ArticleMolecular cell2017
Natural RNA Polymerase Aptamers Regulate Transcription in E. coli.
Article in Molecular cell, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed, 47 citations in OpenAlex.
- Purine bias in bacterial genes is driven by runaway transcription.Nature microbiology · 2026Article
- Rho-dependent transcription termination: mechanisms and roles in bacterial fitness and adaptation to environmental changes.RNA (New York, N.Y.) · 2025Review
- Rapid discovery of functional RNA domains.Nucleic acids research · 2025Article
- The Psu protein of phage satellite P4 inhibits transcription termination factor ρ by forced hyper-oligomerization.Nature communications · 2025Article
- Regulation of bacterial gene expression by non-coding RNA: It is all about time!Cell chemical biology · 2024Review
- A scalable framework for the discovery of functional helicase substrates and helicase-driven regulatory switches.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Pervasive Transcription-coupled DNA repair in E. coli.Nature communications · 2022Article
- Ms1 RNA Interacts With the RNA Polymerase Core inFrontiers in microbiology · 2022Article
- Transcription complexes as RNA chaperones.Transcription · 2021Article
- Bacterial transcription during growth arrest.Transcription · 2021Review
- Rho-dependent transcription termination: a revisionist view.Transcription · 2021Review
- DNA Breaks-Mediated Fitness Cost Reveals RNase HI as a New Target for Selectively Eliminating Antibiotic-Resistant Bacteria.Molecular biology and evolution · 2021Article
- Pre-termination Transcription Complex: Structure and Function.Molecular cell · 2021Article
- RNA polymerase II-binding aptamers in human ACRO1 satellites disrupt transcriptionTranscription · 2020Article
- Alternative transcription cycle for bacterial RNA polymerase.Nature communications · 2020Article
- Coupled Transcription-Translation in Prokaryotes: An Old Couple With New Surprises.Frontiers in microbiology · 2020Review
- Transcriptional Riboswitches Integrate Timescales for Bacterial Gene Expression Control.Frontiers in molecular biosciences · 2020Review
- iRAPs curb antisense transcription in E. coli.Nucleic acids research · 2019Article
- Autoregulation ofInternational journal of molecular sciences · 2019Article
- Regulation of Bacterial Gene Expression by Transcription Attenuation.Microbiology and molecular biology reviews : MMBR · 2019Review
Corrections and comments
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Authors and funding
12 authors at 8 institutions in 2 countries.
Funding
Abstract
In search for RNA signals that modulate transcription via direct interaction with RNA polymerase (RNAP), we deep sequenced an E. coli genomic library enriched for RNAP-binding RNAs. Many natural RNAP-binding aptamers, termed RAPs, were mapped to the genome. Over 60% of E. coli genes carry RAPs in their mRNA. Combining in vitro and in vivo approaches, we characterized a subset of inhibitory RAPs (iRAPs) that promote Rho-dependent transcription termination. A representative iRAP within the coding region of the essential gene, nadD, greatly reduces its transcriptional output in stationary phase and under oxidative stress, demonstrating that iRAPs control gene expression in response to changing environment. The mechanism of iRAPs involves active uncoupling of transcription and translation, making nascent RNA accessible to Rho. iRAPs encoded in the antisense strand also promote gene expression by reducing transcriptional interference. In essence, our work uncovers a broad class of cis-acting RNA signals that globally control bacterial transcription.
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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.