Microsatellite diversity among aerobic and lowland indica rice genotypes with differential water requirements

Nitika Sandhu; Sunita Jain; V. K. Chowdhury; R. K. Jain

Nitika Sandhu Department of Biotechnology and Molecular Biology, CCS Haryana Agricultural University, Hisar 125 004
Sunita Jain Department of Biotechnology and Molecular Biology, CCS Haryana Agricultural University, Hisar 125 004
V. K. Chowdhury Department of Biotechnology and Molecular Biology, CCS Haryana Agricultural University, Hisar 125 004
R. K. Jain Department of Biotechnology and Molecular Biology, CCS Haryana Agricultural University, Hisar 125 004

Keywords: Molecular diversity, basmati, BAD2, aerobic, indica rice

Abstract

Molecular polymorphism in a set of 15 rice genotypes comprising of aerobic and lowland Basmati, indica and japonica rice varieties was evaluated using BAD2 aromaspecific and 50 mapped SSR markers. A total of 260 alleles were detected and number of alleles per locus and polymorphism information content values ranged from 2 to 9 (average 5.1) and 0.226 to 0.836 (average 0.672), respectively. Notably, two SSR markers (RM212 and RM302) amplified specific alleles in all the five aerobic rice genotypes, which were absent in non-aerobic rice genotypes. SSR diversity data analyzed using NTSYS-pc clustering algorithms showed greater divergence between the Basmati and aerobic rice varieties as compared to lowland indica and aerobic rice varieties.