ArticleGenome research2011
Temporal uncoupling of the DNA methylome and transcriptional repression during embryogenesis.
Article in Genome research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers.
What it found
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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.
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Who cites it
51 citing papers in PubMed, 106 citations in OpenAlex.
- Pre-marking chromatin with H3K4 methylation is required for accurate zygotic genome activation and development.Nature communications · 2025Article
- Dna methylation dynamics associated with visual system remodeling during flatfish metamorphosis.Epigenetics & chromatin · 2025Article
- REPRODUCTIVE AGEING: Altered histone modification landscapes underpin defects in uterine stromal cell decidualization in aging females.Reproduction (Cambridge, England) · 2024Article
- Extensive DNA methylome rearrangement during early lamprey embryogenesis.Nature communications · 2024Article
- Age-associated DNA methylation changes inEpigenetics · 2023Article
- Role of primary aging hallmarks in Alzheimer´s disease.Theranostics · 2023Review
- Epigenomic dynamics of early Xenopus Embryos.Development, growth & differentiation · 2022Review
- Paternal transgenerational nutritional epigenetic effect: A new insight into nutritional manipulation to reduce the use of antibiotics in animal feeding.Animal nutrition (Zhongguo xu mu shou yi xue hui) · 2022Review
- Expression regulation of genes is linked to their CpG density distributions around transcription start sites.Life science alliance · 2022Article
- Large-scale manipulation of promoter DNA methylation reveals context-specific transcriptional responses and stability.Genome biology · 2022Article
- Sequence determinants, function, and evolution of CpG islands.Biochemical Society transactions · 2021Review
- Role of CxxC-finger protein 1 in establishing mouse oocyte epigenetic landscapes.Nucleic acids research · 2021Article
- Integrative Epigenome Map of the Normal Human Prostate Provides Insights Into Prostate Cancer Predisposition.Frontiers in cell and developmental biology · 2021Article
- Control of zygotic genome activation in Xenopus.Current topics in developmental biology · 2021Review
- Intergenerational transfer of DNA methylation marks in the honey bee.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Recent evolution of a TET-controlled and DPPA3/STELLA-driven pathway of passive DNA demethylation in mammals.Nature communications · 2020Article
- EZH2 regulates sFRP4 expression without affecting the methylation of sFRP4 promoter DNA in colorectal cancer cell lines.Experimental and therapeutic medicine · 2020Article
- Thyroid Hormone Induces DNA Demethylation in Xenopus Tadpole Brain.Endocrinology · 2020Article
- DNA methylation dynamics underlie metamorphic gene regulation programs in Xenopus tadpole brain.Developmental biology · 2020Article
- Stable intronic sequence RNAs (sisRNAs) are selected regions in introns with distinct properties.BMC genomics · 2020Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 3 institutions in 3 countries.
Funding
Abstract
DNA methylation is a tightly regulated epigenetic mark associated with transcriptional repression. Next-generation sequencing of purified methylated DNA obtained from early Xenopus tropicalis embryos demonstrates that this genome is heavily methylated during blastula and gastrula stages. Although DNA methylation is largely absent from transcriptional start sites marked with histone H3 lysine 4 trimethylation (H3K4me3), we find both promoters and gene bodies of active genes robustly methylated. In contrast, DNA methylation is absent in large H3K27me3 domains, indicating that these two repression pathways have different roles. Comparison with chromatin state maps of human ES cells reveals strong conservation of epigenetic makeup and gene regulation between the two systems. Strikingly, genes that are highly expressed in pluripotent cells and in Xenopus embryos but not in differentiated cells exhibit relatively high DNA methylation. Therefore, we tested the repressive potential of DNA methylation using transient and transgenic approaches and show that methylated promoters are robustly transcribed in blastula- and gastrula-stage embryos, but not in oocytes or late embryos. These findings have implications for reprogramming and the epigenetic regulation of pluripotency and differentiation and suggest a relatively open, pliable chromatin state in early embryos followed by reestablished methylation-dependent transcriptional repression during organogenesis and differentiation.
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Registered trials
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.