2.50
Hdl Handle:
http://hdl.handle.net/10033/302985
Title:
Dissecting the energy metabolism in Mycoplasma pneumoniae through genome-scale metabolic modeling.
Authors:
Wodke, Judith A H; Puchałka, Jacek; Lluch-Senar, Maria; Marcos, Josep; Yus, Eva; Godinho, Miguel; Gutiérrez-Gallego, Ricardo; dos Santos, Vitor A P Martins; Serrano, Luis; Klipp, Edda; Maier, Tobias
Abstract:
Mycoplasma pneumoniae, a threatening pathogen with a minimal genome, is a model organism for bacterial systems biology for which substantial experimental information is available. With the goal of understanding the complex interactions underlying its metabolism, we analyzed and characterized the metabolic network of M. pneumoniae in great detail, integrating data from different omics analyses under a range of conditions into a constraint-based model backbone. Iterating model predictions, hypothesis generation, experimental testing, and model refinement, we accurately curated the network and quantitatively explored the energy metabolism. In contrast to other bacteria, M. pneumoniae uses most of its energy for maintenance tasks instead of growth. We show that in highly linear networks the prediction of flux distributions for different growth times allows analysis of time-dependent changes, albeit using a static model. By performing an in silico knock-out study as well as analyzing flux distributions in single and double mutant phenotypes, we demonstrated that the model accurately represents the metabolism of M. pneumoniae. The experimentally validated model provides a solid basis for understanding its metabolic regulatory mechanisms.
Affiliation:
EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), Barcelona, Spain.
Citation:
Dissecting the energy metabolism in Mycoplasma pneumoniae through genome-scale metabolic modeling. 2013, 9:653 Mol. Syst. Biol.
Journal:
Molecular systems biology
Issue Date:
2013
URI:
http://hdl.handle.net/10033/302985
DOI:
10.1038/msb.2013.6
PubMed ID:
23549481
Type:
Article
Language:
en
ISSN:
1744-4292
Appears in Collections:
Publications of the RG Systems and synthetic biology (SSBI)

Full metadata record

DC FieldValue Language
dc.contributor.authorWodke, Judith A Hen
dc.contributor.authorPuchałka, Jaceken
dc.contributor.authorLluch-Senar, Mariaen
dc.contributor.authorMarcos, Josepen
dc.contributor.authorYus, Evaen
dc.contributor.authorGodinho, Miguelen
dc.contributor.authorGutiérrez-Gallego, Ricardoen
dc.contributor.authordos Santos, Vitor A P Martinsen
dc.contributor.authorSerrano, Luisen
dc.contributor.authorKlipp, Eddaen
dc.contributor.authorMaier, Tobiasen
dc.date.accessioned2013-10-08T13:50:36Z-
dc.date.available2013-10-08T13:50:36Z-
dc.date.issued2013-
dc.identifier.citationDissecting the energy metabolism in Mycoplasma pneumoniae through genome-scale metabolic modeling. 2013, 9:653 Mol. Syst. Biol.en
dc.identifier.issn1744-4292-
dc.identifier.pmid23549481-
dc.identifier.doi10.1038/msb.2013.6-
dc.identifier.urihttp://hdl.handle.net/10033/302985-
dc.description.abstractMycoplasma pneumoniae, a threatening pathogen with a minimal genome, is a model organism for bacterial systems biology for which substantial experimental information is available. With the goal of understanding the complex interactions underlying its metabolism, we analyzed and characterized the metabolic network of M. pneumoniae in great detail, integrating data from different omics analyses under a range of conditions into a constraint-based model backbone. Iterating model predictions, hypothesis generation, experimental testing, and model refinement, we accurately curated the network and quantitatively explored the energy metabolism. In contrast to other bacteria, M. pneumoniae uses most of its energy for maintenance tasks instead of growth. We show that in highly linear networks the prediction of flux distributions for different growth times allows analysis of time-dependent changes, albeit using a static model. By performing an in silico knock-out study as well as analyzing flux distributions in single and double mutant phenotypes, we demonstrated that the model accurately represents the metabolism of M. pneumoniae. The experimentally validated model provides a solid basis for understanding its metabolic regulatory mechanisms.en
dc.language.isoenen
dc.rightsArchived with thanks to Molecular systems biologyen
dc.subject.meshComputer Simulationen
dc.subject.meshEnergy Metabolismen
dc.subject.meshGene Expression Regulation, Bacterialen
dc.subject.meshGenome, Bacterialen
dc.subject.meshMetabolic Networks and Pathwaysen
dc.subject.meshModels, Biologicalen
dc.subject.meshMutationen
dc.subject.meshMycoplasma pneumoniaeen
dc.titleDissecting the energy metabolism in Mycoplasma pneumoniae through genome-scale metabolic modeling.en
dc.typeArticleen
dc.contributor.departmentEMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), Barcelona, Spain.en
dc.identifier.journalMolecular systems biologyen

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