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Updated: Mar 2, 2026

mRNA Interactome Capture from Plant Protoplasts
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Quantitative proteomics in plant protease substrate identification.

Fatih Demir1, Stefan Niedermaier1, Joji Grace Villamor1

  • 1ZEA-3 Analytics, Central Institute for Engineering, Electronics and Analytics, Forschungszentrum Jülich, Wilhelm-Johnen-Str., Jülich, 52425, Germany.

The New Phytologist
|May 12, 2017
PubMed
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Proteomics methods help identify plant protease substrates and functions. These techniques analyze protein abundance, turnover, and cleavage sites, advancing our understanding of plant proteolysis.

Area of Science:

  • Plant biology
  • Biochemistry
  • Proteomics

Background:

  • Proteolysis is crucial for plant protein homeostasis and function.
  • Hundreds of plant proteases exist, but their substrates and functions are largely unknown.
  • Proteomics offers powerful tools to investigate these unknowns.

Purpose of the Study:

  • To provide an overview of proteomics techniques for plant protease research.
  • To demonstrate how these methods can identify protease substrates and functions.
  • To highlight recent advancements in understanding plant protease roles.

Main Methods:

  • Quantitative mass spectrometry-based proteomics for large-scale proteome interrogation.
  • Dynamic metabolic stable isotope labeling for measuring protein turnover in vivo.
Keywords:
degradomicsplantsprotease substratesproteasesproteolysisproteomicsterminome

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  • Terminomics for identifying protease cleavage sites in vivo and in vitro.
  • Protease sequence specificity determination.

    • Main Results:

    • Proteomics enables unbiased profiling of proteome changes and modifications.
    • Techniques can measure protein turnover rates and identify cleavage sites.
    • These methods facilitate the discovery of protease substrates and functions.

    Conclusions:

    • Proteomics is essential for deciphering plant protease functions.
    • The discussed techniques offer a comprehensive approach to studying plant proteolysis.
    • This research advances the understanding of molecular mechanisms in plant life.