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Presentation Metabolomic Platform

The main goal of this facility is to offer expertise to develop new protocols and to carry out the measurement and analysis of plant metabolites using a combination of isotopic and metabolomic techniques. We have the tools and know-how to undertake the rapid metabolic phenotyping of plant lines to help understand the consequences of specific genetic mutations with respect to metabolite contents, and to allow the determination of carbon, nitrogen and water use efficiencies as well as fluxes in plant organs and terrestrial vegetation. Analyses are performed by the Platform staff using the adequate protocols and technologies including semi-targeted metabolomics by GC-MS or NMR 1H ; isotope analyses of total organic matter (EA-IRMS), gases (GC-IRMS) and extracts (LC-IRMS) ; analyses of cofactors (by LC-MS) and amino acids (by HPLC), metabolites tracing by NMR (13C or 15N).

The facility is not only involved in local research projects since it is open to other laboratories whether they are public or private, local, national or international. This is achieved either as a service or collaboration and in both cases the Platform offers expertise from the experimental design to a statistical analysis of the data. Over the years, the platform has become a leader in European metabolomics and it has developed innovative techniques including the simultaneous determination of metabolomics and 13C-NMR-based changes in primary metabolites (Bathellier et al 2009) ; the application of TBDMS-derivatization and 13C-IRMS to analyse δ13C value of soluble sugars (Mauve et al 2009) ; an LC-MS method for cofactors and nucleotides (Guérard et al 2011).

Some publications

Abadie C, Lamothe M, Mauve C, Gilard F, Tcherkez G (2015) Leaf green-white variegation is advantageous under N deprivation in Pelargonium × hortorum. Funct Plant Biol, 42, 543-551.

Rogowsky P, Grimault A, Gendrot G, Chaignon S, Gilard F, Tcherkez G, Thévenin J, Dubreucq B, Depège-Fargeix N (2015) Role of B3 domain transcription factors of the AFL family in maize kernel filling. Plant Sci 236 : 116–125.

Aranjuelo I, Tcherkez G, Jauregui I, Gilard F, Ancín M, Fernández-San Millán A, Larraya L, Veramendi J, Farran J, Alteration by thioredoxin f over-expression of primary carbon metabolism and its response to elevated CO2 in tobacco (Nicotiana tabacum L.), Environmental and Experimental Botany, Volume 118, October 2015, Pages 40-48, ISSN 0098-8472,

Dellero Y, Lamothe-Sibold M, Jossier M, Hodges M. Arabidopsis thaliana ggt1 photorespiratory mutants maintain leaf carbon:nitrogen balance by reducing RuBisCO content and plant growth. Plant J. 2015 Jul 28. doi : 10.1111/tpj.12945. [Epub ahead of print]

Lamade E, Tcherkez G, Darlan NH, Rodrigues RL, Fresneau C, Mauve C, Lamothe-Sibold M, Sketriené D, Ghashghaie J. Natural 13C distribution in oil palm (Elaeis guineensis Jacq.) and consequences for allocation pattern. Plant Cell Environ. 2015 Jul 29. doi : 10.1111/pce.12606. [Epub ahead of print]

Aranjuelo I, Erice G, Sanz-Sáez A, Abadie C, Gilard F, Gil-Quintana E, Avice JC, Staudinger C, Wienkoop S, Araus JL, Bourguignon J, Irigoyen JJ, Tcherkez G. Differential CO2 effect on primary carbon metabolism of flag leaves in durum wheat (Triticum durum Desf.). Plant Cell Environ. 2015 Jun 17. doi : 10.1111/pce.12587. [Epub ahead of print]

Barzegar T., Delshad M., Kashi A.K., Mauve C, Ghashghaie J. (2015)-Sugar accumulation pattern and contents in developing fruits of two Iranian melon cultivars.Iranian Journal of Plant Physiology,5(3):1353-1359
Sawicki M, Barka EA, Clément C, Gilard F, Tcherkez G, Baillieul F, Vaillant-Gaveau N, Jacquard C, Cold-night responses in grapevine inflorescences, Plant Science, Volume 239, October 2015, Pages 115-127, ISSN 0168-9452,

Ghashghaie J., Badeck FW., Girardin C., Sketriené D., Lamothe M., & Werner R.A. (2015)-Changes in d13C of dark-respired CO2 and organic matter of different organs of peanut plants during early ontogeny.Isotopes in Environment and Health Studies,In press

Pitoux, D., Plainchont, B., Merlet, D., Hu, Z., Bonnaffé, D. Farjon, J., & Giraud, N. (2015) Fully Resolved NMR Correlation Spectroscopy Chemistry –A European Journal. 21, 25

Mondy, S., Lenglet, A., Cosson, V., Pelletier, S., Pateyron, S., Gilard, F., Scholte, M., Brocard, L., Couzigou, J.M., Tcherkez, G., Pean, M., and Ratet, P. (2014). GOLLUM [FeFe]-hydrogenase-like proteins are essential for plant development in normoxic conditions and modulate energy metabolism. Plant Cell Environ 37, 54-69

Dellero Y, Mauve C, Boex-Fontvieille E, Flesch V, Jossier M, Tcherkez G, Hodges M (2014) Experimental evidence for a hydride transfer mechanism in plant glycolate oxidase catalysis. J Biol Chem, in press. doi : 10.1074/jbc.M114.618629
Aranjuelo, I., Tcherkez, G., Molero, G., Gilard, F., Avice, J.C., Nogués, S. (2013). Concerted changes in N and C primary metabolism in alfalfa (Medicago sativa) under water restriction. J Exp Bot 64, 885-897.

Boex-Fontvieille, E., Gauthier, P., Gilard, F., Hodges, M., and Tcherkez, G. (2013) A new anaplerotic respiratory pathway involving lysine biosynthesis in isocitrate dehydrogenase-deficient Arabidopsis mutants. New Phytol In press.

Gauthier, P.P., Lamothe, M., Mahe, A., Molero, G., Nogues, S., Hodges, M., and Tcherkez, G. (2013). Metabolic origin of delta(15)N values in nitrogenous compounds from Brassica napus L. leaves. Plant Cell Environ 36, 128-137.

Pineau B, Bourge M, Marion J, Mauve C, Gilard F, Maneta-Peyret L, Moreau P, Satiat-Jeunemaître B, Brown SC, De Paepe R, Danon A. The importance of cardiolipin synthase for mitochondrial ultrastructure, respiratory function, plant development, and stress responses in Arabidopsis. Plant Cell. 25, 4195-208

Coze F, Gilard F, Tcherkez G, Virolle M-J, Guyonvarch A (2013) Carbon-Flux Distribution within Streptomyces coelicolor Metabolism : A Comparison between the Actinorhodin-Producing Strain M145 and Its Non-Producing Derivative M1146. PLoS ONE 8, e84151.

Tcherkez G, Guérard F, Gilard F, Lamothe M, Mauve C, Gout E, Bligny R (2012) Metabolomic characterization of the functional division of nitrogen metabolism in variegated leaves. Funct Plant Biol 39 : 959–967.

Djebbar, R., Rzigui, T., Petriacq, P., Mauve, C., Priault, P., Fresneau, C., De Paepe, M., Florez-Sarasa, I., Benhassaine-Kesri, G., Streb, P., Gakiere, B., Cornic, G., and De Paepe, R. (2012). Respiratory complex I deficiency induces drought tolerance by impacting leaf stomatal and hydraulic conductances. Planta 235, 603-614.

Halter, D., Goulhen-Chollet, F., Gallien, S., Casiot, C., Hamelin, J., Gilard, F., Heintz, D., Schaeffer, C., Carapito, C., Van Dorsselaer, A., Tcherkez, G., Arsene-Ploetze, F., and Bertin, P.N. (2012). In situ proteo-metabolomics reveals metabolite secretion by the acid mine drainage bio-indicator, Euglena mutabilis. Isme Journal 6, 1391-1402.

Tcherkez, G., Mahe, A., Guerard, F., Boex-Fontvieille, E.R., Gout, E., Lamothe, M., Barbour, M.M., and Bligny, R. (2012). Short-term effects of CO2 and O2 on citrate metabolism in illuminated leaves. Plant Cell Environ 35, 2208-2220.

Tcherkez, G., Mauve, C., Lamothe, M., Le Bras, C., and Grapin, A. (2011). The 13C/12C isotopic signal of day-respired CO2 in variegated leaves of Pelargonium x hortorum. Plant Cell Environ 34, 270-283.

Guérard F, Petriacq P, Gakière B, Tcherkez G (2011) Liquid chromatography/time-of-flight mass spectrometry for the analysis of plant samples : A method for simultaneous screening of common cofactors or nucleotides and application to an engineered plant line. Plant Physiol Biochem 49(10) : 1117-1125.

Tcherkez, G., Mahe, A., Boex-Fontvieille, E., Gout, E., Guerard, F., and Bligny, R. (2011). Experimental evidence of phosphoenolpyruvate resynthesis from pyruvate in illuminated leaves. Plant Physiol 157, 86-95.

Virlouvet, L., Jacquemot, M.P., Gerentes, D., Corti, H., Bouton, S., Gilard, F., Valot, B., Trouverie, J., Tcherkez, G., Falque, M., Damerval, C., Rogowsky, P., Perez, P., Noctor, G., Zivy, M., and Coursol, S. (2011). The ZmASR1 protein influences branched-chain amino acid biosynthesis and maintains kernel yield in maize under water-limited conditions. Plant Physiol 157, 917-936.

Bathellier C, Tcherkez G, Mauve C, Bligny R, Gout E, Ghashghaie J (2009) On the resilience of nitrogen assimilation by intact roots under starvation, as revealed by isotopic and metabolomic techniques. Rapid Commun Mass Spectrom 23 : 2847-2856.

Mauve C, Bleton J, Bathellier C, Lelarge-Trouverie C, Guerard F, Ghashghaie J, Tchapla A, Tcherkez G (2009) Kinetic 12C/13C isotope fractionation by invertase : evidence for a small in vitro isotope effect and comparison of two techniques for the isotopic analysis of carbohydrates. Rapid Commun Mass Spectrom 23 : 2499-2506.

Technologies proposed

Isotopic measurements (13C, 15N, 2H) at natural or enriched abundance

Classical semi-targeted metabolomics
Targeted eurymetabolomics (cofacteuromics, ATP …)
Aminoacidomics (absolute quantification)
Isotopic tracing & fluxomics


- Heavy :

  • GC-MS
  • HPLC
  • LC-MS
  • two EA-IRMS
  • NMR 400MHz with cryoprobe

- Medium :

  • two microweighers
  • freeze-drier
  • N2 and H2 generators


Metabolism-Metabolome platform

Institute of Plant Sciences Paris Saclay

IPS2 - Bâtiment 630

Université Paris-Sud

Faculté des Sciences

91405 Orsay Cedex


Scientific manager :

Bertrand Gakière
Tel. 01 69 15 33 75
Mél. Scientific manager

Technical manager :

Françoise Gilard
Tel. 01 69 15 33 95
Mél. Technical manager