All organs of the plant are divided into two main groups: The first group includes shoots - parts of the plant that are above ground (consisting of two types of organs: vegetative organs - tree and leaf; and reproductive organs - flower, fruit, and seed). The second group consists of the root system, which is usually found underground.

Plants are made up of two systems; the root system and the shoot system. The roots system consists of the roots only while the shoot system consists of the stem, leaves, flower and fruit of the plant. Many specialized cells make up these parts of the plant and they function as organs in animals, but in botany they are referred to parts of the plant and not organs.