» Articles » PMID: 25263941

Gene Body Methylation Can Alter Gene Expression and is a Therapeutic Target in Cancer

Overview
Journal Cancer Cell
Publisher Cell Press
Specialty Oncology
Date 2014 Sep 30
PMID 25263941
Citations 616
Authors
Affiliations
Soon will be listed here.
Abstract

DNA methylation in promoters is well known to silence genes and is the presumed therapeutic target of methylation inhibitors. Gene body methylation is positively correlated with expression, yet its function is unknown. We show that 5-aza-2'-deoxycytidine treatment not only reactivates genes but decreases the overexpression of genes, many of which are involved in metabolic processes regulated by c-MYC. Downregulation is caused by DNA demethylation of the gene bodies and restoration of high levels of expression requires remethylation by DNMT3B. Gene body methylation may, therefore, be an unexpected therapeutic target for DNA methylation inhibitors, resulting in the normalization of gene overexpression induced during carcinogenesis. Our results provide direct evidence for a causal relationship between gene body methylation and transcription.

Citing Articles

Detection of Novel hub-methylated differentially expressed genes in pregnant women with gestational diabetes mellitus via WGCNA of epigenome-wide and transcriptome-wide profiling.

Hamdan H Int J Health Sci (Qassim). 2025; 19(2):4-16.

PMID: 40046791 PMC: 11877056.


Aberrant DNA methylation as a key modulator of cell death pathways: insights into cancer progression and other diseases.

Zahoor A, Khazer R, Mehraj I, Gani U, Fayaz F, Khanday F Funct Integr Genomics. 2025; 25(1):50.

PMID: 40024973 DOI: 10.1007/s10142-025-01552-x.


Epigenetic modifications in bladder cancer: crosstalk between DNA methylation and miRNAs.

Li W, Luo P, Chen Q, Cheng L, Gan L, Zhang F Front Immunol. 2025; 16:1518144.

PMID: 39981244 PMC: 11841399. DOI: 10.3389/fimmu.2025.1518144.


Active DNA demethylation is upstream of rod-photoreceptor fate determination and required for retinal development.

Hernandez-Nunez I, Urman A, Zhang X, Jacobs W, Hoffman C, Rebba S bioRxiv. 2025; .

PMID: 39975078 PMC: 11838574. DOI: 10.1101/2025.02.03.636318.


Epigenome-wide association study of incident type 2 diabetes in Black and White participants from the Atherosclerosis Risk in Communities Study.

Venkataraghavan S, Pankow J, Boerwinkle E, Fornage M, Selvin E, Ray D Diabetologia. 2025; .

PMID: 39971753 DOI: 10.1007/s00125-024-06352-9.


References
1.
Rhee I, Bachman K, Park B, Jair K, Yen R, Schuebel K . DNMT1 and DNMT3b cooperate to silence genes in human cancer cells. Nature. 2002; 416(6880):552-6. DOI: 10.1038/416552a. View

2.
Wilkerson M, Hayes D . ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking. Bioinformatics. 2010; 26(12):1572-3. PMC: 2881355. DOI: 10.1093/bioinformatics/btq170. View

3.
Ward P, Thompson C . Metabolic reprogramming: a cancer hallmark even warburg did not anticipate. Cancer Cell. 2012; 21(3):297-308. PMC: 3311998. DOI: 10.1016/j.ccr.2012.02.014. View

4.
Sharma S, De Carvalho D, Jeong S, Jones P, Liang G . Nucleosomes containing methylated DNA stabilize DNA methyltransferases 3A/3B and ensure faithful epigenetic inheritance. PLoS Genet. 2011; 7(2):e1001286. PMC: 3033376. DOI: 10.1371/journal.pgen.1001286. View

5.
Andersson R, Enroth S, Rada-Iglesias A, Wadelius C, Komorowski J . Nucleosomes are well positioned in exons and carry characteristic histone modifications. Genome Res. 2009; 19(10):1732-41. PMC: 2765275. DOI: 10.1101/gr.092353.109. View