Chrysophyta polysaccharide (CPP) exhibits immunomodulatory and antioxidant properties. However, its potential to alleviate colitis remains unclear. This study aimed to examine the effects of CPP on colitis and its underlying mechanisms. CPP was administered at three doses: H-CPP (100 mg/kg/day), M-CPP (50 mg/kg/day), and L-CPP (25 mg/kg/day). Treatment with H-CPP and M-CPP significantly up-regulated tight junction proteins, inhibited epithelial cell apoptosis, regulated oxidative stress, and alleviated colitis. H-CPP and M-CPP treatments inhibited the NF-κB pathway and modulated TNF-α, IL-10, and IL-1β. Furthermore, H-CPP treatment improved the gut microbiota by increasing Akkermansia and Bifidobacterium while decreasing Clostridium sensu stricto 1, Escherichia-Shigella, Dorea, and Parabacteroides. Simultaneously, H-CPP treatment promoted the production of Acetovanillone and L-Tryptophan. Therefore, in a dose-dependent manner, CPP reduces the severity of colitis by regulating cytokines, protecting intestinal mucosal barrier, promoting beneficial metabolites, and regulating gut microbiota. These findings will enhance our understanding of the mechanisms underlying the health-regulating effects of CPP and the development of dietary supplements targeting colitis, with significant economic and social implications.