Abstract The new DNA extraction method we established was based on the traditional alkaline lysis method. We changed the volume of neutralization solution and introduced an isopropanol precipitated step. The result showed that DNA extracted by this method can amplify target genes fragments which were short than 600 bp. Only 1% expected material contained in other samples can generate the specific amplified. The whole process can be finished in 21 minutes, and the applicability of NaOH-based method is extended.