Wastewater treatment plants (WWTPs) reduce portion of the input of pharmaceuticals in aquatic systems, but there is no data available about the elimination of emerging contaminants with microalgae technology. The aim of this work was to determine the average mass flows and concentrations of pharmaceuticals in influents and effluents from two sewages treatment plants using conventional and microalgae based biotechnologies and to compare the removal of pharmaceuticals using both depuration technologies. Only between 20 to 60% of five pharmaceuticals groups is reduce in both WWTP using conventional technologies consisting of a pretreatment, primary settling and secondary treatment by aerobic biological reactor. Using microalgae based biotechnologies efficiency of removal pharmaceuticals is higher than conventional technologies and it increase by using DAF (Dissolve Air Flotation) technology to separate algae biomass