Activity-based protein profiling as a robust method for enzyme identification and screening in extremophilic Archaea

Susanne Zweerink, Verena Kallnik, Sabrina Ninck, Sabrina Nickel, Julia Verheyen, Marcel Blum, Alexander Wagner, Ingo Feldmann, Albert Sickmann, Sonja-Verena Albers, Christopher Bräsen, Farnusch Kaschani, Bettina Siebers () and Markus Kaiser ()
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Susanne Zweerink: Chemische Biologie, ZMB, Fakultät für Biologie, Universität Duisburg-Essen
Verena Kallnik: Molekulare Enzymtechnologie und Biochemie, Biofilm Centre, ZWU, Fakultät für Chemie, Universität Duisburg-Essen
Sabrina Ninck: Chemische Biologie, ZMB, Fakultät für Biologie, Universität Duisburg-Essen
Sabrina Nickel: Chemische Biologie, ZMB, Fakultät für Biologie, Universität Duisburg-Essen
Julia Verheyen: Molekulare Enzymtechnologie und Biochemie, Biofilm Centre, ZWU, Fakultät für Chemie, Universität Duisburg-Essen
Marcel Blum: Molekulare Enzymtechnologie und Biochemie, Biofilm Centre, ZWU, Fakultät für Chemie, Universität Duisburg-Essen
Alexander Wagner: Molecular Biology of Archaea, Institute of Biology II—Microbiology, University of Freiburg
Ingo Feldmann: Leibniz-Institut für Analytische Wissenschaften—ISAS e.V.
Albert Sickmann: Leibniz-Institut für Analytische Wissenschaften—ISAS e.V.
Sonja-Verena Albers: Molecular Biology of Archaea, Institute of Biology II—Microbiology, University of Freiburg
Christopher Bräsen: Molekulare Enzymtechnologie und Biochemie, Biofilm Centre, ZWU, Fakultät für Chemie, Universität Duisburg-Essen
Farnusch Kaschani: Chemische Biologie, ZMB, Fakultät für Biologie, Universität Duisburg-Essen
Bettina Siebers: Molekulare Enzymtechnologie und Biochemie, Biofilm Centre, ZWU, Fakultät für Chemie, Universität Duisburg-Essen
Markus Kaiser: Chemische Biologie, ZMB, Fakultät für Biologie, Universität Duisburg-Essen

Nature Communications, 2017, vol. 8, issue 1, 1-12

Abstract: Abstract Archaea are characterized by a unique life style in often environmental extremes but their thorough investigation is currently hampered by a limited set of suitable in vivo research methodologies. Here, we demonstrate that in vivo activity-based protein profiling (ABPP) may be used to sensitively detect either native or heterogeneously expressed active enzymes in living archaea even under these extreme conditions. In combination with the development of a genetically engineered archaeal screening strain, ABPP can furthermore be used in functional enzyme screenings from (meta)genome samples. We anticipate that our ABPP approach may therefore find application in basic archaeal research but also in the discovery of novel enzymes from (meta)genome libraries.

Date: 2017
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DOI: 10.1038/ncomms15352

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