Teusink2006 - Genome-scale metabolic network of Lactobacillus plantarum (iBT721)

Teusink2006 - Genome-scale metabolic network
of Lactobacillus plantarum (iBT721)

This model is described in the article:

Analysis of growth of
Lactobacillus plantarum WCFS1 on a complex medium using a
genome-scale metabolic model.

Teusink B, Wiersma A, Molenaar D,
Francke C, de Vos WM, Siezen RJ, Smid EJ.
J. Biol. Chem. 2006 Dec; 281(52):
40041-40048
Abstract:

A genome-scale metabolic model of the lactic acid bacterium
Lactobacillus plantarum WCFS1 was constructed based on genomic
content and experimental data. The complete model includes 721
genes, 643 reactions, and 531 metabolites. Different
stoichiometric modeling techniques were used for interpretation
of complex fermentation data, as L. plantarum is adapted to
nutrient-rich environments and only grows in media supplemented
with vitamins and amino acids. (i) Based on experimental input
and output fluxes, maximal ATP production was estimated and
related to growth rate. (ii) Optimization of ATP production
further identified amino acid catabolic pathways that were not
previously associated with free-energy metabolism. (iii)
Genome-scale elementary flux mode analysis identified 28
potential futile cycles. (iv) Flux variability analysis
supplemented the elementary mode analysis in identifying
parallel pathways, e.g. pathways with identical end products
but different co-factor usage. Strongly increased flexibility
in the metabolic network was observed when strict coupling
between catabolic ATP production and anabolic consumption was
relaxed. These results illustrate how a genome-scale metabolic
model and associated constraint-based modeling techniques can
be used to analyze the physiology of growth on a complex medium
rather than a minimal salts medium. However, optimization of
biomass formation using the Flux Balance Analysis approach,
reported to successfully predict growth rate and by product
formation in Escherichia coli and Saccharomyces cerevisiae,
predicted too high biomass yields that were incompatible with
the observed lactate production. The reason is that this
approach assumes optimal efficiency of substrate to biomass
conversion, and can therefore not predict the metabolically
inefficient lactate formation.

This model is hosted on
BioModels Database
and identified by:
MODEL1507180045.
To cite BioModels Database, please use:
BioModels Database:
An enhanced, curated and annotated resource for published
quantitative kinetic models.

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
CC0
Public Domain Dedication for more information.