This study reports histopatholgoical changes in the intestine of the fish Channa punctatus exposed for 30 days to sublethal doses of the water soluble fractions (WSF) of petrol (9.60 ml/L) and diesel (8.70 ml/L) fuels. WSF of petrol induced loss of normal architecture & orientation of villi which became shrunken and atrophied and exhibited interlocking arrangement. Besides, the hyperactive mucous secreting cells together with their nuclei became pyknosed and necrosed indicating signs of apoptosis. More severe nature of degenerative changes were observed under the toxicity of WSF of diesel. These were disintegrating serosa, very ill defined epithelial lining, almost structureless and detached core of mucosal fold as well as ruptured and broken villi leading to heavy exudation of mucus into the lumen. Possible explanations have been discussed and the findings led us to conclude that WSF of both petrol and diesel impair the absorptive capacity of the intestine.