The purpose of this study was to investigate liver and intestinal ABCA1 expression and plasma HDL-C level in response to treadmill-running training in rats. Twenty adult Wistar male rats (17-18 weeks old, 300-322 g) were divided into control (n = 10) and Training (n = 10) groups. Training group trained at 25 m/min (0% grade) for 60 min/day, 5 days/week for 12 weeks. Rats were killed 48 h after the last session of training. The intestinal and liver ABCA1 mRNA expression was found to be significantly higher in trained compared to control group (P < 0.006 and P < 0.024, respectively). Intestine and liver ATP concentrations remained unchanged. Plasma HDL-C, HDL2-C, Apo A-1, pre-beta HDL-C concentration, LCAT activity, TC/HDL-C and LDL-C/HDL-C ratio significantly increased in trained group (P < 0.01, P < 0.006, P < 0.001, P < 0.001 P < 0.067, P < 0.02, and P < 0.03, respectively). However, other lipoprotein concentrations were unchanged. In conclusion, we found that endurance training induced significant elevation in plasma HDL-C and HDL2-C concentrations, accompanied by higher plasma Apo A-1, pre-beta HDL-C concentrations, LCAT activity and ABCA1 mRNA expressions in rat intestine, and liver.