770498
is: SBO:0000009
constant: true
value: 0.01
type: Parameter

770490
is: SBO:0000341
constant: true
value: 0.025
type: Parameter

720220
stoichiometry: 1.0
species: 770431
type: SpeciesReference

770478
is: SBO:0000281
constant: true
value: 7.0
type: Parameter

770452
kinetic law: 720389
reactant: 720377
is version of: GO:0030163
is: SBO:0000179
fast: false
reversible: false
type: Reaction

720618
stoichiometry: 1.0
species: 770440
type: SpeciesReference

770466
kinetic law: 720606
modifier: 720594
product: 720582
is version of: GO:0006412
is: SBO:0000184
fast: false
reversible: false
type: Reaction

770500
is: SBO:0000009
constant: false
value: NaN
type: Parameter

770510
constant: true
value: 0.004
type: Parameter

720208
exponent: 1.0
scale: 0
multipler: 1.0
kind: ITEM
type: SBMLUnit

770446
kinetic law: 720305
product: 720293
reactant: 720281
is version of: GO:0042803
is: SBO:0000412
fast: false
reversible: false
type: Reaction

770432
is version of: P13800
is: SBO:0000245
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 10.0
in compartment: 770430
type: Species

770488
constant: true
value: 1.0
type: Parameter

720293
stoichiometry: 1.0
species: 770436
type: SpeciesReference

metaid_0000050
constant: false
value: NaN
name: DegU_Total
type: Parameter

770480
is: SBO:0000281
constant: true
value: 12.0
type: Parameter

770506
is: SBO:0000009
constant: true
value: 0.04
type: Parameter

770470
is: SBO:0000186
constant: true
value: 0.048
type: Parameter

770496
is: SBO:0000009
constant: true
value: 1.0E-4
type: Parameter

720485
stoichiometry: 1.0
species: 770438
type: SpeciesReference

720329
stoichiometry: 2.0
species: 770434
type: SpeciesReference

metaid_0000046
unit: 720208
name: molecules
type: SBMLUnitsDef

770454
kinetic law: 720413
reactant: 720401
is version of: GO:0030163
is: SBO:0000179
fast: false
reversible: false
type: Reaction

720281
stoichiometry: 2.0
species: 770434
type: SpeciesReference

770434
is version of: P13800
is: SBO:0000245
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 770430
type: Species

770444
kinetic law: 720269
modifier: 720257
product: 720244
is version of: GO:0006412
is: SBO:0000184
fast: false
reversible: false
type: Reaction

770476
is: SBO:0000186
constant: true
value: 0.02
type: Parameter

720449
stoichiometry: 1.0
species: 770434
type: SpeciesReference

770464
kinetic law: 720570
product: 720558
reactant: 720546
is version of: GO:0006468
is: SBO:0000216
fast: false
reversible: false
type: Reaction

770482
is: SBO:0000282
constant: true
value: 7.0
type: Parameter

720353
stoichiometry: 1.0
species: 770432
type: SpeciesReference

metaid_0000047
constant: true
value: 0.026666667
name: kphosratiokdephos
type: Parameter

720401
stoichiometry: 1.0
species: 770436
type: SpeciesReference

770508
constant: true
value: 0.15
type: Parameter

720317
stoichiometry: 1.0
species: 770436
type: SpeciesReference

720196
exponent: 1.0
scale: -15
multipler: 1.0
kind: LITRE
type: SBMLUnit

770456
kinetic law: 720437
reactant: 720425
is version of: GO:0006402
is: SBO:0000179
fast: false
reversible: false
type: Reaction

770442
kinetic law: 720232
reactant: 720220
is version of: GO:0030163
is: SBO:0000179
fast: false
reversible: false
type: Reaction

770462
kinetic law: 720534
modifier: 720522
product: 720509
is version of: GO:0009299
is: SBO:0000183
fast: false
reversible: false
type: Reaction

770474
is: SBO:0000186
constant: true
value: 0.4
type: Parameter

770436
is version of: GO:0042803
is: SBO:0000420
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 770430
type: Species

770484
is: SBO:0000282
constant: true
value: 7.0
type: Parameter

770502
is: SBO:0000009
constant: false
value: NaN
type: Parameter

BIOMD0000000240
parameter: 770494
parameter: 770480
parameter: 770496
parameter: 770488
units def: metaid_0000046
species: 770431
parameter: 770506
reaction: 770450
reaction: 770442
area units: metaid_0000005
reaction: 770446
has version: http://identifiers.org/taxonomy/1423
creator:
  ORG:
    orgname: Molecular Genetics Group, University of Groningen, Haren, The Netherlands.
  n:
    given: Jan-Willem
    family: Veening
units def: metaid_0000003
reaction: 770460
reaction: 770466
parameter: 770486
volume units: metaid_0000003
occurs in: http://identifiers.org/taxonomy/10160
parameter: 770504
rule: metaid_0000051
parameter: 770476
species: 770436
is described by: http://identifiers.org/pubmed/18414485
species: 770432
time units: metaid_0000029
parameter: 770492
substance units: metaid_0000046
created:
  W3 CDTF: Tue Dec 02 16:57:44 GMT 2008
creator:
  ORG:
    orgname: EMBL-EBI
  n:
    given: Vijayalakshmi
    family: Chelliah
is: MODEL8237240421
name: Veening2008_DegU_Regulation
reaction: 770454
parameter: 770474
reaction: 770458
reaction: 770444
parameter: 770490
modified:
  W3 CDTF: Fri Mar 09 11:18:51 GMT 2012
parameter: 770482
reaction: 770464
parameter: 770498
parameter: 770484
reaction: 770468
rule: metaid_0000048
compartment: 770430
parameter: metaid_0000050
is version of: GO:0035635
parameter: 770500
parameter: 770502
parameter: 770508
notes: This a model from the article: Transient heterogeneity in extracellular protease production by Bacillus subtilis. Veening JW, Igoshin OA, Eijlander RT, Nijland R, Hamoen LW, Kuipers OP Mol. Syst. Biol. 2008 ; Volume: 4 : 184 18414485 , Abstract: The most sophisticated survival strategy Bacillus subtilis employs is the differentiation of a subpopulation of cells into highly resistant endospores. To examine the expression patterns of non-sporulating cells within heterogeneous populations, we used buoyant density centrifugation to separate vegetative cells from endospore-containing cells and compared the transcriptome profiles of both subpopulations. This demonstrated the differential expression of various regulons. Subsequent single-cell analyses using promoter-gfp fusions confirmed our microarray results. Surprisingly, only part of the vegetative subpopulation highly and transiently expresses genes encoding the extracellular proteases Bpr (bacillopeptidase) and AprE (subtilisin), both of which are under the control of the DegU transcriptional regulator. As these proteases and their degradation products freely diffuse within the liquid growth medium, all cells within the clonal population are expected to benefit from their activities, suggesting that B. subtilis employs cooperative or even altruistic behavior. To unravel the mechanisms by which protease production heterogeneity within the non-sporulating subpopulation is established, we performed a series of genetic experiments combined with mathematical modeling. Simulations with our model yield valuable insights into how population heterogeneity may arise by the relatively long and variable response times within the DegU autoactivating pathway. This model originates from BioModels Database: A Database of Annotated Published Models. It is copyright (c) 2005-2009 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., D…
parameter: metaid_0000047
species: 770434
length unit: length
species: 770440
parameter: 770510
reaction: 770462
creator:
  ORG:
    orgname: Department of Bioengineering, Rice University, Houston, TX, USA
  n:
    given: Oleg
    family: A Igoshin
type: SBMLModel
parameter: 770470
reaction: 770452
parameter: 770472
reaction: 770456
parameter: 770478
reaction: 770448
curated: true
species: 770438
rule: metaid_0000049

720546
stoichiometry: 1.0
species: 770432
type: SpeciesReference

metaid_0000003
unit: 720196
name: femtolitre
type: SBMLUnitsDef

770494
is: SBO:0000009
constant: true
value: 4.0E-4
type: Parameter

770430
is version of: GO:0005623
is: SBO:0000290
constant: true
size: 1.0
spatial dimensions: 3.0
type: Compartment

720425
stoichiometry: 1.0
species: 770440
type: SpeciesReference

770458
kinetic law: 720473
product: 720461
reactant: 720449
is version of: GO:0006470
is: SBO:0000330
fast: false
reversible: false
type: Reaction

720244
stoichiometry: 1.0
species: 770431
type: SpeciesReference

770468
kinetic law: 720642
modifier: 720630
product: 720618
is version of: GO:0006412
is: SBO:0000183
fast: false
reversible: false
type: Reaction

770440
encodes: P13800
is: SBO:0000278
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 770430
type: Species

770460
kinetic law: 720497
reactant: 720485
is version of: GO:0006402
is: SBO:0000179
fast: false
reversible: false
type: Reaction

770472
is: SBO:0000186
constant: true
value: 0.004
type: Parameter

770448
kinetic law: 720341
product: 720329
reactant: 720317
is version of: GO:0043241
is: SBO:0000180
fast: false
reversible: false
type: Reaction

770438
encodes: P04189
is: SBO:0000278
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 770430
type: Species

720377
stoichiometry: 1.0
species: 770434
type: SpeciesReference

770486
constant: true
value: 7.0
type: Parameter

770450
kinetic law: 720365
reactant: 720353
is version of: GO:0030163
is: SBO:0000179
fast: false
reversible: false
type: Reaction

770431
is version of: P04189
is: SBO:0000245
constant: false
boundary condition: false
has only substance units: false
initial concentration: NaN
initial amount: 0.0
in compartment: 770430
type: Species

770504
is: SBO:0000009
constant: true
value: 0.04
type: Parameter

720461
stoichiometry: 1.0
species: 770432
type: SpeciesReference

720582
stoichiometry: 1.0
species: 770432
type: SpeciesReference

720509
stoichiometry: 1.0
species: 770438
type: SpeciesReference

720558
stoichiometry: 1.0
species: 770434
type: SpeciesReference

770492
is: SBO:0000282
constant: true
value: 0.1
type: Parameter