Open AccessPrioritization of vigor QTL-associated genes for future genome-directed Vitis breeding
Author(s) -
Inés Hugalde,
Marcos Paolinelli,
Cecilia B. Agüero,
Summaira Riaz,
Sebastián Gómez-Talquenca,
M. Andrew Walker,
Hernán Vila
Publication year - 2021
Publication title -
revista de la facultad de ciencias agrarias. universidad nacional de cuyo
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.283
H-Index - 10
eISSN - 1853-8665
pISSN - 0370-4661
DOI - 10.48162/rev.39.036
Subject(s) - biology , quantitative trait locus , gene , candidate gene , functional genomics , genome , genetics , pleiotropy , phenotype , computational biology , genomics
Vigor control in grapevine may become especially important under climate change. A better understanding of gene-phenotype relationships is required in order to exploit plant genomics for breeding purposes. This research aims to use quantitative trait loci (QTLs) for vigor identified in the progeny from a cross of Ramsey (Vitis champinii) × Riparia Gloire (V. riparia). Genes located 700 kb up and downstream from each QTL position were interrogated for functional enrichment through ShinyGO online tool, based on the gene ontology annotation of Vitis vinifera PN40024. Key biological processes like phloem and xylem development, cell cycle, response to hormones, amino acid transport, tissue development, sugar metabolism, nitrogen transport, and stress/immune responses, showed functional enrichment. Integral response to light and auxin might be required for fine molecular tuning of vegetative growth in Vitis. Fifty out of 1318 candidate genes were prioritized, reducing their amount to a manageable number of candidates for further directed breeding strategies.HighlightsPlant vigor control may become especially important under climate change.Genes from various vigor-related QTLs were interrogated for functional enrichment.The analysis reduced candidate gene number based on marker proximity and functional enrichment, constituting a suitable shortcut for target-directed genome-guided breeding strategies.Three TFs are strong candidates for targeted breeding: TIF - HY5, TIF - SUS1, TIF - VOZ1 potentially enhance growth by relating light response to hormone activation, and then to photosynthesis and morphogenesis.