The effect of ammonia and iron concentration in Bold Basal Medium and mixed wastewater (including pretreated piggery wastewater and acid mine drainage) on biomass production and biochemical content (lipid and ß-carotene) of microalgae (Uronema sp. KGE 3) was investigated. Addition of iron to the Bold Basal Medium enhanced the growth, lipid, and ß-carotene of Uronema sp. KGE 3. The highest dry cell weight, lipid content, and lipid productivity of KGE 3 were 0.551 g L−1, 46% and 0.249 g L−1 d−1, respectively, at 15 mg L−1 of Fe. The highest ß-carotene was obtained at 30 mg L−1 of Fe. The biomass production of KGE 3 was ranged between 0.18 to 0.37 g L−1. The microalgal growth was significantly improved by addition of acid mine drainage to pretreated piggery wastewater by membrane. The highest dry cell weight of 0.51 g L−1 was obtained at 1:9 of pretreated piggery wastewater by membrane and acid mine drainage for KGE 3. The removal efficiencies of total nitrogen and total phosphate was ranged from 20 to 100%. The highest lipid and ß-carotene content was found to be 1:9. Application of this system to wastewater treatment plant could provide cost effective technology for the microalgae-based industries and biofuel production field, and also provide the recycling way for pretreated piggery wastewater and acid mine drainage.