An F2 population consisting of 176 individuals was developed from a cross between an indica maintainer line Zhenshan 97B and a japonica maintainer line Liao 91B and a genetic map containing 123 SSR markers was constructed based on the population. Pollen fertility and spikelet fertility were investigated in three seasons. Three maineffect (additive effect and dominant effect) quantitative trait loci (QTLs) for pollen fertility (qPF3, qPF5 and qPF6) and four maineffect QTLs for spikelet fertility (qSF3, qSF5, qSF6 and qSF8) were detected. Among them, qPF6 and qSF6, and qPF5 and qSF5, important QTLs for rice fertility, were mapped on the same locations. In addition, three pairs of QTL interaction for pollen fertility and four pairs for spikelet fertility were detected, suggesting that epistatic effects play important roles in the fertility of indicajaponica hybrids.
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