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Charting organellar importomes by quantitative mass spectrometry

Author

Listed:
  • Christian D. Peikert

    (Faculty of Biology, Institute of Biology II, University of Freiburg)

  • Jan Mani

    (University of Bern)

  • Marcel Morgenstern

    (Faculty of Biology, Institute of Biology II, University of Freiburg)

  • Sandro Käser

    (University of Bern)

  • Bettina Knapp

    (Faculty of Biology, Institute of Biology II, University of Freiburg)

  • Christoph Wenger

    (University of Bern)

  • Anke Harsman

    (University of Bern)

  • Silke Oeljeklaus

    (Faculty of Biology, Institute of Biology II, University of Freiburg)

  • André Schneider

    (University of Bern)

  • Bettina Warscheid

    (Faculty of Biology, Institute of Biology II, University of Freiburg
    BIOSS Centre for Biological Signalling Studies, University of Freiburg)

Abstract

Protein import into organelles is essential for all eukaryotes and facilitated by multi-protein translocation machineries. Analysing whether a protein is transported into an organelle is largely restricted to single constituents. This renders knowledge about imported proteins incomplete, limiting our understanding of organellar biogenesis and function. Here we introduce a method that enables charting an organelle’s importome. The approach relies on inducible RNAi-mediated knockdown of an essential subunit of a translocase to impair import and quantitative mass spectrometry. To highlight its potential, we established the mitochondrial importome of Trypanosoma brucei, comprising 1,120 proteins including 331 new candidates. Furthermore, the method allows for the identification of proteins with dual or multiple locations and the substrates of distinct protein import pathways. We demonstrate the specificity and versatility of this ImportOmics method by targeting import factors in mitochondria and glycosomes, which demonstrates its potential for globally studying protein import and inventories of organelles.

Suggested Citation

  • Christian D. Peikert & Jan Mani & Marcel Morgenstern & Sandro Käser & Bettina Knapp & Christoph Wenger & Anke Harsman & Silke Oeljeklaus & André Schneider & Bettina Warscheid, 2017. "Charting organellar importomes by quantitative mass spectrometry," Nature Communications, Nature, vol. 8(1), pages 1-14, August.
    • Handle: RePEc:nat:natcom:v:8:y:2017:i:1:d:10.1038_ncomms15272
    DOI: 10.1038/ncomms15272
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    Cited by:

    1. Nicola M. Moloney & Konstantin Barylyuk & Eelco Tromer & Oliver M. Crook & Lisa M. Breckels & Kathryn S. Lilley & Ross F. Waller & Paula MacGregor, 2023. "Mapping diversity in African trypanosomes using high resolution spatial proteomics," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
    2. Caroline E. Dewar & Silke Oeljeklaus & Jan Mani & Wignand W. D. Mühlhäuser & Corinne Känel & Johannes Zimmermann & Torsten Ochsenreiter & Bettina Warscheid & André Schneider, 2022. "Mistargeting of aggregation prone mitochondrial proteins activates a nucleus-mediated posttranscriptional quality control pathway in trypanosomes," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
    3. Minji Kim & Remigiusz A. Serwa & Lukasz Samluk & Ida Suppanz & Agata Kodroń & Tomasz M. Stępkowski & Praveenraj Elancheliyan & Biniyam Tsegaye & Silke Oeljeklaus & Michal Wasilewski & Bettina Warschei, 2023. "Immunoproteasome-specific subunit PSMB9 induction is required to regulate cellular proteostasis upon mitochondrial dysfunction," Nature Communications, Nature, vol. 14(1), pages 1-23, December.

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