title: Large-scale metabolome analysis and quantitative integration with genomics and proteomics data in Mycoplasma pneumoniae.
abstract: Systems metabolomics, the identification and quantification of cellular metabolites and their integration with genomics and proteomics data, promises valuable functional insights into cellular biology. However, technical constraints, sample complexity issues and the lack of suitable complementary quantitative data sets prevented accomplishing such studies in the past. Here, we present an integrative metabolomics study of the genome-reduced bacterium Mycoplasma pneumoniae. We experimentally analysed its metabolome using a cross-platform approach. We explain intracellular metabolite homeostasis by quantitatively integrating our results with the cellular inventory of proteins, DNA and other macromolecules, as well as with available building blocks from the growth medium. We calculated in vivo catalytic parameters of glycolytic enzymes, making use of measured reaction velocities, as well as enzyme and metabolite pool sizes. A quantitative, inter-species comparison of absolute and relative metabolite abundances indicated that metabolic pathways are regulated as functional units, thereby simplifying adaptive responses. Our analysis demonstrates the potential for new scientific insight by integrating different types of large-scale experimental data from a single biological source.
authors.affiliation: EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), Dr Aiguader 88, 08003 Barcelona, Spain. tobias.maier@crg.es
authors.forename: Tobias
authors.initials: T
authors.lastname: Maier
authors.forename: Josep
authors.initials: J
authors.lastname: Marcos
authors.forename: Judith A H
authors.initials: JA
authors.lastname: Wodke
authors.forename: Bernhard
authors.initials: B
authors.lastname: Paetzold
authors.forename: Manuel
authors.initials: M
authors.lastname: Liebeke
authors.forename: Ricardo
authors.initials: R
authors.lastname: Gutiérrez-Gallego
authors.forename: Luis
authors.initials: L
authors.lastname: Serrano
mesh_terms: D000596:Amino Acids / Q000378:metabolism; D023281:Genomics / Q000379:methods; D006019:Glycolysis; D055442:Metabolome; D055432:Metabolomics / Q000379:methods; D009177:Mycoplasma pneumoniae / Q000235:genetics* / Q000378:metabolism*; D020543:Proteome; D040901:Proteomics / Q000379:methods
chemical_list: D000596:Amino Acids; D020543:Proteome