Planted as a sapling in 2004 near the Griffith Observatory, the tree stood 10-feet high but died recently as a result of an insect infestation, reported Us magazine.
The trees in the area have often been infested with bark beetles and ladybug beetles. Harrison's particular tree will eventually be replaced.
It was accompanied by a small plaque reading, "In memory of a great humanitarian who touched the world as an artist, a musician and a gardener."
Harrison, who died at 58 in 2001, was said to be an amateur gardener himself.
His former band mate Ringo Starr performed at the nearby Greek Theatre a few days before the tree's demise was announced.