Chromatin Architecture Emerges during Zygotic Genome Activation Independent of Transcription
Open accessAbstract
Chromatin architecture is fundamental in regulating gene expression. To investigate when spatial genome organization is first established during development, we examined chromatin conformation during Drosophila embryogenesis and observed the emergence of chromatin architecture within a tight time window that coincides with the onset of transcription activation in the zygote. Prior to zygotic genome activation, the genome is mostly unstructured. Early expressed genes serve as nucleation sites for topologically associating domain (TAD) boundaries. Activation of gene expression coincides with the establishment of TADs throughout the genome and co-localization of housekeeping gene clusters, which remain stable in subsequent stages of development. However, the appearance of TAD boundaries is independent of transcription and requires the transcription factor Zelda for locus-specific TAD boundary insulation. These results offer insight into when spatial organization of the genome emerges and identify a key factor that helps trigger this architecture.
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In the developing Drosophila embryo, enhancer-promoter loops are formed before TADs, and likely also precede the onset of zygotic transcription.
“in the developing Drosophila embryo, enhancer–promoter loops are formed before TADs, and likely also precede the onset of zygotic transcription [453, 454].”
From Transcriptional enhancers and their communication with gene promoters (2021) · cites this paper as [454]
The Results report detecting enhancer–promoter loops in 3–4 and 6–8 hpf Drosophila embryos. The Introduction and Results place widespread TAD formation around zygotic genome activation, but do not establish that enhancer–promoter loops formed before TADs or before zygotic transcription began. No page numbers are available in our copy. (LLM, conf=0.84)
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- Authors
- Hug, C. B., Grimaldi, A. G., Kruse, K., & Vaquerizas, J. M.
- Affiliations
- Max Planck Institute for Molecular Biomedicine (DE)
- Corresponding author
- Vaquerizas, Juan M.
- Venue
- Cell
- Publisher
- Elsevier BV
- Published
- 2017-04
- Volume
- 169
- Issue
- 2
- Pages
- 216-228.e19
- ISSN
- 0092-8674 (ISSN-L)
- OpenAlex
- W2604200375
- Cited by
- 466
- References
- 16
- Citations by year
- 2026: 28 · 2025: 32 · 2024: 32 · 2023: 43 · 2022: 49 · 2021: 65 · 2020: 58 · 2019: 66 · 2018: 59 · 2017: 34
- FWCI
- 24.25
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- Locations
- Cell (publishedVersion)
- PubMed (publishedVersion)
- Max Planck Institute for Plasma Physics (submittedVersion)
- Funders
- Max Planck Society
- International Max Planck Research School – Molecular Biomedicine
- NIH (P40OD018537)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Chromosomal and Genetic Variations
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Nuclear Structure and Function
- Keywords
- chromatin structure, zygotic genome activation, topologically associating domains, TAD boundaries, chromatin conformation, Drosophila embryogenesis, Zelda, transcription factors, spatial genome organization, gene expression regulation
- MeSH terms
- Animals, Chromatin, Drosophila melanogaster, Embryo, Nonmammalian, Nuclear Proteins, RNA Polymerase II, Time Factors, Transcription Factors, Transcription, Genetic, Zygote, Transcriptional Activation, Genes, Essential, Drosophila Proteins, Genome, Insect
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