ArticleNucleic acids research2018
SRB-2: a promiscuous rainbow aptamer for live-cell RNA imaging.
Article in Nucleic acids research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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Who cites it
37 citing papers in PubMed, 77 citations in OpenAlex.
- Noninvasive methods to monitor dynamic single-cell events.Trends in cell biology · 2026Review
- Honeydew: A Fluorescent Aptamer for Low-Cost Azo Food Dyes.Chembiochem : a European journal of chemical biology · 2026Article
- Lighting Up Endogenous RNA: Fluorescent Aptamer Sensors for Live-Cell Imaging.Chemical & biomedical imaging · 2026Review
- Single-step discovery of high-affinity RNA ligands by UltraSelex.Nature chemical biology · 2025Article
- Structural basis for ring-opening fluorescence by the RhoBAST RNA aptamer.Nucleic acids research · 2025Article
- Imaging of endogenous RNA in live cells using sequence-activated fluorescent RNA probes.Nucleic acids research · 2025Article
- Imaging the dynamics of messenger RNA with a bright and stable green fluorescent RNA.Nature chemical biology · 2024Article
- Structure-based insights into fluorogenic RNA aptamers.Acta biochimica et biophysica Sinica · 2024Review
- Fluorogenic RNA-Based Biosensors of Small Molecules: Current Developments, Uses, and Perspectives.Biosensors · 2024Review
- Recent advances in living cell nucleic acid probes based on nanomaterials for early cancer diagnosis.Asian journal of pharmaceutical sciences · 2024Review
- A universal orthogonal imaging platform for living-cell RNA detection using fluorogenic RNA aptamers.Chemical science · 2023Article
- Large Stokes shift fluorescent RNAs for dual-emission fluorescence and bioluminescence imaging in live cells.Nature methods · 2023Article
- Genetically encoded RNA-based sensors with Pepper fluorogenic aptamer.Nucleic acids research · 2023Article
- Biogenic Imaging Contrast Agents.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2023Review
- Fast-exchanging spirocyclic rhodamine probes for aptamer-based super-resolution RNA imaging.Nature communications · 2023Article
- Intracellular RNA and DNA tracking by uridine-rich internal loop tagging with fluorogenic bPNA.Nature communications · 2023Article
- Avidity-based bright and photostable light-up aptamers for single-molecule mRNA imaging.Nature chemical biology · 2023Article
- Lighting-Up the Far-Red Fluorescence of RNA-Selective Dyes by Switching from Ortho to Para Position.International journal of molecular sciences · 2023Article
- Live cell imaging of DNA and RNA with fluorescent signal amplification and background reduction techniques.Frontiers in cell and developmental biology · 2023Review
- Repurposing an adenine riboswitch into a fluorogenic imaging and sensing tag.Nature chemical biology · 2022Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The SRB-2 aptamer originally selected against sulforhodamine B is shown here to promiscuously bind to various dyes with different colors. Binding of SRB-2 to these dyes results in either fluorescence increase or decrease, making them attractive for fluorescence microscopy and biological assays. By systematically varying fluorophore structural elements and measuring dissociation constants, the principles of fluorophore recognition by SRB-2 were analyzed. The obtained structure-activity relationships allowed us to rationally design a novel, bright, orange fluorescent turn-on probe (TMR-DN) with low background fluorescence, enabling no-wash live-cell RNA imaging. This new probe improved the signal-to-background ratio of fluorescence images by one order of magnitude over best previously known probe for this aptamer. The utility of TMR-DN is demonstrated by imaging ribosomal and messenger RNAs, allowing the observation of distinct localization patterns in bacteria and mammalian cells. The SRB-2 / TMR-DN system is found to be orthogonal to the Spinach/DFHBI and MG/Malachite green aptamer/dye systems.
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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.