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hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
hal.structure.identifierHelixVenture
dc.contributor.authorLESUR KUPIN, Isabelle
hal.structure.identifierBiologie intégrée pour la valorisation de la diversité des Arbres et de la Forêt [BioForA]
dc.contributor.authorROGIER, Odile
hal.structure.identifierGénétique Diversité et Ecophysiologie des Céréales [GDEC]
hal.structure.identifierPhysiologie, Ecologie et Environnement [P2E]
dc.contributor.authorSOW, Mamadou Dia
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
dc.contributor.authorBOURY, Christophe
hal.structure.identifierBiologie intégrée pour la valorisation de la diversité des Arbres et de la Forêt [BioForA]
hal.structure.identifierPhysiologie, Ecologie et Environnement [P2E]
dc.contributor.authorDUPLAN, Alexandre
hal.structure.identifierCentre National de Recherche en Génomique Humaine [CNRGH]
dc.contributor.authorGARNIER, Abel
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
hal.structure.identifierBiologie intégrée pour la valorisation de la diversité des Arbres et de la Forêt [BioForA]
dc.contributor.authorSENHAJI-RACHIK, Abdeljalil
hal.structure.identifierGénétique Diversité et Ecophysiologie des Céréales [GDEC]
dc.contributor.authorCIVAN, Peter
hal.structure.identifierInteractions Virus-Insectes - Insect-Virus Interactions [IVI]
dc.contributor.authorDARON, Josquin
hal.structure.identifierPhysiologie, Ecologie et Environnement [P2E]
dc.contributor.authorDELAUNAY, Alain
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
dc.contributor.authorDUVAUX, Ludovic
hal.structure.identifierBiologie intégrée pour la valorisation de la diversité des Arbres et de la Forêt [BioForA]
dc.contributor.authorBENOIT, Vanina
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
dc.contributor.authorGUICHOUX, Erwan
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
dc.contributor.authorLE PROVOST, Grégoire
hal.structure.identifierLaboratoire de Mathématiques et Modélisation d'Evry [LaMME]
dc.contributor.authorSANOU, Edmond
hal.structure.identifierLaboratoire de Mathématiques et Modélisation d'Evry [LaMME]
dc.contributor.authorAMBROISE, Christophe
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
dc.contributor.authorPLOMION, Christophe
hal.structure.identifierGénétique Diversité et Ecophysiologie des Céréales [GDEC]
dc.contributor.authorSALSE, Jerome
hal.structure.identifierBiologie intégrée pour la valorisation de la diversité des Arbres et de la Forêt [BioForA]
hal.structure.identifierAmélioration génétique et adaptation des plantes méditerranéennes et tropicales [UMR AGAP]
dc.contributor.authorSEGURA, Vincent
hal.structure.identifierCentre National de Recherche en Génomique Humaine [CNRGH]
dc.contributor.authorTOST, Jörg
hal.structure.identifierPhysiologie, Ecologie et Environnement [P2E]
dc.contributor.authorMAURY, Stéphane
dc.date.issued2024-09-27
dc.identifier.issn0022-0957
dc.description.abstractEnThese last 20 years, several techniques have been developed for quantifying DNA methylation, the most studied epigenetic marks in eukaryotes, including the gold standard method, whole-genome bisulphite sequencing (WGBS). WGBS quantifies genome-wide DNA methylation but has several inconveniences rendering it less suitable for population-scale epigenetic studies. The high cost of deep sequencing and the large amounts of data generated prompted us to seek an alternative approach. Restricting studies to parts of the genome would be a satisfactory alternative had there not been a major limitation: the need to select upstream targets corresponding to differentially methylated regions (DMRs) as targets. Given the need to study large numbers of samples, we propose a strategy for investigating DNA methylation variation in natural populations, considering the structural complexity of the genomes with their size and their content in unique as coding regions versus repeated regions as transposable elements. We first identified regions of highly variable DNA methylation in a representative subset of genotypes representative of the biological diversity in the population by WGBS. We then analysed the variations of DNA methylation in these targeted regions at the population level by Sequencing Capture Bisulphite (SeqCapBis). The entire strategy was then validated by applying it to another species. Our strategy was developed as a proof of concept on natural populations of two forest species: Populus nigra and Quercus petraea.
dc.description.sponsorshipImpacts évolutif et fonctionnel de variations épigénétiques chez des arbres forestiers.
dc.language.isoen
dc.publisherOxford University Press (OUP)
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/
dc.subject.enDNA Methylation
dc.subject.enEpigenetics
dc.subject.enEpigenomics
dc.subject.enMethylome Natural population
dc.subject.enOak
dc.subject.enPoplar
dc.subject.enSeqCapBis
dc.subject.enTransposon Insertion Polymorphism
dc.subject.enWGBS
dc.subject.enWGS
dc.title.enA Strategy for Studying Epigenetic Diversity in Natural Populations: Proof of Concept in Poplar and Oak
dc.typeArticle de revue
dc.identifier.doi10.1093/jxb/erae266
dc.subject.halSciences du Vivant [q-bio]/Génétique/Génétique des plantes
dc.subject.halSciences du Vivant [q-bio]/Biochimie, Biologie Moléculaire
bordeaux.journalJournal of Experimental Botany
bordeaux.page5568–5584
bordeaux.volume75
bordeaux.issue18
bordeaux.peerReviewedoui
hal.identifierhal-04621404
hal.version1
hal.popularnon
hal.audienceInternationale
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-04621404v1
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