ArticleThe EMBO journal2023
Cotranscriptional demethylation induces global loss of H3K4me2 from active genes in Arabidopsis.
Article in The EMBO journal, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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.
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.
Who cites it
15 citing papers in PubMed, 19 citations in OpenAlex.
- Chromatin accessibility and histone landscapes define immune signal-specific transcriptional reprogramming inaBIOTECH · 2026Article
- H3K4 Methylation Readers in Plants: Recognition Mechanisms and Biological Functions.International journal of molecular sciences · 2026Review
- MBD8 is required for LDL2-mediated transcriptional repression downstream of H3K9me2 in Arabidopsis.Nucleic acids research · 2026Article
- Comparative characterization of chromatin-targeting mechanisms across seven H3K4 methyltransferases in Arabidopsis.Plant communications · 2026Article
- A Temperature Increase Induces Atf1/Pcr1-Dependent Rapid Depletion of Histones in Transcriptionally Activated Gene Bodies in Fission Yeast.Genes to cells : devoted to molecular & cellular mechanisms · 2026Article
- H3K4me1 directs H3K36me2 and H3K36me3 deposition in land plants.Nature communications · 2026Article
- Calm in the midst of the storm: inferring gene expression stability in flowering plants.Frontiers in plant science · 2026Article
- H3K4me2 orchestrates H2A.Z and Polycomb repressive marks in Arabidopsis.Nature communications · 2025Article
- A pair of readers of histone H3K4 methylation recruit Polycomb repressive complex 2 to regulate photoperiodic flowering.Nature communications · 2025Article
- Natural variation in histone demethylase GmLDL2 confers flowering time divergence for geographical expansion in soybean.Nature communications · 2025Article
- Histone H3 lysine 4 methylation recruits DNA demethylases to enforce gene expression in Arabidopsis.Nature plants · 2025Article
- Next-generation mapping of the salicylic acid signaling hub and transcriptional cascade.Molecular plant · 2024Article
- A CPF-like phosphatase module links transcription termination to chromatin silencing.Molecular cell · 2024Article
- H3K4me1 recruits DNA repair proteins in plants.The Plant cell · 2024Article
- Cotranscriptional demethylation induces global loss of H3K4me2 from active genes in Arabidopsis.The EMBO journal · 2023Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 2 institutions in 1 country.
Funding
Abstract
Based on studies of animals and yeasts, methylation of histone H3 lysine 4 (H3K4me1/2/3, for mono-, di-, and tri-methylation, respectively) is regarded as the key epigenetic modification of transcriptionally active genes. In plants, however, H3K4me2 correlates negatively with transcription, and the regulatory mechanisms of this counterintuitive H3K4me2 distribution in plants remain largely unexplored. A previous genetic screen for factors regulating plant regeneration identified Arabidopsis LYSINE-SPECIFIC DEMETHYLASE 1-LIKE 3 (LDL3), which is a major H3K4me2 demethylase. Here, we show that LDL3-mediated H3K4me2 demethylation depends on the transcription elongation factor Paf1C and phosphorylation of the C-terminal domain (CTD) of RNA polymerase II (RNAPII). In addition, LDL3 binds to phosphorylated RNAPII. These results suggest that LDL3 is recruited to transcribed genes by binding to elongating RNAPII and demethylates H3K4me2 cotranscriptionally. Importantly, the negative correlation between H3K4me2 and transcription is significantly attenuated in the ldl3 mutant, demonstrating the genome-wide impacts of the transcription-driven LDL3 pathway to control H3K4me2 in plants. Our findings implicate H3K4me2 demethylation in plants as chromatin records of transcriptional activity, which ensures robust gene control.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.