A method has been developed to maintain the health of an activated sludge environment in a wastewater process comprising monitoring the levels of polyhydroxyalkanoates (PHA) produced as an indicator of bioreactor health and regulating the concentration of feed nutrients and nitrate to maintain bioreactor health. In general, levels of PHA in excess of about 15% to about 20% dry weight of the biomass is an indication that the biocatalytic efficiency of the wastewater treatment process is impaired.