Molecular characterization of inbred and hybrid rice genotypes of Bangladesh.

Genetic diversity of 24 rice (Oryza sativa) genotypes comprising five salt tolerant, one tidal submergence tolerant, nine high yielding inbred and ten hybrid rice varieties were analyzed with one hundred SSR markers. The highest number of alleles were produced for RM1024 followed by RM6959 (21), RM154 (20), RM540 (19) and RM2518 (19) and the lowest number of allele (5) was produced by three markers. The polymorphism information content (PIC) value ranged from 0.588 (RM38) to 0.927 (RM1024), with an average of 0.852. The values of pair-wise comparisons of Nei’s (1983) genetic distance between genotypes were ranged from 49% to 90% for the entire set of germplasm but 49% to 87% among the inbred varieties. UPGMA-cluster-analysis based on genetic distance coefficients clearly separated all the genotypes into five main distinct clusters. Four clusters consisted of inbred varieties and one cluster with hybrid varieties. RM334 and RM25181 markers were found to be the most effective markers for discriminating inbred and hybrid varieties. This scientific information could be used for choosing SSR markers to identify and distinguish inbred and hybrid rice varieties and selection of appropriate parents for future rice breeding.