ArticleBiophysical journal2016
Unzipping of A-Form DNA-RNA, A-Form DNA-PNA, and B-Form DNA-DNA in the α-Hemolysin Nanopore.
Article in Biophysical journal, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Advancing synthesis-free and enzyme-free rewritable DNA memory through frameshift encoding and nanopore duplex interruption decoding.PNAS nexus · 2025Article
- High sensitivity detection of Hepatitis B virus RNA based on 3D-DNA nanomachine and protein nanopore sensing.Molecular biomedicine · 2025Article
- Insights to Resistive Pulse Sensing of Microparticle and Biological Cells on Microfluidic Chip.Biosensors · 2025Review
- Localization and discrimination of GG mismatch in duplex DNA by synthetic ligand-enhanced protein nanopore analysis.Nucleic acids research · 2024Article
- Structural insights into double-stranded RNA recognition and transport by SID-1.Nature structural & molecular biology · 2024Article
- Simultaneous Recognition of Over- and Under-Expressed MicroRNAs Using Nanopore Decoding.Analytical chemistry · 2023Article
- Nanopore Filter: A Method for Counting and Extracting Single DNA Molecules Using a Biological Nanopore.Analytical chemistry · 2023Article
- Biofilm Responsive Zwitterionic Antimicrobial Nanoparticles to Treat Cutaneous Infection.Biomacromolecules · 2022Article
- Structural-profiling of low molecular weight RNAs by nanopore trapping/translocation using Mycobacterium smegmatis porin A.Nature communications · 2021Article
- Article
- Machine Learning to Improve the Sensing of Biomolecules by Conical Track-Etched Nanopore.Biosensors · 2020Article
- DNA nanotechnology assisted nanopore-based analysis.Nucleic acids research · 2020Review
- Displacement chemistry-based nanopore analysis of nucleic acids in complicated matrices.Chemical communications (Cambridge, England) · 2018Article
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Authors and funding
6 authors.
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Abstract
Unzipping of double-stranded nucleic acids by an electric field applied across a wild-type α-hemolysin (αHL) nanopore provides structural information about different duplex forms. In this work, comparative studies on A-form DNA-RNA duplexes and B-form DNA-DNA duplexes with a single-stranded tail identified significant differences in the blockage current and the unzipping duration between the two helical forms. We observed that the B-form duplex blocks the channel 1.9 ± 0.2 pA more and unzips ∼15-fold more slowly than an A-form duplex at 120 mV. We developed a model to describe the dependence of duplex unzipping on structure. We demonstrate that the wider A-form duplex (d = 2.4 nm) is unable to enter the vestibule opening of αHL on the cis side, leading to unzipping outside of the nanopore with higher residual current and faster unzipping times. In contrast, the smaller B-form duplexes (d = 2.0 nm) enter the vestibule of αHL, resulting in decreased current blockages and slower unzipping. We investigated the effects of varying the length of the single-stranded overhang, and studied A-form DNA-PNA duplexes to provide additional support for the proposed model. This study identifies key differences between A- and B-form duplex unzipping that will be important in the design of future probe-based methods for detecting DNA or RNA.
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