The cytochromes P450 (P450s) of higher plants play crucial roles in both primary metabolism and a wide variety of secondary metabolic processes, such as in the phenylpropanoid, terpenoid, and alkaloid pathways, which produce, for example, lignin monomers, flavonoids, anthocyanins, and species-specific phytoalexins (Schuler and Werck-Reichhart 2003). Plant P450s are also involved in the detoxification of xenobiotic chemicals such as herbicides (Schuler and Werck-Reichhart 2003;Nelson et al. 2004). Both the biosynthesis and degradation of plant growth regulators cannot be completed without the involvement of specific P450 protein families (Schuler and Werck-Reichhart 2003). In general, serious phenotypic changes including dwarfism, abnormal morphology, and differential hormonal responses have been the major driving forces of studies to clarify these P450 functions. A good background of natural product chemistry is also indispensable for the functional characterization of P450s. However, irrespective of the importance of plant P450 functions in both understanding plant biological processes and their possible applications as biocatalysts, no general key technology has been established to clarify the diverse enzymatic properties of P450s of unknown functions. For example, even in Arabidopsis thaliana the physiological functions of more than 70% of the P450 proteins remain unknown (Nelson et al. 2004).To develop a versatile experimental platform for P450 characterization, we streamlined a metabolic profiling system based on Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR/MS). Full-length cDNA clones of several Arabidopsis P450 genes encoding unknown functions were selected for the preparation of recombinant enzymes. Those P450s were constitutively expressed in parallel in a cultured cell system and whole plants. Reverse genetics approaches with T-DNA knockout mutants and RNA interference were also incorporated into this metabolic profiling scheme. Changes in the metabolic profiles of T87 cells resulting from P450 overexpression, if any, were evaluated with a comprehensive metabolomics approach Nakamura et al. 2007;Ohta et al. 2007).Here, we report examples of our metabolic profiling study of the CYP78A and CYP86C genes in Arabidopsis. There are six genes for CYP78A subfamily proteins in Arabidopsis, the catalytic properties of which are unknown. It has been reported that the CYP78A proteins are involved in plant developmental processes. Thus, CYP78A11 has been shown to be the PLASTOCHRON1 in rice, which controls the timing of lateral organ formation from the apical meristem (Miyoshi et al. Abstract Genome sequence analysis has revealed the presence of almost infinite numbers of cytochrome P450 genes in a variety of organisms. To establish a robust experimental platform from which to explore the catalytic potential of those putative P450 proteins, we have developed a comprehensive metabolic profiling system based on Fourier transform-ion cyclotron resonance mass spectrometry (FT-ICR/MS) analysis, to...