Evidence map›Paper›PMID 39880018›Full record

ArticleThe Plant cell2024

The evening complex component ELF3 recruits H3K4me3 demethylases to repress PHYTOCHROME INTERACTING FACTOR4 and 5 in Arabidopsis.

Shiyu Tian, Shen Zhang, Fan Xu, Qingbin Sun, Gang Xu, Min Ni

Abstract read
In one paragraph

Article in The Plant cell, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
–field-weighted citation impact
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

11 citing papers in PubMed.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Shiyu TianState Key Laboratory of Wheat Improvement, College of Life Sciences, Shandong Agricultural University, Taian 271018, China.ORCID 0009-0001-9508-6737
Shen ZhangDepartment of Plant and Microbial Biology, University of Minnesota at Twin Cities, Saint Paul, MN 55108, USA.ORCID 0009-0008-6424-684X
Fan XuState Key Laboratory of Wheat Improvement, College of Life Sciences, Shandong Agricultural University, Taian 271018, China.ORCID 0009-0000-9964-0339
Qingbin SunState Key Laboratory of Wheat Improvement, College of Life Sciences, Shandong Agricultural University, Taian 271018, China.ORCID 0000-0001-8686-4421
Gang XuState Key Laboratory of Wheat Improvement, College of Life Sciences, Shandong Agricultural University, Taian 271018, China.ORCID 0009-0008-8853-6067
Min NiDepartment of Plant and Microbial Biology, University of Minnesota at Twin Cities, Saint Paul, MN 55108, USA.ORCID 0000-0001-7180-3319

Funding

National Natural Science Foundation of China 32470366Natural Science Foundation of Shandong Province, China ZR2021QC127
6 · The paper itself

Abstract

In Arabidopsis (Arabidopsis thaliana), light and circadian clock signaling converge on PHYTOCHROME-INTERACTING FACTORS (PIFs) 4 and 5 to produce a daily rhythm of hypocotyl elongation. PIF4 and PIF5 expression is repressed at dusk by the evening complex (EC), consisting of EARLY FLOWERING3 (ELF3), ELF4, and LUX ARRHYTHMO (LUX). Here, we report that ELF3 recruits the JUMONJI (JMJ) H3K4me3 demethylases JMJ17 and JMJ18 to the PIF4 and PIF5 loci in the evening to remove their H3K4me3 marks. The association of JMJ17 and JMJ18 with the 2 genomic loci depends on the EC, and the H3K4me3 marks are enriched in the elf3 and jmj17 jmj18 mutants. Half of the globally differentially expressed genes are overlapping in elf3 and jmj17 jmj18. Cleavage Under Targets and Tagmentation sequencing analysis identified 976 H3K4me3-enriched loci in elf3. Aligning the H3K4me3-enriched loci in elf3 to genes with increased expression in elf3 and jmj17 jmj18 identified 179 and 176 target loci, respectively. Half of the loci are targeted by both ELF3 and JMJ17/JMJ18. This suggests a strong connection between the 2 JMJ proteins and EC function. Our studies reveal that an array of key genes in addition to PIF4 and PIF5 are repressed by the EC through the H3K4me3 demethylation pathway.

Indexed as

ArabidopsisArabidopsis ProteinsBasic Helix-Loop-Helix ProteinsGene Expression Regulation, PlantTranscription FactorsHistonesJumonji Domain-Containing Histone DemethylasesArabidopsis ProteinsAt1g30810 protein, ArabidopsisAt1g63490 protein, ArabidopsisAt2g25930 protein, ArabidopsisBasic Helix-Loop-Helix Proteinshistone H3 trimethyl Lys4HistonesJumonji Domain-Containing Histone DemethylasesPIF4 protein, ArabidopsisPIF5 protein, ArabidopsisTranscription Factors

Identifiers

PMID39880018
PMCPMC11779311

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Registered trials

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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.