The effect of plant growth substance and fertilizer on root formation was studied in new planted apple tree (Malus pumila Mill / Malus hupenensis Rhed). The results indicated that urea and IBA (Indolebutyric acid) and sheep dung all increased the total number and activity of new roots and changed the ratio of absorbing root to extensive root obviously. Urea increased the number of extensive root and decreased the ratio of root to shoot mostly. IBA lengthened the extensive root and increased the ratio of root to shoot obviously. Sheep dung increased the number of absorbing root and increased the ratio of absorbing root to extensive root, divided new root into mangy branches, increased the fresh weight of root and thicken extensive root. The fresh weight of root increased and the ratio of root to shoot declined after urea added to sheep dung. Both the ratio of absorbing root to extensive root and root fresh weight was increased after IBA added to sheep dung, then the ratio of root to shoot had no change obviously.