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Genome wide association mapping for agronomic, fruit quality, and root architectural traits in tomato under organic farming conditions

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Genome wide association mapping for agronomic, fruit quality, and root architectural traits in tomato under organic farming conditions

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dc.contributor.author Tripodi, Pasquale es_ES
dc.contributor.author Soler Aleixandre, Salvador es_ES
dc.contributor.author Campanelli, Gabriele es_ES
dc.contributor.author Díez Niclós, Mª José Teresa De Jesús es_ES
dc.contributor.author Esposito, Salvatore es_ES
dc.contributor.author Sestili, Sara es_ES
dc.contributor.author Figás-Moreno, María Del Rosario es_ES
dc.contributor.author Leteo, Fabrizio es_ES
dc.contributor.author Casanova-Calancha, Cristina es_ES
dc.contributor.author Platani, Cristiano es_ES
dc.contributor.author Soler-Calabuig, Elena es_ES
dc.contributor.author Bertone, Aldo es_ES
dc.contributor.author Pereira-Dias, Leandro es_ES
dc.contributor.author Palma, Daniela es_ES
dc.contributor.author Burguet, Resurrección es_ES
dc.contributor.author Pepe, Andrea es_ES
dc.contributor.author Rosa-Martínez, Elena es_ES
dc.contributor.author Prohens Tomás, Jaime es_ES
dc.contributor.author Cardi, Teodoro es_ES
dc.date.accessioned 2023-09-21T18:05:12Z
dc.date.available 2023-09-21T18:05:12Z
dc.date.issued 2021-10-22 es_ES
dc.identifier.issn 1471-2229 es_ES
dc.identifier.uri http://hdl.handle.net/10251/196906
dc.description.abstract [EN] Background Opportunity and challenges of the agriculture scenario of the next decades will face increasing demand for secure food through approaches able to minimize the input to cultivations. Large panels of tomato varieties represent a valuable resource of traits of interest under sustainable cultivation systems and for genome-wide association studies (GWAS). For mapping loci controlling the variation of agronomic, fruit quality, and root architecture traits, we used a heterogeneous set of 244 traditional and improved tomato accessions grown under organic field trials. Here we report comprehensive phenotyping and GWAS using over 37,300 SNPs obtained through double digest restriction-site associated DNA (dd-RADseq). Results A wide range of phenotypic diversity was observed in the studied collection, with highly significant differences encountered for most traits. A variable level of heritability was observed with values up to 69% for morphological traits while, among agronomic ones, fruit weight showed values above 80%. Genotype by environment analysis highlighted the strongest genotypic effect for aboveground traits compared to root architecture, suggesting that the hypogeal part of tomato plants has been a minor objective for breeding activities. GWAS was performed by a compressed mixed linear model leading to 59 significantly associated loci, allowing the identification of novel genes related to flower and fruit characteristics. Most genomic associations fell into the region surrounding SUN, OVATE, and MYB gene families. Six flower and fruit traits were associated with a single member of the SUN family (SLSUN31) on chromosome 11, in a region involved in the increase of fruit weight, locules number, and fruit fasciation. Furthermore, additional candidate genes for soluble solids content, fruit colour and shape were found near previously reported chromosomal regions, indicating the presence of synergic and multiple linked genes underlying the variation of these traits. Conclusions Results of this study give new hints on the genetic basis of traits in underexplored germplasm grown under organic conditions, providing a framework for the development of markers linked to candidate genes of interest to be used in genomics-assisted breeding in tomato, in particular under low-input and organic cultivation conditions. es_ES
dc.description.sponsorship This research was supported by the European Union Horizon 2020 Research and Innovation program for funding this research under grant agreement No 774244 (Breeding for Resilient, Efficient and Sustainable Organic Vegetable Production; BRESOV) and by 'RGV-FAO'project funded by the Italian Ministry of Agriculture, Food and Forestry. The funding bodies were not involved in the design of the study, collection, analysis, and interpretation of data, and in writing the manuscript. es_ES
dc.language Inglés es_ES
dc.publisher Springer (Biomed Central Ltd.) es_ES
dc.relation.ispartof BMC Plant Biology es_ES
dc.rights Reconocimiento (by) es_ES
dc.subject Tomato es_ES
dc.subject Phenotyping es_ES
dc.subject Genome-wide association mapping es_ES
dc.subject Organic farming es_ES
dc.subject Genotype by environment es_ES
dc.subject.classification GENETICA es_ES
dc.title Genome wide association mapping for agronomic, fruit quality, and root architectural traits in tomato under organic farming conditions es_ES
dc.type Artículo es_ES
dc.identifier.doi 10.1186/s12870-021-03271-4 es_ES
dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/774244/EU es_ES
dc.rights.accessRights Abierto es_ES
dc.contributor.affiliation Universitat Politècnica de València. Escuela Técnica Superior de Ingeniería Agronómica y del Medio Natural - Escola Tècnica Superior d'Enginyeria Agronòmica i del Medi Natural es_ES
dc.contributor.affiliation Universitat Politècnica de València. Instituto Universitario de Conservación y Mejora de la Agrodiversidad Valenciana - Institut Universitari de Conservació i Millora de l'Agrodiversitat Valenciana es_ES
dc.description.bibliographicCitation Tripodi, P.; Soler Aleixandre, S.; Campanelli, G.; Díez Niclós, MJTDJ.; Esposito, S.; Sestili, S.; Figás-Moreno, MDR.... (2021). Genome wide association mapping for agronomic, fruit quality, and root architectural traits in tomato under organic farming conditions. BMC Plant Biology. 21(1):1-22. https://doi.org/10.1186/s12870-021-03271-4 es_ES
dc.description.accrualMethod S es_ES
dc.relation.publisherversion https://doi.org/10.1186/s12870-021-03271-4 es_ES
dc.description.upvformatpinicio 1 es_ES
dc.description.upvformatpfin 22 es_ES
dc.type.version info:eu-repo/semantics/publishedVersion es_ES
dc.description.volume 21 es_ES
dc.description.issue 1 es_ES
dc.identifier.pmid 34686145 es_ES
dc.identifier.pmcid PMC8532347 es_ES
dc.relation.pasarela S\461422 es_ES
dc.contributor.funder COMISION DE LAS COMUNIDADES EUROPEA es_ES
dc.contributor.funder Ministero delle Politiche Agricole, Alimentari e Forestali es_ES
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dc.subject.ods 02.- Poner fin al hambre, conseguir la seguridad alimentaria y una mejor nutrición, y promover la agricultura sostenible es_ES


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