ArticleJournal of the American Chemical Society2012
Unzipping kinetics of duplex DNA containing oxidized lesions in an α-hemolysin nanopore.
Article in Journal of the American Chemical Society, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed, 79 citations in OpenAlex.
- Complex and Non-sequential Current Signatures of a β-Hairpin Peptide Confined in a Nanopore.Analytical chemistry · 2025Article
- Localization and discrimination of GG mismatch in duplex DNA by synthetic ligand-enhanced protein nanopore analysis.Nucleic acids research · 2024Article
- Review
- Real-time label-free detection of dynamic aptamer-small molecule interactions using a nanopore nucleic acid conformational sensor.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Duplex DNA Is Weakened in Nanoconfinement.Journal of the American Chemical Society · 2020Article
- High Resolution Physical Characterization of Single Metallic Nanoparticles.Journal of visualized experiments : JoVE · 2019Article
- γ-Hemolysin Nanopore Is Sensitive to Guanine-to-Inosine Substitutions in Double-Stranded DNA at the Single-Molecule Level.Journal of the American Chemical Society · 2018Article
- Evolutionary advantage of directional symmetry breaking in self-replicating polymers.Journal of theoretical biology · 2018Article
- Single-Molecule Titration in a Protein Nanoreactor Reveals the Protonation/Deprotonation Mechanism of a C:C Mismatch in DNA.Journal of the American Chemical Society · 2018Article
- Nanopore electric snapshots of an RNA tertiary folding pathway.Nature communications · 2017Article
- Kinetics of T3-DNA Ligase-Catalyzed Phosphodiester Bond Formation Measured Using the α-Hemolysin Nanopore.ACS nano · 2016Article
- Energetics of base flipping at a DNA mismatch site confined at the latch constriction of α-hemolysin.Faraday discussions · 2016Article
- Discrimination of oligonucleotides of different lengths with a wild-type aerolysin nanopore.Nature nanotechnology · 2016Article
- Flow of DNA in micro/nanofluidics: From fundamentals to applications.Biomicrofluidics · 2016Review
- α-Hemolysin nanopore studies reveal strong interactions between biogenic polyamines and DNA hairpins.Mikrochimica acta · 2016Article
- Base Flipping within the α-Hemolysin Latch Allows Single-Molecule Identification of Mismatches in DNA.Journal of the American Chemical Society · 2016Article
- Unzipping of A-Form DNA-RNA, A-Form DNA-PNA, and B-Form DNA-DNA in the α-Hemolysin Nanopore.Biophysical journal · 2016Article
- Characterization of Interstrand DNA-DNA Cross-Links Using the α-Hemolysin Protein Nanopore.ACS nano · 2015Article
- Differentiation of G:C vs A:T and G:C vs G:mC Base Pairs in the Latch Zone of α-Hemolysin.ACS nano · 2015Article
- Unfolding Kinetics of the Human Telomere i-Motif Under a 10 pN Force Imposed by the α-Hemolysin Nanopore Identify Transient Folded-State Lifetimes at Physiological pH.Journal of the American Chemical Society · 2015Article
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4 authors at 1 institution in 1 country.
Funding
Abstract
The unzipping kinetics for lesion-containing DNA duplexes was studied in an α-hemolysin (α-HL) nanopore. The lesion of focus was the guanine two-electron oxidation product, 8-oxo-7,8-dihydroguanine (OG), and its further oxidation products, the hydantoins guanidinohydantoin (Gh) and spiroiminodihydantoin (Sp). The voltage-driven unzipping of individual duplex DNA molecules with symmetrical overhangs was carried out by pulling one strand of the duplex through the α-HL channel using an electrical field. Entry from the 3' or 5' end produced distinct current blockages, allowing directional effects on unzipping kinetics to be investigated. We find that the strand dissociation of complementary duplexes or duplexes containing the slightly destabilizing lesion OG follows a first-order kinetic model, while opening of duplexes that contain the highly destabilizing lesions Gh or Sp is described by two sequential first-order reactions, in which the intermediate state is proposed to correspond to the duplex unzipped to the lesion site within the channel. The rate constants for strand separation of the duplexes containing single lesions were obtained from kinetic model fits to histograms of unzipping duration. For all duplexes, the rate constants for strand separation displayed a significant dependence on the direction of entry into the nanopore. For duplexes containing Gh, truncated duplexes were used to assign the measured rate constants for the first and second unzipping steps of symmetrically designed duplexes.
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