SSR marker based DNA fingerprinting and diversity study in rice (Oryza sativa. L)

Abstract

The genetic diversity and DNA fingerprinting of 15 elite rice genotypes using 30 SSR primers on chromosome numbers 7-12 was investigated. The results revealed that all the primers showed distinct polymorphism among the cultivars studied indicating the robust nature of microsatellites in revealing polymorphism. Cluster analysis grouped the rice genotypes into 10 classes in which japonica types DH-1 (Azucena) and Moroborekan clustered separately from indica types. Principal component analysis was done to visualize genetic relationships among the elite breeding lines. The results were similar to UPGMA results. Based on this study, the larger range of similarity values for related cultivars using microsatellites provides greater confidence for the assessment of genetic diversity and relationships. The information obtained from the DNA fingerprinting studies helps to distinctly identify and characterize 9 varieties using 18 different RM primers. This information can be used in background selections during backcross breeding programs.       Key words:  PCR, polymorphism, DNA fingerprinting, dendogram.