Soybean is an important oil seed and pulse crop. Mycoflora associated with soybean seeds collected from different region were studied. Among the samples MARS, Raichur sample showed very high percentage of discoloured (30.0%), 21.0 per cent shrivelled, 2.0 per cent broken and very low per cent of healthy (47.0%) seeds. Overall, 11 fungi were isolated by using agar and blotter techniques and six fungi were from seed washing method. Pathogenic fungi frequently isolated were Macrophomina phaseolina, Fusarium oxysporum, Aspergillus flavus, A. niger, Phoma spp. and Sclerotinia sclerotiorum. Less frequently isolated fungi were F. solani, F. moniliformae, Rhizophus spp., Botrytis cinerea and Cercospora kikuchi. Highest mycoflora was recorded from storage sample of MARS, Raichur (50.0 – 52.0%) followed by market collected samples (23.5 – 29.0%) and least per cent was recorded from field collected samples (15.5-27.5%). The frequency of M. phaseolina (27.0 – 28.0%) and F. oxysporum (5.0 - 5.5%) was more in storage sample of MARS, Raichur whereas A. flavus (7.0%) and A. niger (3.5-4.0%) were predominantly recovered from market collected sample of APMC, Raichur.