Genome-wide association study for salinity tolerance in the African rice, Oryza glaberrima

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dc.creatorMheni, Nafeti Titus
dc.creatorKilasi, Newton
dc.creatorBilaro, Atugonza
dc.creatorNdjiondjop, Marie-Noelle
dc.creatorDixit, Shalabh
dc.creatorIsmail, Abdelbagi M.
dc.creatorMsolla, Susan Nchimbi
dc.date2025-06
dc.date2025-07-23T05:58:22Z
dc.date2025-07-23T05:58:22Z
dc.date.accessioned2026-06-27T13:18:43Z
dc.descriptionOryza sativa, L., and Oryza glaberima, Steud, are the two most-grown rice species, making rice the second most-produced crop globally. While O. sativa is widely cultivated due to its high yield and marketability, O. glaberrima possesses valuable genetic traits for stress tolerance, including resistance to drought, flooding, and salinity. Genome-wide association studies (GWAS) have gained more popularity in O. sativa than in O. glaberrima, providing information on biological mechanisms underlying key agronomic traits. The current study aimed to find the essential genes for salinity tolerance in O. glaberrimathrough marker-trait associations (MTAs) for traits related to salinity. Using the Yoshida nutrient solution, this study evaluated a previously developed association mapping panel of 335 O. glaberrima accessions under screen house conditions. The association mapping panel was genotyped using 9990 single nucleotide polymorphism (SNP) markers. Using 6103 polymorphic SNP markers, a GWAS was conducted to detect genomic regions associated with salinity tolerance. 34 MTAs were identified using the mixed linear model approach, representing 11 genomic regions on chromosomes 1, 3, 4, 5, 6, 7, 8, 9, 10, 11, and 12, except on chromosome 2, highlighting different significant loci contributing to salinity stress tolerance. Among the tested accessions, 21 genotypes were categorized as tolerant to moderately tolerant based on the standard evaluation system score, representing promising materials for breeding programs. The identified SNPs, genotypes, and genomic regions are valuable resources for understanding the potential genes and developing functional markers for salinity tolerance screening in African rice. This study underscores the potential of O. glaberrima as a genetic resource for improving rice productivity in salt-affected areas, thereby contributing to sustainable rice production.
dc.formatapplication/pdf
dc.identifierhttps://hdl.handle.net/10568/175737
dc.identifier.urihttp://hdl.handle.net/123456789/56166
dc.languageen
dc.publisherSpringer
dc.rightsLimited Access
dc.sourceMheni, Nafeti Titus, Newton Kilasi, Atugonza Bilaro, Marie-Noelle Ndjiondjop, Shalabh Dixit, Abdelbagi M. Ismail, and Susan Nchimbi Msolla. "Genome-wide association study for salinity tolerance in the African rice, Oryza glaberrima." Euphytica 221, no. 6 (2025): 1-18.
dc.subjectoryza sativa
dc.subjectoryza glaberrima
dc.subjectsalinity tolerance
dc.subjectdrought resistance
dc.subjectflooding tolerance
dc.subjectgenetic resources
dc.subjectmarker-assisted selection
dc.subjectgenotypes
dc.subjectagronomic traits
dc.subjectbreeding
dc.subjectsustainable agriculture
dc.titleGenome-wide association study for salinity tolerance in the African rice, Oryza glaberrima
dc.typeJournal Article

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Centro Africano del Arroz (AfricaRice)