Combining genomics, metabolome analysis, and biochemical modelling to understand metabolic networks
Article first published online: 21 JUN 2001
Copyright © 2001 John Wiley & Sons, Ltd.
Comparative and Functional Genomics
Volume 2, Issue 3, pages 155–168, June 2001
How to Cite
Fiehn, O. (2001), Combining genomics, metabolome analysis, and biochemical modelling to understand metabolic networks. Comp Funct Genom, 2: 155–168. doi: 10.1002/cfg.82
- Issue published online: 21 JUN 2001
- Article first published online: 21 JUN 2001
- Manuscript Accepted: 5 APR 2001
- Manuscript Received: 30 MAR 2001
- functional genomics;
- metabolite profiling;
- mass spectrometry;
- mathematical modeling
Now that complete genome sequences are available for a variety of organisms, the elucidation of gene functions involved in metabolism necessarily includes a better understanding of cellular responses upon mutations on all levels of gene products, mRNA, proteins, and metabolites. Such progress is essential since the observable properties of organisms – the phenotypes – are produced by the genotype in juxtaposition with the environment. Whereas much has been done to make mRNA and protein profiling possible, considerably less effort has been put into profiling the end products of gene expression, metabolites. To date, analytical approaches have been aimed primarily at the accurate quantification of a number of pre-defined target metabolites, or at producing fingerprints of metabolic changes without individually determining metabolite identities. Neither of these approaches allows the formation of an in-depth understanding of the biochemical behaviour within metabolic networks. Yet, by carefully choosing protocols for sample preparation and analytical techniques, a number of chemically different classes of compounds can be quantified simultaneously to enable such understanding. In this review, the terms describing various metabolite-oriented approaches are given, and the differences among these approaches are outlined. Metabolite target analysis, metabolite profiling, metabolomics, and metabolic fingerprinting are considered. For each approach, a number of examples are given, and potential applications are discussed. Copyright © 2001 John Wiley & Sons, Ltd.