An investigation to detect the seed-borne fungi from seeds of eight soybean cultivars including E-358, DB-1601, 849-294D, Loopa, HS-16, 95-I, Faisal Soybean and Centennial was conducted. Soybean seed samples were collected from Oilseed Research Institute, Faisalabad. Blotter method was used for detection of the associated fungi of soybean seeds. A total of 9 fungal genera belonging to Zygomycetes, Euascomycetes and Deuteromycetes were found associated with the tested soybean seed samples. Each class had three fungal genera. The isolation frequencies of the fungi were variable among cultivars as well as between naturally infested and artificially disinfested seeds. Common fungal genera isolated during this study included Absidia, Aspergillus, Mucor, Curvularia, Drechslera, Fusarium, Phoma, Rhizopus and Penicillium. Aspergillus, Penicillium and Fusarium were identified more commonly from disinfested than that of non-infested seeds.