ArticlePloS one2014
New insights into transcription fidelity: thermal stability of non-canonical structures in template DNA regulates transcriptional arrest, pause, and slippage.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
- Exploring Nucleic Acid Structure and Function with Molecular Dynamics and Fragment Molecular Orbital Methods.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Imperfect G-quadruplex as an emerging candidate for transcriptional regulation.Nucleic acids research · 2025Article
- Quantitative Effects of the Loop Region on Topology, Thermodynamics, and Cation Binding of DNA G-quadruplexes.ACS omega · 2024Article
- Choline Dihydrogen Phosphate Destabilizes G-Quadruplexes and Enhances Transcription EfficiencyACS omega · 2024Article
- G-Quadruplexes in Repeat Expansion Disorders.International journal of molecular sciences · 2023Review
- Replication Control of Human Telomere G-Quadruplex DNA by G-Quadruplex Ligands Dependent on Solution Environment.Life (Basel, Switzerland) · 2022Article
- Can G-quadruplex become a promising target in HBV therapy?Frontiers in immunology · 2022Review
- Ginsenoside Compound K Assisted G-Quadruplex Folding and Regulated G-Quadruplex-Containing Transcription.Molecules (Basel, Switzerland) · 2021Article
- The effect of hairpin loop on the structure and gene expression activity of the long-loop G-quadruplex.Nucleic acids research · 2021Article
- New Insights into the Functions of Nucleic Acids Controlled by Cellular Microenvironments.Topics in current chemistry (Cham) · 2021Review
- CNBP Binds and Unfolds In Vitro G-Quadruplexes Formed in the SARS-CoV-2 Positive and Negative Genome Strands.International journal of molecular sciences · 2021Article
- New Modified Deoxythymine with Dibranched Tetraethylene Glycol Stabilizes G-Quadruplex Structures.Molecules (Basel, Switzerland) · 2020Article
- Effect of Potassium Concentration on Triplex Stability under Molecular Crowding Conditions.Molecules (Basel, Switzerland) · 2020Article
- Conformational Dynamics of the RNA G-Quadruplex and its Effect on Translation Efficiency.Molecules (Basel, Switzerland) · 2019Article
- Topological impact of noncanonical DNA structures on Klenow fragment of DNA polymerase.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- Newly characterized interaction stabilizes DNA structure: oligoethylene glycols stabilize G-quadruplexes CH-π interactions.Nucleic acids research · 2017Article
- Helitrons and Retrotransposons Are Co-localized inCurrent genomics · 2017Article
- Mechanical insights into ribosomal progression overcoming RNA G-quadruplex from periodical translation suppression in cells.Scientific reports · 2016Article
- Organelle-mimicking liposome dissociates G-quadruplexes and facilitates transcription.Nucleic acids research · 2014Article
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3 authors.
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Abstract
The thermal stability and topology of non-canonical structures of G-quadruplexes and hairpins in template DNA were investigated, and the effect of non-canonical structures on transcription fidelity was evaluated quantitatively. We designed ten template DNAs: A linear sequence that does not have significant higher-order structure, three sequences that form hairpin structures, and six sequences that form G-quadruplex structures with different stabilities. Templates with non-canonical structures induced the production of an arrested, a slipped, and a full-length transcript, whereas the linear sequence produced only a full-length transcript. The efficiency of production for run-off transcripts (full-length and slipped transcripts) from templates that formed the non-canonical structures was lower than that from the linear. G-quadruplex structures were more effective inhibitors of full-length product formation than were hairpin structure even when the stability of the G-quadruplex in an aqueous solution was the same as that of the hairpin. We considered that intra-polymerase conditions may differentially affect the stability of non-canonical structures. The values of transcription efficiencies of run-off or arrest transcripts were correlated with stabilities of non-canonical structures in the intra-polymerase condition mimicked by 20 wt% polyethylene glycol (PEG). Transcriptional arrest was induced when the stability of the G-quadruplex structure (-ΔG°37) in the presence of 20 wt% PEG was more than 8.2 kcal mol(-1). Thus, values of stability in the presence of 20 wt% PEG are an important indicator of transcription perturbation. Our results further our understanding of the impact of template structure on the transcription process and may guide logical design of transcription-regulating drugs.
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