Abiotic stresses such as extreme temperatures frequently limit the plant growth and productivity of major crop species. Two Chinese cabbage DH lines that have different geographic origins, in that Chiifu is from temperate regions, while Kenshin is from subtropical and tropical regions have been expected to show the specific response to high or low temperature. To find the temperature response genes between Chiifu and Kenshin, we analyzed transcriptomic profiling from light-chilling (6h at 4°C) and high temperature (6h at 38°C) treated plants using the KBGP-24K chip. Distribution of genes classified by PI (probe intensity) values showed remarkable difference between Chiifu and Kenshin. The number of genes up- and down-regulated gens by both temperatures were 135 and 79 genes, respectively. These genes may be temperature stress-related genes. Genes involved in the response to stress were changed by light-chilling stress. Chiifu specifically up-regulated genes upon light chilling-stress belong to cold acclimation proteins, calcium binding proteins, cell wall biogenesis proteins and lipoxygenase. On the other hand, Kenshin specifically up-regulated genes by heat-shock treatment include heat-shock proteins, phosphatases, protein folding and phosphorylation-associated ones. Further study on these specific genes function may provide insight to adaptation of Chinese cabbage and clue to develop molecular markers.