ArticleNature genetics2016
Active DNA demethylation at enhancers during the vertebrate phylotypic period.
Article in Nature genetics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 139 papers.
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Who cites it
139 citing papers in PubMed, 267 citations in OpenAlex.
- Vitamin C boosts DNA demethylation in TET2 germline mutation carriers.Clinical epigenetics · 2023Trial
- Comparative analysis of conserved non-coding elements identifies gene regulatory networks rewired during the water-to-land transition in vertebrates.Biologia futura · 2026Article
- Mechanisms coordinating exit from the stem cell state in mammals.Genes & development · 2026Review
- Unique and overlapping behavioral effects of isoform-specific NRXN1 deletions.Disease models & mechanisms · 2026Article
- Epimutations: raw material for evolution?The EMBO journal · 2026Review
- Teleosts as Models for Epigenetic Inheritance.Molecular ecology · 2026Review
- Unique and overlapping behavioral effects of isoform-specific NRXN1 deletions across development.bioRxiv : the preprint server for biology · 2026Article
- Toward mechanisms underlying the developmental hourglass: evolvability and phylotypic conservation.EvoDevo · 2025Review
- TET knockout cells transit between pluripotent states and exhibit precocious germline entry.The EMBO journal · 2025Article
- Non-CG DNA methylation in animal genomes.Nature genetics · 2025Review
- Cell fate specification modes shape transcriptome evolution in the highly conserved spiral cleavage.EMBO reports · 2025Article
- A Biophysics of Epigenetic Rejuvenation.Cells · 2025Article
- DNA glycosylases Ogg1 and Mutyh influence gene expression of PRC2 targets associated with cognition.Cellular and molecular life sciences : CMLS · 2025Article
- Epigenetic regulation of iron metabolism and ferroptosis in Parkinson's disease: Identifying novel epigenetic targets.Acta pharmacologica Sinica · 2025Review
- Maternal Vitamin C Deficiency and Genetic Risk Factors Contribute to Congenital Defects through Dysregulation of DNA Methylation.bioRxiv : the preprint server for biology · 2025Article
- From Lineage to Longevity: A Field Guide to the Key Players in Epigenetic Contribution to Offspring Health.Current issues in molecular biology · 2025Review
- tet2 and tet3 regulate cell fate specification and differentiation events during retinal development.Scientific reports · 2025Article
- tet2 and tet3 regulate cell fate specification and differentiation events during retinal development.bioRxiv : the preprint server for biology · 2024Article
- Review
- Methylation patterns at the adjacent CpG sites within enhancers are a part of cell identity.Epigenetics & chromatin · 2024Article
79 more citing papers are in PubMed but not listed here.
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Authors and funding
20 authors at 7 institutions in 6 countries.
Funding
Abstract
The vertebrate body plan and organs are shaped during a conserved embryonic phase called the phylotypic stage. However, the mechanisms that guide the epigenome through this transition and their evolutionary conservation remain elusive. Here we report widespread DNA demethylation of enhancers during the phylotypic period in zebrafish, Xenopus tropicalis and mouse. These enhancers are linked to developmental genes that display coordinated transcriptional and epigenomic changes in the diverse vertebrates during embryogenesis. Binding of Tet proteins to (hydroxy)methylated DNA and enrichment of 5-hydroxymethylcytosine in these regions implicated active DNA demethylation in this process. Furthermore, loss of function of Tet1, Tet2 and Tet3 in zebrafish reduced chromatin accessibility and increased methylation levels specifically at these enhancers, indicative of DNA methylation being an upstream regulator of phylotypic enhancer function. Overall, our study highlights a regulatory module associated with the most conserved phase of vertebrate embryogenesis and suggests an ancient developmental role for Tet dioxygenases.
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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.