Abstract In this work it was carried out the bioremediation of water containing chlorides with native microalgae (MCA) provided by the Centre for study and research in biotechnology (CIBIOT) at Universidad Pontificia Bolivariana. Microalgae presented an adaptation to the water and so the conditions evaluated reaching a production of CO2 in mg L-1 of 53.0, 26.6, 56.0, 16.0 and 30.0 and chloride removal efficiencies of 16.37, 26.03, 40.04, 25.96 and 20.25% for microalgae1, microalgae2, microalgae3, microalgae4 and microalgae5 respectively. Water bioremediation process was carried out with content of chlorides in fed batch system with an initial concentration of chlorides of 20585 mg L-1 every 2 days. The Manipulated variables were: the flow of MCA3 (10% inoculum) for test one; NPK flow for test two, and flow of flow of MCA3+0.5 g L-1 NPK. Chloride removal efficiencies were 66.88%, 63.41% and 66.98% for test one, two and three respectively, for a total bioprocess time of 55 days.