Due to the very small body size of spider mite, it is difficult to prepare DNA extraction simultaneously with slide samples from a single individual. Here we developed non-mashed DNA extraction method from a single spider mite to apply for molecular as well as morphological identification. Total genomic DNA was isolated from a single female adult using Genomic DNA extraction kit without the sample homogenization. DNA content of a single spider mite was 60-90 ng, which is sufficient for the PCR analysis. However, the quantity of extracted DNA and quality of the cuticle sample were dependent on the incubation time into the lysis buffer. Our results suggest that non-mashed DNA extraction method would be useful for the identification of very small mites as well as insects at the levels of DNA and morphology.