In order to develop an efficient micropropagation system for a rare tree species, Empetrum nigrum var. japonicum K. Koch, the effect of medium salt, cytokinins and auxin at different concentration were evaluated. Shoot induction from axillary bud was better on WPM medium than on MS medium. Although there was no significant differences observed in shoot induction among the salt strengths of WPM medium, whereas healthy shoots were developed on basal WPM medium. In comparison of the cytokinins affecting shoot proliferation, zeatin was better than BA, whereas BA exhibited more effectiveness on shoot elongation. In vitro root formation was better on WPM medium than on 1/2MS medium and achieved the highest rooting rate when 5.0 mg/L IBA treatment. 93% of rooted plantlets were survived on artificial soil mixture after 4 weeks of acclimatization. Above results suggest that a rare tree species, E. nigrum var. japonicum can be micropropagated via axillary bud cultures.