ArticleNucleic acids research2019
Single-molecule analysis of i-motif within self-assembled DNA duplexes and nanocircles.
Article in Nucleic acids research, 2019. 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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Who cites it
14 citing papers in PubMed.
- High-throughput measurement and prediction of the i-motif DNA stability landscape.Nucleic acids research · 2026Article
- Ion-Specific Modulation of the Conformation and Compactness of DNA Oligo-Catenanes.The journal of physical chemistry. B · 2026Article
- The Ring World: Eversion of Small Double-Stranded Polynucleotide Circlets at the Origin of DNA Double Helix, RNA Polymerization, Triplet Code, Twenty Amino Acids, and Strand Asymmetry.International journal of molecular sciences · 2022Article
- Single-Molecule Sensor for High-Confidence Detection of miRNA.ACS sensors · 2022Article
- Genome-wide characterization of i-motifs and their potential roles in the stability and evolution of transposable elements in rice.Nucleic acids research · 2022Article
- Remodeling the conformational dynamics of I-motif DNA by helicases in ATP-independent mode at acidic environment.iScience · 2022Article
- A single molecule investigation of i-motif stability, folding intermediates, and potential asFrontiers in molecular biosciences · 2022Article
- Nanopore sensing: A physical-chemical approach.Biochimica et biophysica acta. Biomembranes · 2021Review
- Opposite Effects of Potassium Ions on the Thermal Stability of i-Motif DNA in Different Buffer Systems.ACS omega · 2021Article
- Single-Molecule FRET-Based Dynamic DNA Sensor.ACS sensors · 2021Article
- Decoding the Structural Dynamics and Conformational Alternations of DNA Secondary Structures by Single-Molecule FRET Microspectroscopy.Frontiers in molecular biosciences · 2021Review
- Label-free single-molecule identification of telomere G-quadruplexes with a solid-state nanopore sensor.RSC advances · 2020Article
- FRET-Based Aptasensor for the Selective and Sensitive Detection of Lysozyme.Sensors (Basel, Switzerland) · 2020Article
- Single-Step FRET-Based Detection of Femtomoles DNA.Sensors (Basel, Switzerland) · 2019Article
Corrections and comments
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Authors and funding
7 authors.
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No grant is acknowledged in the PubMed record.
Abstract
The cytosine (C)-rich sequences that can fold into tetraplex structures known as i-motif are prevalent in genomic DNA. Recent studies of i-motif-forming sequences have shown increasing evidence of their roles in gene regulation. However, most of these studies have been performed in short single-stranded oligonucleotides, far from the intracellular environment. In cells, i-motif-forming sequences are flanked by DNA duplexes and packed in the genome. Therefore, exploring the conformational dynamics and kinetics of i-motif under such topologically constrained environments is highly relevant in predicting their biological roles. Using single-molecule fluorescence analysis of self-assembled DNA duplexes and nanocircles, we show that the topological environments play a key role on i-motif stability and dynamics. While the human telomere sequence (C3TAA)3C3 assumes i-motif structure at pH 5.5 regardless of topological constraint, it undergoes conformational dynamics among unfolded, partially folded and fully folded states at pH 6.5. The lifetimes of i-motif and the partially folded state at pH 6.5 were determined to be 6 ± 2 and 31 ± 11 s, respectively. Consistent with the partially folded state observed in fluorescence analysis, interrogation of current versus time traces obtained from nanopore analysis at pH 6.5 shows long-lived shallow blockades with a mean lifetime of 25 ± 6 s. Such lifetimes are sufficient for the i-motif and partially folded states to interact with proteins to modulate cellular processes.
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