Evidence map›Paper›PMID 38664420›Full record

ArticleNature communications2024

Photobody formation spatially segregates two opposing phytochrome B signaling actions of PIF5 degradation and stabilization.

Ruth Jean Ae Kim, De Fan, Jiangman He, Keunhwa Kim, Juan Du, Meng Chen

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
10.2field-weighted citation impact, top 2% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

8 citing papers in PubMed, 17 citations in OpenAlex.

  1. Article
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  7. Priming thermotolerance: unlocking heat resilience for climate-smart crops.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2025
    Review
  8. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

6 authors at 1 institution in 2 countries.

Ruth Jean Ae Kim *Department of Botany and Plant Sciences, Institute for Integrative Genome Biology, University of California, Riverside, CA, 92521, USA.ORCID http://orcid.org/0009-0008-0450-6216
De Fan *Department of Botany and Plant Sciences, Institute for Integrative Genome Biology, University of California, Riverside, CA, 92521, USA.ORCID http://orcid.org/0009-0001-9154-8949
Jiangman He *Department of Botany and Plant Sciences, Institute for Integrative Genome Biology, University of California, Riverside, CA, 92521, USA.ORCID http://orcid.org/0000-0002-6535-1544
Keunhwa KimDepartment of Botany and Plant Sciences, Institute for Integrative Genome Biology, University of California, Riverside, CA, 92521, USA.
Juan DuDepartment of Botany and Plant Sciences, Institute for Integrative Genome Biology, University of California, Riverside, CA, 92521, USA.ORCID http://orcid.org/0000-0003-0192-6633
Meng ChenDepartment of Botany and Plant Sciences, Institute for Integrative Genome Biology, University of California, Riverside, CA, 92521, USA. meng.chen@ucr.edu.ORCID http://orcid.org/0000-0003-0351-5897
University of California, Riverside · US

Funding

Genetic Characterization of Phytochrome Nuclear Bodies in Plant Light SignalingR01GM087388 · NIGMS · UNIVERSITY OF CALIFORNIA RIVERSIDE · PI CHEN, MENG · 2010 to 2023
$5.8M
NIGMS NIH HHS R01 GM087388
6 · The paper itself

Abstract

Photoactivation of the plant photoreceptor and thermosensor phytochrome B (PHYB) triggers its condensation into subnuclear membraneless organelles named photobodies (PBs). However, the function of PBs in PHYB signaling remains frustratingly elusive. Here, we found that PHYB recruits PHYTOCHROME-INTERACTING FACTOR 5 (PIF5) to PBs. Surprisingly, PHYB exerts opposing roles in degrading and stabilizing PIF5. Perturbing PB size by overproducing PHYB provoked a biphasic PIF5 response: while a moderate increase in PHYB enhanced PIF5 degradation, further elevating the PHYB level stabilized PIF5 by retaining more of it in enlarged PBs. Conversely, reducing PB size by dim light, which enhanced PB dynamics and nucleoplasmic PHYB and PIF5, switched the balance towards PIF5 degradation. Together, these results reveal that PB formation spatially segregates two antagonistic PHYB signaling actions - PIF5 stabilization in PBs and PIF5 degradation in the surrounding nucleoplasm - which could enable an environmentally sensitive, counterbalancing mechanism to titrate nucleoplasmic PIF5 and environmental responses.

Indexed as

ArabidopsisArabidopsis ProteinsBasic Helix-Loop-Helix ProteinsPhytochrome BSignal TransductionCell NucleusGene Expression Regulation, PlantLightPlants, Genetically ModifiedProtein StabilityProteolysisArabidopsis ProteinsBasic Helix-Loop-Helix ProteinsPHYB protein, ArabidopsisPhytochrome BPIF5 protein, Arabidopsis

Identifiers

PMID38664420
PMCPMC11045832
OpenAlexW4395467650

What OpenQuestion holds

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LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.