VIB Screening Core

If you are looking for screening of compound, peptide or siRNA libraries, then robust screening assays, high-quality screening libraries, advanced liquid handling systems and the availability of a range of detection technologies are the key to success. The VIB Screening Core has built up considerable scientific expertise, equipment and resources to complete these tasks with fast and reliable results.

The VIB Screening Core is embedded in the VIB department of Plant Systems Biology.

Services 

Main services

  • Advising/assisting in assay development
    • optimizing, automating and miniaturizing the assay to 96-well or 384-well plate format
  • Assay evaluation
    • Z’ factor
    • signal-to-noise
    • signal-to-background
  • Screening and hit identification
  • Data analysis
    • Hit identification
    • Hit selection
  • Follow-up experiments for hit characterization
    • dose-response studies
    • cytotoxicity analysis
    • structure-activity analysis (SAR)
    • initial hit optimization

Compound collections

The compound screening collection of the VIB Screening Core amounts to a total of about 55,000 compounds. The total collection comprises several sub-libraries, from which researchers can select to screen in their project:

structural diversity collections

  • DIVERSet™ (ChemBridge Corporation; 10,000 compounds)
  • Diverse Set (Life Chemicals; 9,920 compounds)
  • Drug-like Diversity Set (Enamine; 19,200 compounds)

pharmacological diversity collection

  • Pharmacological Diversity Set (Enamine; 10,240 compounds)

protein-protein interaction (PPI) collection

  • PPI Set (ChemBridge Corporation, Life Chemicals; 955 compounds)

Additional smaller collections

  • Spectrum (MicroSource Discovery Systems; 2,400 compounds)
  • Clinical Collection (NIH; 727 compounds)
  • Mechanistic Set (NIH; 821 compounds)
  • Oncology Set (NIH; 97 compounds)
  • Natural Products Set II (NIH; 120 compounds)

siRNA library

The VIB Screening Core has acquired the Human siGENOME/ON-TARGETplus SMARTpool siRNA library (Dharmacon, Thermo Fisher Scientific) for siRNA screening. The library comprises nine distinct subsets, and each subset is available for screening separately. The different subsets include:

  • GPCRs (390 genes)
  • Ion Channels (352 genes)

  • Kinases (720 genes)

  • Phosphatases (257 genes)

  • Proteases (480 genes)

  • Ubiquitin Conjugation 1 (89 genes)

  • Ubiquitin Conjugation 2 (115 genes)

  • Ubiquitin Conjugation 3 (396 genes)

  • Drug Targets (4,795 genes)
    a set that contains additional genes of potential therapeutic interest, including genes involved in apoptosis, senescence, nucleic acid binding, autophagy, DNA repair and characterized nuclear receptors.

Aliquots of each subset can be delivered in 96- or 384-well plate format. Each well contains a mixture of four siRNAs targeting one gene, which provides advantages for both potency and specificity. Sequence information can be provided with all siRNA reagents.

Liquid handling and detection

State-of-the-art liquid handling platforms and a range of plate reader-based detection technologies are available at the facility.

Liquid handling

  • Freedom EVO200 (Tecan) with an integrated carousel, cooling blocks and vacuum manifold
  • JANUS Mini (PerkinElmer) with a varispan and liquid sensing
  • Biomek 2000 (Beckman Coulter), placed in a laminar flow

Detection

  • Absorbance
  • Fluorescence intensity
  • Fluorescence polarization (FP)
  • Time-resolved fluorescence (TRF)
  • Fluorescence resonance energy transfer (FRET)
  • Enhanced luminescence
  • AlphaScreen


In addition, the VIB-CSF has access to a ScanR microscope-based imaging platform (Olympus) for image-based screening.

Publications

Kerchev P, Muhlenbock P, Denecker J, Morreel K, Hoeberichts FA, van der Kelen K, Vandorpe M, Nguyen L, Audenaert D, van Breusegem F. Activation of auxin signalling counteracts photorespiratory H2O2-dependent cell death. Plant Cell Environ. 2015 Feb;38(2):253-65. [pmid]

Xuan W*, Audenaert D*, Parizot B, Möller BK, Njo MF, De Rybel B, De Rop G, Van Isterdael G, Mähönen AP, Vanneste S, Beeckman T. Root Cap-Derived Auxin Pre-patterns the Longitudinal Axis of the Arabidopsis Root. Curr Biol. 2015 May 18;25(10):1381-8. doi: 10.1016/j.cub.2015.03.046. Epub 2015 May 7. * equal contribution [pmid]

Kerchev PI, De Clercq I, Denecker J, Mühlenbock P, Kumpf R, Nguyen L, Audenaert D, Dejonghe W, Van Breusegem F. Mitochondrial perturbation negatively affects auxin signaling. Mol Plant. 2014 Jul;7(7):1138-50. doi: 10.1093/mp/ssu071. Epub 2014 Jun 5. [pmid]

Hu Y, Callebert P, Vandemoortel I, Nguyen L, Audenaert D, Verschraegen L, Vandenbussche F, Van Der Straeten D. TR-DB: an open-access database of compounds affecting the ethylene-induced triple response in Arabidopsis. Plant Physiol Biochem. 2014 Feb;75:128-37. doi: 10.1016/j.plaphy.2013.12.008. Epub 2014 Jan 4. [pmid]

Xuan W, Murphy E, Beeckman T, Audenaert D, De Smet I. Synthetic molecules: helping to unravel plant signal transduction. J Chem Biol. 2013 Mar 3;6(2):43-50. doi: 10.1007/s12154-013-0091-8. eCollection 2013 Mar 3. Review. [pmid]

Audenaert D, Nguyen L, De Rybel B, Beeckman T. Fully automated compound screening in Arabidopsis thaliana seedlings. Methods Mol Biol. 2014;1056:3-9. doi: 10.1007/978-1-62703-592-7_1. [pmid]

Team 

CSF consists of the following members:

Contact 

Address

VIB Screening Core
UGent-VIB Research Building FSVM
Technologiepark 927
9052 Zwijnaarde - Belgium

Tel: +32 (0)9 331 38 40