The morphological and molecular biological identification of three pathogenic fungi isolated frequently from bulb rot of Fritillaria ussuriensis, which identified as Fusarium proliferatum strain P2, Fusarium oxysporum strain B1, and Fusarium acutatum strain Y1, was conducted. Biological characteristics were studied by different physiological and biochemical conditions. The indoor antibacterial effect of 8 kinds of common fungicides was determined by growth rate method. The results showed that all three pathogenic fungi could grow at 15 to 30℃, and the most suitable growth temperature was 20 to 25 ℃. The optimal growth pH, carbon and nitrogen sources of the three fungi were determined. Among the eight selected fungicides selected for indoor screening, it was found that the toxicity of pyraclostrobin·fluxapyroxad to strain P2 was the strongest, with an EC₅₀6.231 0 mg/L. The inhibitory effect of fluazinam on strain B1 was the best, with an EC₅₀0.001 2 mg/L. The agent with the best inhibitory effect on strain Y2 was pyraclostrobin·fluxapyroxad, with an EC₅₀0.100 9 mg/L. Therefore, it is determined that there are three pathogenic fungi responsible for the rot disease of Fritillaria ussuriensis, and the best inhibitory effect is pyraclostrobin·fluxapyroxad, which can be mixed with fluazinam.