ArticleCell genomics2025
3D chromatin structures precede genome activation in Drosophila embryogenesis.
Article in Cell genomics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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Who cites it
5 citing papers in PubMed.
- Transcription and Three-Dimensional Genome Organization: Cause, Consequence, or Coordination?BioEssays : news and reviews in molecular, cellular and developmental biology · 2026Review
- Shared binding sites for the chromosomal architectural protein Su(Hw) mediate physical interactions betweenbioRxiv : the preprint server for biology · 2026Article
- Chromatin insulators homie and nhomie can interact with distant copies either together or separately, with distinct outcomes for enhancer-promoter interactions.PLoS genetics · 2026Article
- Looping specificity of Polycomb response elements requires GAF and a combination of looping factors that could form a code.Nucleic acids research · 2026Article
- Three-dimensional genome reorganization foreshadows zygotic genome activation in Drosophila.Nature genetics · 2026Article
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Authors and funding
9 authors.
Funding
Abstract
3D chromatin structure is critical for the regulation of gene expression during development. Here we used Micro-C assays at 100-bp resolution to map genome organization in Drosophila melanogaster throughout the first half of embryogenesis. These high-resolution contact maps reveal fine-scale features such as loops and boundaries delineating topologically associating domains. Notably, we observe that 3D chromatin structures form prior to zygotic genome activation and persist during successive mitotic cycles. Integrative analysis with 149 public chromatin immunoprecipitation sequencing (ChIP-seq) datasets identifies four classes of chromatin structuring elements, including a distinct group enriched for GAGA-associated factor (GAF) and Zelda binding, associated with developmental-gene regulation. These elements are mitotically retained and exhibit sequence and structure similarity between D. melanogaster and D. virilis. We propose that 3D chromatin organization in the pre-cellular embryo facilitates deployment of developmentally regulated genes during Drosophila embryogenesis.
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