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type: SpeciesReference

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value: 0.0075
name: X_AcDH
type: Parameter

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species: 106426
type: SpeciesReference

BIOMD0000000245
parameter: 106529
parameter: 106506
reaction: 106456
is described by: http://identifiers.org/pubmed/11434967
reaction: 106462
parameter: 106503
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parameter: 106511
reaction: 106458
type: SBMLModel
parameter: 106532
species: 106432
parameter: 106501
is: MODEL1003250000
species: 106433
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reaction: 106442
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parameter: 106504
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species: 106429
units def: 845223
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rule: 106484
area units: metaid_0000005
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species: 106436
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units def: 845320
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reaction: 106438
species: 106424
reaction: 106459
occurs in: http://identifiers.org/taxonomy/4932
parameter: 106493
parameter: 106513
units def: 845368
parameter: 106534
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parameter: 106496
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parameter: 106502
reaction: 106452
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species: 106431
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species: 106428
length unit: length
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parameter: 106528
parameter: 106499
time units: 845175
parameter: 106519
notes: This the model from the article: A biochemically structured model for Saccharomyces cerevisiae. Lei F, Rotbøll M, Jørgensen SB. J Biotechnol. 2001 Jul 12;88(3):205-21. PMID: 11434967 ,DOI: 10.1016/S0168-1656(01)00269-3 Abstract: A biochemically structured model for the aerobic growth of Saccharomyces cerevisiae on glucose and ethanol is presented. The model focuses on the pyruvate and acetaldehyde branch points where overflow metabolism occurs when the growth changes from oxidative to oxido-reductive. The model is designed to describe the onset of aerobic alcoholic fermentation during steady-state as well as under dynamical conditions, by triggering an increase in the glycolytic flux using a key signalling component which is assumed to be closely related to acetaldehyde. An investigation of the modelled process dynamics in a continuous cultivation revealed multiple steady states in a region of dilution rates around the transition between oxidative and oxido-reductive growth. A bifurcation analysis using the two external variables, the dilution rate, D, and the inlet concentration of glucose, S(f), as parameters, showed that a fold bifurcation occurs close to the critical dilution rate resulting in multiple steady-states. The region of dilution rates within which multiple steady states may occur depends strongly on the substrate feed concentration. Consequently a single steady state may prevail at low feed concentrations, whereas multiple steady states may occur over a relatively wide range of dilution rates at higher feed concentrations. This model originates from BioModels Database: A Database of Annotated Published Models. It is copyright (c) 2005-2010 The BioModels Team. For more information see the terms of use . To cite BioModels Database, please use Le Novère N., Bornstein B., Broicher A., Courtot M., Donizelli M., Dharuri H., Li L., Sauro H., Schilstra M., Shapiro B., Snoep J.L., Hucka M. (2006) BioModels Database: A Free, Centralized Database of Curated, Pub…

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reactant: 846151
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reversible: false
name: Glucose inflow
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106432
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name: BM(active)
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106493
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value: 0.584
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846308
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845501
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value: 0.1
name: X_a
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845404
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846212
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845983
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846284
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106453
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reversible: false
name: Glucose outflow
type: Reaction

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stoichiometry: 1.363
species: 106427
type: SpeciesReference

106433
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constant: false
boundary condition: true
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initial concentration: 0.0
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845272
exponent: -1.0
scale: 0
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kind: LITRE
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106539
constant: true
units: 845223
value: 0.1
name: Dilutionrate
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kinetic law: 846344
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fast: false
reversible: false
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845923
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845513
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106519
constant: true
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value: 0.0125
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modifier: 845597
reactant: 845561
type: Reaction
name: Pyruvate Dehydrogenase
reversible: false
fast: false
is version of: GO:0004738
kinetic law: 845609
has version: http://identifiers.org/ec-code/2.3.1.12
product: 845585
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is version of: R00209

845995
stoichiometry: 1.0
species: 106433
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modifier: 846127
reactant: 846115
is version of: GO:0030163
is: SBO:0000179
fast: false
reversible: false
name: Acdh degradation
type: Reaction

846055
stoichiometry: 1.0
species: 106432
type: SpeciesReference

106431
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constant: false
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name: BM
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845308
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845645
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845260
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is: SBO:0000290
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size: 1.0
spatial dimensions: 3.0
name: environment
type: Compartment

106456
kinetic law: 846248
reactant: 846236
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fast: false
reversible: false
name: Acetate outflow
type: Reaction

106442
is version of: GO:0004029
is version of: http://identifiers.org/ec-code/1.2.1.3
is version of: R00710
product: 845645
kinetic law: 845681
modifier: 845657
fast: false
reversible: false
modifier: 845669
type: Reaction
reactant: 845621
product: 845633
name: Acetald. dehydrogenase
is: SBO:0000200

106517
constant: true
units: 845320
value: 2.82
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106497
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value: 0.94
type: Parameter

106527
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value: 1.0E-6
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845356
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845296
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845380
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kinetic law: 845755
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fast: false
reversible: false
is: SBO:0000205
product: 845717
name: TCA (acetate)

106457
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is: SBO:0000185
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reversible: false
name: Acetaldehyde outflow
type: Reaction

106496
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value: 1.43
type: Parameter

106518
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units: 845247
value: 0.034
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845428
stoichiometry: 0.978
species: 106426
type: SpeciesReference

106528
constant: true
units: 845320
value: 0.0751
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846236
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species: 106427
type: SpeciesReference

106454
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reactant: 846212
is: SBO:0000185
fast: false
reversible: false
name: Pyruvate outflow
type: Reaction

106444
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reactant: 845767
kinetic law: 845815
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reactant: 845779
fast: false
type: Reaction
has version: R00754
name: ADH
is: SBO:0000200
modifier: 845803
reversible: true

106502
constant: true
units: 845320
value: 0.501
type: Parameter

106529
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units: 845247
value: 13.0
type: Parameter

845621
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species: 106428
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845368
unit: 845404
unit: 845392
unit: 845380
name: mmole per gram BM per hour
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has version: CHEBI:17234
initial concentration: 15.0
constant: false
in compartment: 106421
boundary condition: true
is: SBO:0000247
type: Species
name: Glucose(feed)
initial amount: NaN
has only substance units: false

845284
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unit: 845296
name: liter per gram
type: SBMLUnitsDef

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units: 845284
value: 440.0
type: Parameter

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units: 845284
value: 14.2
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units: 845247
value: 0.0116
type: Parameter

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species: 106436
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845416
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species: 106424
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845851
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species: 106434
type: SpeciesReference

106523
constant: true
units: 845247
value: 0.0101
type: Parameter

106427
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name: Acetate
in compartment: 106421
type: Species
initial amount: NaN
initial concentration: 0.0
is: CHEBI:40480
is: C00033
is: SBO:0000247
has only substance units: false
constant: false

106504
constant: true
units: 845284
value: 0.101
type: Parameter

846332
stoichiometry: 1.0
species: 106431
type: SpeciesReference

106513
constant: true
units: 845320
value: 0.775
type: Parameter

845344
exponent: -1.0
scale: 0
multipler: 1.0
kind: LITRE
type: SBMLUnit

106447
product: 845923
kinetic law: 845971
modifier: 845959
name: BM growth (acetate)
type: Reaction
fast: false
product: 845911
is version of: GO:0016049
is: SBO:0000205
is version of: GO:0008283
modifier: 845947
reversible: false
reactant: 845899
product: 845935

106533
constant: true
units: 845320
value: 0.392
type: Parameter

106426
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has only substance units: false
constant: false
is: C00022
in compartment: 106421
is: CHEBI:15361
type: Species
initial amount: NaN
boundary condition: false
name: Pyruvate
is: SBO:0000247

106524
constant: true
units: 845320
value: 0.589
type: Parameter

846151
stoichiometry: 1.0
species: 106541
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845791
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species: 106429
type: SpeciesReference

106503
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units: 845247
value: 2.0E-5
type: Parameter

106514
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units: 845247
value: 0.1
type: Parameter

845199
unit: 845211
name: liter
type: SBMLUnitsDef

845693
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species: 106427
type: SpeciesReference

106534
constant: true
units: 845247
value: 0.0023
type: Parameter

845705
stoichiometry: 1.446
species: 106434
type: SpeciesReference

106446
is: SBO:0000205
is version of: GO:0008283
product: 845863
kinetic law: 845887
product: 845851
reversible: false
type: Reaction
is version of: GO:0016049
name: BM growth (gluc)
product: 845839
modifier: 845875
reactant: 845827
fast: false

845247
unit: 845272
unit: 845260
name: gram per liter
type: SBMLUnitsDef

106429
initial amount: NaN
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initial concentration: 0.0
has only substance units: false
boundary condition: false
type: Species
name: EtOH
is: C00469
is: CHEBI:16236
is: SBO:0000247

106489
constant: false
units: 845368
value: 0.0
type: Parameter

106511
constant: true
units: 845320
value: 0.0104
type: Parameter

845863
stoichiometry: 0.063
species: 106436
type: SpeciesReference

106506
constant: true
units: 845320
value: 5.81
type: Parameter

106499
constant: true
units: 845247
value: 0.12
type: Parameter

106439
modifier: 845537
type: Reaction
fast: false
product: 845513
reactant: 845489
kinetic law: 845549
is: GO:0006099
reversible: false
is: SBO:0000205
name: TCA (pyruvate)
modifier: 845525
product: 845501

845332
exponent: 1.0
scale: 0
multipler: 1.0
kind: GRAM
type: SBMLUnit

106459
kinetic law: 846320
reactant: 846308
is: SBO:0000185
fast: false
reversible: false
name: active BM outflow
type: Reaction

845392
exponent: -1.0
scale: 0
multipler: 3600.0
kind: SECOND
type: SBMLUnit

106531
constant: true
units: 845284
value: 25.0
type: Parameter

106449
type: Reaction
modifier: 846067
kinetic law: 846103
fast: false
reactant: 846055
is version of: GO:0009056
name: active BM degradation
modifier: 846079
modifier: 846091
is: SBO:0000179
reversible: false

106428
is: C00084
initial concentration: 0.0
is: SBO:0000247
boundary condition: false
initial amount: NaN
name: Acetaldehyde
constant: false
in compartment: 106421
is: CHEBI:15343
has only substance units: false
type: Species

106526
constant: true
units: 845320
value: 0.008
type: Parameter

106488
constant: false
units: 845368
value: 0.0
type: Parameter

106438
reversible: false
name: glycolysis
modifier: 845465
fast: false
kinetic law: 845477
reactant: 845416
is: SBO:0000205
is: GO:0006096
modifier: 845453
product: 845428
product: 845440
type: Reaction

106498
constant: true
units: 845320
value: 47.1
type: Parameter

106512
constant: true
units: 845247
value: 0.0102
type: Parameter

W3 CDTF: Thu Jun 03 11:40:01 BST 2010

846163
stoichiometry: 1.0
species: 106424
type: SpeciesReference

845717
stoichiometry: 1.066
species: 106436
type: SpeciesReference

106458
kinetic law: 846296
reactant: 846284
is: SBO:0000185
fast: false
reversible: false
name: EtOH outflow
type: Reaction

106448
modifier: 846007
name: Acdh production
reactant: 845983
kinetic law: 846043
is: SBO:0000184
type: Reaction
modifier: 846031
reversible: false
product: 845995
modifier: 846019
is version of: GO:0006412
fast: false

106532
constant: true
units: 845320
value: 0.00399
type: Parameter

846115
stoichiometry: 1.0
species: 106433
type: SpeciesReference

106508
constant: true
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value: 4.8
type: Parameter

845320
unit: 845356
unit: 845344
unit: 845332
name: gram per liter per hour
type: SBMLUnitsDef

845779
stoichiometry: 0.363
species: 106436
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845175
unit: 845187
name: hours
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846260
stoichiometry: 1.0
species: 106428
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845163
exponent: 1.0
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106537
constant: true
units: 845247
value: 0.0018
type: Parameter

846356
stoichiometry: 1.0
species: 106433
type: SpeciesReference

106422
is: GO:0005623
is: SBO:0000290
constant: true
size: 1.0
spatial dimensions: 3.0
type: Compartment

106507
constant: true
units: 845247
value: 5.0E-7
type: Parameter

106436
boundary condition: true
has only substance units: false
in compartment: 106421
constant: false
is: C00004
initial concentration: 0.0
name: Red. Equ. (NADH)
is: CHEBI:16908
type: Species
is: SBO:0000247
initial amount: NaN

845223
unit: 845235
name: per hour
type: SBMLUnitsDef

845911
stoichiometry: 0.619
species: 106431
type: SpeciesReference

106462
kinetic law: 846368
reactant: 846356
is: SBO:0000185
fast: false
reversible: false
name: AcDH BM outflow
type: Reaction

845827
stoichiometry: 1.0
species: 106424
type: SpeciesReference

106538
constant: true
units: 845320
value: 0.02
type: Parameter

845585
stoichiometry: 0.33
species: 106434
type: SpeciesReference

845489
stoichiometry: 1.0
species: 106426
type: SpeciesReference

106521
constant: true
units: 845247
value: 0.057
type: Parameter

845151
unit: 845163
name: gram
type: SBMLUnitsDef

845767
stoichiometry: 1.0
species: 106428
type: SpeciesReference

106522
constant: true
units: 845320
value: 1.203
type: Parameter

845235
exponent: -1.0
scale: 0
multipler: 3600.0
kind: SECOND
type: SBMLUnit

845187
exponent: 1.0
scale: 0
multipler: 3600.0
kind: SECOND
type: SBMLUnit

106434
constant: false
initial amount: NaN
name: CO2
is: CHEBI:16526
in compartment: 106421
type: Species
boundary condition: true
is: C00011
has only substance units: false
is: SBO:0000247
initial concentration: 0.0

106424
has only substance units: false
is: C00293
constant: false
in compartment: 106421
boundary condition: false
name: Glucose
is: CHEBI:17234
initial concentration: 15.0
initial amount: NaN
type: Species
is: SBO:0000247

845573
stoichiometry: 0.5
species: 106428
type: SpeciesReference

106536
constant: true
units: 845320
value: 0.00339
type: Parameter

106509
constant: true
units: 845247
value: 2.64E-4
type: Parameter

846187
stoichiometry: 1.0
species: 106424
type: SpeciesReference

W3 CDTF: Thu Mar 25 02:28:31 GMT 2010

orgname: EMBL-EBI

given: Lukas
family: Endler