ArticleGenome research2018
Inherited DNA methylation primes the establishment of accessible chromatin during genome activation.
Article in Genome research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 38 papers.
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Who cites it
38 citing papers in PubMed.
- HES3-dependent regulatory functions in development and fusion-positive rhabdomyosarcoma.bioRxiv : the preprint server for biology · 2026Article
- CANTAC-seq analysis reveals E2f1 and Otx1 coordinate zygotic genome activation in Xenopus tropicalis.Nature communications · 2025Article
- Rhabdomyosarcoma fusion oncoprotein initially pioneers a neural signature in vivo.Cell reports · 2025Article
- H3K4me2 distinguishes a distinct class of enhancers during the maternal-to-zygotic transition.PLoS biology · 2025Article
- Coordinated action of multiple active histone modifications shapes the zygotic genome activation in teleost embryos.Nature communications · 2025Article
- The Multifaceted Roles of Zinc Finger Proteins in Pluripotency and Reprogramming.International journal of molecular sciences · 2025Review
- Chromatin profiling data indicate regulatory mechanisms for differentiation during development in the acoel Hofstenia miamia.Development (Cambridge, England) · 2025Article
- Article
- The developmental and evolutionary characteristics of transcription factor binding site clustered regions based on an explainable machine learning model.Nucleic acids research · 2024Article
- The chromatin accessibility dynamics during cell fate specifications in zebrafish early embryogenesis.Nucleic acids research · 2024Article
- ADNP modulates SINE B2-derived CTCF-binding sites during blastocyst formation in mice.Genes & development · 2024Article
- miR-430 regulates zygotic mRNA during zebrafish embryogenesis.Genome biology · 2024Article
- Analysis of Chromatin Accessibility and DNA Methylation to Reveal the Functions of Epigenetic Modifications inInternational journal of molecular sciences · 2023Article
- The Novel Role ofInternational journal of molecular sciences · 2023Article
- The miR-430 locus with extreme promoter density forms a transcription body during the minor wave of zygotic genome activation.Developmental cell · 2023Article
- Epigenomic dynamics of early Xenopus Embryos.Development, growth & differentiation · 2022Review
- The landscape of pioneer factor activity reveals the mechanisms of chromatin reprogramming and genome activation.Molecular cell · 2022Article
- Antibody-free profiling of transcription factor occupancy during early embryogenesis by FitCUT&RUN.Genome research · 2022Article
- Primordial Germ Cell Development in the Poeciliid,Frontiers in cell and developmental biology · 2022Article
- Comparative methylomics and chromatin accessibility analysis inHorticulture research · 2022Article
Corrections and comments
- Erratum issued
Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
For animals, epigenetic modifications can be globally or partially inherited from gametes after fertilization, and such information is required for proper transcriptional regulation, especially during the process of zygotic genome activation (ZGA). However, the mechanism underlying how the inherited epigenetic signatures affect transcriptional regulation during ZGA remains poorly understood. Here, we performed genome-wide profiling of chromatin accessibility during zebrafish ZGA, which is closely related to zygotic transcriptional regulation. We observed a clear trend toward a gradual increase in accessible chromatin during ZGA. Furthermore, accessible chromatin at the promoters displayed a sequential priority of emergence, and the locations of the accessible chromatin were precisely primed by the enrichment of unmethylated CpGs that were fully inherited from gametes. On the other hand, distal regions with high methylation levels that were inherited from the sperm facilitated the binding of DNA methylation-preferred transcription factors, such as Pou5f3 and Nanog, which contributed to the establishment of accessible chromatin at these loci. Our results demonstrate a model whereby inherited DNA methylation signatures from gametes prime the establishment of accessible chromatin during zebrafish ZGA through two distinct mechanisms.
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