with cell homeostasis. Our results point to the existence of a molecular basis of adaptation to abiotic stress in Medicago determined by highly conserved genes and gene functions. We discuss these results in light of the recently proposed omnigenic model of complex traits.Blackwell PublishingConsejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]2021202120212021info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501Publisher's versioninfo:eu-repo/semantics/publishedVersionhttp://hdl.handle.net/10261/254994reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)InglésBlanco-Pastor, J.L.; Liberal, Isabel.M.; Sakiroglu, M; Wei, Y; Brummer, E.C.; Andrew, R.L.; Pfeil, B.E.; 2021; Data from: Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes [Dataset]; Dryad; Version 7; https://doi.org/10.5061/dryad.x95x69pgjBlanco-Pastor, J.L.; Liberal, Isabel.M.; Sakiroglu, M; Wei, Y; Brummer, E.C.; Andrew, R.L.; Pfeil, B.E.; 2021; Data from: Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes [Software]; Zenodo; Version 1; https://doi.org/10.5281/zenodo.4775855http://dx.doi.org/10.1111/mec.16061Síinfo:eu-repo/semantics/openAccessoai:digital.csic.es:10261/2549942026-05-22T06:33:51Z
dc.title.none.fl_str_mv Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes
title Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes
spellingShingle Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes
Blanco-Pastor, José Luis
alfalfa
Climate
Comparative genomics
conserved genes
Medicago truncatula
omnigenic model
title_short Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes
title_full Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes
title_fullStr Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes
title_full_unstemmed Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes
title_sort Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes
dc.creator.none.fl_str_mv Blanco-Pastor, José Luis
Liberal, Isabel M.
Sakiroglu, M
Wei, Y.
Brummer, E. C.
Andrew, R.L.
Pfeil, B.E.
author Blanco-Pastor, José Luis
author_facet Blanco-Pastor, José Luis
Liberal, Isabel M.
Sakiroglu, M
Wei, Y.
Brummer, E. C.
Andrew, R.L.
Pfeil, B.E.
author_role author
author2 Liberal, Isabel M.
Sakiroglu, M
Wei, Y.
Brummer, E. C.
Andrew, R.L.
Pfeil, B.E.
author2_role author
author
author
author
author
author
dc.contributor.none.fl_str_mv Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]
dc.subject.none.fl_str_mv alfalfa
Climate
Comparative genomics
conserved genes
Medicago truncatula
omnigenic model
topic alfalfa
Climate
Comparative genomics
conserved genes
Medicago truncatula
omnigenic model
description Human induced environmental change may require rapid adaptation of plant populations and crops, but the genomic basis of environmental adaptation remain poorly understood. We analysed polymorphic loci from the perennial crop Medicago sativa (alfalfa or lucerne) and the annual legume model species M. truncatula to search for a common set of candidate genes that might contribute to adaptation to abiotic stress in both annual and perennial Medicago species. We identified a set of candidate genes of adaptation associated with environmental gradients along the distribution of the two Medicago species. Candidate genes for each species were detected in homologous genomic linkage blocks using genome-environment (GEA) and genome-phenotype association analyses. Hundreds of GEA candidate genes were species-specific, of these, 13.4% (M. sativa) and 24% (M. truncatula) were also significantly associated with phenotypic traits. A set of 168 GEA candidates were shared by both species, which was 25.4% more than expected by chance. When combined, they explained a high proportion of variance for certain phenotypic traits associated with adaptation. Genes with highly conserved functions dominated among the shared candidates and were enriched in gene ontology terms that have shown to play a central role in drought avoidance and tolerance mechanisms by means of cellular shape modifications and other functions associated with cell homeostasis. Our results point to the existence of a molecular basis of adaptation to abiotic stress in Medicago determined by highly conserved genes and gene functions. We discuss these results in light of the recently proposed omnigenic model of complex traits.
publishDate 2021
dc.date.none.fl_str_mv 2021
2021
2021
2021
dc.type.none.fl_str_mv info:eu-repo/semantics/article
http://purl.org/coar/resource_type/c_6501
Publisher's version
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/10261/254994
url http://hdl.handle.net/10261/254994
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Blanco-Pastor, J.L.; Liberal, Isabel.M.; Sakiroglu, M; Wei, Y; Brummer, E.C.; Andrew, R.L.; Pfeil, B.E.; 2021; Data from: Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes [Dataset]; Dryad; Version 7; https://doi.org/10.5061/dryad.x95x69pgj
Blanco-Pastor, J.L.; Liberal, Isabel.M.; Sakiroglu, M; Wei, Y; Brummer, E.C.; Andrew, R.L.; Pfeil, B.E.; 2021; Data from: Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes [Software]; Zenodo; Version 1; https://doi.org/10.5281/zenodo.4775855
http://dx.doi.org/10.1111/mec.16061
Sí
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Blackwell Publishing
publisher.none.fl_str_mv Blackwell Publishing
dc.source.none.fl_str_mv reponame:DIGITAL.CSIC. Repositorio Institucional del CSIC
instname:Consejo Superior de Investigaciones Científicas (CSIC)
instname_str Consejo Superior de Investigaciones Científicas (CSIC)
reponame_str DIGITAL.CSIC. Repositorio Institucional del CSIC
collection DIGITAL.CSIC. Repositorio Institucional del CSIC
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15,81155

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