ArticleJournal of the American Chemical Society2011
Sequence-specific single-molecule analysis of 8-oxo-7,8-dihydroguanine lesions in DNA based on unzipping kinetics of complementary probes in ion channel recordings.
Article in Journal of the American Chemical Society, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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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
21 citing papers in PubMed.
- Impact of a single 8-oxoguanine lesion on Watson-Crick and Hoogsteen base pair hybridization in telomeric DNA quantified using single-molecule force spectroscopy.Nucleic acids research · 2025Article
- 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
- Quantifying the stability of oxidatively damaged DNA by single-molecule DNA stretching.Nucleic acids research · 2018Article
- Kinetics of T3-DNA Ligase-Catalyzed Phosphodiester Bond Formation Measured Using the α-Hemolysin Nanopore.ACS nano · 2016Article
- 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
- 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
- Identification of DNA lesions using a third base pair for amplification and nanopore sequencing.Nature communications · 2015Article
- Challenges in DNA motion control and sequence readout using nanopore devices.Nanotechnology · 2015Review
- Internal vs fishhook hairpin DNA: unzipping locations and mechanisms in the α-hemolysin nanopore.The journal of physical chemistry. B · 2014Article
- Temperature and electrolyte optimization of the α-hemolysin latch sensing zone for detection of base modification in double-stranded DNA.Biophysical journal · 2014Article
- Base-excision repair activity of uracil-DNA glycosylase monitored using the latch zone of α-hemolysin.Journal of the American Chemical Society · 2013Article
- Structural destabilization of DNA duplexes containing single-base lesions investigated by nanopore measurements.Biochemistry · 2013Article
- Electrical Current Signatures of DNA Base Modifications in Single Molecules Immobilized in the α-Hemolysin Ion Channel.Israel journal of chemistry · 2013Article
- Structural context effects in the oxidation of 8-oxo-7,8-dihydro-2'-deoxyguanosine to hydantoin products: electrostatics, base stacking, and base pairing.Journal of the American Chemical Society · 2012Article
- Crown ether-electrolyte interactions permit nanopore detection of individual DNA abasic sites in single molecules.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- Unzipping kinetics of duplex DNA containing oxidized lesions in an α-hemolysin nanopore.Journal of the American Chemical Society · 2012Article
- Nanopores: A journey towards DNA sequencing.Physics of life reviews · 2012Review
Corrections and comments
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Authors and funding
8 authors.
Funding
Abstract
Translocation measurements of intact DNA strands with the ion channel α-hemolysin (α-HL) are limited to single-stranded DNA (ssDNA) experiments as the dimensions of the channel prevent double-stranded DNA (dsDNA) translocation; however, if a short oligodeoxynucleotide is used to interrogate a longer ssDNA strand, it is possible to unzip the duplex region when it is captured in the α-HL vestibule, allowing the longer strand to translocate through the α-HL channel. This unzipping process has a characteristic duration based on the stability of the duplex. Here, ion channel recordings are used to detect the presence and relative location of the oxidized damage site 8-oxo-7,8-dihydroguanine (OG) in a sequence-specific manner. OG engages in base pairing to C or A with unique stabilities relative to native base Watson-Crick pairings, and this phenomenon is used here to engineer probe sequences (10-15mers) that, when base-paired with a 65mer sequence of interest, containing either G or OG at a single site, produce characteristic unzipping times that correspond well with the duplex melting temperature (T(m)). Unzipping times also depend on the direction from which the duplex enters the vestibule if the stabilities of leading base pairs at the ends of the duplex are significantly different. It is shown here that the presence of a single DNA lesion can be distinguished from an undamaged sequence and that the relative location of the damage site can be determined based on the duration of duplex unzipping.
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