A relational database for the discovery of genes encoding amino acid biosynthetic enzymes in pathogenic fungi
Article first published online: 14 FEB 2003
Copyright © 2003 John Wiley & Sons, Ltd.
Comparative and Functional Genomics
Volume 4, Issue 1, pages 4–15, February 2003
How to Cite
Giles, P. F., Soanes, D. M. and Talbot, N. J. (2003), A relational database for the discovery of genes encoding amino acid biosynthetic enzymes in pathogenic fungi. Comp Funct Genom, 4: 4–15. doi: 10.1002/cfg.236
- Issue published online: 14 FEB 2003
- Article first published online: 14 FEB 2003
- Manuscript Accepted: 22 NOV 2002
- Manuscript Received: 3 SEP 2002
- Biotechnology and Biological Sciences Research Council, UK
- metabolic pathways;
- pathway analysis
Fungal phytopathogens continue to cause major economic impact, either directly, through crop losses, or due to the costs of fungicide application. Attempts to understand these organisms are hampered by a lack of fungal genome sequence data. A need exists, however, to develop specific bioinformatics tools to collate and analyse the sequence data that currently is available. A web-accessible gene discovery database (http://cogeme.ex.ac.uk/biosynthesis.html) was developed as a demonstration tool for the analysis of metabolic and signal transduction pathways in pathogenic fungi using incomplete gene inventories. Using Bayesian probability to analyse the currently available gene information from pathogenic fungi, we provide evidence that the obligate pathogen Blumeria graminis possesses all amino acid biosynthetic pathways found in free-living fungi, such as Saccharomyces cerevisiae. Phylogenetic analysis was also used to deduce a gene history of succinate-semialdehyde dehydrogenase, an enzyme in the glutamate and lysine biosynthesis pathways. The database provides a tool and methodology to researchers to direct experimentation towards predicting pathway conservation in pathogenic microorganisms. Copyright © 2003 John Wiley & Sons, Ltd.