Comparative genomic analysis and constraint-based analysis of
genome-scale metabolic models of the genus Clostridia
Abstract
In recent years, bacteria from genus Clostridia have attracted
attention of research community because of their biofuel production
capabilities. Present study reports comparative genomic (CG) analysis of
48 genomes of solventogenic and saccharolytic Clostridia. We have
focused on central carbon metabolism and general stress response in the
analysis. Comprehensive summaries on comparison of general genome
features, COG categories, CDSs of the energy, catabolic, and sporulation
pathways are given. Furthermore, we have proposed two new genome-scale
metabolic (GSM) models iKK848 and iKK1425 for
Clostridium pasteurianum DSM 525 = ATCC 6013 and
Clostridium acetobutylicum ATCC 824, respectively. These GSM
models are most comprehensive in that they account for the largest
number of reactions, metabolites, and genes as compared to previous
models. Model quality and metabolic flux optimization for biomass growth
using iKK1425 and iKK848 are compared with previous
literature. Our models had the highest quality score of 61% and 77%.