Objective To analyze the contamination of aquatic products with pathogens in Yunnan Province and provide a basis for the prevention and control of foodborne diseases.Methods From 2014 to 2021， aquatic products obtained from 16 cities in Yunnan Province were randomly used for pathogen detection， and statistical methods were used to analyze the differences in product type， regional and seasonal distribution， and contamination source between varied aquatic products.Results A total of 3 540 samples were collected in the four categories of aquatic food， fresh aquatic animals， cold aquatic animals， frozen surimi products， and ready-to-eat products. Nine pathogenic microorganisms and one parasite were detected， with a total detection rate of 10.8%. Vibrio parahaemolyticus （10.3%）， Listeria monocytogenes （4.2%）， and Salmonella （3.3%） were the most common pathogenic microorganisms. Angiostrongylus cantonensis was commonly present in intermediate hosts （9.0%）， whereas the detection rate of other pathogens was low. The detection rates of pathogens in different aquatic products were statistically different （χ²=34.077，P<0.001）， mainly in fresh and cold aquatic animals. The chi-square test showed differences in the regional distribution， origin， and environments of some pathogens. The detection rates of V. parahaemolyticus （χ²=15.850， P=0.001） and Vibrio alginolyticus （χ²=8.400， P=0.029） were statistically different in a seasonal distribution.Conclusion The contamination of aquatic products by pathogens was common in Yunnan Province， and this is a risk factor for foodborne illness. Changing dietary habits， improving aquatic product storage and transportation conditions， and strengthening pathogenic microorganism monitoring are effective ways to reduce the incidence of related food-borne diseases.