Analysis of QTLs for seed low temperature germinability and anoxia germinability in rice (Oryza sativa L.)

Direct seeding instead of transplanting for rice (Oryza sativa L.) has increasingly been used in northern and eastern China because of labor and cost saving. However, poor germinability is still one of the major problems faced in the adoption of direct seeding under low temperature (low temperature germinability: LTG) and anoxia (anoxia germinability: AG) condition. To gain an understanding of the genetic control of seed germinability under these unfavourable conditions, two rice lines, USSR5 (japonica type) and N22 (indica type) and F2 individuals derived from the cross USSR5 × N22 were tested for LTG and AG. USSR5 and N22 differ significantly for both LTG and AG. The LTG of the F2 individuals ranged from 0 to 100% after a 10 days incubation. AG ranged from 0.0 to 4.0 cm shoot length. Based on segregation in the F2 population, a linkage map was constructed using 121 SSR markers. The map covered 1821.5 cM, with a mean inter-marker distance of 16.7 cM. Eleven putative QTLs for LTG were detected, one on each of chromosomes 3–5, 7, 9–11, and four on chromosome 5. The USSR5 alleles in all these QTLs acted to increase LTG. Two QTLs for AG were located on chromosomes 5 and 11, respectively, at both of which the USSR5 alleles acted to increase AG. We propose that USSR5 could make a major contribution to improving LTG and AG in rice breeding programs.