Try the new BioModels platform (beta)
BioModels Database logo

BioModels Database

spacer

BIOMD0000000292 - Rovers1995_Photsynthetic_Oscillations

 

 |   |   |  Send feedback
Reference Publication
Publication ID: 7772723
Rovers W, Giersch C.
Photosynthetic oscillations and the interdependence of photophosphorylation and electron transport as studied by a mathematical model.
BioSystems 1995; 35(1): 63-73
Institut für Botanik, Technische Hochschule Darmstadt, Germany.  [more]
Model
Original Model: BIOMD0000000292.origin
Submitter: Lukas Endler
Submission ID: MODEL1101060001
Submission Date: 06 Jan 2011 23:38:30 UTC
Last Modification Date: 08 Apr 2016 16:53:29 UTC
Creation Date: 06 Jan 2011 23:40:34 UTC
Encoders:  Rainer Machne
set #1
bqbiol:hasTaxon Taxonomy Viridiplantae
set #2
bqbiol:isVersionOf KEGG Pathway Carbon fixation in photosynthetic organisms
set #3
bqbiol:isVersionOf Gene Ontology reductive pentose-phosphate cycle
Notes

This is the model described in the article:
Photosynthetic oscillations and the interdependence of photophosphorylation and electron transport as studied by a mathematical model.
Rovers W, Giersch C. Biosystems. 1995;35(1):63-73. PMID: 7772723
Abstract:
A simple mathematical model of photosynthetic carbon metabolism as driven by ATP and NADPH has been formulated to analyse photosynthetic oscillations. Two essential assumptions of this model are: (i) reduction of 3-phosphoglycerate to triosephosphate in the Clavin cycle is limited by ATP, not by NADPH, and (ii) photophosphorylation is affected by the availability of both ADP and NADP, while electron transport is limited by NADP only. The model produces oscillations of observed damping and period in ATP and NADP concentrations which are about 180 degrees out of phase, while three alternative proposals regarding coupling of electron transport and photophosphorylation do not produce oscillatory model solutions. The phases of ATP and NADPH are in reasonable agreement with the available experimental data. The model (which assumes that redox control of photophosphorylation is part of the oscillatory mechanism) is compared with an alternative proposal (that oscillations are due to interdependence of turnover of adenylates and Calvin cycle intermediates). From the similarity of the mathematical structures of both models it is inviting to speculate that both models are partial aspects of the oscillatory mechanism.


To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information.

In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not.

To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.

Model
Publication ID: 7772723 Submission Date: 06 Jan 2011 23:38:30 UTC Last Modification Date: 08 Apr 2016 16:53:29 UTC Creation Date: 06 Jan 2011 23:40:34 UTC
Mathematical expressions
Reactions
v4 v3 v2 v1
Rules
Assignment Rule (variable: NADP_super_+) Assignment Rule (variable: ADP)    
Physical entities
Compartments Species
c NADPH ADP ATP
X Y NADP_super_+
Global parameters
k1 k2 k3 k4
N0 A0    
Reactions (4)
 
 v4 [NADP_super_+] → [NADPH];  
 
 v3 2.0 × [ADP] → 2.0 × [ATP];   {NADP_super_+}
 
 v2 [Y] + [NADPH] + [ATP] → [X] + [ADP] + [NADP_super_+];  
 
 v1 [X] + [ATP] → [Y] + [ADP];  
 
Rules (2)
 
 Assignment Rule (name: NADP) NADP_super_+ = N0-NADPH
 
 Assignment Rule (name: ADP) ADP = A0-ATP
 
  Spatial dimensions: 3.0  Compartment size: 1.0  (Units: volume)
 
 NADPH
Compartment: c
Initial concentration: 0.7
 
  ADP
Compartment: c
Initial concentration: 2.0
 
 ATP
Compartment: c
Initial concentration: 0.5
 
 X
Compartment: c
Initial concentration: 2.0
 
 Y
Compartment: c
Initial concentration: 1.0
Constant
 
  NADP_super_+
Compartment: c
Initial concentration: 0.5
 
Global Parameters (6)
 
 k1
Value: 0.123   (Units: per_s)
Constant
 
 k2
Value: 0.625   (Units: per_s)
Constant
 
 k3
Value: 0.3   (Units: per_mM_per_s)
Constant
 
 k4
Value: 0.614   (Units: per_s)
Constant
 
 N0
Value: 1.2   (Units: mM)
Constant
 
 A0
Value: 2.5   (Units: mM)
Constant
 
Representative curation result(s)
Representative curation result(s) of BIOMD0000000292

Curator's comment: (updated: 06 Jan 2011 23:40:08 GMT)

Reproduction of figure 2 of the original article using SBML ODESolver.

spacer
spacer