Usually you talk of a substituent when you have a series of compounds in the (very generic) form of R-X, where R is always the same but X varies from each compound within the series.
In that case you refer to X as a substituent, and speak of the effects that different X's have on the chemical and phisical properties of R-X as "substituent effect". The compound with X=H is usually refered as the "parent compound" or the "parent chain".
Thou in organic chemistry a substituent is usually a group replacing an hydrogen attached to a carbon atom, this can be further generalized if it helps you explain a given trend.
For example, you could define a series of compounds where R = "HO" and X = H, CH3, COCH3, and analyze how the substituent affects the acid behavor of each of the three compounds (water, methanol and acetic acid).