In order to study the molecular mechanisms of cold-adaption and PPT accumulation to understand why P. hexandrum adapts to chilling temperature, the differentially expressed proteins (DAPs) of P. hexandrum seedling exposed to chilling temperatures (4 and 10°C, 22°C as control) were conducted by using 2-DE in combination with MALDI-TOF-MS, a total of 35 DAP spots were detected and identified. Interestingly, 14 of the 35 DAPs played key roles in PPT biosynthesis, and 21 proteins participated in growth and development. These protein spots were classified into 7 functional categories, including PPT biosynthesis, primary metabolism, transcription and protein synthesis, cell growth/division, defense, transport, and energy. The present data would be useful in better understanding the molecular basis of chilling temperature response in P. hexandrum.