A genetic diversity analysis was conducted, of 14 wild Auricularia auricula strains and 6 cultivated strains from DaXing'anling region by SRAP and ITS markers. Using PCR-SRAP system, we selected 9 pairs of primers for the wild and cultivated strains respectively, and analyzed their genetic diversity through clustering analysis. The results were as follows: 88 fragments were amplified, and the polymorphic bands were 76. The PIC (polymorphism information content) value of these markers varied from 0.048 to 0.918, averaging 0.599. Kinship of Auricularia auricula strains was determined by analyzing their ITS sequences. The software ClustalX 1.83 and MEGA 4.1 were used to conduct the phylogeny analysis. The results were as follows: ITS 1, 5.8 S, ITS2 had as many genetic loci as 52.1%. Cluster analysis of the two kinds of markers were congruous and there were more genetic diversities in wild strains than in cultivated strains. SRAP and ITS techniques can be used to analyze the genetic diversity in the future study.