The authors have reported the use of nanopolymers for the inhibition of shrimp pathogenic bacteria for aquaculture use. The antimicrobial activity of polyethylene glycols based amphiphilic polymers have different linker molecules such as suberic acid, adipic acid, glutaric acid and dimethyl-5-hydroxyisophthalate on Vibrio harveyi. It was examined by drawing growth curves using optical density measurements. Concentration dependent antimicrobial effects of nanopolymers were tested against V. harveyi which were further confirmed by agar well diffusion for determining minimum inhibitory concentrations. The increased concentrations of nanopolymer effectively reduced the bacterial growth and increased the diameter of inhibition zone. This study has important implications for disease management in coastal aquaculture.