In this study, juvenile cobia fish (Rachycentron canadum) (body weight: 50.44 ± 2.78 g) were used as a study object to investigate the effects of hypoxia stress (dissolved oxygen: 3.15 ± 0.21 mg/L) on the activities of their digestive enzymes, intestinal morphology and relative expression of tight junction proteins coding genes. Under the experimental conditions, the juvenile cobia were given 28 days of hypoxia stress. The results showed that the activities of digestive enzymes in the intestines of the hypoxia stress group decreased. In addition, the amylase and lipase activities decreased significantly (p < 0.05), and the trypsin activity in the hypoxia stress group compared to that in the control group. The morphology and structure of the intestine also showed significant changes. Under the microscopic observation, the mucosal fold height and muscle thickness of the intestine showed a significant decrease (p < 0.05); also, the villi's width showed a significant decrease (p < 0.05) in the hypoxia stress group as compared to that in the control group. The observation under a transmission electron microscope showed that the microvilli of juvenile cobia in the hypoxia stress group were irregularly arranged, atrophied and fallen off compared to the control group. Furthermore, there were gaps in the tight junction. In addition, the boundary between cells was unclear. The relative expression of intestinal tight junction proteins coding genes was down-regulated to varying degrees. The mRNA expressions of ZO-1 and claudin-4 were significantly down-regulated (p < 0.05) and ZO-2 and occludin in the hypoxia stress group compared to those in the control group. These results indicated that hypoxia stress could inhibit the activities of intestinal digestive enzymes, damage intestinal morphology and decrease the expression of tight junction proteins coding genes in cobia. The present study provided a scientific foundation for evaluating the multifaceted impacts of hypoxia stress on fish species, such as cobia.

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