Abstract: The viruses causing pepper virus disease in Chongqing，China were identified and analyzed by Dot-ELISA and RT-PCR. In this research，152 pepper samples with viral symptoms，collected from eight pepper-growing counties in Chongqing，were detected with the special serums against five common vegetable viruses by Dot-ELISA method. The detection results showed that 118 pepper samples were positive，among which the infection of Cucumber mosaic virus（CMV）is common，and the detection rate is 57.89%. The detection rate of Tomato mosaic virus（ToMV）is the lowest，22.52%. The detection rate of Tobacco mosaic virus（TMV），Turnip mosaic virus（TuMV），and Broad bean wilt virus 2（BBWV-2）were 30.26%，36.18% and 24.34%，respectively. Among the 118 positive samples，66.10% samples were mix-infected with more than two viruses，33.33% samples were infected with CMV and TuMV，26.27%samples were infected with three viruses. Sixteen samples were randomly selected for RT-PCR amplification using specific primer pairs for the five viruses respectively，and the positive samples were then cloned and sequenced. The results showed that the amplified fragments were highly homologous with corresponding sequences of five viruses and the detection results were nearly consistent with those of ELISA detection. These results showed that CMV is the prevalent pathogenic virus，and the mix-infection of viruses on pepper was severe in Chongqing. This is the first report of ToMV and TuMV infecting pepper.

Key words: pepper, pepper virus disease, Dot-ELISA, RT-PCR, identification of pathogen