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Hydroponic farms produce wastewater that need to be treated before being released into the environment. A three-step screening process (microplate, batch, and semi-continuous flasks experiments) initially designed to select an efficient microalgae strain allowed the isolation of a consortium that naturally developed in the hydroponic farm wastewater. During the non-optimized semi-continuous experiments, the best performing microalgae strain, Scenedesmus obliquus UTEX393 and the wastewater-born consortium cultures achieved good average linear growth rate (0.186 and 0.198/d, respectively) and high average nitrogen removal rates (23.5 mgN/L/d and 21.9 mgN/L/d, respectively). Phosphorus removal was very high probably due to precipitation. An integrated process was designed to treat the hydroponic farm wastewater using the wastewater-born consortium. Despite relatively low coagulation efficiencies in the preliminary tests, when integrated in a continuous process, chitosan was efficient to harvest the naturally wastewater-born consortium. The process was also efficient for removing nitrate and phosphate in less than seven days (average removal of 98.2 and 87.1% for nitrate and phosphate, respectively). These very promising results will help to define a pre-industrial pilot process.