qSUB2: A novel QTL with positive epistasis with SUB1 locus enhances submergence tolerance in rice

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cg.authorship.typesCGIAR and advanced research instituteen
cg.contributor.affiliationFederal University of Agricultureen
cg.contributor.affiliationAfrica Rice Centeren
cg.contributor.affiliationInternational Rice Research Instituteen
cg.contributor.affiliationSwedish University of Agricultural Sciencesen
cg.contributor.donorBill & Melinda Gates Foundationen
cg.contributor.donorCentre of Excellence in Agricultural Development and Sustainable Environmenten
cg.contributor.donorInternational Development Research Centreen
cg.contributor.donorCGIAR Trust Funden
cg.contributor.initiativeAccelerated Breeding
cg.coverage.countryNigeria
cg.coverage.iso3166-alpha2NG
cg.coverage.regionAfrica
cg.coverage.regionWestern Africa
cg.creator.identifierVimal Semwal: 0000-0002-0903-9492
cg.creator.identifierShittu Afeez Oluniyi: 0000-0002-8759-415X
cg.creator.identifierVenuprasad Ramaiah: 0000-0002-0613-171X
cg.howPublishedFormally Publisheden
cg.identifier.doihttps://doi.org/10.1002/csc2.20941en
cg.isijournalISI Journalen
cg.issn0011-183Xen
cg.issn1435-0653en
cg.issue3en
cg.journalCrop scienceen
cg.reviewStatusPeer Reviewen
cg.subject.actionAreaResilient Agrifood Systems
cg.subject.impactAreaNutrition, health and food security
cg.volume63en
dc.contributor.authorAkintayo, O.en
dc.contributor.authorDaniel, I.en
dc.contributor.authorAfeez, S.en
dc.contributor.authorJolayemi, O.en
dc.contributor.authorSemwal, V.en
dc.contributor.authorVenuprasad, R.en
dc.date.accessioned2023-11-03T12:35:11Zen
dc.date.available2023-11-03T12:35:11Zen
dc.identifier.urihttps://hdl.handle.net/10568/132705
dc.titleqSUB2: A novel QTL with positive epistasis with SUB1 locus enhances submergence tolerance in riceen
dcterms.abstractClimate change is expected to significantly increase submergence stress of lowland rice (Oryza sativa) production in Africa. There is a need to further improve the ability of SUB1 gene to tolerate submergence stress. Genetic control of submergence tolerance was studied in a moderately tolerant to submergence African rice landrace “TOS6454.” Three mapping populations with a total of 1182 lines were developed by crossing TOS6454 with three popular rice varieties of West Africa that are high-yielding but submergence susceptible, that is, FARO44, FARO52, and FARO60. The screening for submergence was conducted at the Africa Rice Center (AfricaRice) station in Ibadan, Nigeria during 2016–2018. The three mapping populations were genotyped with single nucleotide polymorphic markers either on the Kompetitive allele specific PCR or the DArTseq platforms. Quantitative trait locus (QTL) analysis revealed five different QTLs on chromosomes 1, 2, 3, 4, and 9. The QTLs on chromosomes 2 (qSUB2) and 9 (qSUB9) had consistent large effects and the tolerance alleles were contributed by TOS6454. The QTL on chromosome 9 (qSUB9) had a large effect on submergence tolerance in all three mapping populations. This QTL had a highest logarithm of odds (LOD) score of 30.46 and explained as much as 27.7% phenotypic variation (R2), with an additive effect of up to 9.39. The QTL on chromosome 2 (qSUB2) had a highest LOD score of 10.78 and explained up to 10.8% R2 for this trait. Furthermore, qSUB2 had positive epistasis with qSUB9 which further increased submergence tolerance. A total of 57 lines carrying both qSUB2 and qSUB9 alleles were superior to all other lines in submergence tolerance. qSUB9 co-segregated with ART5 a marker for the SUB1 gene; thus, it is suggested that qSUB9 is the same as the well-known SUB1 gene. Pyramiding qSUB2 with the SUB1 gene locus is expected to further improve submergence tolerance in elite rice varieties.en
dcterms.accessRightsLimited Access
dcterms.audienceScientistsen
dcterms.available2023-03-28
dcterms.bibliographicCitationAkintayo, O. Daniel, I. Afeez, S. Jolayemi, O. Semwal, V. Venuprasad, R.qSUB2: A novel QTL with positive epistasis with SUB1 locus enhances submergence tolerance in rice.Crop science.2023, Volume 63, Issue 3:1246-1256.en
dcterms.extent1246-1256en
dcterms.issued2023-05
dcterms.languageen
dcterms.licenseCopyrighted; all rights reserved
dcterms.publisherWileyen
dcterms.subjectgenotypingen
dcterms.subjecttoleranceen
dcterms.subjectriceen
dcterms.typeJournal Article

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