Abstract:Metabonomics, a new science and technology, was developed in mid 1990s. It refers to a holistic analytical approach to all the low molecular weight metabolites in an organism or cells. The application of the science across the biology and pharmaceutical technology has a vast potential for future development. This paper briefly introduces the general of metabonomics, the application of metabonomics in Chinese Traditional Medicine, Chinese herbal resources, pharmacology, toxicology and clinical. Finally, the problems and future perspectives of metabolomics research are discussed and several ideas are also put forward.