Inositol pyrophosphates promote the interaction of SPX domains with the coiled-coil motif of PHR transcription factors to regulate plant phosphate homeostasis

Research output: Contribution to journalArticleResearchpeer review

Authors

  • Martina K. Ried
  • Rebekka Wild
  • Jinsheng Zhu
  • Joka Pipercevic
  • Kristina Sturm
  • Larissa Broger
  • Robert K. Harmel
  • Luciano A. Abriata
  • Ludwig A. Hothorn
  • Dorothea Fiedler
  • Sebastian Hiller
  • Michael Hothorn

Research Organisations

External Research Organisations

  • University of Geneva
  • Leibniz Institute of Plant Biochemistry (IPB)
  • University Grenoble-Alpes (UGA)
  • University of Basel
  • Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP)
  • Humboldt-Universität zu Berlin
  • École polytechnique fédérale de Lausanne (EPFL)
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Details

Original languageEnglish
Article number384
JournalNature Communications
Volume12
Issue number1
Early online date15 Jan 2021
Publication statusPublished - Dec 2021

Abstract

Phosphorus is an essential nutrient taken up by organisms in the form of inorganic phosphate (Pi). Eukaryotes have evolved sophisticated Pi sensing and signaling cascades, enabling them to stably maintain cellular Pi concentrations. Pi homeostasis is regulated by inositol pyrophosphate signaling molecules (PP-InsPs), which are sensed by SPX domain-containing proteins. In plants, PP-InsP-bound SPX receptors inactivate Myb coiled-coil (MYB-CC) Pi starvation response transcription factors (PHRs) by an unknown mechanism. Here we report that a InsP8–SPX complex targets the plant-unique CC domain of PHRs. Crystal structures of the CC domain reveal an unusual four-stranded anti-parallel arrangement. Interface mutations in the CC domain yield monomeric PHR1, which is no longer able to bind DNA with high affinity. Mutation of conserved basic residues located at the surface of the CC domain disrupt interaction with the SPX receptor in vitro and in planta, resulting in constitutive Pi starvation responses. Together, our findings suggest that InsP8 regulates plant Pi homeostasis by controlling the oligomeric state and hence the promoter binding capability of PHRs via their SPX receptors.

Cite this

Inositol pyrophosphates promote the interaction of SPX domains with the coiled-coil motif of PHR transcription factors to regulate plant phosphate homeostasis. / Ried, Martina K.; Wild, Rebekka; Zhu, Jinsheng et al.
In: Nature Communications, Vol. 12, No. 1, 384, 12.2021.

Research output: Contribution to journalArticleResearchpeer review

Ried, MK, Wild, R, Zhu, J, Pipercevic, J, Sturm, K, Broger, L, Harmel, RK, Abriata, LA, Hothorn, LA, Fiedler, D, Hiller, S & Hothorn, M 2021, 'Inositol pyrophosphates promote the interaction of SPX domains with the coiled-coil motif of PHR transcription factors to regulate plant phosphate homeostasis', Nature Communications, vol. 12, no. 1, 384. https://doi.org/10.1038/s41467-020-20681-4
Ried, M. K., Wild, R., Zhu, J., Pipercevic, J., Sturm, K., Broger, L., Harmel, R. K., Abriata, L. A., Hothorn, L. A., Fiedler, D., Hiller, S., & Hothorn, M. (2021). Inositol pyrophosphates promote the interaction of SPX domains with the coiled-coil motif of PHR transcription factors to regulate plant phosphate homeostasis. Nature Communications, 12(1), Article 384. https://doi.org/10.1038/s41467-020-20681-4
Ried MK, Wild R, Zhu J, Pipercevic J, Sturm K, Broger L et al. Inositol pyrophosphates promote the interaction of SPX domains with the coiled-coil motif of PHR transcription factors to regulate plant phosphate homeostasis. Nature Communications. 2021 Dec;12(1):384. Epub 2021 Jan 15. doi: 10.1038/s41467-020-20681-4
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title = "Inositol pyrophosphates promote the interaction of SPX domains with the coiled-coil motif of PHR transcription factors to regulate plant phosphate homeostasis",
abstract = "Phosphorus is an essential nutrient taken up by organisms in the form of inorganic phosphate (Pi). Eukaryotes have evolved sophisticated Pi sensing and signaling cascades, enabling them to stably maintain cellular Pi concentrations. Pi homeostasis is regulated by inositol pyrophosphate signaling molecules (PP-InsPs), which are sensed by SPX domain-containing proteins. In plants, PP-InsP-bound SPX receptors inactivate Myb coiled-coil (MYB-CC) Pi starvation response transcription factors (PHRs) by an unknown mechanism. Here we report that a InsP8–SPX complex targets the plant-unique CC domain of PHRs. Crystal structures of the CC domain reveal an unusual four-stranded anti-parallel arrangement. Interface mutations in the CC domain yield monomeric PHR1, which is no longer able to bind DNA with high affinity. Mutation of conserved basic residues located at the surface of the CC domain disrupt interaction with the SPX receptor in vitro and in planta, resulting in constitutive Pi starvation responses. Together, our findings suggest that InsP8 regulates plant Pi homeostasis by controlling the oligomeric state and hence the promoter binding capability of PHRs via their SPX receptors.",
author = "Ried, {Martina K.} and Rebekka Wild and Jinsheng Zhu and Joka Pipercevic and Kristina Sturm and Larissa Broger and Harmel, {Robert K.} and Abriata, {Luciano A.} and Hothorn, {Ludwig A.} and Dorothea Fiedler and Sebastian Hiller and Michael Hothorn",
note = "Funding Information: This work was supported by European Research Council Consolidator Grant 818696/ INSPIRE (to M.H.), by Swiss National Foundation Sinergia Grant CRSII5_170925 (to M.H., S.H., and D.F.), and by an HHMI International Research Scholar Award (to M.H.). M.K.R. was supported by an EMBO long-term fellowship (ALTF-129-2017). We thank Irene Sabater for providing LI SPX1 and members of the Hothorn lab for critically reading the manuscript. ",
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T1 - Inositol pyrophosphates promote the interaction of SPX domains with the coiled-coil motif of PHR transcription factors to regulate plant phosphate homeostasis

AU - Ried, Martina K.

AU - Wild, Rebekka

AU - Zhu, Jinsheng

AU - Pipercevic, Joka

AU - Sturm, Kristina

AU - Broger, Larissa

AU - Harmel, Robert K.

AU - Abriata, Luciano A.

AU - Hothorn, Ludwig A.

AU - Fiedler, Dorothea

AU - Hiller, Sebastian

AU - Hothorn, Michael

N1 - Funding Information: This work was supported by European Research Council Consolidator Grant 818696/ INSPIRE (to M.H.), by Swiss National Foundation Sinergia Grant CRSII5_170925 (to M.H., S.H., and D.F.), and by an HHMI International Research Scholar Award (to M.H.). M.K.R. was supported by an EMBO long-term fellowship (ALTF-129-2017). We thank Irene Sabater for providing LI SPX1 and members of the Hothorn lab for critically reading the manuscript.

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N2 - Phosphorus is an essential nutrient taken up by organisms in the form of inorganic phosphate (Pi). Eukaryotes have evolved sophisticated Pi sensing and signaling cascades, enabling them to stably maintain cellular Pi concentrations. Pi homeostasis is regulated by inositol pyrophosphate signaling molecules (PP-InsPs), which are sensed by SPX domain-containing proteins. In plants, PP-InsP-bound SPX receptors inactivate Myb coiled-coil (MYB-CC) Pi starvation response transcription factors (PHRs) by an unknown mechanism. Here we report that a InsP8–SPX complex targets the plant-unique CC domain of PHRs. Crystal structures of the CC domain reveal an unusual four-stranded anti-parallel arrangement. Interface mutations in the CC domain yield monomeric PHR1, which is no longer able to bind DNA with high affinity. Mutation of conserved basic residues located at the surface of the CC domain disrupt interaction with the SPX receptor in vitro and in planta, resulting in constitutive Pi starvation responses. Together, our findings suggest that InsP8 regulates plant Pi homeostasis by controlling the oligomeric state and hence the promoter binding capability of PHRs via their SPX receptors.

AB - Phosphorus is an essential nutrient taken up by organisms in the form of inorganic phosphate (Pi). Eukaryotes have evolved sophisticated Pi sensing and signaling cascades, enabling them to stably maintain cellular Pi concentrations. Pi homeostasis is regulated by inositol pyrophosphate signaling molecules (PP-InsPs), which are sensed by SPX domain-containing proteins. In plants, PP-InsP-bound SPX receptors inactivate Myb coiled-coil (MYB-CC) Pi starvation response transcription factors (PHRs) by an unknown mechanism. Here we report that a InsP8–SPX complex targets the plant-unique CC domain of PHRs. Crystal structures of the CC domain reveal an unusual four-stranded anti-parallel arrangement. Interface mutations in the CC domain yield monomeric PHR1, which is no longer able to bind DNA with high affinity. Mutation of conserved basic residues located at the surface of the CC domain disrupt interaction with the SPX receptor in vitro and in planta, resulting in constitutive Pi starvation responses. Together, our findings suggest that InsP8 regulates plant Pi homeostasis by controlling the oligomeric state and hence the promoter binding capability of PHRs via their SPX receptors.

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