Metabolic Control Analysis of Glycerol Synthesis in Saccharomyces cerevisiae
Catherine
Lloyd
Auckland Bioengineering Institute, The University of Auckland
Model Status
This model runs in COR and OpenCell and the units are consistent throughout. The model does not currently reproduce the published results, possibly due to missing parameter values in the paper.
Model Structure
ABSTRACT: Glycerol, a major by-product of ethanol fermentation by Saccharomyces cerevisiae, is of significant importance to the wine, beer, and ethanol production industries. To gain a clearer understanding of and to quantify the extent to which parameters of the pathway affect glycerol flux in S. cerevisiae, a kinetic model of the glycerol synthesis pathway has been constructed. Kinetic parameters were collected from published values. Maximal enzyme activities and intracellular effector concentrations were determined experimentally. The model was validated by comparing experimental results on the rate of glycerol production to the rate calculated by the model. Values calculated by the model agreed well with those measured in independent experiments. The model also mimics the changes in the rate of glycerol synthesis at different phases of growth. Metabolic control analysis values calculated by the model indicate that the NAD(+)-dependent glycerol 3-phosphate dehydrogenase-catalyzed reaction has a flux control coefficient (C(J)v1) of approximately 0.85 and exercises the majority of the control of flux through the pathway. Response coefficients of parameter metabolites indicate that flux through the pathway is most responsive to dihydroxyacetone phosphate concentration (R(J)DHAP= 0.48 to 0.69), followed by ATP concentration (R(J)ATP = -0.21 to -0.50). Interestingly, the pathway responds weakly to NADH concentration (R(J)NADH = 0.03 to 0.08). The model indicates that the best strategy to increase flux through the pathway is not to increase enzyme activity, substrate concentration, or coenzyme concentration alone but to increase all of these parameters in conjunction with each other.
The complete original paper reference is cited below:
Metabolic Control Analysis of Glycerol Synthesis in Saccharomyces cerevisiae
, Garth R. Cronwright, Johann M. Rohwer, and Bernard A. Prior, 2002,
Applied and Environmental Microbiology
, 68, 4448-4456. PubMed ID: 12200299
reaction diagram
Schematic diagram of the glycerol synthesis pathway in Saccharomyces cerevisiae.
F16BP
Fructose 1,6-bisphosphate
G3P
Glycerol 3-phosphate
DHAP
Dihydroxyecetone phosphate
ATP
Adenosine triphosphate
ADP
Adenosine diphosphate
NADH
Nicotinamide adenine dinucleotide
NADH
Oxidised nicotinamide adenine dinucleotide
PiH
Inorganic phosphate
The University of Auckland, Auckland Bioengineering Institute
Applied and Environmental Microbiology
keyword
yeast
glycerol
metabolism
Metabolic Control Analysis of Glycerol Synthesis in Saccharomyces cerevisiae
68
4448
4456
2009-06-08T13:32:16+12:00
Catherine Lloyd
James
Lawson
Richard
Catherine
Lloyd
May
Garth
Cronwright
R
Johann
Rohwer
M
updated curation status,
removed reference link from publication
This is the CellML description of Cronwright et al.'s 2002 metabolic control analysis of glycerol synthesis in Saccharomyces cerevisiae.
Cronwright et al.'s 2002 metabolic control analysis of glycerol synthesis in Saccharomyces cerevisiae.
Saccharomyces cerevisiae
The University of Auckland
Auckland Bioengineering Institute
c.lloyd@auckland.ac.nz
2004-01-22T00:00:00+00:00
12200299
2002-09
Bernard
Prior
A
$\mathrm{F16BP}=0$
$\frac{d \mathrm{G3P}}{d \mathrm{time}}=-\mathrm{V\_Gpp\_p}+\mathrm{V\_Gpd\_p}$
$\mathrm{DHAP}=0.59$
$\mathrm{ATP}=2.37$
$\mathrm{ADP}=2.17$
$\mathrm{NADH}=1.87$
$\mathrm{NAD}=1.45$
$\mathrm{Pi\_}=2.17$
$\mathrm{V\_Gpd\_p}=\frac{\frac{\mathrm{Vf}}{\mathrm{K\_NADH}\mathrm{K\_DHAP}}(\mathrm{NADH}\mathrm{DHAP}-\frac{\mathrm{NAD}\mathrm{G3P}}{\mathrm{K\_eq}})}{(1+\frac{\mathrm{F16BP}}{\mathrm{K\_F16BP}}+\frac{\mathrm{ATP}}{\mathrm{K\_ATP}}+\frac{\mathrm{ADP}}{\mathrm{K\_ADP}})(1+\frac{\mathrm{NADH}}{\mathrm{K\_NADH}}+\frac{\mathrm{NAD}}{\mathrm{K\_NAD}})(1+\frac{\mathrm{DHAP}}{\mathrm{K\_DHAP}}+\frac{\mathrm{G3P}}{\mathrm{K\_G3P}})}$
$\mathrm{V\_Gpp\_p}=\frac{\frac{V\mathrm{G3P}}{\mathrm{K\_G3P}}}{(1+\frac{\mathrm{G3P}}{\mathrm{K\_G3P}})(1+\frac{\mathrm{Pi\_}}{\mathrm{K\_Pi}})}$