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Diurnal dynamics of the Arabidopsis rosette proteome and phosphoproteome
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  • R. Glen Uhrig,
  • Sira Echevarría-Zomeño,
  • Pascal Schlapfer,
  • Jonas Grossmann,
  • Bernd Roschitzki,
  • Niklas Koerber,
  • Fabio Fiorani,
  • Wilhelm Gruissem
R. Glen Uhrig
ETH Zürich
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Sira Echevarría-Zomeño
ETH Zürich
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Pascal Schlapfer
ETH Zürich
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Jonas Grossmann
Functional Genomics Center Zurich
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Bernd Roschitzki
Functional Genomics Center Zurich
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Niklas Koerber
Forschungszentrum Jülich GmbH
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Fabio Fiorani
Forschungszentrum Jülich GmbH
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Wilhelm Gruissem
ETH Zurich
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Abstract

Plant growth depends on the diurnal regulation of cellular processes, but it is not well understood if and how transcriptional regulation controls diurnal fluctuations at the protein-level. Here we report a high-resolution Arabidopsis thaliana (Arabidopsis) leaf rosette proteome acquired over a 12 h light : 12 h dark diurnal cycle and the phosphoproteome immediately before and after the light-to-dark and dark-to-light transitions. We quantified nearly 5000 proteins and 800 phosphoproteins, of which 288 fluctuated in their abundance and 226 fluctuated in their phosphorylation status. Of the phosphoproteins, 60% were quantified for changes in protein abundance. This revealed six proteins involved in nitrogen and hormone metabolism that had concurrent changes in both protein abundance and phosphorylation status. The diurnal proteome and phosphoproteome changes involve proteins in key cellular processes, including protein translation, light perception, photosynthesis, metabolism and transport. The phosphoproteome at the light-dark transitions revealed the dynamics at phosphorylation sites in either anticipation of or response to a change in light regime. Phosphorylation site motif analyses implicate casein kinase II and calcium/calmodulin dependent kinases among the primary light-dark transition kinases. The comparative analysis of the diurnal proteome and diurnal and circadian transcriptome established how mRNA and protein accumulation intersect in leaves during the diurnal cycle of the plant.

Peer review status:UNDER REVIEW

18 May 2020Submitted to Plant, Cell & Environment
22 May 2020Assigned to Editor
22 May 2020Submission Checks Completed
22 May 2020Reviewer(s) Assigned
16 Jul 2020Review(s) Completed, Editorial Evaluation Pending