Mapping QTLs for salt tolerance in an introgression line population between Japonica cultivars in rice

QTL analysis of physiological traits related to salt tolerance was carried out using 117 BC3F5 lines derived from a cross between “Ilpumbyeo” as a recurrent parent and “Moroberekan” as a donor parent. The 117 introgression lines with the parents were evaluated for five traits; dry weight, fresh weight, leaf area, seedling height, and survival rate under control and salinity conditions (55 mM) at the seedling stage. To identify QTLs related to salt tolerance, 125 SSR markers showing polymorphisms between the parents were genotyped for the 117 BC3F5 lines. A total of eight QTLs were detected on chromosomes 1, 6, and 7. These include two QTLs on chromosomes 6 and 7 for reduction rate of dry weight (R2 = 10.2∼13.6%), three QTLs on chromosomes 1, 6, and 7 for reduction rate of fresh weight (R2 = 10.9∼13.9 %), two QTLs on chromosomes 1 and 7 for reduction rate of leaf area (R2 = 12.1%), and one QTL on chromosome 7 for reduction rate of seedling height (R2 = 10.5%). The Moroberekan alleles contributed the positive effect at these eight QTL loci. Although the parents, Ilpumbyeo and Moroberekan, were not salt tolerant as the salt tolerant check variety, Pokkali, some lines displayed a similar level of tolerance as Pokkali. The effect of the QTL on chromosome 7 was further confirmed by evaluating four lines containing the target QTL for fresh and dry weight, turgid weight, and relative water content (RWC). Significant differences between each line and Ilpumbyeo were detected for dry and fresh weight, and RWC values, and these results seem to indicate the beneficial effect of the Moroberekam alleles for salt tolerance. A set of introgression lines are being developed containing only few chromosomal segments from Moroberekan in the Ilpumbyeo background. These would be useful in developing salt tolerant lines in the breeding program.