In this research, infection level of 6 commonly and seriously hannful viruses on honeybee from 56 Apis mellifera colonies and 28 Apis cerana colonies, being kept and harvested in five provinces in Vietnam, was identified using reverse transcription polymerase chain reaction (RT-PCR). On tested Apis mellifera and Apis cerana colonies, no acute bee paralysis virus (ABPV) and Kashmir bee virus (KBV) were found, while the other four of black queen cell virus (BQCV), chronic bee paralysis virus (CBPV), defonned wing virus (DWV) and sacbrood virus (SBV) were present with RT-PCR products. On both Apis mellifera and Apis ceranacolonies, the most infection rate was BQCV (51 percent), followed by CBPV, DWV, and SBV(20 percent, 15 percent, 14 percent, respectively). Between Apis mellifera and Apis cerana, there was considerable difference in infection trend of each virus strain. To Apis mellifera colonies, the most infection rate was BQCV (62 percent), followed by CBPV (20 percent), DWV (12 percent) and SBV only 6 percent. Whereas, to Apis cerana, only 34 percent of colonies were infected with BQCV, but till 28 percent with SBV, and their infection of the same level (19 percent) with DWV and CBPV. Percentatge of Apis mellifera colonies (52 percent) infected with single virus strain was 2.5 times as high as that (21 percent) of Apis cerana. While A cerana colonies infected with more than one virus strain was accounted for 66 percent, which was 1.5 times as high as that (44 percent) of the A mellifera. Results of this study suggest that particular strategies should be made to control bee virus of each honeybee species.