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Mass-spectrometry-based draft of the Arabidopsis proteome

Author

Listed:
  • Julia Mergner

    (Technical University of Munich (TUM))

  • Martin Frejno

    (Technical University of Munich (TUM))

  • Markus List

    (Technical University of Munich (TUM))

  • Michael Papacek

    (Technical University of Munich (TUM))

  • Xia Chen

    (Technical University of Munich (TUM))

  • Ajeet Chaudhary

    (Technical University of Munich (TUM))

  • Patroklos Samaras

    (Technical University of Munich (TUM))

  • Sandra Richter

    (University of Tübingen)

  • Hiromasa Shikata

    (Technical University of Munich (TUM)
    National Institute for Basic Biology)

  • Maxim Messerer

    (German Research Center for Environmental Health)

  • Daniel Lang

    (German Research Center for Environmental Health)

  • Stefan Altmann

    (German Research Center for Environmental Health)

  • Philipp Cyprys

    (University of Regensburg)

  • Daniel P. Zolg

    (Technical University of Munich (TUM))

  • Toby Mathieson

    (Cellzome GmbH)

  • Marcus Bantscheff

    (Cellzome GmbH)

  • Rashmi R. Hazarika

    (Technical University of Munich (TUM)
    Technical University of Munich (TUM))

  • Tobias Schmidt

    (Technical University of Munich (TUM))

  • Corinna Dawid

    (Technical University of Munich (TUM))

  • Andreas Dunkel

    (Technical University of Munich (TUM))

  • Thomas Hofmann

    (Technical University of Munich (TUM))

  • Stefanie Sprunck

    (University of Regensburg)

  • Pascal Falter-Braun

    (German Research Center for Environmental Health
    Ludwigs-Maximilians-University (LMU))

  • Frank Johannes

    (Technical University of Munich (TUM)
    Technical University of Munich (TUM))

  • Klaus F. X. Mayer

    (German Research Center for Environmental Health
    Technical University of Munich (TUM))

  • Gerd Jürgens

    (University of Tübingen)

  • Mathias Wilhelm

    (Technical University of Munich (TUM))

  • Jan Baumbach

    (Technical University of Munich (TUM))

  • Erwin Grill

    (Technical University of Munich (TUM))

  • Kay Schneitz

    (Technical University of Munich (TUM))

  • Claus Schwechheimer

    (Technical University of Munich (TUM))

  • Bernhard Kuster

    (Technical University of Munich (TUM)
    Technical University of Munich (TUM)
    Technical University of Munich (TUM))

Abstract

Plants are essential for life and are extremely diverse organisms with unique molecular capabilities1. Here we present a quantitative atlas of the transcriptomes, proteomes and phosphoproteomes of 30 tissues of the model plant Arabidopsis thaliana. Our analysis provides initial answers to how many genes exist as proteins (more than 18,000), where they are expressed, in which approximate quantities (a dynamic range of more than six orders of magnitude) and to what extent they are phosphorylated (over 43,000 sites). We present examples of how the data may be used, such as to discover proteins that are translated from short open-reading frames, to uncover sequence motifs that are involved in the regulation of protein production, and to identify tissue-specific protein complexes or phosphorylation-mediated signalling events. Interactive access to this resource for the plant community is provided by the ProteomicsDB and ATHENA databases, which include powerful bioinformatics tools to explore and characterize Arabidopsis proteins, their modifications and interactions.

Suggested Citation

  • Julia Mergner & Martin Frejno & Markus List & Michael Papacek & Xia Chen & Ajeet Chaudhary & Patroklos Samaras & Sandra Richter & Hiromasa Shikata & Maxim Messerer & Daniel Lang & Stefan Altmann & Phi, 2020. "Mass-spectrometry-based draft of the Arabidopsis proteome," Nature, Nature, vol. 579(7799), pages 409-414, March.
    • Handle: RePEc:nat:nature:v:579:y:2020:i:7799:d:10.1038_s41586-020-2094-2
    DOI: 10.1038/s41586-020-2094-2
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    Cited by:

    1. Lea Reuter & Tanja Schmidt & Prabha Manishankar & Christian Throm & Jutta Keicher & Andrea Bock & Irina Droste-Borel & Claudia Oecking, 2021. "Light-triggered and phosphorylation-dependent 14-3-3 association with NON-PHOTOTROPIC HYPOCOTYL 3 is required for hypocotyl phototropism," Nature Communications, Nature, vol. 12(1), pages 1-15, December.
    2. Karin Vogel & Tobias Bläske & Marie-Kristin Nagel & Christoph Globisch & Shane Maguire & Lorenz Mattes & Christian Gude & Michael Kovermann & Karin Hauser & Christine Peter & Erika Isono, 2022. "Lipid-mediated activation of plasma membrane-localized deubiquitylating enzymes modulate endosomal trafficking," Nature Communications, Nature, vol. 13(1), pages 1-19, December.
    3. Miaomiao Li & Tao Yao & Wanru Lin & Will E. Hinckley & Mary Galli & Wellington Muchero & Andrea Gallavotti & Jin-Gui Chen & Shao-shan Carol Huang, 2023. "Double DAP-seq uncovered synergistic DNA binding of interacting bZIP transcription factors," Nature Communications, Nature, vol. 14(1), pages 1-19, December.

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