Suitability of RAPD and ISSR to complement agro-morphological DUS descriptors for establishing distinctiveness in indigenous local strains of Kalanamak rice (Oryza sativa)

Abstract

Fortyfour indigenous local strains of Kalanamak rice (Oryza sativa L.) were characterized with 60 morphological DUS descriptors, RAPD and ISSR markers. On the basis of grouping characteristics unique morphological profiles were obtained for three Kalanamak strains, viz 3125 SN, 3122 SN and 3319 SN and rest of the 41 Kalanamak strains remained in five groups. The RAPD marker analysis was able to discriminate 33 (72%) kalanamak strains. Two out of a total of 15 random primers were able to establish unique molecular identification profiles (MIPs) for Kalanamak strains, viz 3126-P and 3129-SN. The UPGMA cluster analysis reveled that the ISSR loci enabled identification of 42 strains (95%). Two ISSR primers, viz LC 61 and LC 67 produced genotype specific loci in Kalanamak strains 3131-1P and 3119-SN which were able to discriminate them from rest of the strains. Higher number of average bands (8.2), number of average polymorphic bands (6.6), percentage of polymorphic bands (78.9%), average polymorphic information content (0.33), average resolving power (10.85), average effective multiplex ratio (5.6) and marker index (2.08) for ISSR marker as compared to RAPD reflected that ISSR marker is more efficient tool to establish distinctiveness amongst the present set of experimental material.