Excessive antibiotic use can lead to gut microbiota dysbiosis, resulting in diarrhea. This study aimed to investigate the effects of Bifidobacterium animalis QC08 (QC08) on the antibiotic-induced diarrhea mouse model using lincomycin hydrochloride. Mice were divided into five groups: normal, diarrhea, a drug group, high-dose QC08 (QC08-H), low-dose QC08 (QC08-L). Compared with the diarrhea group, the QC08-H and QC08-L groups showed a decrease in serum serotonin, interleukin (IL)-17A, IL-6, and malondialdehyde levels, whereas total antioxidant capacity levels increased. In the colon and small intestine tissues of QC08-H and QC08-L treated mice, mRNA expression of cystic fibrosis transmembrane conductance regulator (CFTR), epidermal growth factor receptor (EGFR), and transforming growth factor β1 (TGFβ1) was significantly downregulated, whereas expression of sodium-hydrogen exchanger 1 (NHE1) and NHE4 was upregulated compared to the AAD model group. Altogether, this in vivo study demonstrates the potential of QC08 in alleviating AAD in mice, providing valuable insights for understanding and potentially treating antibiotic-related gut issues.