Genome-wide association analysis in identification of superior haplotypes for vegetative stage drought stress tolerance in rice

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dc.creatorNayak, Gyanisha
dc.creatorParameswaran, C.
dc.creatorVaidya, Nairita
dc.creatorParida, Madhuchhanda
dc.creatorSabarinathan, S.
dc.creatorChaudhari, Prabharani
dc.creatorSinha, Pallavi
dc.creatorSingh, Vikas Kumar
dc.creatorSamantaray, Sanghamitra
dc.creatorKatara, Jawahar Lal
dc.date2025-03
dc.date2025-05-07T08:48:15Z
dc.date2025-05-07T08:48:15Z
dc.date.accessioned2026-06-27T04:09:50Z
dc.descriptionWater availability is the most critical factor limiting rice yield in rainfed agro-ecosystems. Drought stress during the vegetative stage inhibits key growth processes, such as leaf formation and tillering, significantly impacting yield. This study aimed to investigate the genetic basis of vegetative stage drought tolerance and identify QTLs and genes associated with it through GWAS. A total of 19 major QTLs were identified for six traits: leaf rolling, relative water content, plant height, leaf area, tiller number, and leaf number, with phenotypic variances ranging from 10.55 to 80.05%. Additionally, haplotypes for six candidate genes were identified: OsCYP72A32 for leaf rolling, OsNCX5.2 for relative water content, OsSPX2 for plant height, OsSTA104 for tiller number, OsRING313 for leaf number and Os3BGlu6 for leaf area. Besides, genotypes such as NCS 901 A, H 15-23-DA, LOHAMBITRO and MEJANES 2 were found to be superior donors. These tolerant genotypes and superior haplotypes can be used in haplotype-based breeding programs to enhance drought tolerance in rice at vegetative stage.
dc.identifierhttps://hdl.handle.net/10568/174450
dc.identifier.urihttp://hdl.handle.net/123456789/23619
dc.languageen
dc.publisherSpringer
dc.rightsLimited Access
dc.sourceNayak, G., Parameswaran, C., Vaidya, N. et al. Genome-wide association analysis in identification of superior haplotypes for vegetative stage drought stress tolerance in rice. Physiol Mol Biol Plants 31, 435–452 (2025)
dc.subjectdrought tolerance
dc.subjectwater stress
dc.subjectrainfed farming
dc.subjectwater availability
dc.subjectyield components
dc.subjectplant height
dc.subjectleaf area
dc.subjectrelative water content
dc.subjectgenetic variation
dc.subjectquantitative trait loci
dc.subjectcandidate genes
dc.subjecthaplotypes
dc.subjectbreeding programmes
dc.subjectgene mapping
dc.subjectphenotypic variation
dc.subjectoryza sativa
dc.titleGenome-wide association analysis in identification of superior haplotypes for vegetative stage drought stress tolerance in rice
dc.typeJournal Article

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Instituto Internacional de Investigación del Arroz (IRRI)