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Looking for local adaptation: convergent microevolution in Aleppo pine (Pinus halepensis)

hal.structure.identifierDepartment of Forest Ecology and GeneticsForest Research Centre
hal.structure.identifierUniversity of Edinburgh [Edin.]
dc.contributor.authorRUIZ DANIELS, Rose
hal.structure.identifierUniversity of Bristol [Bristol]
hal.structure.identifierUniversity of Edinburgh [Edin.]
dc.contributor.authorTAYLOR, Richard. S.
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
dc.contributor.authorGONZÁLEZ-MARTÍNEZ, Santiago C.
hal.structure.identifierNational Research Council of Italy | Consiglio Nazionale delle Ricerche [CNR]
dc.contributor.authorVENDRAMIN, G. G.
hal.structure.identifierEcologie des Forêts Méditerranéennes [URFM]
dc.contributor.authorFADY, Bruno
hal.structure.identifierEcologie des Forêts Méditerranéennes [URFM]
dc.contributor.authorODDOU-MURATORIO, Sylvie
hal.structure.identifierNational Research Council of Italy | Consiglio Nazionale delle Ricerche [CNR]
dc.contributor.authorPIOTTI, Andrea
hal.structure.identifierEcologie des Forêts Méditerranéennes [URFM]
dc.contributor.authorSIMIONI, Guillaume
hal.structure.identifierDepartment of Forest Ecology and GeneticsForest Research Centre
dc.contributor.authorGRIVET, Delphine
hal.structure.identifierUniversity of Bristol [Bristol]
dc.contributor.authorBEAUMONT, Mark A.
dc.date.issued2019
dc.identifier.issn2073-4425
dc.description.abstractEnFinding outlier loci underlying local adaptation is challenging and is best approached by suitable sampling design and rigorous method selection. In this study, we aimed to detect outlier loci (single nucleotide polymorphisms, SNPs) at the local scale by using Aleppo pine (Pinus halepensis), a drought resistant conifer that has colonized many habitats in the Mediterranean Basin, as the model species. We used a nested sampling approach that considered replicated altitudinal gradients for three contrasting sites. We genotyped samples at 294 SNPs located in genomic regions selected to maximize outlier detection. We then applied three different statistical methodologies-Two Bayesian outlier methods and one latent factor principal component method-To identify outlier loci. No SNP was an outlier for all three methods, while eight SNPs were detected by at least two methods and 17 were detected only by one method. From the intersection of outlier SNPs, only one presented an allelic frequency pattern associated with the elevational gradient across the three sites. In a context of multiple populations under similar selective pressures, our results underline the need for careful examination of outliers detected in genomic scans before considering them as candidates for convergent adaptation.
dc.language.isoen
dc.publisherMDPI
dc.rights.urihttp://creativecommons.org/licenses/by/
dc.subject.enPinus halepensis
dc.subject.ennatural selection
dc.subject.enoutliers
dc.subject.enSNP
dc.subject.enaltitudinal gradients
dc.title.enLooking for local adaptation: convergent microevolution in Aleppo pine (Pinus halepensis)
dc.typeArticle de revue
dc.identifier.doi10.3390/genes10090673
dc.subject.halSciences du Vivant [q-bio]
bordeaux.journalGenes
bordeaux.page1-16
bordeaux.volume10
bordeaux.issue9
bordeaux.peerReviewedoui
hal.identifierhal-02618916
hal.version1
hal.popularnon
hal.audienceInternationale
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-02618916v1
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=Genes&rft.date=2019&rft.volume=10&rft.issue=9&rft.spage=1-16&rft.epage=1-16&rft.eissn=2073-4425&rft.issn=2073-4425&rft.au=RUIZ%20DANIELS,%20Rose&TAYLOR,%20Richard.%20S.&GONZ%C3%81LEZ-MART%C3%8DNEZ,%20Santiago%20C.&VENDRAMIN,%20G.%20G.&FADY,%20Bruno&rft.genre=article


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