Casper Wilkens

Casper Wilkens

Postdoc

Søltofts Plads

Building: 227, 063

2800 Kgs. Lyngby

Denmark

Mobile: 22759762

I'm a protein chemist with expertise in structure-function relationships of carbohydrate active enzymes, and their biochemical and physicochemical properties.

I've worked with metagenome data that contained genes from most of the CAZyme families, and I've worked in depth with enzymes from GT5, GH10, GH16, GH62, GH67, GH115, GH120, CE1, CE15, CBM6, CBM20, CBM48 and glucan phosphatases.

CV

Education

- July Molecular Biology and Chemistry (B.Sc.) - Roskilde University
- Nove Biochemistry (M.Sc.) - University of Copenhagen
- Apri Enzyme and Protein Chemistry (Ph.D.) - Technical University of Denmark

Academic grades

Ph.D.

Professional experience

June - Post Doc - Technical University of Denmark, Department of Chemical and Biochemical Engineering
Nove - May Post Doc - Aalborg University, Department of Chemistry and Bioscience
Apri - Octo Post Doc - Technical University of Denmark, Systems Biology
Janu - Apri Research Assistent - Technical University of Denmark, Systems Biology

Expertise

Scientific focus areas

Protein chemistry, protein/enzyme substrate interactions, structure-function relationships of carbohydrate active enzymes, biophysical, structural characterization of proteins, degradation of algal and plant biomass for e.g. biofuel, degradation of wastewater surplus sludge for e.g. biogas, and industrial applications of antifreeze proteins and carbohydrate active enzymes.

 

Methods

Biochemistry: Molecular biology techniques for obtaining and cloning genes, recombinant protein production in Pichia pastoris and Escherichia coli, site-directed mutagenesis, protein purification, affinity gel electrophoresis, carbohydrate microarrays and enzymatic assays, and minor experience with HPLC.

Biophysics: Protein X-ray crystallography, surface plasmon resonance, differential scanning calorimetry and circular dichroism spectroscopy, and minor experience with isothermal titration calorimetry.

Bioinformatics: Protein discovery through genome mining, homology modelling, functional subgrouping and phylogenetic analysis.

CAZyme experience: Hands on laboratory experience with GT5, GH10, GH16, GH62, GH67, GH115, GH120, CE1, CE15, CBM6, CBM20 and CBM48, and experience with ~2/3 of CAZYme families from metagenomic and screening studies.

Other information

Publications

 

Peer-reviewed publications

 1. Wilkens, C. and Ramløv, H. (2008): Seasonal variation in antifreeze protein activity and haemolymph osmolality in larvae of a long horn beetle, Cryoletters, 29, 293–300.

2. Kristiansen, E., Wilkens, C., Vincents, B., Friis, D. S., Lorentzen, A. B., Jenssen, H. Løbner-Olesen, A. and Ramløv, H. (2012). Hyperactive antifreeze proteins from longhorn beetles: some structural insights. J. Insect Physiol., 58, 1502–1510.

 3. Møller, M. S., Cockburn, D., Nielsen, J. W., Jensen, J. M., Vester-Christensen, M. B., Nielsen, M. M., Andersen, J. M., Wilkens, C., Rannes, J., Hägglund, P., Henriksen, A., Abou Hachem, M., Willemoës, M. and Svensson, B. (2013). Surface binding sites (SBSs), mechanism and regulation of enzymes degrading amylopectin and α-limit dextrins. J. Appl. Glycosci., 60, 101–109.

 4. Cockburn, D., Wilkens, C., Ruzanski, C., Andersen, S., Nielsen, J. W., Smith, A. M., Field, R. A., Willemoës, M., Abou Hachem, M. and Svensson, B. (2014). Analysis of surface binding sites (SBSs) in carbohydrate active enzymes with focus on glycoside hydrolase families 13 and 77 – A mini-review. Biologia, 69, 705–712.

5. Wilkens, C., Poulsen, J.-C. N., Ramløv, H. and Lo Leggio, L. (2014) Purification, crystal structure determination and functional characterization of type III antifreeze proteins from the European eelpout Zoarces viviparous. Cryobiology, 69, 163–169.

6. Wilkens, C., Cuesta-Seijo, J. A., Palcic, M. and Svensson, B. (2014). Selectivity of the surface binding site (SBS) on barley starch synthase I. Biologia, 69, 1118–1121.

7. Wilkens, C., Cockburn, D., Andersen, S., Petersen, B. O., Ruzanski, C., Field, R. A., Hindsgaul, O., Nakai, H., McCleary, B., Smith, A. M., Abou Hachem, M. and Svensson, B. (2015). Analysis of surface binding sites (SBS) within GH62, GH13 and GH77. J. Appl. Glycosci., 62, 87–93.

8. Wilkens, C.*, Auger, K. D.*, Meekins, D. A., Raththagala, M., Abou Hachem, M., Gentry, M. S., Svensson, B. (2016). Plant α-glucan phosphatases SEX4 and LSF2 possess different affinity for amylopectin and amylose. FEBS Lett., 590, 118–128.

9. Wilkens, C., Andersen, S., Petersen, B. O., An, L., Busse-Wicher, M., Birch, J., Cockburn, D., Nakai, H., Christensen, H. E. M., Kragelund, B. B., Dupree, P., McCleary, B., Hindsgaul, O., Abou Hachem, M. and Svensson, B. (2016). An efficient arabinoxylan-debranching α-l-arabinofuranosidase of family GH62 from Aspergillus nidulans has a secondary carbohydrate binding sitey. Appl. Microbiol. Biotechnol., 100, 6265–6277.

10. Cockburn, D., Wilkens, C., Dilokpimol, A., Nakai, H., Lewinska, A., Abou Hachem and Svensson, B (2016). Using carbohydrate interaction assays to reveal novel binding sites in carbohydrate active enzymes. PLoS ONE, 11, e0160112.

11. Cockburn, D., Wilkens, C. and Svensson, B. Affinity electrophoresis for analysis of catalytic module-carbohydrate interactions. Methods in Molecular Biology: Protein-Carbohydrate interactions (Eds. van Bueren, A. L. and Abbott, D. W.), accepted.

 

Patents and patent applications

1. Ramløv, H., Wilkens C. and Lobner-Olesen, A. (2009). Polypeptides comprising an ice-binding activity. WO2009065415 (A1), US2010312045 (A1), KR20100110778 (A), JP2011504107 (A), EP2602263 (A3), CN101918437 (B), CA2706550 (A1), AU2008328371 (B2).

 

Conference presentations

1. Seasonal variation in antifreeze protein activity and hemolymph osmolality in larvae of a long horn beetle. 2nd International Symposium on the Environmental Physiology of Ectotherms and Plants (ISEPEP), Roskilde, Denmark, July 11–16 2005 (Poster).

2. Type III antifreeze proteins from the eel pout Zoarces viviparus – why don’t they work? 39th Danish Crystallographer Meeting and 2nd Danish Centre for the use of Synchrotron X-ray and Neutron facilities (DanScatt) meeting, Lyngby, Denmark, August 24-28 2009 (Poster).

3. Type III antifreeze proteins from the eel pout Zoarces viviparus – why don’t they work? 18th CoLuAa (a Macromolecular Crystallography Conference), Bagsværd, Denmark, November 4–5 2009 (Oral selected from abstract).

4. Type III antifreeze proteins from the eel pout Zoarces viviparus – structure and function. 40th Danish Crystallographer Meeting and 3rd Danish Centre for the use of Synchrotron X-ray and Neutron facilities (DanScatt) meeting, Lyngby, Denmark, May 31–June 1 2010 (Poster).

5. Surface binding sites in amylolytic enzymes. 4th Symposium on the Alpha-Amylase Family, Smolenice, Slovakia, September 26–30 2010 (Poster).

6. Characterization of a GH62 α-L-arabinofuranosidase from Aspergillus nidulans FGSC. 9th Carbohydrate Bioengineering Meeting, Lisbon, Portugal, May 15–18 2011 (Poster).

7. Discovery and characterization of surface binding sites in carbohydrate active enzymes. 20th CoLuAa (a Macromolecular Crystallography Conference), Copenhagen, Denmark November 4–5 2011 (Poster).

8. Searching for a surface biding site on a GH62 α-l-Arabinofuranosidase from Aspergillus nidulans FGSC. Plant and Seaweed Polysaccharides Symposium, Nantes, July 17–20 2012 (Poster).

9. Mutational analysis of residues involved in binding of substrates in the active site and on the surface of a GH62 α-l-arabinofuranosidase from Aspergillus nidulans. 10th Carbohydrate Bioengineering Meeting, Prague, Czech Republic, April 21–24 2013 (Poster).

10. Surface binding sites within α-glucan active enzymes. 5th Symposium on the Alpha-Amylase Family, Smolenice, Slovakia, October 2013 20–24 (Oral selected from abstract and poster).

11. Aspergillus nidulans GH62A – a type B α-l -arabinofuranosidase Enzymes and carbohydrates - Satellite Workshop to the CBM11 in Helsinki, Kgs. Lyngby, Denmark, May 8 2015 (Oral, invited)

12. Mining anaerobic digester consortia metagenomes for secreted carbohydrate active enzymes. 11th Carbohydrate Bioengineering Meeting, Espoo, Finland, May 10–13 2015 (Poster).

13. The xylanolytic capacity of the microbial consortium in a thermophilic anaerobic digester feed with wastewater surplus sludge. Gordon Research Seminar, Andover, New Hampshire, US, 1–2 August 2015 (Oral selected from abstract).

14. The xylanolytic capacity of the microbial consortium in a thermophilic anaerobic digester feed with wastewater surplus sludge. Gordon Research Conference, Andover, New Hampshire, US, 2–7 August 2015 (Poster).

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  • Biologia

    ISSNs: 0006-3088

    Additional searchable ISSN (Electronic): 1335-6372

    Versita, Slovakia

    ISI indexed (2013): ISI indexed yes, BFI (2015): BFI-level 1, Scopus rating (2015): 0.322 0.51

    Central database

    Journal

  • Journal of Applied Glycoscience

    ISSNs: 1344-7882, 1340-3494

    Japanese Society of Applied Glycoscience, Japan

    ISI indexed (2013): ISI indexed no

    Central database

    Journal

  • F A S E B Journal

    ISSNs: 0892-6638

    Additional searchable ISSN (Electronic): 1530-6860

    Federation of American Societies for Experimental Biology, United States

    ISI indexed (2013): ISI indexed yes, BFI (2015): BFI-level 2, Scopus rating (2015): 2.775 1.18

    Central database

    Journal

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