Drupe fruit trees contain plenty of polysaecharides,polyphenels,pigments,tannin and other secondary metabolites,which affects the genomic DNA extraction.In this research,the genomic DNA was extracted from the fresh young leaves of some drupe trees,the results showed that the improved SDS method was the best for DNA extraction.The improved SDS method was applied to extract genomic DNA from different organs of nectarine,the results showed that young leaves,flowers and basts could be used to extract the genomic DNA、Besides,the genomic DNA could also be extracted from the leaves of the almond and nectarine which were dried in the shade by improved SDS method.Through the SSR-PCR detection,the extracted DNA had a good qulity for modecular biological study.