This work aims to establish a novel method of extracting DNA template of filamentous fungi for PCR amplification with boiling-water bath and Fusarium oxysporum as raw material. The procedures of this method are as the following:exposing the fungal mycelia in certain volume of 50 mmol/L NaOH solution under boiling water bath, adding 1/10 volume of 1mol/L Tris-HCl(pH8.0)buffer, centrifuging it at 12 000 r/min for 10 min, and using the supernatant as the DNA template for PCR amplification. Results demonstrated that the efficiency of PCR amplification with the DNA template prepared by the method was high, the amplified bands were clear, and adaptability to various Taq DNA polymerases was strong;This indicated that the method was suitable for the preparation of DNA template of filamentous fungi. Conclusively, this method is economic, simple, rapid, safe and high-efficient, and can be utilized for high-throughput screening of filamentous fungal transformants and rapid identification of isolated strains.