Molecular phylogenetic relationships among six subgenera of the genus Vigna were inferred from chloroplast DNA TrnL intron and TrnL-F intergenic spacer sequence variation. Sequences of 52 Vigna and outgroup species were aligned to 1137 bp. Pairwise sequence divergence values ranged from 0.107% between V. dalzeliana and V. minima to 9.90% between V. adenantha and V. frutescens across all accessions. Phylogenies estimated using parsimony methods revealed that (1) the subgenera Ceratotropis and Plectotropis are monophyletic; (2) Plectotropis believed to link African Vigna and Asian Vigna showed close relationship to African Vigna species (3) Sigmoidotropis retaining morphological characters of both Vigna and Phaseolus was closely related to Vigna regardless of the greatest pairwise sequence difference between V. adenantha and V. frutescens. Phylogenies based on maximum parsimony gave similar topology to that based on neighbor-joining method. These results should be further studied vigorously to confirm relationships among the subgenera of Vigna.