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This work investigates the effect of adding different sources of organic carbon in biofloc systems on water quality, microorganisms' density and zootechnical performance of juvenile Mugil liza raised in the biofloc system indoors over 45 days. Fish (±7.99 g) were stored at a density of 15 fish per tank and fed a commercial feed of 42% protein. The study was arranged in three treatments according to the carbon source: dextrose—DE, liquid molasses—LM and rice bran—RB, and one control with no bioflocs (clear water—CW), all in triplicate. The treatments had no influence (p > 0.05) on the performance parameters of the animals, survival (over 90%), as well on the productivity (between 0.35 and 0.6 kg/m3). Overall mean of total ammonia was lower (p < 0.05) in the biofloc systems than in clear water (CW). Nitrite average was lower (p < 0.05) in the bioflocs fertilized with LM and RB carbon sources, having a concentration of 1.3 ± 1.9 mg/L and 0.6 ± 0.6 mg/L respectively. RB also had the smallest range in nitrite levels throughout the study, from 0.04 to 2.5 mg/L. The LM and RB provided a greater (p < 0.05) abundance of total adhered and coccus bacteria. Water consumption was higher (p < 0.05) in the CW (1.87 m3 per tank) compared with the biofloc treatments (0.41 and 0.44 m3 per tank). Liquid molasses contributed to maintaining water quality compared with clear water, providing savings of around 80% of water. [ABSTRACT FROM AUTHOR]