Diauxic Growth Model

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: 2017-02-24 16:07
Modified: 2017-02-24 16:07

SBML model


iddiauxic_update
nameODE metabolite update
versionL3V1
timeh
substancemmol
extentmmol
volumel
aream2
lengthm
UnitDefinitions [15] name units sbo cvterm
h 3600 s
g g
m m
m2 m 2
l litre
per_h 1 3600 s
mmol_per_l 10 3 mole litre
g_per_l g litre
mmol 10 3 mole
per_g 1 g
g_per_mmol g 10 3 mole
mmol_per_h 10 3 mole 3600 s
mmol_per_hg 10 3 mole g 3600 s
mmol_per_lh 10 3 mole litre 3600 s
g_per_lh g litre 3600 s

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 10.8 mmol 10 3 mole litre
Ac acetate
bioreactor 0.4 mmol 10 3 mole litre
O2 oxygen
bioreactor 0.21 mmol 10 3 mole litre
X biomass
bioreactor 0.001 mmol 10 3 mole litre

Parameters [6] name value unit derived unit constant sbo cvterm
Y biomass [g_per_l] 1.0 g_per_l g litre
vGlcxt vGlcxt (FBA flux) 1.0 mmol_per_hg 10 3 mole g 3600 s
vAc vAc (FBA flux) 1.0 mmol_per_hg 10 3 mole g 3600 s
vO2 vO2 (FBA flux) 1.0 mmol_per_hg 10 3 mole g 3600 s
vX vX (FBA flux) 1.0 mmol_per_hg 10 3 mole g 3600 s
Km_vFBA Km_vFBA 0.02 mmol_per_l 10 3 mole litre

Rules [1]   assignment derived units sbo cvterm
Y = 1 X g litre

Reactions [4] name equation modifiers formula derived units sbo cvterm
update_Glcxt Glcxt ➞ vGlcxt Y bioreactor Glcxt Km_vFBA Glcxt 0.001 mole 3600 s
update_Ac Ac ➞ vAc Y bioreactor Ac Km_vFBA Ac 0.001 mole 3600 s
update_O2 O2 ➞ vO2 Y bioreactor O2 Km_vFBA O2 0.001 mole 3600 s
update_X ➞ X vX Y bioreactor 10 3 mole 3600 s