Giant honeybees of Apis dorsata and A. laboriosa are two of five species in the list of conservation in Vietnam. Determination of the two species and research on their seasonal migratory behavior are important for effective conservation of them. In this research, worker bees of 24 colonies of the 2 species were collected from different seasons in 5 localities within North-westem regions to Nghe An province Targeted 574bp on COlI gene of the sampled bees were analysed. Two clades for A. dorsata and A. laboriosa species from Neighbor Joining tree with significant bootstrap confidence intervals of 100 percent revealed that A. dorsata and A. laboriosa were two genetically separate species. In addition, 45 typica point mutations along the targeted COII haplotypes of the two species molecularly characterised their 2 different species. 100 percent of homology between haplotypes of A. dorsata collected from some Northwestro regions and Nghe An province indicated this species took very long seasonal migation during the year. Otherwise, no point mutation of haplotypes of A. laboriosa collected from both end of Hoang Lien ranget two different seasons poited out short distance of seasonal migation of this species. Polymorphism in sequence of COlI gene could be therefore applied to distinguish other honeybee species of A. florea and A. andrenifonnis, which are also in conservation in Vietnam.