Once the tree has grown, the player may use an axe to chop the tree down to a stump, and then use a spade on the stump to dig up the tree roots, clearing the patch for another tree, and putting the magic root into the farmer's inventory.
If the roots are not immediately dug up, the tree will respawn and it may be cut down again. Multiple roots can be obtained at higher farming levels. 1 root is obtained at 75, 2 at 83, 3 at 91, and 4 at 99.
As with all tree roots, magic roots may be used in a compost bin to make supercompost. However, magic roots may be spun into magic string (instead of crossbow string like other roots) by using the magic roots on a spinning wheel, with level 19 Crafting. Magic roots are also a component in the Herblore skill to make Antidote++.