Genetic diversity of rice (Oryza sativa) germplasm from six countries using simple sequence repeats markers

Abstract

This experiment was carried out to determine the genotypic variation among rice (Oryza sativa) accessions using simple sequence repeats (SSR) markers. In the present study, a total of 12 SSR markers were used across 87 rice accessions from six countries. NTSYS-pc and PowerMarker software were used for data analysis. Six primers out of these 12 primers showed DNA amplification and polymorphism among the 87 rice accessions. The number of alleles detected by these six primers ranged from 2 to 9 with an average of 6.83 while polymorphism information content (PIC) ranged from 0.34 to 0.79 with an average of 0.55. The unweighted pair group method with arithmetic averages (UPGMA) cluster dendrogram generated based on the six SSR markers grouped the accessions into 4 clusters with 41% similarity coefficient. Accessions from these four clusters have late maturity, green basal leaf sheath colour, no awn and fewer tillers, respectively. This experiment has proven that even a small number of SSR markers are effective in assessing genetic diversity in rice. The genetic diversity revealed by the SSR markers in this study would be very important to select potentially good genotypes for future rice improvement programmes.