Paper ID: 361
The Francis Crick Institute (United Kingdom)
Genome-metabolism interactions enable cell growth, but so far only a relatively small fraction of the genome has been annotated to operate in metabolism. To probe the extent of these interactions and delineate their functional contributions, we quantified the Saccharomyces amino acid metabolome in all strains of the genome-spanning knock-out collection that can be rendered prototrophic and be grown on minimal media. Over one-third of coding genes, in particular those important for chromatin dynamics, translation, and transport, contribute to biosynthetic metabolism. Specific amino acid signatures characterize genes of similar function. This enabled us to exploit functional metabolomics to connect metabolic regulators to their effectors, as exemplified by TORC1, whose inhibition in exponentially growing cells is shown to match an interruption in endomembrane transport. Providing orthogonal information compared to physical and genetic interaction networks, metabolomic signatures cluster more than half of the so far uncharacterized yeast genes and provide functional annotation for them. A major part of coding genes is therefore participating in gene-metabolism interactions that expose the metabolism regulatory network and enable access to an underexplored space in gene function.