ArticleNature communications2021
Quantitative imaging of transcription in living Drosophila embryos reveals the impact of core promoter motifs on promoter state dynamics.
Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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Who cites it
54 citing papers in PubMed.
- Stable epigenetic states set single-cell activation thresholds in mammalian expression systems.bioRxiv : the preprint server for biology · 2026Article
- Enhancer control of promoter activity and variability via frequency modulation of clustered transcriptional bursts.Nature genetics · 2026Article
- Invariant nonequilibrium dynamics in gene regulation optimize information flow.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Transcriptional Bursting in Pluripotent Stem Cells.Biology · 2026Review
- LIF signaling pathway regulates the heterogeneous Sox2 transcriptional dynamics in mESCs.Scientific reports · 2026Article
- Mitotic reactivation and transcriptional bursting govern transcriptional noise in the early Drosophila embryo.Development (Cambridge, England) · 2026Article
- Direct observation of Notch signaling-induced transcription hubs mediating gene-expression responses.Science advances · 2026Article
- Heterogeneous NF-κB activation and enhancer features shape transcription in Drosophila immunity.Biophysical journal · 2026Article
- High-resolution binding data of TFIID and cofactors show promoter-specific differences in vivo.Research square · 2026Article
- What makes genes burst.Trends in cell biology · 2026Review
- High-resolution binding data of TFIID and cofactors show promoter-specific differencesbioRxiv : the preprint server for biology · 2025Article
- Behavioral age-detection in individuals reconstructs minute-scale developmental transcriptomics.bioRxiv : the preprint server for biology · 2025Article
- Machine Learning-Driven Prediction of Spatiotemporal Dynamics of Active Nuclei DuringInternational journal of molecular sciences · 2025Article
- A conserved coupling of transcriptional ON and OFF periods underlies bursting dynamics.Nature structural & molecular biology · 2025Article
- Timing is everything: transcription bursting in development.Genes & development · 2025Review
- Coordinated active repression operates via transcription factor cooperativity and multiple inactive promoter states in a developing organism.Nature communications · 2025Article
- Efficient approximations of transcriptional bursting effects on the dynamics of a gene regulatory network.Journal of the Royal Society, Interface · 2025Article
- Heterogeneous NF-κB activation and enhancer features shape transcription inbioRxiv : the preprint server for biology · 2025Article
- Regulation of RNA polymerase II transcription through re-initiation and bursting.Molecular cell · 2025Review
- Regulation of Transcriptional Bursting and Spatial Patterning in EarlybioRxiv : the preprint server for biology · 2025Article
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7 authors.
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Abstract
Genes are expressed in stochastic transcriptional bursts linked to alternating active and inactive promoter states. A major challenge in transcription is understanding how promoter composition dictates bursting, particularly in multicellular organisms. We investigate two key Drosophila developmental promoter motifs, the TATA box (TATA) and the Initiator (INR). Using live imaging in Drosophila embryos and new computational methods, we demonstrate that bursting occurs on multiple timescales ranging from seconds to minutes. TATA-containing promoters and INR-containing promoters exhibit distinct dynamics, with one or two separate rate-limiting steps respectively. A TATA box is associated with long active states, high rates of polymerase initiation, and short-lived, infrequent inactive states. In contrast, the INR motif leads to two inactive states, one of which relates to promoter-proximal polymerase pausing. Surprisingly, the model suggests pausing is not obligatory, but occurs stochastically for a subset of polymerases. Overall, our results provide a rationale for promoter switching during zygotic genome activation.
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