Objective To study the distribution characteristics of carbapenem-resistant bacteria in aquatic products in Shanghai markets and antibiotic resistant genes profiles.Methods Carbapenem-resistant bacteria in aquatic products were isolated using TCBS and TSA plate containing antibiotics （meropenem）. The bacteria was identified using matrix assisted laser desorption/ionization time of flight mass（MALDI-TOF MS） spectrometry. The antimicrobial susceptibility was investigated using minimum inhibitory concentration （MIC）. Some antibiotic resistant bacteria were analyzed using whole-genome sequencing. BioNumerics software was used to analyze and assemble whole-genome sequencing data， which was used to analyze antibiotic resistant genes profiles.Results The positive rate of carbapenem-resistant bacteria in aquatic products in Shanghai was high （75.0%~90.5%）. The prevalent bacteria was Stenotrophomonas maltophilia， followed by Pseudomosa spp.， Aeromonas spp. and enterococcus spp. The multi-drug resistance was serious. The antibiotics with higher resistance rate were cephalosporins， tetracycline and ampicillin. A total of 64 antibiotic resistant genes were detected. The carbapenemase-encoding genes were bla_NDM-1， bla_OXA55 and bla_OXA280 in this study.Conclusion The carbapenem-resistant bacteria in aquatic products in Shanghai markets was widespread. Multi-drug resistance was serious. Furthermore， the antibiotic resistant genes profiles showed diversity， which might be mechanism of occurrence of resistance. These results suggested that surveillance of resistant bacteria and antibiotic resistant genes profiles should be strengthened， which would provide scientific data for food safety risk assessment.