Author(s):

Akanksha, Kumar Satya Prakash and VK Sharma

Abstract: A study was conducted using a set of eight simple sequence repeat primer pairs and simple sequence length polymorphism was examined in five aerobic and one aromatic rice genotypes to investigate the nature and magnitude of differentiation and divergence among them at the molecular level. Additionally, the primer pairs were also tested and validated for their utilization in genetic purity assessment of these genotypes using twelve inter-genotypic mixtures consisting of pair-wise genotypic combinations. Altogether 38 allelic variants were detected with an average of 4.75 alleles per primer. Considerably greater percentage of unique alleles was generated by the primer pairs RM 153, RM 206, RM 332, RM 3530 and RM 5373. Polymorphic information content of the primers varied from 0.515 to 0.792 with an average of 0.659 per primer. Using the number of alleles along with the level of polymorphism and discrimination ability of the primers as the basis, RM 332 appeared to be highly polymorphic and comparatively more informative for the purpose of molecular characterization. Analysis of differentiation and divergence pattern based on amplification profiles allowed trenchant distinction of aromatic entry from rest of the entries belonging to aerobic rice. An intermediate and complementary banding pattern was observed in inter-genotypic mixtures that served as distinct molecular tags for distinguishing the genotypes and their inter-genotypic mixtures. Easily recognizable differentiation of elite genotypes from inter-genotypic mixtures finally led to validation of primer pairs RM 206, RM 224, RM 263, RM 3530 and RM 5359 for genetic purity analysis. These five primer pairs may be further utilized in genetic purity test and confirmation of aerobic rice genotypes.

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