A functional genomics strategy that uses metabolome data to reveal the phenotype of silent mutations. Export

@article{raamsdonk2001, abstract = {A large proportion of the 6,000 genes present in the genome of Saccharomyces cerevisiae, and of those sequenced in other organisms, encode proteins of unknown function. Many of these genes are "silent, " that is, they show no overt phenotype, in terms of growth rate or other fluxes, when they are deleted from the genome. We demonstrate how the intracellular concentrations of metabolites can reveal phenotypes for proteins active in metabolic regulation. Quantification of the change of several metabolite concentrations relative to the concentration change of one selected metabolite can reveal the site of action, in the metabolic network, of a silent gene. In the same way, comprehensive analyses of metabolite concentrations in mutants, providing "metabolic snapshots," can reveal functions when snapshots from strains deleted for unstudied genes are compared to those deleted for known genes. This approach to functional analysis, using comparative metabolomics, we call FANCY-an abbreviation for functional analysis by co-responses in yeast.}, address = {Swammerdam Institute for Life Sciences, BioCentrum Amsterdam, University of Amsterdam, Plantage Muidergracht 12, NL-1018 TV Amsterdam, The Netherlands.}, author = {Raamsdonk, L. M. and Teusink, B. and Broadhurst, D. and Zhang, N. and Hayes, A. and Walsh, M. C. and Berden, J. A. and Brindle, K. M. and Kell, D. B. and Rowland, J. J. and Westerhoff, H. V. and van Dam, K. and Oliver, S. G.}, citeulike-article-id = {326}, citeulike-linkout-0 = {http://dx.doi.org/10.1038/83496}, citeulike-linkout-1 = {http://dx.doi.org/10.1038/nbt0101_45}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/11135551}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=11135551}, doi = {10.1038/83496}, issn = {1087-0156}, journal = {Nature Biotechnology}, keywords = {gene-dispensability, mdb-thesis, yeast}, month = {January}, number = {1}, pages = {45--50}, posted-at = {2009-07-06 16:35:13}, priority = {1}, title = {A functional genomics strategy that uses metabolome data to reveal the phenotype of silent mutations.}, url = {http://dx.doi.org/10.1038/83496}, volume = {19}, year = {2001} }

TY - JOUR ID - raamsdonk2001 L3 - citeulike-article-id:326 N2 - A large proportion of the 6,000 genes present in the genome of Saccharomyces cerevisiae, and of those sequenced in other organisms, encode proteins of unknown function. Many of these genes are "silent, " that is, they show no overt phenotype, in terms of growth rate or other fluxes, when they are deleted from the genome. We demonstrate how the intracellular concentrations of metabolites can reveal phenotypes for proteins active in metabolic regulation. Quantification of the change of several metabolite concentrations relative to the concentration change of one selected metabolite can reveal the site of action, in the metabolic network, of a silent gene. In the same way, comprehensive analyses of metabolite concentrations in mutants, providing "metabolic snapshots," can reveal functions when snapshots from strains deleted for unstudied genes are compared to those deleted for known genes. This approach to functional analysis, using comparative metabolomics, we call FANCY-an abbreviation for functional analysis by co-responses in yeast. IS - 1 JF - Nature Biotechnology SN - 1087-0156 AD - Swammerdam Institute for Life Sciences, BioCentrum Amsterdam, University of Amsterdam, Plantage Muidergracht 12, NL-1018 TV Amsterdam, The Netherlands. EP - 50 TI - A functional genomics strategy that uses metabolome data to reveal the phenotype of silent mutations. VL - 19 SP - 45 KW - gene-dispensability KW - mdb-thesis KW - yeast AU - Raamsdonk, LM AU - Teusink, B AU - Broadhurst, D AU - Zhang, N AU - Hayes, A AU - Walsh, MC AU - Berden, JA AU - Brindle, KM AU - Kell, DB AU - Rowland, JJ AU - Westerhoff, HV AU - van Dam, K AU - Oliver, SG PY - 2001/01// UR - http://dx.doi.org/10.1038/83496 ER -