Chlorination of ballast water could produce harmful disinfection by-products (DBPs) and total residual oxidants. The International Maritime Organization calls for toxicity testing of discharged ballast water with fish, crustacea and algae to reduce the risk, but it is difficult to evaluate the toxicity of treated ballast water in a short time. Therefore, the purpose of this study was to analyze the applicability of luminescent bacteria to the assessment of residual toxicity of chlorinated ballast water. The toxicity unit for all treated samples were higher for Photobacterium phosphoreum than for microalgae (Selenastrum capricornutum and Chlorella pyrenoidosa), after adding neutralizer, all samples showed little effect on the luminescent bacteria and microalgae. For the DBPs, except for 2,4,6-Tribromophenol, Photobacterium phosphoreum could produce more sensitive and rapid test results than other species, the results in Photobacterium phosphoreum showed that the toxicity of DBPs in order of: 2,4-Dibromophenol > 2,6-Dibromophenol > 2,4,6-Tribromophenol > Monobromoacetic acid > Dibromoacetic acid > Tribromoacetic acid, and most binary mixtures (aromatic DBPs and aliphatic DBPs) presented synergistic effects based on the CA model. The aromatic DBPs in ballast water deserve more attention. In general, for ballast water management, the use of luminescent bacteria to evaluate the toxicity of treated ballast water and DBPs is desirable, this study could provide beneficial information for enhancing ballast water management.