The CBF1 gene from Solanum lycopersicoides and Lycopersicon habrochaites was transferred into tobacco(Nicotiana tobacum L.) by agrobacterium-mediated leaf disc method. The transcriptomic differences of transgenic tobacco under low temperature stress were studied. The results showed that under low temperature stress,the low temperature tolerance of transgenic tobacco was higher than that of the wild type when the transgenic tobacco was under low temperature stress. Both SlCBF1 and LhCBF1 genes were overexpressed in ordinary tobacco. There were 53 differentially expressed genes,33 up-regulated genes and 20 down-regulated genes in transgenic tobacco plants expressing SlCBF1 and wild-type tobacco. There were 106 differentially expressed genes,62 genes up-regulated and 44 down-regulated genes in transgenic tobacco plants expressing LhCBF1 gene and wild-type tobacco.It is indicated that SlCBF1and LhCBF1 may play an important role in transgenic tobacco to obtain anti-low temperature. 