Diauxic Growth Model

Model version: 10

UPDATE submodel

Submodel for dynamically updating the metabolite count. This updates the ode model based on the FBA fluxes.

Description

Dynamic Flux Balance Analysis of Diauxic Growth in Escherichia coli

The key variables in the mathematical model of the metabolic network are the glucose concentration (Glcxt), the acetate concentration (Ac), the biomass concentration (X), and the oxygen concentration (O2) in the gas phase.

This file has been produced by Matthias Koenig.

Terms of use

Copyright © 2017 Matthias Koenig

Redistribution and use of any part of this model, with or without modification, are permitted provided that the following conditions are met:

  1. Redistributions of this SBML file must retain the above copyright notice, this list of conditions and the following disclaimer.
  2. Redistributions in a different form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution.
This model is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.


Model : diauxic_update

Creator
Matthias, Koenig, Humboldt University Berlin, konigmatt@googlemail.com
Created: 2017-04-03 16:49
Modified: 2017-04-03 16:49

SBML model


iddiauxic_update
namediauxic (UPDATE)
versionL3V1
timeh
substancemmol
extentmmol
volumel
aream2
lengthm
UnitDefinitions [12] name units sbo cvterm
h 3600 s
g g
m m
m2 m 2
l litre
mmol 10 3 mole
per_h 1 3600 s
mmol_per_h 10 3 mole 3600 s
mmol_per_l 10 3 mole litre
l_per_mmol litre 10 3 mole
g_per_l g litre
g_per_mmol g 10 3 mole

Compartments [1] name size constant spatial dimensions unit derived unit sbo cvterm
bioreactor bioreactor 1.0 3 l litre

Species [4] name compartment boundary condition constant initial amount initial concentration substance units derived units sbo cvterm
Glcxt glucose
bioreactor 1.0 mmol 10 3 mole litre
Ac acetate
bioreactor 1.0 mmol 10 3 mole litre
O2 oxygen
bioreactor 1.0 mmol 10 3 mole litre
X biomass
bioreactor 1.0 mmol 10 3 mole litre

Parameters [4] name value unit derived unit constant sbo cvterm
EX_Glcxt 1.0 mmol_per_h 10 3 mole 3600 s
EX_Ac 1.0 mmol_per_h 10 3 mole 3600 s
EX_O2 1.0 mmol_per_h 10 3 mole 3600 s
EX_X 1.0 mmol_per_h 10 3 mole 3600 s

Reactions [4] name equation modifiers formula derived units sbo cvterm
update_Glcxt Glcxt ⇆ X
EX_Glcxt X 1 0.001 mole 3600 s
update_Ac Ac ⇆ X
EX_Ac X 1 0.001 mole 3600 s
update_O2 O2 ⇆ X
EX_O2 X 1 0.001 mole 3600 s
update_X X ⇆ X
EX_X X 1 0.001 mole 3600 s