This work aims at the induction of the synthesis bioactive compounds in microalgae which are used in aquacultures. Experiments were done using Tetraselmis tetrathele in batch culture for 8 days under different salinity levels. The growth of the alga at salinity 20 ppm was increased by fivefold and synthesis of carotenoids by 20-fold in comparison to the controlled. Increasing NaCl concentration resulted in increasing the fatty acid accumulation in T. tetrathele cells. Saturated fatty acids were the main constituent in the fatty acid methyl esters (FAMEs) (3.48 mg/g) at salinity 25 ppm. The predominated fatty acids were tridecylic, myristic and pentadecanoic which have potential antimicrobial activities. GC–MS analyses of the alga acetone extract grown under different NaCl concentrations were established. The results showed the presence of 18 bioactive compounds: 9-octadecenamide; in addition to the different esters of some fatty acids: hexanedioic, 1,2-cyclohexanedicarboxylic, phthalic, oleanitrile, hexanedioic and 1,2-cyclohexanedicarboxylic (71.5%; 64.9%; 55.4%; 49.6%; 18.7%; 25.2% and 14.5%, respectively). The study suggested that the alga biosynthesized various bioactive compounds under different salinity levels as defense mechanisms. Accordingly, the growth of T. tetrathele under salinity stress before being used in aquacultures is recommended.