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In order to get more yield and lack of knowledge in sustainable methods of aquaculture practices, humans are destroying so many ecosystems by constructing farms, polluting water, and using pesticides, using antimicrobials in aquaculture which ultimately creates issues to the humans itself. To reduce the issues with aquaculture and to generate more funds to farmers and job opportunity to un-employed young stars from this field. So many research programs have been launched whose goal is to get more sustainable yield and decrease issues associated with the aquaculture and to maintain the ecological balance, which has led to creating more sustainable and more productive technologies like RAS (Re-circulatory Aquaculture System), Aquaponics, etc, have been raised. Among them, RAS is considered as the high-end technology due to its high and healthy product obtained. The present study is a combination of traditional microbiological and biochemical techniques along with them a very advanced molecular identification technique called 16SrRna analysis and computer-based approaches like Phylogenetic analysis for identification of the bacterial community analysis in RAS.