In order to investigate molecular phylogenetic relationships of Drosophila immigransspecies group,nucleotide sequences of H2a-H2b spacer regions and partial nucleotide sequences of Cytochrome b gene for five specieses subgroup in Drosophila immigrans species group and D.hydei which was selected as outgroup were acquired. Phylogenetic trees were reconstructed using maximum parsimony,maximum likelihood,neighbor joining and Bayesian methods based on H2a-H2b and Cyt b DNA sequences. The results indicated that Drosophila curviceps species subgroup is located at the base of molecular trees, diverged first in this group; the second clade is Drosophila quadrilineata species subgroup; the third is Drosophila hypocausta species subgroup; the fourth is Drosophila immigrans species subgroup; Drosophila nasuta species subgroup is the last diverged clade. Moreover,the phylogentic relationships of seven specieses in Drosophila nasuta subgroup was investigated.