Project description:Development of an updated genome-scale metabolic model of Clostridium thermocellum and its application for integration of multi-omics datasets
Project description:Lee2008 - Genome-scale metabolic network of
Clostridium acetobutylicum (iJL432)
This model is described in the article:
Genome-scale reconstruction
and in silico analysis of the Clostridium acetobutylicum ATCC
824 metabolic network.
Lee J, Yun H, Feist AM, Palsson
BØ, Lee SY.
Appl. Microbiol. Biotechnol. 2008 Oct;
80(5): 849-862
Abstract:
To understand the metabolic characteristics of Clostridium
acetobutylicum and to examine the potential for enhanced
butanol production, we reconstructed the genome-scale metabolic
network from its annotated genomic sequence and analyzed
strategies to improve its butanol production. The generated
reconstructed network consists of 502 reactions and 479
metabolites and was used as the basis for an in silico model
that could compute metabolic and growth performance for
comparison with fermentation data. The in silico model
successfully predicted metabolic fluxes during the acidogenic
phase using classical flux balance analysis. Nonlinear
programming was used to predict metabolic fluxes during the
solventogenic phase. In addition, essential genes were
predicted via single gene deletion studies. This genome-scale
in silico metabolic model of C. acetobutylicum should be useful
for genome-wide metabolic analysis as well as strain
development for improving production of biochemicals, including
butanol.
This model is hosted on
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and identified by:
MODEL1507180030.
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Project description:Investigation of whole genome gene expression level changes in a Clostridium difficile fur (ferric uptake regulator) mutant, compared to the wild type strain 630 erm. The fur mutant analyzed in this study is further described in Ho and Ellermeier (2015) J. Bacteriology
Project description:The purpose of this study was to determine the level of genomic content similarity among selected strains of Clostridium botuinum type F strains.
Project description:Toxin A and B from Clostridium difficile are the primary virulence factors in Clostridium difficile disease. The changes in gene transcription of human colon epithelial cells were investigated in vitro in order to better understand the many effects of both toxins.
Project description:Clostridium botulinum ATCC 3502 was grown in continuous culture at 39°C, subjected to heat shock at 45°C, and then continuously grown at 45°C. The goal was to determine the impact of stressful temperature to the whole genome expression profile and identify stress adaptation mechanisms.
