Mixed chimerism is a potential induction method for alloantigen-specific tolerance. Although the phenomenon has been broadly studied over recent years, some important aspects remain to be elucidated. The aim of our study was to identify the optimal mouse stem/progenitor cell population for mixed chimerism induction purposes.To induce stable mixed chimerism, B6.SJL-PtprcaPep3b (CD45.1; H-2 s ; I-E-) mice were exposed to 3-Gy total body irradiation (Day -1) as well as the CD40L (Day 0, and 4) and CD8 (Day -2) blocking antibodies. The animals were transplanted with 10×10 /c-kit -cells, induced a high degree of stable (26 weeks) multilineage mixed chimerism. In the chimeric mice, we observed an elimination of donor-reactive lymphocytes as well as permanent skin graft acceptance. We found a correlation between the initial chimerism rate, especially in the mononuclear cell populations, and graft survival.Based on our study, we can recommend well-selected cell populations expressing c-kit receptor that possibly facilitate the induction of mixed chimerism and immune tolerance. Therefore, our findings contribute to a better understanding of mixed chimerism and may promote its use in clinical practice.