ArticleMolecular cell2019
Extensive Recovery of Embryonic Enhancer and Gene Memory Stored in Hypomethylated Enhancer DNA.
Article in Molecular cell, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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Who cites it
54 citing papers in PubMed.
- KDM5C and KDM5D influence DNA methylation in adult mouse liver.Biology of sex differences · 2026Article
- Epigenetic Gatekeeping of Intestinal Stem Cell Transformation.bioRxiv : the preprint server for biology · 2026Article
- How Early-Life Programming During Embryogenesis Imprints Cellular Memory.International journal of molecular sciences · 2025Review
- High exposure variance enables candidate biomarker detection in a small EWAS of methylmercury-exposed Peruvian adults.BMC genomic data · 2025Article
- Mapping early PRC2 nucleation sites upon Suz12 reintroduction reveals features ofbioRxiv : the preprint server for biology · 2025Article
- Transcription factors that define the epigenome structures and transcriptomes in microglia.Experimental hematology · 2025Review
- Epigenetic priming of mammalian embryonic enhancer elements coordinates developmental gene networks.Genome biology · 2025Article
- Temporally discordant chromatin accessibility and DNA demethylation define short- and long-term enhancer regulation during cell fate specification.Cell reports · 2025Article
- Dual DNA demethylation mechanisms implement epigenetic memory driven by the pioneer factor PAX7.Science advances · 2025Article
- H3K36 methylation regulates cell plasticity and regeneration in the intestinal epithelium.Nature cell biology · 2025Article
- Motif distribution and DNA methylation underlie distinct Cdx2 binding during development and homeostasis.Nature communications · 2025Article
- Transcription factor dynamics, oscillation, and functions in human enteroendocrine cell differentiation.Cell stem cell · 2024Article
- LSD1 drives intestinal epithelial maturation and controls small intestinal immune cell composition independent of microbiota in a murine model.Nature communications · 2024Article
- DNA methylation-dependent and -independent binding of CDX2 directs activation of distinct developmental and homeostatic genes.bioRxiv : the preprint server for biology · 2024Article
- Memory B cell subsets have divergent developmental origins that are coupled to distinct imprinted epigenetic states.Nature immunology · 2024Article
- A reversible epigenetic memory of inflammatory injury controls lineage plasticity and tumor initiation in the mouse pancreas.Developmental cell · 2023Article
- DNA methylation in the mouse cochlea promotes maturation of supporting cells and contributes to the failure of hair cell regeneration.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Transcriptional and epigenomic profiling identifies YAP signaling as a key regulator of intestinal epithelium maturation.Science advances · 2023Article
- Epigenetic Control of Cell Potency and Fate Determination during Mammalian Gastrulation.Genes · 2023Review
- Graded BMP signaling within intestinal crypt architecture directs self-organization of the Wnt-secreting stem cell niche.Cell stem cell · 2023Article
Corrections and comments
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Authors and funding
11 authors.
Funding
Abstract
Developing and adult tissues use different cis-regulatory elements. Although DNA at some decommissioned embryonic enhancers is hypomethylated in adult cells, it is unknown whether this putative epigenetic memory is complete and recoverable. We find that, in adult mouse cells, hypomethylated CpG dinucleotides preserve a nearly complete archive of tissue-specific developmental enhancers. Sites that carry the active histone mark H3K4me1, and are therefore considered "primed," are mainly cis elements that act late in organogenesis. In contrast, sites decommissioned early in development retain hypomethylated DNA as a singular property. In adult intestinal and blood cells, sustained absence of polycomb repressive complex 2 indirectly reactivates most-and only-hypomethylated developmental enhancers. Embryonic and fetal transcriptional programs re-emerge as a result, in reverse chronology to cis element inactivation during development. Thus, hypomethylated DNA in adult cells preserves a "fossil record" of tissue-specific developmental enhancers, stably marking decommissioned sites and enabling recovery of this epigenetic memory.
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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.