Experiments were carried out to select marker for rusty tolerance ginseng root using high rusty degree lines(HRL) and low rusty degree lines (LRL) in ginseng plant. A strong positive correlation was detected between degree of rusty-root in 4-year-root and that in 6-year-root. The contents of phenolic compounds among samples were not different in stele and branch & fine roots. The contents of phenolic compounds of rusty-roots was higher than that of healthy-roots in cortex, but those of high 겨sty degree lines (HRL) were not different compared with low rusty degree lines (LRL) in cortex using same rusty-degree samples. These suggest that phenolic compounds in cortex tissue were not adequate as a marker to select rusty tolerance ginseng roots. The contents of phenolic compounds of rusty-roots were higher than that of healthy-roots in epidermis, and those of HRL were higher than LRL in epidermis using same rusty-degree samples. These suggested that the contents of phenolic compounds in epidermis tissue might be a potent marker to select rusty tolerance ginseng roots.