Abstract: Objective: To knowledge the characteristics of pathogen microbes in 0 to 5 years old children with acute diarrhea,and provide the basis for effective treatment.Methods: The 310 stool specimens from less than 5 years old children with diarrhea were collected for routine bacteria culture to screen the pathogenic bacteria from April 2012 to March 2013.The virus was detected using ELISA,and virus genotype was determined by PCR.Results: The virus in 121 cases(39.03%) were postive,the rotavirus was the main pathogenic virus.The bacteria in 24 cases(7.74%) were positive,the Salmonella was imjor.Virus and bacterial co-infection was not found.The difference of infection rate between gender was not statistical significance(P>0.05).Rotavirus infection occured mainly in Autumn and Winter,the popular type was G2,G3,and P8,18 to 23 weeks old children were a high-risk group.The bacterial and goblet viral diarrhea was prevalent in summer.Conclusions: Rotavirus infection is the main pathogen of infectious diarrhea,bacterial infection also accounted for certain proportion in Yongchuan district.Strengthening the pathogen monitoring can provide the basis for clinical treatment.