The aime of this study was to isolate and identify the seed borne fungi of two varieties of Soybean, Sb172 and Sb44, using blotter method and P.D.A plate method. 21 species belong 10 genus were determined, saprophyte and pathogen Fungi. P.D.A plate method showed the highest number of fungi in comparison with the other method, and the fungus Aspergillus was the most frequent genus with a ratio of 44.2% for the variety sb172 and 45.14% for the variety sb44, followed by the fungus Cladosporium and then Fusarium, whereas the genus Colletotrichum showed the lowest frequent ratio (0.85%) with the variety Sb172. The percentages of seeds germination and infection were differed between the two varieties, and the ratio seeds germination of variety sb172 were higher than the variety sb44 with the both methods of culture, and were equal 94% with prim variety and 92% with the second ones by blotter method, whereas the ratio were 52% and 34% for both varieties respectively by P.D.A plate method. However, the ratio of infection were, in general, lower with prim variety than the second ones by the both method. The results showed the seeds which were highest ratio infection appeared low ratio germination .