title: Mechanical Trapping of DNA in a Double-Nanopore System.
abstract: Nanopores have become ubiquitous components of systems for single-molecule manipulation and detection, in particular DNA sequencing where electric field driven translocation of DNA through a nanopore is used to read out the DNA molecule. Here, we present a double-pore system where two nanopores are drilled in parallel through the same solid-state membrane, which offers new opportunities for DNA manipulation. Our experiments and molecular dynamics simulations show that simultaneous electrophoretic capture of a DNA molecule by the two nanopores mechanically traps the molecule, increasing its residence time within the nanopores by orders of magnitude. Remarkably, by using two unequal-sized nanopores, the pore of DNA entry and exit can be discerned from the ionic current blockades, and the translocation direction can be precisely controlled by small differences in the effective force applied to DNA. The mechanical arrest of DNA translocation using a double-pore system can be straightforwardly integrated into any solid-state nanopore platform, including those using optical or transverse-current readouts.
authors.affiliation: Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology , Van der Maasweg 9, 2629 HZ Delft, The Netherlands.
authors.forename: Sergii
authors.initials: S
authors.lastname: Pud
authors.affiliation: Department of Physics, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States.
authors.forename: Shu-Han
authors.initials: SH
authors.lastname: Chao
authors.affiliation: Department of Physics, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States.
authors.forename: Maxim
authors.initials: M
authors.lastname: Belkin
authors.affiliation: Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology , Van der Maasweg 9, 2629 HZ Delft, The Netherlands.
authors.forename: Daniel
authors.initials: D
authors.lastname: Verschueren
authors.affiliation: Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology , Van der Maasweg 9, 2629 HZ Delft, The Netherlands.
authors.forename: Teun
authors.initials: T
authors.lastname: Huijben
authors.affiliation: Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology , Van der Maasweg 9, 2629 HZ Delft, The Netherlands.
authors.forename: Casper
authors.initials: C
authors.lastname: van Engelenburg
authors.affiliation: Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology , Van der Maasweg 9, 2629 HZ Delft, The Netherlands.
authors.forename: Cees
authors.initials: C
authors.lastname: Dekker
authors.affiliation: Department of Physics, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States.
authors.forename: Aleksei
authors.initials: A
authors.lastname: Aksimentiev
mesh_terms: D004247:DNA / Q000032:analysis*; D056004:Molecular Dynamics Simulation; D058608:Nanopores; D017422:Sequence Analysis, DNA
chemical_list: D004247:DNA
keywords: Nanopore; ionic current; nucleic acids; sensing; trapping