Genetic diversity analysis of pearl millet (Pennisetum glauccum [L.] R. Br.) accessions using molecular markers

Abstract

Random amplified polymorphic DNA (RAPD) analysis was applied to pearl millet genotypes in order to assess the degree of polymorphisms within and among genotypes and to investigate if this approach was suitable for genetic studies of pearl millet. 20 genotypes were evaluated using 30 different 10-mer primers of arbitrary sequence. Most of the primers did not reveal any polymorphism; however 12 primers revealed scorable polymorphism between genotypes of pearl millet and these can be further evaluated for use in genetic mapping. Pair-wise comparisons of unique and shared polymorphic amplification products were generated by Jaccard’s similarity co-efficient. These similarity co-efficients were employed to construct a dendrogram showing phylogenetic relationships using unweighted paired group method with arithmetic averages (UPGMA). The UPGMA analysis indicated a higher similarity between genotype PT 2835/1 and PT 5552 and lowest similarity index was observed between PT 5554 and PT 2835/1. Analysis of RAPD data appears to be helpful in determining the genetic relationship among 20 pearl millet genotypes. The associations among the 20 genotypes were also examined with Principle components analysis (PCA) from Jaccard’s similarity co-efficient and it is more informative to analyze the extreme genotypes.   Key words: Random amplified polymorphic DNA (RAPD), genetic diversity, pearl millet, principle component analysis (PCA)