Genetic and methylome variation in Turkish brachypodium distachyon accessions differentiate two geographically distinct subpopulations

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dc.authorscopusid57218923991
dc.authorscopusid55888486200
dc.authorscopusid57193877013
dc.authorscopusid56799673700
dc.authorscopusid56850022200
dc.authorscopusid56341939500
dc.authorscopusid57225437022
dc.contributor.authorSkalska, Aleksandra
dc.contributor.authorStritt, Cristoph
dc.contributor.authorWyler, Michele
dc.contributor.authorWilliams, Hefin W.
dc.contributor.authorVickers, Martin
dc.contributor.authorHan, Jiwan
dc.contributor.authorMur, Luis A.J
dc.contributor.authorTuna, Metin
dc.date.accessioned2022-05-11T14:07:13Z
dc.date.available2022-05-11T14:07:13Z
dc.date.issued2020
dc.departmentFakülteler, Ziraat Fakültesi, Tarla Bitkileri Bölümü
dc.description.abstractBrachypodium distachyon (Brachypodium) is a non-domesticated model grass species that can be used to test if variation in genetic sequence or methylation are linked to environmental differences. To assess this, we collected seeds from 12 sites within five climatically distinct regions of Turkey. Seeds from each region were grown under standardized growth conditions in the UK to preserve methylated sequence variation. At six weeks following germination, leaves were sampled and assessed for genomic and DNA methylation variation. In a follow-up experiment, phenomic approaches were used to describe plant growth and drought responses. Genome sequencing and population structure analysis suggested three ancestral clusters across the Mediterranean, two of which were geographically separated in Turkey into coastal and central subpopulations. Phenotypic analyses showed that the coastal subpopulation tended to exhibit relatively delayed flowering and the central, increased drought tolerance as indicated by reduced yellowing. Genome-wide methylation analyses in GpC, CHG and CHH contexts also showed variation which aligned with the separation into coastal and central subpopulations. The climate niche modelling of both subpopulations showed a significant influence from the “Precipitation in the Driest Quarter” on the central subpopulation and “Temperature of the Coldest Month” on the coastal subpopulation. Our work demonstrates genetic diversity and variation in DNA methylation in Turkish accessions of Brachypodium that may be associated with climate variables and the molecular basis of which will feature in ongoing analyses. © 2020 by the authors. Licensee MDPI, Basel, Switzerland.
dc.description.sponsorship25; 2015/18/M/NZ2/00394; Horizon 2020 Framework Programme, H2020: 731013; Universität Zürich, UZH
dc.description.sponsorshipFunding: This research was funded by the National Science Centre Poland (grant no. 2015/18/M/NZ2/00394). Access to the National Plant Phenomics, Aberystwyth, UK was provided by the European Plant Phenotyping Network 2020 (“BRACHY-PHENO-DROUGHT” project, grant no. 25) and funded from the European Union’s Horizon 2020 research and innovation program under grant agreement no. 731013. ACR and CS were supported by University Research Priority Program Evolution in Action of the University of Zurich. MW was supported by PSC Syngenta Fellowship.
dc.description.sponsorshipThis research was funded by the National Science Centre Poland (grant no. 2015/18/M/NZ2/00394). Access to the National Plant Phenomics, Aberystwyth, UK was provided by the European Plant Phenotyping Network 2020 (?BRACHY-PHENO-DROUGHT? project, grant no. 25) and funded from the European Union?s Horizon 2020 research and innovation program under grant agreement no. 731013. ACR and CS were supported by University Research Priority Program Evolution in Action of the University of Zurich. MW was supported by PSC Syngenta Fellowship.
dc.identifier.doi10.3390/ijms21186700
dc.identifier.endpage17
dc.identifier.issn1661-6596
dc.identifier.issue18en_US
dc.identifier.pmid32933168
dc.identifier.scopus2-s2.0-85090784148
dc.identifier.scopusqualityQ1
dc.identifier.startpage1
dc.identifier.urihttps://doi.org/10.3390/ijms21186700
dc.identifier.urihttps://hdl.handle.net/20.500.11776/5018
dc.identifier.volume21
dc.identifier.wosWOS:000580114900001
dc.identifier.wosqualityQ1
dc.indekslendigikaynakWeb of Science
dc.indekslendigikaynakScopus
dc.indekslendigikaynakPubMed
dc.institutionauthorTuna, Metin
dc.language.isoen
dc.publisherMDPI AG
dc.relation.ispartofInternational Journal of Molecular Sciences
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/openAccess
dc.subjectBrachypodium
dc.subjectDNA methylation
dc.subjectDrought
dc.subjectFlowering
dc.subjectGenome
dc.subjectPhenomics
dc.subjectarticle
dc.subjectBrachypodium
dc.subjectclimate
dc.subjectDNA methylation
dc.subjectdrought tolerance
dc.subjectflower development
dc.subjectfollow up
dc.subjectgenetic variability
dc.subjectgermination
dc.subjectgrass
dc.subjectmethylome
dc.subjectnonhuman
dc.subjectphenomics
dc.subjectplant growth
dc.subjectplant leaf
dc.subjectpopulation structure
dc.subjectprecipitation
dc.subjectTurkey (republic)
dc.subjectBrachypodium
dc.subjectDNA methylation
dc.subjectdrought
dc.subjectgenetic variation
dc.subjectgenetics
dc.subjectphysiological stress
dc.subjectplant genome
dc.subjectplant seed
dc.subjectturkey (bird)
dc.subjectBrachypodium
dc.subjectClimate
dc.subjectDNA Methylation
dc.subjectDroughts
dc.subjectGenetic Variation
dc.subjectGenome, Plant
dc.subjectPlant Leaves
dc.subjectSeeds
dc.subjectStress, Physiological
dc.subjectTurkey
dc.titleGenetic and methylome variation in Turkish brachypodium distachyon accessions differentiate two geographically distinct subpopulations
dc.typeArticle

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