Evidence map›Paper›PMID 39631394›Full record

ArticleMolecular cell2025

DNA hypomethylation promotes UHRF1-and SUV39H1/H2-dependent crosstalk between H3K18ub and H3K9me3 to reinforce heterochromatin states.

Yanqing Liu, Joel A Hrit, Alison A Chomiak, Stephanie Stransky, Jordan R Hoffman, Rochelle L Tiedemann, Ashley K Wiseman, Leena S Kariapper, Bradley M Dickson, Evan J Worden and 3 more

Abstract read
In one paragraph

Article in Molecular cell, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.

0numbers the graph read from it
0cells of the map it votes in
21citing 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

21 citing papers in PubMed.

  1. Review
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  14. The Dual Role ofBiology · 2025
    Review
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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

13 authors.

Yanqing LiuDepartment of Epigenetics, Van Andel Institute, Grand Rapids, MI 49503, USA.
Joel A HritDepartment of Epigenetics, Van Andel Institute, Grand Rapids, MI 49503, USA.
Alison A ChomiakDepartment of Epigenetics, Van Andel Institute, Grand Rapids, MI 49503, USA.
Stephanie StranskyDepartment of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461, USA.
Jordan R HoffmanCell Signaling Technology, Danvers, MA 01923, USA.
Rochelle L TiedemannDepartment of Epigenetics, Van Andel Institute, Grand Rapids, MI 49503, USA.
Ashley K WisemanDepartment of Epigenetics, Van Andel Institute, Grand Rapids, MI 49503, USA.
Leena S KariapperDepartment of Structural Biology, Van Andel Institute, Grand Rapids, MI 49503, USA.
Bradley M DicksonDepartment of Epigenetics, Van Andel Institute, Grand Rapids, MI 49503, USA.
Evan J WordenDepartment of Structural Biology, Van Andel Institute, Grand Rapids, MI 49503, USA.
Christopher J FryCell Signaling Technology, Danvers, MA 01923, USA.
Simone SidoliDepartment of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461, USA.
Scott B RothbartDepartment of Epigenetics, Van Andel Institute, Grand Rapids, MI 49503, USA. Electronic address: scott.rothbart@vai.org.

Funding

Pathology CoreP50CA254897 · NCI · CORIELL INSTITUTE FOR MEDICAL RESEARCH · PI NEPHEW, KENNETH P · 2021 to 2025
$11.9M
Mechanisms of DNA methylation signaling and dysregulation in colon cancerR01CA283463 · NCI · VAN ANDEL RESEARCH INSTITUTE · PI Scott Rothbart · 2024 to 2026
$3.2M
Epigenetic Mechanisms of Retrotransposon SilencingR35GM147261 · NIGMS · VAN ANDEL RESEARCH INSTITUTE · PI Evan J Worden · 2022 to 2026
$2.4M
Molecular mechanisms of chromatin signaling and epigenetic regulationR35GM152184 · NIGMS · VAN ANDEL RESEARCH INSTITUTE · PI Scott Rothbart · 2024 to 2026
$1.6M
Defining the regulation of UHRF1 and DNMT1 for maintenance of the epigenomeF32CA260116 · NCI · VAN ANDEL RESEARCH INSTITUTE · PI HRIT, JOEL · 2021 to 2023
$208k
NCI NIH HHS F32 CA260116NCI NIH HHS P50 CA254897NCI NIH HHS R01 CA283463NIGMS NIH HHS R35 GM147261NIGMS NIH HHS R35 GM152184
6 · The paper itself

Abstract

Mono-ubiquitination of lysine 18 on histone H3 (H3K18ub), catalyzed by UHRF1, is a DNMT1 docking site that facilitates replication-coupled DNA methylation maintenance. Its functions beyond this are unknown. Here, we genomically map simultaneous increases in UHRF1-dependent H3K18ub and SUV39H1/H2-dependent H3K9me3 following DNMT1 inhibition. Mechanistically, transient accumulation of hemi-methylated DNA at CpG islands facilitates UHRF1 recruitment and E3 ligase activity toward H3K18. Notably, H3K18ub enhances SUV39H1/H2 methyltransferase activity and, in colon cancer cells, nucleates new H3K9me3 domains at CpG island promoters of DNA methylation-silenced tumor suppressor genes (TSGs). Disrupting UHRF1 enzyme activity prevents H3K9me3 accumulation while promoting PRC2-dependent H3K27me3 as a tertiary layer of gene repression in these regions. By contrast, disrupting H3K18ub-dependent SUV39H1/H2 activity enhances the transcriptional activating and antiproliferative effects of DNMT1 inhibition. Collectively, these findings reveal roles for UHRF1 and H3K18ub in regulating a hierarchy of repressive histone methylation signaling and rationalize a combination strategy for epigenetic cancer therapy.

Indexed as

CCAAT-Enhancer-Binding ProteinsDNA MethylationHeterochromatinHistonesMethyltransferasesRepressor ProteinsCell Line, TumorColonic NeoplasmsCpG IslandsDNA (Cytosine-5-)-Methyltransferase 1DNA (Cytosine-5-)-MethyltransferasesHCT116 CellsHEK293 CellsHistone-Lysine N-MethyltransferaseHumansPromoter Regions, GeneticCCAAT-Enhancer-Binding ProteinsDNA (Cytosine-5-)-Methyltransferase 1DNA (Cytosine-5-)-MethyltransferasesDNMT1 protein, humanHeterochromatinHistone-Lysine N-MethyltransferaseHistonesMethyltransferasesRepressor ProteinsSUV39H1 protein, humanUbiquitin-Protein LigasesUHRF1 protein, humanDNA methylationepigenetic therapyhistone methylationhistone ubiquitinationSUV39H1/H2UHRF1

Identifiers

PMID39631394
PMCPMC11741932

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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.