Effectiveness of KASP-SNP markers in selecting for grain quality traits in rice

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cg.authorship.typesCGIAR and developing country instituteen
cg.contributor.affiliationCSIR-Crops Research Instituteen
cg.contributor.affiliationCollege of Science and Technology, Ghanaen
cg.contributor.affiliationKwame Nkrumah University of Science and Technologyen
cg.contributor.affiliationInternational Maize and Wheat Improvement Centeren
cg.contributor.donorCGIAR Trust Funden
cg.contributor.donorInternational Fund for Agricultural Developmenten
cg.contributor.programAcceleratorBreeding for Tomorrow
cg.howPublishedFormally Publisheden
cg.identifier.doihttps://doi.org/10.1016/j.plgene.2025.100503en
cg.isijournalISI Journalen
cg.issn2352-4073en
cg.journalPlant Geneen
cg.reviewStatusPeer Reviewen
cg.volume43en
dc.contributor.authorAsante, Maxwell Darkoen
dc.contributor.authorOfosu, Kirpal Agyemangen
dc.contributor.authorFrimpong, Felixen
dc.contributor.authorAlphonso, Deladem Kwamien
dc.contributor.authorNartey, Elizabethen
dc.contributor.authorObeng, Agyei Elvisen
dc.contributor.authorBam, Ralph K.en
dc.contributor.authorGamenyah, Daniel D.en
dc.contributor.authorRibeiro, Priscilla F.en
dc.contributor.authorWilliam, Harindra Manilalen
dc.date.accessioned2025-05-13T07:40:02Zen
dc.date.available2025-05-13T07:40:02Zen
dc.identifier.urihttps://hdl.handle.net/10568/174532
dc.titleEffectiveness of KASP-SNP markers in selecting for grain quality traits in riceen
dcterms.abstractGrain quality is a crucial factor for rice consumers, and as such, it is a major focus for breeders. Phenotyping for grain quality traits can be a laborious and costly process. In this study, we evaluated the effectiveness of KASP-SNP markers in selecting for grain quality traits, including aroma, gelatinization temperature, grain length, grain width, and grain length: width ratio. We phenotyped 300 diverse rice genotypes for these four traits and genotyped them using their respective KASP-SNP markers. A regression analysis of the phenotype on the genotype was performed. The markers associated with the fgr-1 and GS3 genes explained 97 % and 94 % of the phenotypic variation for aroma and grain length, respectively. Two SNP markers (snpOS00440 and snpOS00441) associated with the GW5/SW5 gene each explained 82 % of the phenotypic variation for grain width, which increased marginally to 85 % when combined. However, two markers, snpOS00036 and snpOS00450, for gelatinization temperature explained only 2 % and 25 % of the phenotypic variation, respectively, indicating that these markers were not efficient in predicting this trait. Our findings suggest that the markers associated with aroma (fgr-1), grain length (GS3), and grain width (GW5/SW5) are highly efficient and reliable for marker-assisted selection.en
dcterms.accessRightsLimited Access
dcterms.audienceAcademicsen
dcterms.available2025-04-12en
dcterms.bibliographicCitationAsante, M.D., Ofosu, K.A., Frimpong, F., Alphonso, D.K., Nartey, E., Obeng, A.E., Bam, R.K., Gamenyah, D.D., Ribeiro, P.F. and Manilal, W. 2025. Effectiveness of KASP-SNP markers in selecting for grain quality traits in rice. Plant Gene 43:100503.en
dcterms.issued2025-09-01en
dcterms.languageen
dcterms.licenseCopyrighted; all rights reserved
dcterms.publisherElsevieren
dcterms.subjectgenesen
dcterms.subjectquantitative trait locien
dcterms.subjectsnp genotypingen
dcterms.subjectriceen
dcterms.subjectgrainen
dcterms.subjectqualityen
dcterms.typeJournal Article

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