Genetic divergence based on mtDNA D-loop of Eothenomys miletus from Yunnan Province

Zhu Wan-long, Mu Yuan, Hou Dong-min, Cheng Jin-long, Cai Jin-hong

Abstract


In the present study, 1010 bp valid sequence of D-loop was obtained in Eothenomys miletus. 1010bp D-loop sequences, the percent of A、T、G and C was 30.4%、29.1%、13.5% and 27.0%, respectively. 153 variation sites were detected, of which including 114 parsimony-informative sites and 39 singleton sites. Transiton (Ts) was 26 and Transversion (Tv) was 7, Ts/Tv was 3.71. We found 46 haplotypes from 81 individuals, had no common haplotypes among these populations, the average genetic distance among 46 haplotypes was 0.04178. Among different populations, average nucleotide diversity (Pi) was 0.0359. Analysis of Molecular Variance (AMOVA) encovered that differentiation index (Fst) was significant differences and Variance components among populations (Va) was higher than that within populations (Vb). The gene flow (Nm) was less-than 1, except the relationship between Dali and Kunming, which indicated E. miletus was developing evident genetic differentiation. Infered from NJ and UPGMA phylogenetic tree, different haplotype clustered together according to its attribution, approximately. From large scale, 4 clades were included. The distribution curves of the mismatch analysis on different populations may be the multimodal curves that encovered populations without expansion. Furthermore, Tajima's D、Fu and Li's D and Fu's Fs test for population showed that E. miletus didn’t go through the event of population expansion, the population was still stable.

 

Keywords: Eothenomys miletus; Genetic divergence; Displacement loop region


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References


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