ArticleMolecular cell2014
DksA guards elongating RNA polymerase against ribosome-stalling-induced arrest.
Article in Molecular cell, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
45 citing papers in PubMed, 66 citations in OpenAlex.
- Transcription-replication collisions trigger high-fidelity replication reset.Nucleic acids research · 2025Article
- Clues to transcription/replication collision-induced DNA damage: it was RNAP, in the chromosome, with the fork.FEBS letters · 2025Review
- Fluid flow drives phenotypic heterogeneity in bacterial growth and adhesion on surfaces.Nature communications · 2024Article
- Internal transcription termination widely regulates differential expression of operon-organized genes including ribosomal protein and RNA polymerase genes in an archaeon.Nucleic acids research · 2023Article
- Identification of a Rho-Dependent Termination SiteMicrobiology spectrum · 2023Article
- The nucleotide messenger (p)ppGpp is an anti-inducer of the purine synthesis transcription regulator PurR in Bacillus.Nucleic acids research · 2022Article
- Topoisomerase I Essentiality, DnaA-Independent Chromosomal Replication, and Transcription-Replication Conflict in Escherichia coli.Journal of bacteriology · 2021Article
- Interactions between DksA and Stress-Responsive Alternative Sigma Factors Control Inorganic Polyphosphate Accumulation in Escherichia coli.Journal of bacteriology · 2020Article
- The Impact of Leadered and Leaderless Gene Structures on Translation Efficiency, Transcript Stability, and Predicted Transcription Rates in Mycobacterium smegmatis.Journal of bacteriology · 2020Article
- The torpedo effect in Bacillus subtilis: RNase J1 resolves stalled transcription complexes.The EMBO journal · 2020Article
- DksA and DNA double-strand break repair.Current genetics · 2019Review
- Review
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- A new role for Escherichia coli Dam DNA methylase in prevention of aberrant chromosomal replication.Nucleic acids research · 2019Article
- Two Old Dogs, One New Trick: A Review of RNA Polymerase and Ribosome Interactions during Transcription-Translation Coupling.International journal of molecular sciences · 2019Review
- DksA-RNA polymerase interactions support new origin formation and DNA repair in Escherichia coli.Molecular microbiology · 2019Article
- Transcription factor regulation of RNA polymerase's torque generation capacity.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Delayed inhibition mechanism for secondary channel factor regulation of ribosomal RNA transcription.eLife · 2019Article
- Non-programmed transcriptional frameshifting is common and highly RNA polymerase type-dependent.Microbial cell factories · 2018Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
Abstract
In bacteria, translation-transcription coupling inhibits RNA polymerase (RNAP) stalling. We present evidence suggesting that, upon amino acid starvation, inactive ribosomes promote rather than inhibit RNAP stalling. We developed an algorithm to evaluate genome-wide polymerase progression independently of local noise and used it to reveal that the transcription factor DksA inhibits promoter-proximal pausing and increases RNAP elongation when uncoupled from translation by depletion of charged tRNAs. DksA has minimal effect on RNAP elongation in vitro and on untranslated RNAs in vivo. In these cases, transcripts can form RNA structures that prevent backtracking. Thus, the effect of DksA on transcript elongation may occur primarily upon ribosome slowing/stalling or at promoter-proximal locations that limit the potential for RNA structure. We propose that inactive ribosomes prevent formation of backtrack-blocking mRNA structures and that, in this circumstance, DksA acts as a transcription elongation factor in vivo.
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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.