Probiotic bacteria confer beneficial effect to the host animal. Probiotic diets are being incorporated together with prebiotics in recent years. Probiotics with synbiotics elicit synergistic and more favorable actions. Administration of probiotic feed Lactococcus spp, Saccharomyces cerevisiae in the diets kept the histo-architectural structure intact and promoted regeneration in the intestine of fish to increase the functionality of fish. This increased advantage of formulated probiotic and its benefits in maintaining good water quality and rapid increase in growth of Pangasianodon hypopthalmus were evaluated in this study. Feeds with commericial probiotic feed obtained were evaluated with the isolated probiotic feed. The adherence of isolated probiotic feed in the intestine of Pangasianodon hypopthalmus, alter the enzymes, microbial metabolism and improve the weight gain and survival rate.