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Plant Molecular Biology

Prof. Dr. Rüdiger Hell



Metabolomics Core Technology Platform
at the University of Heidelberg



The Metabolomics Core Technology Platform offers a broad range of qualitative and quantitative metabolite analyses.

We are located at the Centre for Organismal Studies Heidelberg (COS Heidelberg) and are member of the HMLS CoreFacility program.



The MCTP provides analytical services for untargeted and targeted metabolite analyses.


Untargeted analyses can be performed for comprehensive metabolite fingerprinting by LC-MS/MS leading to a spectrum of mainly primary metabolites (e.g. members of Citric Acid Cycle).

The evaluation of accomplished projects since the start of MCTP reveals a significant demand for targeted analyses of customer-defined metabolites.
Therefore the MCTP performs targeted metabolite profiling and single compound analysis. This allows us to routinely analyze and quantify the following classes of compounds:

-      Inorganic ions (anions and cations)
-      Carbohydrates / sugars
-      Citrate cycle compounds (dicarboxylic organic acids, e.g. malate, fumarate, citrate)
-      a-Ketoacids (e.g. glyoxylate, pyruvate, ketoglutarate)
-      Amino acids
-      Polyamines
-      Nucleotides (e.g. ADP, ATP, GTP, CTP, UTP)
-      Thiols (glutathione and cysteine)
-      Polyphenols (e.g. phytoestrogenes, flavonols)

A detailed list of all compounds which have been measured and quantified so far is available upon request.

For the targeted analysis of additional metabolites please contact the MCTP.

Our service includes extraction, separation and detection of metabolites and basic bio-informatics of your data.



The so far analyzed sample matrices include metabolite extracts of

-      Prokaryotes
-      Yeast
-      Cell culture (Drosophila and human)
-      Human, animal and plant tissues
-      Human body fluids and cell culture/bacterial supernatants

Measurements of further matrices can be established upon request.


Current Equipment

-    UPLC system coupled to Vion IMS-QTof MS (Waters)

-    GC-MS system (Shimadzu) for semi-quantitative, comparative studies of primary metabolism

-    HPLC systems (Waters and Dionex) equipped with fluorescence, UV, conductivity and pulsed
     amperometric detectors for targeted analyses

-    UPLC system coupled to a XEVO QTof MS (Waters) for unbiased comparative analyses

-    UPLC system coupled to PDA-, FLR- and QDA - detectors (Waters) for targeted analyses


Access to the Service

All researchers of the University of Heidelberg, the Heidelberg and Mannheim University Hospital, DKFZ,  MPImF and EMBL are welcome to request help or place orders for metabolite analyses.

Before sample submission please contact Dr. Gernot Poschet to discuss your project in detail or request a project discussion via our online booking system.


Submission of a Service Request is mandatory before submission of samples!

To create a service request, please use our easy-to-use online booking system:

MCTP Booking System 



The costs of core facility services – system usage and consumables - have to be charged directly to the users. For detailed prices of the different analyses please contact the MCTP.



Please read carefully the "General guideline for metabolite analyses" with specified requirements for metabolite analyses.

For more general information on the MTCP's services as well as users' rights and duties see our "End-user license agreement". New customers are requested to bring a signed copy of the EULA when submitting the first sample set.


  General guideline for metabolite analyses

  End-user license agreement



UPLC training courses

In cooperation with Waters Germany  the MCTP hosts and organizes several UPLC training and maintainance courses per year. For further details and registration please visit the Waters training course webpage:

Waters training courses .




- We are happy to announce that the MCTP was able to acquire a new UPLC Vion IMS-QTof system in December 2016 which has been installed now. We are going to implement new state-of-the-art analyses on this high-end system and will keep you updated on new services.


Contact details

Dr. Gernot Poschet                             Metabolomics Core Technology Platform


Dr. Gernot Poschet

Dr. Michael Büttner


Dr. Michael Büttner


Tel.: 06221-545536                            Im Neuenheimer Feld 360  - Room -118

Fax: 06221-545334                            69120 Heidelberg



Prof. Dr. Rüdiger Hell                         Molecular Plant Biology

Tel.: 06221-546284                            Im Neuenheimer Feld 360

Fax: 06221-545334


Prof. Rüdiger Hell





The Metabolomics Core Technology Platform recently contributed to the following articles:

Benjamin D. Weger, Meltem Weger, Benjamin Görling, Andrea Schink, Cedric Gobet, Celine Keime, Gernot Poschet, Bernard Jost, Nils Krone, Rüdiger Hell, Frederic Gachon, Burkhard Luy, Thomas Dickmeis (2016).
Extensive Regulation of Diurnal Transcription and Metabolism by Glucocorticoids . Plos Genetics. DOI:10.1371/journal.pgen.1006512

Yiling Yang, Abiola M. Pollard, Carolin Höfler, Gernot Poschet, Markus Wirtz, Rüdiger Hell and Victor Sourjik (2015).
Relation between chemotaxis and consumption of amino acids in bacteria . Molecular Microbiology 96 (6): 1272-1282.

Chiara Redaelli, Caroline Pilz, Anja Kunze, Knut Schaekel, Gernot Poschet, Bernd Arnold, Wolfgang Wick, Michael Platten (2014).
UV irradiation-mediated systemic immune suppression through AHR signaling . Journal of Neuroimmunology 275 (1-2): 128-129.


Lena Krüßel, Johannes Junemann, Markus Wirtz, Hannah Birke, Jeremy D. Thornton, Luke W. Browning, Gernot Poschet, Rüdiger Hell, Janneke Balk, Hans-Peter Braun and Tatjana M. Hildebrandt (2014).
The mitochondrial sulfur dioxygenase ETHYLMALONIC ENCEPHALOPATHY PROTEIN1 is required for amino acid catabolism during carbohydrate starvation and embryo development in Arabidopsis . Plant Phys 165: 92-104.


The Metabolomics Core Technology Platform is acknowledged in the following articles:

Eric Linster, Iwona Stephan, Willy V. Bienvenut, Jodi Maple-Grodem, Line M. Myklebust, Monika Huber, Michael Reichelt, Carsten Sticht, Simon Geir Moller, Thierry Meinnel, Thomas Arnesen, Carmela Giglione, Rüdiger Hell and Markus Wirtz (2015).
Downregulation of N-terminal acetylation triggers ABA-mediated drought responses in Arabidopsis . Nature Communications 6: 7640.


Stefan Timm, Maria Wittmiß, Sabine Gamlien, Ralph Ewald, Alexandra Florian, Marcus Frank, Markus Wirtz, Rüdiger Hell, Alisdair R. Fernie, and Hermann Bauwea (2015).
Mitochondrial Dihydrolipoyl Dehydrogenase Activity Shapes Photosynthesis and Photorespiration of Arabidopsis thaliana . Plant Cell 27: 1968-1984.

Constantinos Demetriades, Nikolaos Doumpas and Aurelio A. Teleman (2014).
Regulation of TORC1 in response to amino acid starvation via lysosomal recruitment of TSC2 . Cell 156 (4): 786-799.




Spatial Metabolomics at EMBL-Heidelberg

The team of Dr. Theodore Alexandrov at EMBL develops novel tools of computational biology that reveal spatial organization of metabolic processes by exploiting high-throughput metabolic imaging and by translating the generated big data into biological knowledge. His workgroup contributes to the emerging field of spatial metabolomics by developing tools of computational biology that enable imaging and functional interpretation of metabolites in tissue sections, agar plates, and cell cultures.

Spatial Metabolomics at EMBL 

/var/www/cos/ / Prof. Dr. Rüdiger Hell _e