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Laboratory of Biochemistry Wageningen UR

Contact Details

Wageningen University

Stippeneng 4 6708 WE Wageningen The Netherlands

prof. dr. J.J.M. Vervoort

Hotel Description

The group is embedded within the laboratory of Biochemistry. The Biochemistry lab focuses on cellular processes using proteomics, fluorescence spectroscopy and metabolomics techniques. Within the proteomics workflow new procedures for complex protein isolation have been set up. (see recent articles Smaczniak et al., Nature protocols, 2012; de Bybel et al, Developmental Cell, 2013). The Biochemistry lab has seen an increase in the number of collaborations on protein complex isolation as a result of the methods and procedures developed. The metabolomics workflow is directed towards plant derived secondary metabolites and their effect on cellular metabolism. New methods for automated isolation and identification of complex secondary metabolites (plant, human, microbial) have been established. New software tools have been developed for automated metabolite annotation based on LC-MSn datasets (Ridder et al. Anal. Chem., in press). A database for rapid and more accurate identification of complex molecules has been set up (www.metidb.org). High throughput lipoprotein modelling (human) has been established with new software tools for lipoprotein subclasses extraction (Mihaleva et al, submitted). Software for human serum 1H NMR spectra automated deconvolution has been established enabling quantitative determination of more than 40 primary metabolites from a 1H NMR human serum spectrum (Mihaleva et al, submitted).

Proteomics
Public
  • Cellular Biochemistry of plant systems
  • Research into health effects on humans and other organisms directly via food (plant ingredients/botanicals) or via environmental pollution
  • Research into metabolic health effects of nutrition (personalized metabolomics)

Expertise and Track Record

The metabolomics facility is unique with its ability to automatically and specifically identify low abundant metabolites in complex matrices.
The proteomics facility is of very high quality and is unique in the aspect that it is linked to a Biochemistry group with a excellent and unique reputation on plant proteomics.

Protein-complex isolation procedures have been set up within the group of Biochemistry and PRI. The sample preparation method was an extension of the method first used by Karlova within the Biochemistry group. (Karlova, R.B.; Boeren, J.A.; Russinova, E.T.; Aker, J.C.M.; Vervoort, J.J.M.; Vries, S.C. de (2006) The Arabidopsis SOMATIC EMBRYOGENESIS RECEPTOR-LIKE KINASE1 protein complex includes BRASSINOSTEROID-INSENSITIVE1. The Plant Cell 18 (3). – p. 626 – 638.)
Smaczniak, C.; Li, N.; Boeren, J.A.; America, A.H.P.; Dongen, W.M.A.M. van; Goerdayal, S.S.; Vries, S.C. de; Angenent, G.C.; Kaufmann, K. (2012)
Proteomics-based identification of low-abundance signaling and regulatory protein complexes in native plant tissues.
Nature protocols 7 . – p. 2144 – 2158.
New procedures for quantitative milk fat globule membrane proteins. The sample preparation method was set up by us.
Lu, J.; Boeren, J.A.; Vries, S.C. de; Valenberg, H.J.F. van; Vervoort, J.J.M.; Hettinga, K.A. (2011)
Filter-aided sample preparation with dimethyl labeling to identify and quantify milk fat globule membrane proteins.
Journal of Proteomics 75 (1). – p. 34 – 43.
New procedures for purification and identification of low abundant metabolites in complex matrices. We set up the procedure and identification tools.
Hooft, J.J.J. van der; Vos, R.C.H. de; Mihaleva, V.; Bino, R.J.; Ridder, L.; Roo, N. de; Jacobs, D.M.; Duynhoven, J.P.M. van; Vervoort, J.J.M. (2012)
Structural elucidation and quantification of phenolic conjugates present in human urine after tea intake
Analytical Chemistry 84 (16). – p. 7263 – 7271.

CBSG Hotel function
Netherlands Metabolomics Center (core programme, new method development for low abundant metabolites, associate programme, high throughput screening).
Netherlands Proteomics Center

Hotel Characteristics

No characteristics for this hotel.