Abstract: Zymomonas mobilis is known as an example of the
uncoupled growth phenomenon. This microorganism also has a
unique metabolism that degrades glucose by the Entner–Doudoroff
(ED) pathway. In this paper, a genome-scale metabolic model
including 434 genes, 757 reactions and 691 metabolites was
reconstructed to simulate uncoupled growth and study its effect on
flux distribution in the central metabolism. The model properly
predicted that ATPase was activated in experimental growth yields of
Z. mobilis. Flux distribution obtained from model indicates that the
major carbon flux passed through ED pathway that resulted in the
production of ethanol. Small amounts of carbon source were entered
into pentose phosphate pathway and TCA cycle to produce biomass
precursors. Predicted flux distribution was in good agreement with
experimental data. The model results also indicated that Z. mobilis
metabolism is able to produce biomass with maximum growth yield
of 123.7 g (mol glucose)-1 if ATP synthase is coupled with growth
and produces 82 mmol ATP gDCW-1h-1. Coupling the growth and
energy reduced ethanol secretion and changed the flux distribution to
produce biomass precursors.
Abstract: Prediction of perturbations after genetic manipulation
(especially gene knockout) is one of the important challenges in
systems biology. In this paper, a new algorithm is introduced that
integrates microarray data into the metabolic model. The algorithm
was used to study the change in the cell phenotype after knockout of
Gss gene in Escherichia coli BW25113. Algorithm implementation
indicated that gene deletion resulted in more activation of the
metabolic network. Growth yield was more and less regulating gene
were identified for mutant in comparison with the wild-type strain.