1
|
Faden F, Ramezani T, Mielke S, Almudi I, Nairz K, Froehlich MS, Höckendorff J, Brandt W, Hoehenwarter W, Dohmen RJ, Schnittger A, Dissmeyer N. Phenotypes on demand via switchable target protein degradation in multicellular organisms. Nat Commun 2016; 7:12202. [PMID: 27447739 PMCID: PMC4961840 DOI: 10.1038/ncomms12202] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2016] [Accepted: 06/10/2016] [Indexed: 12/20/2022] Open
Abstract
Phenotypes on-demand generated by controlling activation and accumulation of proteins of interest are invaluable tools to analyse and engineer biological processes. While temperature-sensitive alleles are frequently used as conditional mutants in microorganisms, they are usually difficult to identify in multicellular species. Here we present a versatile and transferable, genetically stable system based on a low-temperature-controlled N-terminal degradation signal (lt-degron) that allows reversible and switch-like tuning of protein levels under physiological conditions in vivo. Thereby, developmental effects can be triggered and phenotypes on demand generated. The lt-degron was established to produce conditional and cell-type-specific phenotypes and is generally applicable in a wide range of organisms, from eukaryotic microorganisms to plants and poikilothermic animals. We have successfully applied this system to control the abundance and function of transcription factors and different enzymes by tunable protein accumulation.
Collapse
Affiliation(s)
- Frederik Faden
- Independent Junior Research Group on Protein Recognition and Degradation, Leibniz Institute of Plant Biochemistry (IPB), Weinberg 3, D-06120 Halle (Saale), Germany
- ScienceCampus Halle—Plant-based Bioeconomy, Betty-Heimann-Strasse 3, D-06120 Halle (Saale), Germany
| | - Thomas Ramezani
- University Group at the Max Planck Institute for Plant Breeding Research (MPIPZ), Max Delbrück Laboratory, Carl-von-Linné-Weg 10, D-50829 Cologne, Germany
- University of Cologne, Institute of Botany III, Biocenter, Zülpicher Str. 47 b, D-50674 Cologne, Germany
| | - Stefan Mielke
- Independent Junior Research Group on Protein Recognition and Degradation, Leibniz Institute of Plant Biochemistry (IPB), Weinberg 3, D-06120 Halle (Saale), Germany
- ScienceCampus Halle—Plant-based Bioeconomy, Betty-Heimann-Strasse 3, D-06120 Halle (Saale), Germany
| | - Isabel Almudi
- Institute of Molecular Systems Biology (IMSB), Swiss Federal Institute of Technology (ETH), Wolfgang-Pauli-Strasse 16, CH-8093 Zurich, Switzerland
| | - Knud Nairz
- Institute of Molecular Systems Biology (IMSB), Swiss Federal Institute of Technology (ETH), Wolfgang-Pauli-Strasse 16, CH-8093 Zurich, Switzerland
| | - Marceli S. Froehlich
- Institute for Genetics, Biocenter, University of Cologne, Zülpicher Straße 47a, D-50674 Cologne, Germany
| | - Jörg Höckendorff
- Institute for Genetics, Biocenter, University of Cologne, Zülpicher Straße 47a, D-50674 Cologne, Germany
| | - Wolfgang Brandt
- Computational Chemistry, Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry (IPB), Weinberg 3, D-06120 Halle (Saale), Germany
| | - Wolfgang Hoehenwarter
- Proteomics Unit, Leibniz Institute of Plant Biochemistry (IPB), Weinberg 3, Halle (Saale) D-06120, Germany
| | - R. Jürgen Dohmen
- Institute for Genetics, Biocenter, University of Cologne, Zülpicher Straße 47a, D-50674 Cologne, Germany
| | - Arp Schnittger
- University Group at the Max Planck Institute for Plant Breeding Research (MPIPZ), Max Delbrück Laboratory, Carl-von-Linné-Weg 10, D-50829 Cologne, Germany
- University of Cologne, Institute of Botany III, Biocenter, Zülpicher Str. 47 b, D-50674 Cologne, Germany
- Département Mécanismes Moléculaires de la Plasticité Phénotypique, Institut de Biologie Moléculaire des Plantes du CNRS, IBMP-CNRS, Unité Propre de Recherche 2357, Conventionné avec l'Université de Strasbourg, 12, rue du Général Zimmer, Strasbourg F-67000, France
| | - Nico Dissmeyer
- Independent Junior Research Group on Protein Recognition and Degradation, Leibniz Institute of Plant Biochemistry (IPB), Weinberg 3, D-06120 Halle (Saale), Germany
- ScienceCampus Halle—Plant-based Bioeconomy, Betty-Heimann-Strasse 3, D-06120 Halle (Saale), Germany
- University Group at the Max Planck Institute for Plant Breeding Research (MPIPZ), Max Delbrück Laboratory, Carl-von-Linné-Weg 10, D-50829 Cologne, Germany
- University of Cologne, Institute of Botany III, Biocenter, Zülpicher Str. 47 b, D-50674 Cologne, Germany
- Département Mécanismes Moléculaires de la Plasticité Phénotypique, Institut de Biologie Moléculaire des Plantes du CNRS, IBMP-CNRS, Unité Propre de Recherche 2357, Conventionné avec l'Université de Strasbourg, 12, rue du Général Zimmer, Strasbourg F-67000, France
| |
Collapse
|
2
|
Burri L, Höckendorff J, Boehm U, Klamp T, Dohmen RJ, Lévy F. Identification and characterization of a mammalian protein interacting with 20S proteasome precursors. Proc Natl Acad Sci U S A 2000; 97:10348-53. [PMID: 10973495 PMCID: PMC27027 DOI: 10.1073/pnas.190268597] [Citation(s) in RCA: 76] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
The assembly of individual mammalian proteasome subunits into catalytically active 20S proteasome is not well understood. Herein, we report the identification and characterization of human and mouse homologues of the yeast proteasome maturating factor Ump1p. We delineate the region of hUMP1 implicated in the specific interaction with proteasome precursors and show that hUMP1 protein is absent from the mature form of the 20S proteasome. We also show that the transcript level of mammalian UMP1 is increased after IFN-gamma treatment and that mammalian UMP1 is functionally related to but not interchangeable with its yeast homologue.
Collapse
Affiliation(s)
- L Burri
- Ludwig Institute for Cancer Research, Lausanne Branch, University of Lausanne, CH-1066 Epalinges, Switzerland
| | | | | | | | | | | |
Collapse
|
3
|
Ramos PC, Höckendorff J, Johnson ES, Varshavsky A, Dohmen RJ. Ump1p is required for proper maturation of the 20S proteasome and becomes its substrate upon completion of the assembly. Cell 1998; 92:489-99. [PMID: 9491890 DOI: 10.1016/s0092-8674(00)80942-3] [Citation(s) in RCA: 264] [Impact Index Per Article: 10.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
We report the discovery of a short-lived chaperone that is required for the correct maturation of the eukaryotic 20S proteasome and is destroyed at a specific stage of the assembly process. The S. cerevisiae Ump1p protein is a component of proteasome precursor complexes containing unprocessed beta subunits but is not detected in the mature 20S proteasome. Upon the association of two precursor complexes, Ump1p is encased and is rapidly degraded after the proteolytic sites in the interior of the nascent proteasome are activated. Cells lacking Ump1p exhibit a lack of coordination between the processing of beta subunits and proteasome assembly, resulting in functionally impaired proteasomes. We also show that the propeptide of the Pre2p/Doa3p beta subunit is required for Ump1p's function in proteasome maturation.
Collapse
Affiliation(s)
- P C Ramos
- Biotechnologisches Zentrallabor, Institut für Mikrobiologie, Heinrich-Heine-Universität Düsseldorf, Germany
| | | | | | | | | |
Collapse
|