Dynamic translocation of ligand-complexed DNA through solid-state nanopores with optical tweezers

Sischka A, Spiering A, Khaksar M, Laxa M, König J, Dietz K-J, Anselmetti D (2010)
JOURNAL OF PHYSICS-CONDENSED MATTER 22(45): 454121.

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Zeitschriftenaufsatz | Veröffentlicht | Englisch
Abstract / Bemerkung
We investigated the threading and controlled translocation of individual lambda-DNA (lambda-DNA) molecules through solid-state nanopores with piconewton force sensitivity, millisecond time resolution and picoampere ionic current sensitivity with a set-up combining quantitative 3D optical tweezers (OT) with electrophysiology. With our virtually interference-free OT set-up the binding of RecA and single peroxiredoxin protein molecules to lambda-DNA was quantitatively investigated during dynamic translocation experiments where effective forces and respective ionic currents of the threaded DNA molecule through the nanopore were measured during inward and outward sliding. Membrane voltage-dependent experiments of reversible single protein/DNA translocation scans yield hysteresis-free, asymmetric single-molecule fingerprints in the measured force and conductance signals that can be attributed to the interplay of optical trap and electrostatic nanopore potentials. These experiments allow an exact localization of the bound protein along the DNA strand and open fascinating applications for label-free detection of DNA-binding ligands, where structural and positional binding phenomena can be investigated at a single-molecule level.
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Zeitschriftentitel
JOURNAL OF PHYSICS-CONDENSED MATTER
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22
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45
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454121
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Sischka A, Spiering A, Khaksar M, et al. Dynamic translocation of ligand-complexed DNA through solid-state nanopores with optical tweezers. JOURNAL OF PHYSICS-CONDENSED MATTER. 2010;22(45):454121.
Sischka, A., Spiering, A., Khaksar, M., Laxa, M., König, J., Dietz, K. - J., & Anselmetti, D. (2010). Dynamic translocation of ligand-complexed DNA through solid-state nanopores with optical tweezers. JOURNAL OF PHYSICS-CONDENSED MATTER, 22(45), 454121. doi:10.1088/0953-8984/22/45/454121
Sischka, A., Spiering, A., Khaksar, M., Laxa, M., König, J., Dietz, K. - J., and Anselmetti, D. (2010). Dynamic translocation of ligand-complexed DNA through solid-state nanopores with optical tweezers. JOURNAL OF PHYSICS-CONDENSED MATTER 22, 454121.
Sischka, A., et al., 2010. Dynamic translocation of ligand-complexed DNA through solid-state nanopores with optical tweezers. JOURNAL OF PHYSICS-CONDENSED MATTER, 22(45), p 454121.
A. Sischka, et al., “Dynamic translocation of ligand-complexed DNA through solid-state nanopores with optical tweezers”, JOURNAL OF PHYSICS-CONDENSED MATTER, vol. 22, 2010, pp. 454121.
Sischka, A., Spiering, A., Khaksar, M., Laxa, M., König, J., Dietz, K.-J., Anselmetti, D.: Dynamic translocation of ligand-complexed DNA through solid-state nanopores with optical tweezers. JOURNAL OF PHYSICS-CONDENSED MATTER. 22, 454121 (2010).
Sischka, Andy, Spiering, André, Khaksar, Maryam, Laxa, Miriam, König, Janine, Dietz, Karl-Josef, and Anselmetti, Dario. “Dynamic translocation of ligand-complexed DNA through solid-state nanopores with optical tweezers”. JOURNAL OF PHYSICS-CONDENSED MATTER 22.45 (2010): 454121.

7 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

Theory of pore-driven and end-pulled polymer translocation dynamics through a nanopore: an overview.
Sarabadani J, Ala-Nissila T., J Phys Condens Matter 30(27), 2018
PMID: 29794332
Nanopore sensing of individual transcription factors bound to DNA.
Squires A, Atas E, Meller A., Sci Rep 5(), 2015
PMID: 26109509
Electrically facilitated translocation of protein through solid nanopore.
Wu L, Liu H, Zhao W, Wang L, Hou C, Liu Q, Lu Z., Nanoscale Res Lett 9(1), 2014
PMID: 24661490
Video-based and interference-free axial force detection and analysis for optical tweezers.
Knust S, Spiering A, Vieker H, Beyer A, Gölzhäuser A, Tönsing K, Sischka A, Anselmetti D., Rev Sci Instrum 83(10), 2012
PMID: 23126771
Controlling molecular transport through nanopores.
Keyser UF., J R Soc Interface 8(63), 2011
PMID: 21715402
Note: Direct force and ionic-current measurements on DNA in a nanocapillary.
Otto O, Steinbock LJ, Wong DW, Gornall JL, Keyser UF., Rev Sci Instrum 82(8), 2011
PMID: 21895280

28 References

Daten bereitgestellt von Europe PubMed Central.

Sequence-specific detection of individual DNA strands using engineered nanopores.
Howorka S, Cheley S, Bayley H., Nat. Biotechnol. 19(7), 2001
PMID: 11433274

Nakane, J Phys Condens Matter 15(), 2003
Nanopore analytics: sensing of single molecules.
Howorka S, Siwy Z., Chem Soc Rev 38(8), 2009
PMID: 19623355

AUTHOR UNKNOWN, 0
DNA translocation governed by interactions with solid-state nanopores.
Wanunu M, Sutin J, McNally B, Chow A, Meller A., Biophys. J. 95(10), 2008
PMID: 18708467
Distinguishing single- and double-stranded nucleic acid molecules using solid-state nanopores.
Skinner GM, van den Hout M, Broekmans O, Dekker C, Dekker NH., Nano Lett. 9(8), 2009
PMID: 19537802
Direct force measurements on double-stranded RNA in solid-state nanopores.
van den Hout M, Vilfan ID, Hage S, Dekker NH., Nano Lett. 10(2), 2010
PMID: 20050676

Petrossian, J Phys Conf Ser 109(), 2008
Translocation of RecA-coated double-stranded DNA through solid-state nanopores.
Smeets RM, Kowalczyk SW, Hall AR, Dekker NH, Dekker C., Nano Lett. 9(9), 2009
PMID: 19053490
DNA profiling using solid-state nanopores: detection of DNA-binding molecules.
Wanunu M, Sutin J, Meller A., Nano Lett. 9(10), 2009
PMID: 19585985
Electrophoretic force on a protein-coated DNA molecule in a solid-state nanopore.
Hall AR, van Dorp S, Lemay SG, Dekker C., Nano Lett. 9(12), 2009
PMID: 19780587
Detection of local protein structures along DNA using solid-state nanopores.
Kowalczyk SW, Hall AR, Dekker C., Nano Lett. 10(1), 2010
PMID: 19902919

AUTHOR UNKNOWN, 0
Single beam optical tweezers setup with backscattered light detection for three-dimensional measurements on DNA and nanopores.
Sischka A, Kleimann C, Hachmann W, Schafer MM, Seuffert I, Tonsing K, Anselmetti D., Rev Sci Instrum 79(6), 2008
PMID: 18601408
Single-beam trapping in front of reflective surfaces.
Jonass A, Zemanek P, Florin EL., Opt Lett 26(19), 2001
PMID: 18049636

AUTHOR UNKNOWN, 0

AUTHOR UNKNOWN, 0
Multiple redox and non-redox interactions define 2-Cys peroxiredoxin as a regulatory hub in the chloroplast.
Muthuramalingam M, Seidel T, Laxa M, Nunes de Miranda SM, Gartner F, Stroher E, Kandlbinder A, Dietz KJ., Mol Plant 2(6), 2009
PMID: 19995730
Reaction mechanism of plant 2-Cys peroxiredoxin. Role of the C terminus and the quaternary structure.
Konig J, Lotte K, Plessow R, Brockhinke A, Baier M, Dietz KJ., J. Biol. Chem. 278(27), 2003
PMID: 12702727
Electro-osmotic screening of the DNA charge in a nanopore.
Luan B, Aksimentiev A., Phys Rev E Stat Nonlin Soft Matter Phys 78(2 Pt 1), 2008
PMID: 18850870

AUTHOR UNKNOWN, 0
Salt dependence of ion transport and DNA translocation through solid-state nanopores.
Smeets RM, Keyser UF, Krapf D, Wu MY, Dekker NH, Dekker C., Nano Lett. 6(1), 2006
PMID: 16402793

AUTHOR UNKNOWN, 0
Salt dependence of the elasticity and overstretching transition of single DNA molecules.
Wenner JR, Williams MC, Rouzina I, Bloomfield VA., Biophys. J. 82(6), 2002
PMID: 12023240
Properties of RecA-oligonucleotide complexes.
Simonson T, Kubista M, Sjoback R, Ryberg H, Takahashi M., J. Mol. Recognit. 7(3), 1994
PMID: 7880544
Mechanism of homologous recombination from the RecA-ssDNA/dsDNA structures.
Chen Z, Yang H, Pavletich NP., Nature 453(7194), 2008
PMID: 18497818

Morita, Noncontact Atomic Force Microscopy (), 2002

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