ArticleNucleic acids research2016
The role of repressor kinetics in relief of transcriptional interference between convergent promoters.
Article in Nucleic acids research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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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.
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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
14 citing papers in PubMed, 28 citations in OpenAlex.
- Force and the α-C-terminal domains bias RNA polymerase recycling.Nature communications · 2024Article
- When push comes to shove - RNA polymerase and DNA-bound protein roadblocks.Biophysical reviews · 2023Review
- RNA polymerase efficiently transcribes through DNA-scaffolded, cooperative bacteriophage repressor complexes.FEBS letters · 2022Article
- Article
- Pyruvate-responsive genetic circuits for dynamic control of central metabolism.Nature chemical biology · 2020Article
- Tunable Transcriptional Interference at the Endogenous Alcohol Dehydrogenase Gene Locus inG3 (Bethesda, Md.) · 2020Article
- Programming Escherichia coli to function as a digital display.Molecular systems biology · 2020Article
- The Eleanor ncRNAs activate the topological domain of the ESR1 locus to balance against apoptosis.Nature communications · 2019Article
- RNA polymerase pausing at a protein roadblock can enhance transcriptional interference by promoter occlusion.FEBS letters · 2019Article
- Widespread Antisense Transcription in Prokaryotes.Microbiology spectrum · 2018Review
- Programmable DNA looping using engineered bivalent dCas9 complexes.Nature communications · 2017Article
- Article
- Directing traffic on DNA-How transcription factors relieve or induce transcriptional interference.Transcription · 2017Article
- Aspects of protein-DNA interactions: a review of quantitative thermodynamic theory for modelling synthetic circuits utilising LacI and CI repressors, IPTG and the reporter gene lacZ.Biophysical reviews · 2016Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Transcriptional interference (TI), where transcription from a promoter is inhibited by the activity of other promoters in its vicinity on the same DNA, enables transcription factors to regulate a target promoter indirectly, inducing or relieving TI by controlling the interfering promoter. For convergent promoters, stochastic simulations indicate that relief of TI can be inhibited if the repressor at the interfering promoter has slow binding kinetics, making it either sensitive to frequent dislodgement by elongating RNA polymerases (RNAPs) from the target promoter, or able to be a strong roadblock to these RNAPs. In vivo measurements of relief of TI by CI or Cro repressors in the bacteriophage λ PR-PRE system show strong relief of TI and a lack of dislodgement and roadblocking effects, indicative of rapid CI and Cro binding kinetics. However, repression of the same λ promoter by a catalytically dead CRISPR Cas9 protein gave either compromised or no relief of TI depending on the orientation at which it binds DNA, consistent with dCas9 being a slow kinetics repressor. This analysis shows how the intrinsic properties of a repressor can be evolutionarily tuned to set the magnitude of relief of TI.
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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.