Population structure and genetic diversity in popular rice varieties of India as evidenced from SSR analysis.
We report here on the phylogenetic analysis, population substructure, and identification of molecular tags of 25 popular rice varieties and four landraces from different ecological belts of India employing a set of 52 simple sequence repeat (SSR) markers. Genetic analysis using the SSR markers categorized the genotypes into two major clusters, distributed according to their pedigree. Population structure analysis suggested that the optimum number of subpopulations was three (K = 3) in the popular varieties and landraces. At K = 5 the allelic distribution was much more similar to the phylogenetic dendrogram. The molecular diversity and population structure analysis indicated that there is not much variation among the popular rice cultivars of India. The study has identified SSR markers producing unique alleles, which should aid in the precise identification, maintenance, and genetic purity analysis of rice varieties.
Department of Genetics and Plant Breeding, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi 221 005, India.
Priti
P
Upadhyay
C N
CN
Neeraja
C
C
Kole
Vikas Kumar
VK
Singh
D000483:Alleles; D018744:DNA, Plant / Q000235:genetics; D005787:Gene Frequency; D014644:Genetic Variation; D005828:Genetics, Population; D018745:Genome, Plant; D005838:Genotype; D060005:Genotyping Techniques / Q000379:methods; D007194:India; D018895:Microsatellite Repeats; D012275:Oryza / Q000145:classification / Q000235:genetics*; D010802:Phylogeny; D013045:Species Specificity
D018744:DNA, Plant