Molecular Markers Based Genetic Analysis of Aerobic Rice (Oryza Sativa L.)

Abstract

Present study was undertaken to fingerprint the fifty one varieties of aerobic rice collected from distant geographical regions: India, The Philippines and Sri Lanka using 10 primers each of RAPD, SSR an_d ISSR molecular markers. The cluster analysis was made using NTSYS Software. All the 51 rice varieties were grouped into two main clusters following each RAPD, SSR and ISSR molecular marker assay. Minor variation was observed in distribution of varieties in sub-clusters in all cases. In general, distribution of varieties remained in.dependent of their geographical origin. IR80 genotype consistently expressed diversity from all other genotypes. It was also noticed that IR72875 expressed closeness with DG32 and DG71 varieties in most of the assays. The PIC values and Resolving power were calculated for individual primers. In RAPD analysis, PIC values varies :from 0.467(0PD-08) to 0.997 (OPF-17) and resolving power varies from 1.450(0PF-14) to 9.529(0PF-13). In ISSR assay, PIC values ranged from 0.2402(ISSR4) to 0.829S(ISSR3). The resolving power varies between 5.4892(ISSR3) and 9.6452(ISSR8) and in SSR assay, the primer RM-222 was observed to be highly polymorphic (PIC value of 0.8937) and RM-235 expressed miriimum polymorphism (PIC value of0.5193). The resolving power varies between 1.549(RM-222) to 3.686(R.M-235). The analysis indicated that ISSR expressed maximum resolving power and RAPD gave maximum PIC values where as SSR primers were highly polymorphic. Thus the three molecular marker systems together provided wider genome coverage and were found 1o be better indicator of the genetic relationships.