Fungal induced discolorations are deformative features occurring on building paints in tropical areas around the world. Paints on buildings are meant to protect surfaces from biodeterioration, corrosion, oxidation, environmental weathering or other types of deterioration. The actions/activities of biological deteriogens tend to defeat this aim. This study was carried out to identify fungal species associated with the biodeterioration of selected building paints at Nile University of Nigeria. A total number of twelve (12) samples were collected from areas of the buildings showing visible signs of discoloration. The suspected areas were gently rubbed with sterile medical rayon swabs, placed in dry sterile tubes and taken to the laboratory for further analysis. Following standard methods for the isolation and characterization of fungi and by using Sabouraud Dextrose Agar, Potato Dextrose Agar and peptone water as growth media, 9 fungal species were identified. The isolated fungi genera include Fusarium, Mucor, Aspergillus, Cladosporium, Rhizopus and Penicillium. Aspergillus species had 44.45% occurrence among all the fungal isolates and the high frequency of occurrence may be attributed to its high resistance to adverse environmental conditions. The study provides reliable data on the fungal communities implicated in the biodeterioration of building paints within the university.