ArticleCell reports2017
Biotagging of Specific Cell Populations in Zebrafish Reveals Gene Regulatory Logic Encoded in the Nuclear Transcriptome.
Article in Cell reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed.
- MultiSite Assembly of Gateway Induced Clones (MAGIC): a flexible cloning toolbox for use in vertebrate model systems.Development (Cambridge, England) · 2025Article
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- A dual ribosomal system in the zebrafish soma and germline.bioRxiv : the preprint server for biology · 2024Article
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- A single-shot hyperspectral phasor camera for fast, multi-color fluorescence microscopy.Cell reports methods · 2023Article
- Nuclear receptor Nr5a2 promotes diverse connective tissue fates in the jaw.Developmental cell · 2023Article
- RNA-Responsive gRNAs for Controlling CRISPR Activity: Current Advances, Future Directions, and Potential Applications.The CRISPR journal · 2022Review
- Zebrafish: an underutilized tool for discovery in host-microbe interactions.Trends in immunology · 2022Review
- Functional in vivo characterization of sox10 enhancers in neural crest and melanoma development.Communications biology · 2021Article
- Neural crest multipotency and specification: power and limits of single cell transcriptomic approaches.Faculty reviews · 2021Review
- The Cranial Neural Crest in a Multiomics Era.Frontiers in physiology · 2021Article
- Tissue-SpecificSTAR protocols · 2020Article
- Functional Heterogeneity within the Developing Zebrafish Epicardium.Developmental cell · 2020Article
- Macrophages directly contribute collagen to scar formation during zebrafish heart regeneration and mouse heart repair.Nature communications · 2020Article
- Valves Are a Conserved Feature of the Zebrafish Lymphatic System.Developmental cell · 2019Article
- A genome-wide assessment of the ancestral neural crest gene regulatory network.Nature communications · 2019Article
- The gene regulatory basis of genetic compensation during neural crest induction.PLoS genetics · 2019Article
- Specification and formation of the neural crest: Perspectives on lineage segregation.Genesis (New York, N.Y. : 2000) · 2019Review
- From Pioneer to Repressor: Bimodal foxd3 Activity Dynamically Remodels Neural Crest Regulatory Landscape In Vivo.Developmental cell · 2018Article
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
Interrogation of gene regulatory circuits in complex organisms requires precise tools for the selection of individual cell types and robust methods for biochemical profiling of target proteins. We have developed a versatile, tissue-specific binary in vivo biotinylation system in zebrafish termed biotagging that uses genetically encoded components to biotinylate target proteins, enabling in-depth genome-wide analyses of their molecular interactions. Using tissue-specific drivers and cell-compartment-specific effector lines, we demonstrate the specificity of the biotagging toolkit at the biochemical, cellular, and transcriptional levels. We use biotagging to characterize the in vivo transcriptional landscape of migratory neural crest and myocardial cells in different cellular compartments (ribosomes and nucleus). These analyses reveal a comprehensive network of coding and non-coding RNAs and cis-regulatory modules, demonstrating that tissue-specific identity is embedded in the nuclear transcriptomes. By eliminating background inherent to complex embryonic environments, biotagging allows analyses of molecular interactions at high resolution.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.