Cirsium japonicum var. ussuriense (CJ) is used as a folk medicine for diuretic, arthritis, dyspepsia, and bleeding in Korea. Until now, more than fifteen kinds of CJ were identified and among them, Cirsium japonicum var. nakaianum Nakai was selected as experimental material. Both that from The Medical Herb Garden of Seoul National University located at Gayang-dong, Koyang city and native that from a hillock near Dangjin, Chungnam were collected and analyzed to determine whether it is varied in efficacy on their habitats. Extracts and fractions of CJ had a strong effect of antibacterial activity on H. pylori and antioxidant effects. And the CJ from Garden and Dangjin were showed to be more efficient in acute gastritis through the HCl ethanol-induced gastric lesion test and chronic gastritis through the indomethacin-induced gastric lesion test, respectively. This study proved that the effects of CJ are varied by their habitats. Also, these results suggest that the CJ has potentials for use as functional food and medicine.