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Linking DNA methylation and histone modification: patterns and paradigms
Abstract
Both DNA methylation and histone modification are involved in establishing patterns of gene repression during development. Certain forms of histone methylation cause local formation of heterochromatin, which is readily reversible, whereas DNA methylation leads to stable long-term repression. It has recently become apparent that DNA methylation and histone modification pathways can be dependent on one another, and that this crosstalk can be mediated by biochemical interactions between SET domain histone methyltransferases and DNA methyltransferases. Relationships between DNA methylation and histone modification have implications for understanding normal development as well as somatic cell reprogramming and tumorigenesis.
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“On the other hand, the increase in scale presents computational opportunities. It allows benefitting from ‘big data’ approaches, most notably deep learning193, developed in fields such as image and text analysis, in which data sets tend to have many more samples than were available in genomics thus far.”
From Revealing the vectors of cellular identity with single-cell genomics (2016) · cites this paper as [193]
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“These results are consistent with those of previous studies and support the notion that DNA methylation and some histone modifications show clear correlation”
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Evolution of DNA Methylation across Insects
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“This is in contrast to DNA methylation in mammals, which is found throughout the genome except at CpG islands near promoters of genes (Ehrlich et al. 1982; Suzuki and Bird 2008; Cedar and Bergman 2009).”
BackgroundStructural insight into autoinhibition and histone H3-induced activation of DNMT3A
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Oxidative stress and epigenetic modifications in the pathogenesis of diabetic retinopathy
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“…independently regulate gene transcription, recent studies have shown that DNA methylation and histone modifications can also work in concordance (Cedar and Bergman, 2009); for example, gene transcription could also be regulated by association of Dnmt1, methyl CpG binding protein 2 (MeCP2) and…”
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Metabolic Regulation of Histone Post-Translational Modifications
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Integrated genomic characterization of IDH1-mutant glioma malignant progression
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“The molecular basis includes the methylation of cytosines in CpG dinucleotides, which, together with histone modifications, noncoding RNAs, and localization, influence the accessibility of a genomic locus to the transcriptional machinery (Bernstein et al., 2007; Cedar & Bergman, 2009).”
BackgroundDiabetic nephropathy—emerging epigenetic mechanisms
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“Although several studies assessed the regulation of DNA methylation by histone modification patterns (Cedar and Bergman, 2009), the relationship between active DNA demethylation and histone modification remain unclear.”
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“Indeed, models have been proposed in which histone modifications guide DNA methylating enzymes (Fuks, 2005; Cedar and Bergman, 2009).”
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“While histone modification has been shown to play a role in a variety of host processes, including cell development (37), host metabolism (38), and ISG induction (36), these findings represent additional evidence that pathogens can exploit the same repression processes to modulate and control the host IFN response (39…”
BackgroundMitochondrial DNA variation and cancer
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Metadata
- Authors
- Cedar, H., & Bergman, Y.
- Affiliations
- Hebrew University of Jerusalem (IL)
- Corresponding author
- Cedar, Howard
- Venue
- Nature Reviews Genetics
- Published
- 2009-05
- Volume
- 10
- Issue
- 5
- Pages
- 295-304
- ISSN
- 1471-0056 (ISSN-L)
- 1471-0064
- OpenAlex
- W1976626368
- Cited by
- 2,267
- References
- 108
- Citations by year
- 2026: 50 · 2025: 68 · 2024: 87 · 2023: 90 · 2022: 107 · 2021: 135 · 2020: 130 · 2019: 119 · 2018: 131 · 2017: 165 · 2016: 169 · 2015: 183 · 2014: 169 · 2013: 163 · 2012: 184
- FWCI
- 12.31
- Type
- journal article
- Language
- en
- Open access
- closed
- Licence
- www.springer.com/tdm (tdm)
- Locations
- Nature Reviews Genetics (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Cancer-related gene regulation
- Keywords
- DNA methylation, histone modifications, epigenetic crosstalk, gene repression, heterochromatin, DNA methyltransferases, chromatin structure, somatic cell reprogramming, carcinogenesis, development (biology)
- MeSH terms
- Histone Methyltransferases, Animals, DNA, Heterochromatin, Histones, Humans, Models, Biological, Neoplasms, Histone-Lysine N-Methyltransferase, DNA-Cytosine Methylases, DNA Methylation
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