biostudies-otherUnknown8Nicolas Le NovèreGenome biologyR89https://www.ebi.ac.uk/biostudies/studies/MODEL1507180021biostudies-other17521419Nicolas Le NovèrefalseBeste2007 - Genome-scale metabolic network of Mycobacterium tuberculosis (GSMN_TB)<notes xmlns="http://www.sbml.org/sbml/level3/version1/core"> <body xmlns="http://www.w3.org/1999/xhtml"> <div class="dc:title">Beste2007 - Genome-scale metabolic network ofMycobacterium tuberculosis (GSMN_TB)</div><div class="dc:bibliographicCitation"> <p>This model is described in the article:</p> <div class="bibo:title"> <a href="http://identifiers.org/pubmed/17521419" title="Access to this publication">GSMN-TB: a web-based genome-scale network model of Mycobacterium tuberculosis metabolism.</a> </div> <div class="bibo:authorList">Beste DJ, Hooper T, Stewart G, Bonde B, Avignone-Rossa C, Bushell ME, Wheeler P, Klamt S, Kierzek AM, McFadden J.</div> <div class="bibo:Journal">Genome Biol. 2007; 8(5): R89</div> <p>Abstract:</p> <div class="bibo:abstract"> <p>BACKGROUND: An impediment to the rational development of novel drugs against tuberculosis (TB) is a general paucity of knowledge concerning the metabolism of Mycobacterium tuberculosis, particularly during infection. Constraint-based modeling provides a novel approach to investigating microbial metabolism but has not yet been applied to genome-scale modeling of M. tuberculosis. RESULTS: GSMN-TB, a genome-scale metabolic model of M. tuberculosis, was constructed, consisting of 849 unique reactions and 739 metabolites, and involving 726 genes. The model was calibrated by growing Mycobacterium bovis bacille Calmette Guérin in continuous culture and steady-state growth parameters were measured. Flux balance analysis was used to calculate substrate consumption rates, which were shown to correspond closely to experimentally determined values. Predictions of gene essentiality were also made by flux balance analysis simulation and were compared with global mutagenesis data for M. tuberculosis grown in vitro. A prediction accuracy of 78% was achieved. Known drug targets were predicted to be essential by the model. The model demonstrated a potential role for the enzyme isocitrate lyase during the slow growth of mycobacteria, and this hypothesis was experimentally verified. An interactive web-based version of the model is available. CONCLUSION: The GSMN-TB model successfully simulated many of the growth properties of M. tuberculosis. The model provides a means to examine the metabolic flexibility of bacteria and predict the phenotype of mutants, and it highlights previously unexplored features of M. tuberculosis metabolism.</p> </div></div><div class="dc:publisher"> <p>This model is hosted on <a href="http://www.ebi.ac.uk/biomodels/">BioModels Database</a> and identified by: <a href="http://identifiers.org/biomodels.db/MODEL1507180021">MODEL1507180021</a>.</p> <p>To cite BioModels Database, please use: <a href="http://identifiers.org/pubmed/20587024" title="Latest BioModels Database publication">BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models</a>.</p></div><div class="dc:license"> <p>To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to <a href="http://creativecommons.org/publicdomain/zero/1.0/" title="Access to: CC0 1.0 Universal (CC0 1.0), Public Domain Dedication">CC0 Public Domain Dedication</a> for more information.</p></div></body> </notes>2015-07-18T00:00:00Z2025-07-15T09:10:46.035Z2025-03-30T21:57:58.702ZMODEL150718002117521419MAMO_0000009null