White spot syndrome virus (WSSV), Taura syndrome virus (TSV) and infectious hypodermal and hematopoietic necrosis virus (IHHNV) are the three major pathogenic viruses responsible for the epidemic diseases threatening Pacific white leg shrimp farming industry. We use the PCR detection methods recommended by World Organisation for Animal Health to investigate the epidemiology of these three kinds of diseases in Jiangsu province. 1436 Pacific white leg shrimp samples were detected in the year from 2015 to 2016. Results showed the positive rate of WSSV infection was 17.20%, 0% in TSV infection and 39.48% in IHHNV infection where shrimp samples were collected from Nanjing, Dongtai, Dafeng, Ganyu, and Sheyang. And all five IHHNV strains detected belong to the infectiontype after gene sequence analysis, which were close to the Korean strain. Our investigation aims to clarify the epidemic stiutation of WSSV, TSV and IHHNV in Jiangsu province, identify IHHNV strain type via sequence analysis. The result has a high reference value for diseases prevention and treatment of shrimp farming industry.