Aquaculture has increased faster than any other food sectors over the last few decades due to its potential as a provider of sustainable and healthy protein source for future populations. This growth has also led to an increase in the waste generation from fish farming, which is one of the major challenges that this sector is facing currently. Therefore, an environmentally friendly, sustainable waste management practice is essential for the growth of aquaculture. Photosynthetic microorganisms such as cyanobacteria that can uptake the harmful nitrogen and phosphorus nutrients from wastewater are an excellent remediation choice to deal with this issue. The major advantage of using cyanobacteria is that the biomass produced during the bioremediation of aquaculture wastewater can be used to produce economic commodities such as sugar, biofuels, and other bio derived products . Several cyanobacterial species accumulate carbohydrate in their biomass during nutrient limiting conditions which can further in several bioprocessing applications . The presented research studies the potential of a fast-growing cyanobacterial species Synechococcus elongatus UTEX 2973 as a bioremediation agent for aquaculture wastewater and a raw material for sugar production. The growth and carbohydrate content of this particular strain during bioremediation of aquaculture wastewater was investigated to further use that biomass for sugar production. To complement the experiments, stoichiometric metabolic modeling of this strain was performed to predict the trend in the growth of the species and carbohydrate accumulation in biomass under different environmental conditions (by varying nutrients). Furthermore, the metabolic model of this strain was used to predict optimal nutrient levels in aquaculture wastewater for carbohydrate accumulation. Hence, by combining two important bioprocesses, this study addresses one of the most discussed issues of recent times, turning wastes into resources.