Mapping QTLs for tolerance to salt stress at the early seedling stage in rice ( Oryza sativa L.) using a newly identifie
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Mapping QTLs for tolerance to salt stress at the early seedling stage in rice (Oryza sativa L.) using a newly identified donor ‘Madina Koyo’ Nana Kofi Abaka Amoah . Richard Akromah . Alex Wireko Kena . Baboucarr Manneh . Ibnou Dieng . Isaac Kofi Bimpong
Received: 24 January 2020 / Accepted: 31 August 2020 Ó The Author(s) 2020
Abstract Salt stress is a menace to rice production and a threat to food security worldwide. We evaluated 308 F4 families from Sahel 317/Madina Koyo for tolerance to salt stress at the early seedling stage. To better understand genomic regions controlling tolerance in the population, we genotyped the progenies and the two parents using single nucleotide polymorphism (SNP) markers and regressed the genotypic data
Electronic supplementary material The online version of this article (https://doi.org/10.1007/s10681-020-02689-5) contains supplementary material, which is available to authorized users. N. K. A. Amoah (&) Africa Rice Center, Mbe Research Station, 01, B. P. 2551, Bouake 01, Coˆte d’Ivoire e-mail: [email protected] R. Akromah A. W. Kena Kwame Nkrumah University of Science and Technology, PMB University Post Office, Kumasi, Ghana B. Manneh Africa Rice Centre, Sahel Regional Station, B.P. 96, Saint Louis, Senegal I. Dieng International Institute for Tropical Agriculture, PMB 5320, Oyo Road, Ibadan 200001, Oyo State, Nigeria I. K. Bimpong International Atomic Energy Agency, Vienna International Centre, P. O. Box 100, 1400 Vienna, Austria
on their phenotype to detect QTLs. An average reduction of 63.4% was observed for all fitness-related traits among the F4 families. A total of 46 progenies recorded an average salt injury score (SIS) between 1–3 and were rated as tolerant to salt stress at the early seedling stage. A high-density genetic map was constructed for the 12 rice chromosomes using 3698 SNP markers. Multiple interval mapping identified 13 QTLs for SIS, shoot length, shoot dry weight and root length on chromosomes 2, 3, 4, 6, 7, 10 and 12, with trait increasing alleles coming from both parents. Two (qSDW2 and qRL2.2) and three (qSL2, qRL2.1 and qSIS2) QTLs at different regions on chromosome 2 and another two on chromosome 7 (qSDW7 and qSL7) were tightly linked. These QTLs could facilitate breeding for salt tolerance at the early seedling stage as direct selection for one, would mean indirectly selecting for the other. Fine mapping of these novel QTLs in a different genetic background is necessary to confirm their stability and usefulness in breeding for tolerance to salinity in rice. Keywords Rice Seedling stage Salt stress Single nucleotide polymorphism Quantitative trait loci
Introduction Salt stress is a major constraint in the production of rice, considerably reducing grain yield while
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rendering vast majority of arable lands unproductive. Resulting from natural causes and improper irrigation/ drainage schemes, the problem of salt stress is likely to worsen due to the numerous effects of clim
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