1. Application of Metabolic Flux Analysis to PlantsMartine Dieuaide-Noubhani and Ana Paula Alonso
2. Metabolic Network Reconstruction and Their Topological Analysis
Marie Beurton-Aimar, Tung Vu-Ngoc Nguyen, and Sophie Colombié
Part I: Experimental Design and Acquistion of Labeling Data (Experimental design and data acquisition for isotopic labeling based Metabolic Flux Analysis)
3. 14C pulse Labeling to Estimate External Fluxes and Turnovers in Primary Metabolism
Pianelli Katia, Monier Antoine, Andrieu Marie-Hélène, Beauvoit Bertrand, Dieuaide-Noubhani Martine
4. Optimization of Steady-state 13C-labeling Experiments for Metabolic Flux
Analysis
N.J. Kruger, S.K.Masakapalli and R.G. Ratcliffe
5. Quantification of 13C Enrichments and Isotopomer Abundances for Metabolic Flux analysis using 1D NMR Spectroscopy
Shyam K. Masakapalli, R. George Ratcliffe, and Thomas C.R. Williams
6. Analysis of Proteinogenic Amino Acid and Starch Labeling by 2D NMR
Quyen Truong and Jacqueline V. Shanks
7. Analysis of Kinetic Labeling of Amino Acids and Organic Acids by GC-MS
Wagner L. Araújo, Takayuki Tohge, Adriano Nunes-Nesi , Toshihiro Obata, and Alisdair R. Fernie
8. Quantifying 13C-labeling in Free Sugars and Starch by GC-MS
Mohamed Koubaa, Brigitte Thomasset, and Albrecht Roscher
9. Liquid Chromatography Tandem Mass Spectrometry for Measuring 13C-labeling in Intermediates of the Glycolysis and Pentose-phosphate Pathway
Jean-Christophe Cocuron and Ana Paula Alonso2
10. In Vivo NMR for 13C metabolic Flux Analysis
Albrecht Roscher, Stéphanie Troufflard, and Abdelghani Idrissi Taghki
Part II: From Labeling Data to Flux Maps(from the labeling data to a metabolic map)
11. Steady State and Instationary Modeling of Proteinogenic and Free Amino Acid Isotopomers for Flux Quantification
Yuting Zheng and Ganesh Sriram
12. Isotopically Nonstationary MFA (INST-MFA) of Autotrophic Metabolism
Lara J. Jazmin, John O'Grady, Fangfang Ma, Doug K. Allen, John A. Morgan, and Jamey D. Young
13. Simulating Labeling to Estimate Kinetic Parameters for Flux Control Analysis
Amy Marshall-Colon, Neelanjan Sengupta, David Rhodes, and John A. Morgan
14. High-throughput Data Pipelines for Metabolic Flux Analysis in PlantsC. Hart Poskar, Jan Huege, Christian Krach, Yair Shachar-Hill, and Björn H. Junker
Part III: Predicting Fluxes in Plants
15. Analysis of Enzyme Activities
Guillaume Ménard, Benoit Biais, Duyên Prodhomme, Patricia Ballias and Yves Gibon
16. Analytical Kinetic Modeling: A Practical Procedure
Gilles Curien, María L. Cárdenas, and Athel Cornish-Bowden
17. Flux Balance Analysis as an Alternative Method to Estimate Fluxes Without Labeling
Eva Grafahrend-Belau, Astrid Junker, Falk Schreiber, and Björn H. Junker
18. Flux Variability Analysis: Application to Developing Oilseed Rape Embryos using Toolboxes for Constraint-Based Modeling
Jordan O. Hay and Jörg Schwender
19. Plant Genome-Scale Modeling and Implementation
Cristiana G.O. Dal'Molin, Lake-Ee Quek, Robin W. Palfreyman, and Lars K. Nielsen
Part IV: Flux Analysis at the Whole Plant Level
20. 34S and 15N Labelling to Model S and N Flux in Plants and Determine the Different Components of N and S use Efficiency
Christophe Salon, Marie-Paule Bataillé, Karine Gallardo, Christian Jeudy, Anne-Lise Santoni, Jacques Trouverie, Anne-Sophie Voisin, and Jean-Christophe Avice
21. Ecoph