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A pan-plant protein complex map reveals deep conservation and novel assemblies

View ORCID ProfileClaire D. McWhite, Ophelia Papoulas, View ORCID ProfileKevin Drew, View ORCID ProfileRachael M. Cox, Viviana June, Oliver Xiaoou Dong, View ORCID ProfileTaejoon Kwon, View ORCID ProfileCuihong Wan, View ORCID ProfileMari L. Salmi, View ORCID ProfileStanley J. Roux Jr., Karen S. Browning, View ORCID ProfileZ. Jeffrey Chen, View ORCID ProfilePamela C. Ronald, View ORCID ProfileEdward M. Marcotte
doi: https://doi.org/10.1101/815837
Claire D. McWhite
1Department of Molecular Biosciences, Center for Systems and Synthetic Biology, University of Texas, Austin, TX 78712, USA
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  • ORCID record for Claire D. McWhite
Ophelia Papoulas
1Department of Molecular Biosciences, Center for Systems and Synthetic Biology, University of Texas, Austin, TX 78712, USA
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Kevin Drew
1Department of Molecular Biosciences, Center for Systems and Synthetic Biology, University of Texas, Austin, TX 78712, USA
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Rachael M. Cox
1Department of Molecular Biosciences, Center for Systems and Synthetic Biology, University of Texas, Austin, TX 78712, USA
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Viviana June
1Department of Molecular Biosciences, Center for Systems and Synthetic Biology, University of Texas, Austin, TX 78712, USA
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Oliver Xiaoou Dong
2Department of Plant Pathology and The Genome Center, University of California, Davis, CA 95616, USA, and Joint Bioenergy Institute, Emeryville, CA 94608, USA
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Taejoon Kwon
3Department of Biomedical Engineering/School of Life Sciences, Ulsan National Institute of Science and Technology (UNIST), 50 UNIST-gil, Ulju-gun, Ulsan, 44919, Republic of Korea
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Cuihong Wan
1Department of Molecular Biosciences, Center for Systems and Synthetic Biology, University of Texas, Austin, TX 78712, USA
4Hubei Key Lab of Genetic Regulation & Integrative Biology, School of Life Sciences, Central China Normal University, No. 152 Luoyu Road, Wuhan 430079, PR China
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Mari L. Salmi
1Department of Molecular Biosciences, Center for Systems and Synthetic Biology, University of Texas, Austin, TX 78712, USA
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Stanley J. Roux Jr.
1Department of Molecular Biosciences, Center for Systems and Synthetic Biology, University of Texas, Austin, TX 78712, USA
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Karen S. Browning
1Department of Molecular Biosciences, Center for Systems and Synthetic Biology, University of Texas, Austin, TX 78712, USA
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Z. Jeffrey Chen
1Department of Molecular Biosciences, Center for Systems and Synthetic Biology, University of Texas, Austin, TX 78712, USA
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Pamela C. Ronald
2Department of Plant Pathology and The Genome Center, University of California, Davis, CA 95616, USA, and Joint Bioenergy Institute, Emeryville, CA 94608, USA
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Edward M. Marcotte
1Department of Molecular Biosciences, Center for Systems and Synthetic Biology, University of Texas, Austin, TX 78712, USA
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  • ORCID record for Edward M. Marcotte
  • For correspondence: marcotte@icmb.utexas.edu
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SUMMARY

Plants are foundational to global ecological and economic systems, yet most plant proteins remain uncharacterized. Protein interaction networks often suggest protein functions and open new avenues to characterize genes and proteins. We therefore systematically determined protein complexes from 13 plant species of scientific and agricultural importance, greatly expanding the known repertoire of stable protein complexes in plants. Using co-fractionation mass spectrometry, we recovered known complexes, confirmed complexes predicted to occur in plants, and identified novel interactions conserved over 1.1 billion years of green plant evolution. Several novel complexes are involved in vernalization and pathogen defense, traits critical to agriculture. We also uncovered plant analogs of animal complexes with distinct molecular assemblies, including a megadalton-scale tRNA multi-synthetase complex. The resulting map offers the first cross-species view of conserved, stable protein assemblies shared across plant cells and provides a mechanistic, biochemical framework for interpreting plant genetics and mutant phenotypes.

Footnotes

  • http://plants.proteincomplexes.org

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted October 24, 2019.
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A pan-plant protein complex map reveals deep conservation and novel assemblies
Claire D. McWhite, Ophelia Papoulas, Kevin Drew, Rachael M. Cox, Viviana June, Oliver Xiaoou Dong, Taejoon Kwon, Cuihong Wan, Mari L. Salmi, Stanley J. Roux Jr., Karen S. Browning, Z. Jeffrey Chen, Pamela C. Ronald, Edward M. Marcotte
bioRxiv 815837; doi: https://doi.org/10.1101/815837
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A pan-plant protein complex map reveals deep conservation and novel assemblies
Claire D. McWhite, Ophelia Papoulas, Kevin Drew, Rachael M. Cox, Viviana June, Oliver Xiaoou Dong, Taejoon Kwon, Cuihong Wan, Mari L. Salmi, Stanley J. Roux Jr., Karen S. Browning, Z. Jeffrey Chen, Pamela C. Ronald, Edward M. Marcotte
bioRxiv 815837; doi: https://doi.org/10.1101/815837

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