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Calpain DEK1 acts as a developmental switch gatekeeping cell fate transitions

View ORCID ProfileViktor Demko, View ORCID ProfileTatiana Belova, View ORCID ProfileMaxim Messerer, View ORCID ProfileTorgeir R. Hvidsten, View ORCID ProfilePierre-François Perroud, View ORCID ProfileAko Eugene Ako, View ORCID ProfileWenche Johansen, View ORCID ProfileKlaus F.X. Mayer, View ORCID ProfileOdd-Arne Olsen, View ORCID ProfileDaniel Lang
doi: https://doi.org/10.1101/2021.08.25.457637
Viktor Demko
1Department of Plant Sciences, Norwegian University of Life Sciences, P.O. Box 5003, NO-1432 Ås, Norway
6Department of Plant Physiology, Faculty of Natural Sciences, Comenius University in Bratislava, Ilkovicova 6, 84104 Bratislava, Slovakia; Plant Science and Biodiversity Center, Slovak Academy of Sciences, Dubravska cesta 9, 84104 Bratislava, Slovakia
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Tatiana Belova
1Department of Plant Sciences, Norwegian University of Life Sciences, P.O. Box 5003, NO-1432 Ås, Norway
7Centre for Molecular Medicine Norway, University of Oslo, Oslo, Norway
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Maxim Messerer
2Plant Genome and Systems Biology, Helmholtz Center Munich – Research Center for Environmental Health, 85764 Neuherberg, Germany
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Torgeir R. Hvidsten
3Faculty of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences, Ås, Norway
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Pierre-François Perroud
4Institut Jean-Pierre Bourgin, INRAE, AgroParisTech, Université Paris-Saclay, 78000 Versailles, France
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Ako Eugene Ako
5Department of Biotechnology, Inland Norway University of Applied Sciences, Holsetgata 31, 2318, Hamar, Norway
8School of Animal, Rural and Environmental Sciences, Nottingham Trent University, Brackenhurst Campus, Southwell, NG25 0QF, Nottinghamshire, UK
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Wenche Johansen
5Department of Biotechnology, Inland Norway University of Applied Sciences, Holsetgata 31, 2318, Hamar, Norway
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Klaus F.X. Mayer
2Plant Genome and Systems Biology, Helmholtz Center Munich – Research Center for Environmental Health, 85764 Neuherberg, Germany
9School of Life Sciences, Technical University Munich, 85354 Freising, Germany
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Odd-Arne Olsen
1Department of Plant Sciences, Norwegian University of Life Sciences, P.O. Box 5003, NO-1432 Ås, Norway
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Daniel Lang
2Plant Genome and Systems Biology, Helmholtz Center Munich – Research Center for Environmental Health, 85764 Neuherberg, Germany
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  • For correspondence: daniel.lang@mailbox.org
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Summary

Calpains are cysteine proteases that control cell fate transitions. Although calpains are viewed as modulatory proteases displaying severe, pleiotropic phenotypes in eukaryotes, human calpain targets are also directed to the N-end rule degradatory pathway. Several of these destabilized targets are transcription factors, hinting at a gene regulatory role. Here, we analyze the gene regulatory networks of Physcomitrium patens and characterize the regulons that are deregulated in DEK1 calpain mutants. Predicted cleavage patterns of regulatory hierarchies in the five DEK1-controlled subnetworks are consistent with the gene’s pleiotropy and the regulatory role in cell fate transitions targeting a broad spectrum of functions. Network structure suggests DEK1-gated sequential transition between cell fates in 2D to 3D development. We anticipate that both our method combining phenotyping, transcriptomics and data science to dissect phenotypic traits and our model explaining the calpain’s role as a switch gatekeeping cell fate transitions will inform biology beyond plant development.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • Added Methods sections and Supplementary Figures. Added additional contributing authors. Updated main text.

Copyright 
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-NC-ND 4.0 International license.
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Posted September 22, 2021.
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Calpain DEK1 acts as a developmental switch gatekeeping cell fate transitions
Viktor Demko, Tatiana Belova, Maxim Messerer, Torgeir R. Hvidsten, Pierre-François Perroud, Ako Eugene Ako, Wenche Johansen, Klaus F.X. Mayer, Odd-Arne Olsen, Daniel Lang
bioRxiv 2021.08.25.457637; doi: https://doi.org/10.1101/2021.08.25.457637
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Calpain DEK1 acts as a developmental switch gatekeeping cell fate transitions
Viktor Demko, Tatiana Belova, Maxim Messerer, Torgeir R. Hvidsten, Pierre-François Perroud, Ako Eugene Ako, Wenche Johansen, Klaus F.X. Mayer, Odd-Arne Olsen, Daniel Lang
bioRxiv 2021.08.25.457637; doi: https://doi.org/10.1101/2021.08.25.457637

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