Recently, the electrochemical disinfection has gained a great interest as one of the alternatives to conventional chlorination due to its high effectiveness and environmental compatibility. Despite the extensive reports on electro-chlorination disinfection, few researches were reported on the systems without generating chlorine. This study mainly focused on the potential disinfecting ability of electro-generated oxidants other than chlorine with using an inert medium (chloride-free phosphate buffer solution), which was intended to exclude the formation of chlorine during the electrolysis, as the Escherichia coli as an indicator bacterium was disinfected by applying the current to a platinum anode. The electrochemical inactivation of E. coli without chlorine production was demonstrated to occur in two distinct stages. The first stage inactivation takes place rapidly at the beginning of electrolysis, which appears to be achieved by the electrosorption of negatively charged E. coli cells to the anode surface, followed by a direct electron transfer reaction. As the electrolysis continues further, the inactivation becomes slower but steady, in contrast to the first stage of inactivation. This was attributed to the action of reactive oxidants generated from water discharge, such as hydroxyl radical. Overall, this study suggests that the electrochemical disinfection could be successfully performed even without producing chlorine, recommending the potential application for disinfecting water that does not allow including any chloride ions (such as the production of ultra-pure sterilized water for semiconductor washing).