Detection and Genetic Evolution of Diarrhea-related Viruses in Chongqing Beef Cattle

In order to investigate the pathogen prevalence of bovine viral diarrhea in Chongqing, this study carried out an investigation of bovine viral diarrhea virus (BVDV), bovine coronavirus (BCV), bovine rotavirus (BRV) and bovine astrovirus (BAstV) on a total of 81 diarrhea samples of beef cattle which were collected from Chongqing by RT-PCR. After the PCR products were sequenced, phylogenetic analysis was performed with Mega 6.0 software. From 81 samples, the positive rate of BRV,BAstV and BVDV were 66.7%,8.6% and 7.4%, respectively,BCV was not detected.Phylogenetic analysis showed that 5 strains of BRV sequences were clustered into a small branch, which had significant genetic distance with other VP6 sequences in GenBank; 5 strains of BVDV, Chinese and Denmark strains were clustered into one branch,genetic relationship were close; 5 strains of BAstV clustered into a branch with Hongkong strain, but there was still an obvious genetic distance. The result showed that calves under the age of half year were the main group of beef cattle with diarrhea in Chongqing. BRV was an important cause of diarrhea in Chongqing, the genetic diversity of BRV,BAstV and BVDV could be reference to further concern.