This work reports a facile and green approach to preparing AgIO3 nanoparticles decorated with chitosan (chitosan-AgIO3). The bionanocomposite was fully characterized by Fourier transform infrared (FTIR), scanning electron microscopy (SEM) images, energy-dispersive X-ray spectroscopy (EDX), and X-ray diffraction analysis (XRD). The antibacterial effect of chitosan-AgIO3 bionanocomposite was investigated for Pseudomonas aeruginosa, Klebsiella pneumoniae, Staphylococcus saprophyticus, Escherichia coli, and Staphylococcus aureus as pathogen microorganisms via the plate count method, disk diffusion method, and optical density (OD) measurements. The antibacterial performance of the bionanocomposite was compared with two commercial drugs (penicillin and silver sulfadiazine) and in some cases, the synthesized bionanocomposite has a better effect in the eradication of bacteria. The bionanocomposite represented great antibacterial properties. Flow cytometry was performed to investigate the mechanism of bionanocomposite as an antibacterial agent. Reactive oxygen species (ROS) production was responsible for the bactericidal mechanisms. These results demonstrate that the chitosan-AgIO3 bionanocomposite, as a kind of antibacterial material, got potential for application in a broad range of biomedical applications and water purification. The design and synthesis of green and biodegradable antibacterial materials with simple processes and by using readily available materials cause the final product to be economically affordable and could be scaled in different industries.