TY  - JOUR
A1  - Arnold, Anne
A1  - Nikoloski, Zoran
T1  - In search for an accurate model of the photosynthetic carbon metabolism
JF  - Mathematics and computers in simulation : transactions of IMACS
N2  - The photosynthetic carbon metabolism, including the Calvin-Benson cycle, is the primary pathway in C-3-plants, producing starch and sucrose from CO2. Understanding the interplay between regulation and efficiency of this pathway requires the development of mathematical models which would explain the observed dynamics of metabolic transformations. Here, we address this question by casting the existing models of Calvin-Benson cycle and the end-product processes into an analysis framework which not only facilitates the comparison of the different models, but also allows for their ranking with respect to chosen criteria, including stability, sensitivity, robustness and/or compliance with experimental data. The importance of the photosynthetic carbon metabolism for the increase of plant biomass has resulted in many models with various levels of detail. We provide the largest compendium of 15 existing, well-investigated models together with a comprehensive classification as well as a ranking framework to determine the best-performing models for metabolic engineering and planning of in silica experiments. The classification can be additionally used, based on the model structure, as a tool to identify the models which match best the experimental design. The provided ranking is just one alternative to score models and, by changing the weighting factor, this framework also could be applied for selection of other criteria of interest.
KW  - Calvin-Benson cycle
KW  - Carbon metabolism
KW  - Model ranking
KW  - Differential and algebraic equations
Y1  - 2014
U6  - https://doi.org/10.1016/j.matcom.2012.03.011
SN  - 0378-4754
SN  - 1872-7166
VL  - 96
SP  - 171
EP  - 194
PB  - Elsevier
CY  - Amsterdam
ER  -