Identification of SNPs and InDels associated with berry size in table grapes integrating genetic and transcriptomic approaches

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dc.contributor.authorMuñoz-Espinoza, C.
dc.contributor.authorDi Genova, A.
dc.contributor.authorSánchez, A.
dc.contributor.authorCorrea, J.
dc.contributor.authorEspinoza, A.
dc.contributor.author.Meneses, C.
dc.contributor.authorMaass, A.
dc.contributor.authorOrellana, A.
dc.contributor.authorHinrichsen, P.
dc.date.accessioned2021-08-26T19:16:03Z
dc.date.available2021-08-26T19:16:03Z
dc.date.issued2020-08
dc.descriptionIndexación: Scopus.es
dc.description.abstractBackground: Berry size is considered as one of the main selection criteria in table grapes breeding programs, due to the consumer preferences. However, berry size is a complex quantitive trait under polygenic control, and its genetic determination of berry weight is not yet fully understood. The aim of this work was to perform marker discovery using a transcriptomic approach, in order to identify and characterize SNP and InDel markers associated with berry size in table grapes. We used an integrative analysis based on RNA-Seq, SNP/InDel search and validation on table grape segregants and varieties with different genetic backgrounds. Results: Thirty SNPs and eight InDels were identified using a transcriptomic approach (RNA-Seq). These markers were selected from SNP/InDel found among segregants from a Ruby x Sultanina population with contrasting phenotypes for berry size. The set of 38 SNP and InDel markers was distributed in eight chromosomes. Genotype-phenotype association analyses were performed using a set of 13 RxS segregants and 41 table grapes varieties with different genetic backgrounds during three seasons. The results showed several degrees of association of these markers with berry size (10.2 to 30.7%) as other berry-related traits such as length and width. The co-localization of SNP and /or InDel markers and previously reported QTLs and candidate genes associated with berry size were analysed. Conclusions: We identified a set of informative and transferable SNP and InDel markers associated with berry size. Our results suggest the suitability of SNPs and InDels as candidate markers for berry weight in seedless table grape breeding. The identification of genomic regions associated with berry weight in chromosomes 8, 15 and 17 was achieved with supporting evidence derived from a transcriptome experiment focused on SNP/InDel search, as well as from a QTL-linkage mapping approach. New regions possibly associated with berry weight in chromosomes 3, 6, 9 and 14 were identified. © 2020 The Author(s).es
dc.description.urihttps://bmcplantbiol.biomedcentral.com/articles/10.1186/s12870-020-02564-4
dc.identifier.citationBMC Plant BiologyOpen AccessVolume 20, Issue 13 August 2020 Article number 365es
dc.identifier.doi10.1186/s12870-020-02564-4
dc.identifier.issn1471-2229
dc.identifier.urihttp://repositorio.unab.cl/xmlui/handle/ria/19998
dc.language.isoenes
dc.publisherBioMed Central Ltdes
dc.rights.licenseAttribution 4.0 International (CC BY 4.0)
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/
dc.subjectFruites
dc.subjectGene Expression Profilinges
dc.subjectGenetic Markerses
dc.subjectGenotypees
dc.subjectINDEL Mutationes
dc.subjectPhenotypees
dc.subjectPolymorphismes
dc.subjectSingle Nucleotidees
dc.subjectQuantitative Trait Locies
dc.subjectRNA, Plantes
dc.subjectRNA-Seqes
dc.subjectVitises
dc.titleIdentification of SNPs and InDels associated with berry size in table grapes integrating genetic and transcriptomic approacheses
dc.typeArtículoes
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