ABSTRACT:
This is the genome scale metabolic reconstruction of Lactobacillus plantarum described in the article:
Understanding the physiology of Lactobacillus plantarum at zero growth.
Goffin P, van de Bunt B, Giovane M, Leveau JH, Höppener-Ogawa S, Teusink B, Hugenholtz J. Mol Syst Biol.
M 2010 Sep 21;6:413. PMID: 20865006
, DOI: 10.1038/msb.2010.67
Abstract:
Situations of extremely low substrate availability, resulting in slow growth, are common in natural environments. To mimic these conditions, Lactobacillus plantarum was grown in a carbon-limited retentostat with complete biomass retention. The physiology of extremely slow-growing L. plantarum--as studied by genome-scale modeling and transcriptomics--was fundamentally different from that of stationary-phase cells. Stress resistance mechanisms were not massively induced during transition to extremely slow growth. The energy-generating metabolism was remarkably stable and remained largely based on the conversion of glucose to lactate. The combination of metabolic and transcriptomic analyses revealed behaviors involved in interactions with the environment, more particularly with plants: production of plant hormones or precursors thereof, and preparedness for the utilization of plant-derived substrates. Accordingly, the production of compounds interfering with plant root development was demonstrated in slow-growing L. plantarum. Thus, conditions of slow growth and limited substrate availability seem to trigger a plant environment-like response, even in the absence of plant-derived material, suggesting that this might constitute an intrinsic behavior in L. plantarum.
This model was downloaded from the supplementary materials ( link
) to the article. To make this file valid SBML the units of all parameters where changed from mmole per gDW per hour to mmole per hour. The model can be used eg. fpr FBA with the COBRA toolbox
, amongst others. This model originates from BioModels Database: A Database of Annotated Published Models (http://www.ebi.ac.uk/biomodels/). It is copyright (c) 2005-2011 The BioModels.net Team.
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for more information. In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not..
To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.
Lukas Endler 
