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Marcus Taupp
Post-Doctoral Fellow

office phone: 604-827-4216
fax: 604-822-6041

Research interest:
Microbial biotransformation of xenobiotics and bioremediation of contaminated sites, diversity and function of microbial communities, functional environmental genomics, stable isotope techniques, organic and analytical chemistry.


Development of genomic tools for monitoring and improving passive mitigation of mine drainage

    Passive treatment systems are defined as natural or engineered systems that make use of naturally occurring geochemical and biological processes for detoxification of water and soils. Mine drainage and other similar wastewaters are a significant source for potential contamination of aquatic environments in Canada and the World. Thus, there is a need for effective, inexpensive and sustainable approaches to remediate metal leachate (ML) and acid mine drainage (AMD) from mine sites. Microbial communities are critical for successful and sustainable performance of passive treatment systems. These communities and their metabolisms have been mainly characterized using cultivation-dependent methods and as most organisms from the environment cannot be cultured in the laboratory, we propose to open the “black-box” of passive treatment systems by developing and using culture-independent metagenomic approaches (high throughput state-of the-art genomic platforms) to study microbial community structures and metabolisms in passive treatment systems used at mine sites for the bioremediation of drainage contaminated with heavy metals.


Mining metagenomic libraries for the discovery of new biocatalysts

    Although selective isolation schemes have successfully identified microbes mediating biodegradation and biotransformation of all kinds of different substrate, they capture only a minor fraction (0.1% to 1% in most habitats) of the metabolic potential within complex and largely uncultivated microbial assemblages. New approaches in environmental genomics (metagenomics) coupled to functional screening shows great promise in bridging this cultivation gap. We are developing new high-throughput screening assays combining robotic clone picking with plate-reader assays. These screenings are combined with systems to apply various screening hosts in order to improve screening efficiency. We are particularly interested in the breakdown of cellulose and xylan, the discovery of genes involved in heavy-metal resistance and the mechanism of the anaerobic oxidation of methane.

2009- Postdoc at the Department of Chemical & Biological Engineering with Prof. Dr. Sue Baldwin ( and Prof. Dr. Steven Hallam at the Department of Microbiology & Immunology of the University of British Columbia
2006-2009 Postdoc at the Department of Microbiology & Immunology of the University of British Columbia in Vancouver with Prof. Dr. Steven J. Hallam (Canada Research Chair on Environmental Genomics)
2002-2005 Ph.D. study at the Department of Pharmacy and Chemistry, University of Würzburg, Germany, entitled "Biotransformation of N-alkyl- and N,N-dialkylarylamines by Bacillus megaterium" (Prof. Dr. P. Schreier)
1998-2002 Studies of Food chemistry at the University of Würzburg, Germany


Weidner, Maria; Taupp, Marcus and Hallam, Steven J. Expression of recombinant proteins in the methylotrophic yeast Pichia pastoris. J Vis Exp 2010, 36

Taupp, Marcus; Constan, Lea and Hallam, Steven J. (2009) The Biochemistry of Anaerobic Methane Oxidation. In Handbook of Hydrocarbon and Lipid Microbiology. Kenneth N. Timmis (Ed.), Springer-Verlag Berlin Heidelberg.

Taupp, Marcus and Hallam, Steven J. (2009) The Meta-Methanoxgenome. In Handbook of Hydrocarbon and Lipid Microbiology. Kenneth N. Timmis (Ed.), Springer-Verlag Berlin Heidelberg.

Taupp, Marcus; Lee, Sangwon; Hawley, Alyse; Yang, Jinshu and Hallam Steven J. Large insert environmental genomic library production. J Vis Exp 2009, 31.

Taupp, Marcus; Heckel, Frank; Harmsen, Dag; Schreier, Peter. Barbiturate-induced increase of biocatalytic hydroxylation and N-dealkylation of N,N-diethylaniline by whole-cell incubation with Bacillus megaterium. Int. Biodet. Biodeg, 2008, 61, 272-277.

Adam, Waldemar; Heckel, Frank; Saha-Möller, Chantu R.; Taupp, Marcus; Schreier, Peter. A highly enantioselective biocatalytic sulfoxidation by the topsoil bacterium Pseudomonas frederiksbergensis. Tetrahedron: Asymmetry. 2004, 15, 983-985.

Stritzker, Jochen; Janda, Jozef; Schoen, Christoph; Taupp, Marcus; Pilgrim, Sabine; Gentschev, Ivaylo; Schreier, Peter; Geginat, Gernot; Goebel, Werner. Growth, virulence, and immunogenicity of Listeria monocytogenes aro mutants. Infection and Immunity. 2004, 72, 5622-5629.

Adam, Waldemar; Heckel, Frank; Saha-Möller, Chantu R.; Taupp Marcus; Meyer, Jean-Marie; Schreier, Peter. Opposite enantioselection in the bacterial whole-cell sulfoxidation by two phenotypically and genotypically similar strains of Pseudomonas frederiksbergensis. Appl. Environ. Microb. 2005, 71, 2199-2202.

Taupp, Marcus; Harmsen, Dag; Heckel, Frank; Schreier, Peter. Production of natural methyl anthranilate by microbial N-demethylation of N-methyl methyl anthranilate by the topsoil isolated bacterium Bacillus megaterium. J. Agric. Food Chem. 2005, 53, 9586-9589.

Taupp, Marcus; Heckel, Frank; Harmsen, Dag; Schreier, Peter. Biohydroxylation of N,N-dialkylarylamines by the isolated topsoil bacterium Bacillus megaterium. Enz. Micr. Technol. 2006, 38, 1013-1016.

Taupp, Marcus; Heckel, Frank; Harmsen, Dag; Schreier, Peter. Direct conversion and trapping of formaldehyde, formed via oxidative N-demethylation of N,N dimethyl-aniline and N-ethyl-N-methylaniline by Bacillus megaterium, using a cysteamine-thiazolidine system. J. Microbiol. Methods. 2006, 67, 357-62.

American Society of Microbiology
International Society for Microbial Ecology
Verband Biologie, Biowissenschaften & Biomedizin in Deutschland
Member of the Vereinigung für Allgemeine und Angewandte Mikrobiologie

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