Trehalose can protect organisms against disadvantage conditions, such as high osmolarity, heat, oxidation, desiccation and freezing. the results showed that the ability to produce trehalose of soy sauce yeasts. The original strains is Zygosaccharomyces rouxii (S) and Torulopsis versatilis (T). The mutant strains is S3-2 and T3-5 were obtained by genome rearrangement on the basis of the original ones. The mutant strains have more advantages than the original strains in the tolerance of salt. The culture media was corn juice 13 Brix. The soy sauce yeast strains could accumulate more trehalose under salt and heat shock.