ArticleCurrent biology : CB2009
Visualization of individual Scr mRNAs during Drosophila embryogenesis yields evidence for transcriptional bursting.
Article in Current biology : CB, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 66 papers.
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Who cites it
66 citing papers in PubMed.
- What makes genes burst.Trends in cell biology · 2026Review
- TRENDY: gene regulatory network inference enhanced by transformer.Bioinformatics (Oxford, England) · 2025Article
- Two-State Stochastic Model of In Vivo Observations of Transcriptional Bursts.Brazilian journal of physics · 2025Article
- PunctaFinder: An algorithm for automated spot detection in fluorescence microscopy images.Molecular biology of the cell · 2024Article
- Optogenetic dissection of transcriptional repression in a multicellular organism.Nature communications · 2024Article
- Site-Specific Covalent Labeling of DNA Substrates by an RNA Transglycosylase.Journal of the American Chemical Society · 2023Article
- Regulatory Mechanisms for Transcriptional Bursting Revealed by an Event-Based Model.Research (Washington, D.C.) · 2023Article
- Analysis of Gene Expression Patterns and RNA Localization by Fluorescence in Situ Hybridization in Whole Mount Drosophila Testes.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Activation domains can decouple the mean and noise of gene expression.Cell reports · 2022Article
- Cell identity specification in plants: lessons from flower development.Journal of experimental botany · 2021Review
- Real-time single-cell characterization of the eukaryotic transcription cycle reveals correlations between RNA initiation, elongation, and cleavage.PLoS computational biology · 2021Article
- Tracing DNA paths and RNA profiles in cultured cells and tissues with ORCA.Nature protocols · 2021Article
- Article
- Binary Expression Enhances Reliability of Messaging in Gene Networks.Entropy (Basel, Switzerland) · 2020Article
- Spatially multiplexed RNA in situ hybridization to reveal tumor heterogeneity.Nucleic acids research · 2020Article
- Multimodal transcriptional control of pattern formation in embryonic development.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Article
- An LRR Receptor-Teneurin System Directs Planar Polarity at Compartment Boundaries.Developmental cell · 2019Article
- Transcriptional Bursting and Co-bursting Regulation by Steroid Hormone Release Pattern and Transcription Factor Mobility.Molecular cell · 2019Article
- Molecular basis and biological function of variability in spatial genome organization.Science (New York, N.Y.) · 2019Review
6 more citing papers are in PubMed but not listed here.
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Authors and funding
6 authors.
Funding
Abstract
The detection and counting of transcripts within single cells via fluorescent in situ hybridization (FISH) has allowed researchers to ask quantitative questions about gene expression at the level of individual cells. This method is often preferable to quantitative RT-PCR, because it does not necessitate destruction of the cells being probed and maintains spatial information that may be of interest. Until now, studies using FISH at single-molecule resolution have only been rigorously carried out in isolated cells (e.g., yeast cells or mammalian cell culture). Here, we describe the detection and counting of transcripts within single cells of fixed, whole-mount Drosophila embryos via a combination of FISH, immunohistochemistry, and image segmentation. Our method takes advantage of inexpensive, long RNA probes detected with antibodies, and we present novel evidence to show that we can robustly detect single mRNA molecules. We use this method to characterize transcription at the endogenous locus of the Hox gene Sex combs reduced (Scr), by comparing a stably expressing group of cells to a group that only transiently expresses the gene. Our data provide evidence for transcriptional bursting, as well for divergent "accumulation" and "maintenance" phases of gene activity at the Scr locus.
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