title: Impact of genome reduction on bacterial metabolism and its regulation.
abstract: To understand basic principles of bacterial metabolism organization and regulation, but also the impact of genome size, we systematically studied one of the smallest bacteria, Mycoplasma pneumoniae. A manually curated metabolic network of 189 reactions catalyzed by 129 enzymes allowed the design of a defined, minimal medium with 19 essential nutrients. More than 1300 growth curves were recorded in the presence of various nutrient concentrations. Measurements of biomass indicators, metabolites, and 13C-glucose experiments provided information on directionality, fluxes, and energetics; integration with transcription profiling enabled the global analysis of metabolic regulation. Compared with more complex bacteria, the M. pneumoniae metabolic network has a more linear topology and contains a higher fraction of multifunctional enzymes; general features such as metabolite concentrations, cellular energetics, adaptability, and global gene expression responses are similar, however.
authors: Centre for Genomic Regulation (CRG) and Universitat Pompeu Fabra, Avenida Dr. Aiguader 88, 08003 Barcelona, Spain.
authors: Eva
authors: E
authors: Yus
authors: Tobias
authors: T
authors: Maier
authors: Konstantinos
authors: K
authors: Michalodimitrakis
authors: Vera
authors: V
authors: van Noort
authors: Takuji
authors: T
authors: Yamada
authors: Wei-Hua
authors: WH
authors: Chen
authors: Judith A H
authors: JA
authors: Wodke
authors: Marc
authors: M
authors: Güell
authors: Sira
authors: S
authors: Martínez
authors: Ronan
authors: R
authors: Bourgeois
authors: Sebastian
authors: S
authors: Kühner
authors: Emanuele
authors: E
authors: Raineri
authors: Ivica
authors: I
authors: Letunic
authors: Olga V
authors: OV
authors: Kalinina
authors: Michaela
authors: M
authors: Rode
authors: Richard
authors: R
authors: Herrmann
authors: Ricardo
authors: R
authors: Gutiérrez-Gallego
authors: Robert B
authors: RB
authors: Russell
authors: Anne-Claude
authors: AC
authors: Gavin
authors: Peer
authors: P
authors: Bork
authors: Luis
authors: L
authors: Serrano
mesh_terms: D000255:Adenosine Triphosphate / Q000378:metabolism; D001426:Bacterial Proteins / Q000378:metabolism*; D003470:Culture Media; D004734:Energy Metabolism; D004798:Enzymes / Q000235:genetics / Q000378:metabolism; D020869:Gene Expression Profiling; D015964:Gene Expression Regulation, Bacterial; D016680:Genome, Bacterial; D006019:Glycolysis; D053858:Metabolic Networks and Pathways; D009177:Mycoplasma pneumoniae / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism*; D012329:RNA, Bacterial / Q000235:genetics / Q000378:metabolism; D015398:Signal Transduction; D049490:Systems Biology; D014158:Transcription, Genetic; D012407:rRNA Operon
chemical_list: D001426:Bacterial Proteins; D003470:Culture Media; D004798:Enzymes; D012329:RNA, Bacterial; D000255:Adenosine Triphosphate