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MPC-MPC combination showed significant removal in ammonia and better effluent quality when compared to other control strategies. PRACTITIONER POINTS Developed novel strategies in hierarchical configurations for better nutrient removal with optimal costs in an A2 O process. Lower level control strategies deals with dissolved oxygen in last aeration tank and nitrate in fourth anoxic tank (PI/MPC) Higher level control strategy deals with ammonia in the last aeration tank (MPC/Fuzzy). Average and violations of nutrient removal, economy and ov