DNA translocation through low-noise glass nanopores

ACS Nano

Volumn 7, Issue 12, 2013, Pages 11255-11262

  Steinbock, Lorenz J ^a   Bulushev, Roman D ^a   Krishnan, Swati ^a   Raillon, Camille ^a   Radenovic, Aleksandra ^a  

^a Bioengineering Institute   (Switzerland)

Author keywords

DNA translocation; nanocapillary; nanopore; quartz glass; resistive pulse technique; scanning electron microscope

Indexed keywords

DNA TRANSLOCATION; NANOCAPILLARIES; PULSE TECHNIQUE; QUARTZ GLASS; SIGNALTONOISE RATIO (SNR); SILICON NITRIDE MEMBRANE; STANDARD DEVIATION; THEORETICAL FRAMEWORK;

GLASS; NANOPORES; QUARTZ; SCANNING ELECTRON MICROSCOPY; SHRINKAGE; SIGNAL TO NOISE RATIO; SILICON NITRIDE;

DNA;

DNA; GLASS; ION; POLYMER; SILICON DERIVATIVE; SILICON NITRIDE;

ARTICLE; BACTERIOPHAGE LAMBDA; CHEMISTRY; ELECTRIC CONDUCTIVITY; ELECTRON; GENETICS; METHODOLOGY; NANOPORE; NANOTECHNOLOGY; SCANNING ELECTRON MICROSCOPY; SIGNAL NOISE RATIO; THERMODYNAMICS; TRANSMISSION ELECTRON MICROSCOPY; TRANSPORT AT THE CELLULAR LEVEL;

BACTERIOPHAGE LAMBDA; BIOLOGICAL TRANSPORT; DNA; ELECTRIC CONDUCTIVITY; ELECTRONS; GLASS; IONS; MICROSCOPY, ELECTRON, SCANNING; MICROSCOPY, ELECTRON, TRANSMISSION; NANOPORES; NANOTECHNOLOGY; POLYMERS; SIGNAL-TO-NOISE RATIO; SILICON COMPOUNDS; THERMODYNAMICS;

EID: 84891351225     PISSN: 19360851     EISSN: 1936086X     Source Type: Journal    
DOI: 10.1021/nn405029j     Document Type: Article

References (33)

1. Li, J.; Stein, D.; McMullan, C.; Branton, D.; Aziz, M. J.; Golovchenko, J. A. Ion-Beam Sculpting at Nanometre Length Scales Nature 2001, 412, 166-169
2. Smeets, R. M. M.; Keyser, U. F.; Krapf, D.; Wu, M.-Y.; Dekker, N. H.; Dekker, C. Salt Dependence of Ion Transport and DNA Translocation through Solid-State Nanopores Nano Lett. 2006, 6, 89-95
3. Storm, A. J.; Chen, J. H.; Ling, X. S.; Zandbergen, H. W.; Dekker, C. Fabrication of Solid-State Nanopores with Single-Nanometre Precision Nat. Mater. 2003, 2, 537-540
4. Kim, M. J.; Wanunu, M.; Bell, D. C.; Meller, A. Rapid Fabrication of Uniformly Sized Nanopores and Nanopore Arrays for Parallel DNA Analysis Adv. Mater. 2006, 18, 3149-3153
5. Wu, S.; Park, S. R.; Ling, X. S. Lithography-Free Formation of Nanopores in Plastic Membranes Using Laser Heating Nano Lett. 2006, 6, 2571-2576
6. Chansin, G. A. T.; Hong, J.; Dusting, J.; DeMello, A. J.; Albrecht, T.; Edel, J. B. Resizing Metal-Coated Nanopores Using a Scanning Electron Microscope Small 2011, 7, 2736-2741
7. Beamish, E.; Kwok, H.; Tabard-Cossa, V.; Godin, M. Precise Control of the Size and Noise of Solid-State Nanopores Using High Electric Fields Nanotechnology 2012, 23, 405301
8. Shao, Y.; Mirkin, M. Fast Kinetic Measurements with Nanometer-Sized Pipets. Transfer of Potassium Ion from Water into Dichloroethane Facilitated by Dibenzo-18-Crown-6 J. Am. Chem. Soc. 1997, 119, 8103-8104
9. Steinbock, L. J.; Otto, O.; Chimerel, C.; Gornall, J.; Keyser, U. F. Detecting DNA Folding with Nanocapillaries Nano Lett. 2010, 10, 2493-2497
10. Steinbock, L. J.; Otto, O.; Skarstam, D. R.; Jahn, S.; Chimerel, C.; Gornall, J. L.; Keyser, U. F. Probing DNA with Micro- and Nanocapillaries and Optical Tweezers J. Phys.: Condens. Matter 2010, 22, 454113
11. Otto, O.; Steinbock, L. J.; Wong, D. W.; Gornall, J. L.; Keyser, U. F. Note: Direct Force and Ionic-Current Measurements on DNA in a Nanocapillary Rev. Sci. Instrum. 2011, 82, 086102
12. Otto, O.; Sturm, S.; Laohakunakorn, N.; Keyser, U. F.; Kroy, K. Rapid Internal Contraction Boosts DNA Friction Nat. Commun. 2013, 4, 1780-1787
13. Laohakunakorn, N.; Ghosal, S.; Otto, O.; Misiunas, K.; Keyser, U. F. DNA Interactions in Crowded Nanopores Nano Lett. 2013, 13, 2798-2802
14. Hernández-Ainsa, S.; Muus, C.; Bell, N. A. W.; Steinbock, L. J.; Thacker, V. V; Keyser, U. F. Lipid-Coated Nanocapillaries for DNA Sensing Analyst 2012, 16-18
15. Hernández-Ainsa, S.; Bell, N. A. W.; Thacker, V. V; Göpfrich, K.; Misiunas, K.; Fuentes-Perez, M. E.; Moreno-Herrero, F.; Keyser, U. F. DNA Origami Nanopores for Controlling DNA Translocation ACS Nano 2013, 7, 6024-6030
16. Steinbock, L. J.; Steinbock, J. F.; Radenovic, A. Controllable Shrinking and Shaping of Glass Nanocapillaries Under Electron Irradiation Nano Lett. 2013, 13, 1717-1723
17. Venta, K.; Shemer, G.; Puster, M.; Rodríguez-Manzo, J. A.; Balan, A.; Rosenstein, J. K.; Shepard, K.; Drndić, M. Differentiation of Short, Single-Stranded DNA Homopolymers in Solid-State Nanopores ACS Nano 2013, 7, 4629-3466
18. Li, W.; Bell, N. A. W.; Hernández-Ainsa, S.; Thacker, V. V; Thackray, A. M.; Bujdoso, R.; Keyser, U. F. Single Protein Molecule Detection by Glass Nanopores ACS Nano 2013, 7, 4129-4134
19. DeBlois, R. W.; Bean, C. P. Counting and Sizing of Submicron Particles by the Resistive Pulse Technique Rev. Sci. Instrum. 1970, 41, 909
20. Saleh, O. A.; Sohn, L. L. Direct Detection of Antibody-Antigen Binding Using an on-Chip Artificial Pore Proc. Natl. Acad. Sci. U.S.A. 2003, 100, 820-824
21. Willmott, G. R.; Parry, B. E. T. Resistive Pulse Asymmetry for Nanospheres Passing through Tunable Submicron Pores J. Appl. Phys. 2011, 109, 094307
22. Wanunu, M.; Dadosh, T.; Ray, V.; Jin, J.; McReynolds, L.; Drndić, M. Rapid Electronic Detection of Probe-Specific microRNAs Using Thin Nanopore Sensors Nat. Nanotechnol. 2010, 5, 807-814
23. Kowalczyk, S. W.; Grosberg, A. Y.; Rabin, Y.; Dekker, C. Modeling the Conductance and DNA Blockade of Solid-State Nanopores Nanotechnology 2011, 22, 315101
24. Larkin, J.; Henley, R.; Bell, D. C.; Cohen-Karni, T.; Rosenstein, J. K.; Wanunu, M. Slow DNA Transport through Nanopores in Hafnium Oxide Membranes. ACS Nano, in press.
25. Tabard-Cossa, V.; Trivedi, D.; Wiggin, M.; Jetha, N. N.; Marziali, A. Noise Analysis and Reduction in Solid-State Nanopores Nanotechnology 2007, 18, 305505
26. Steinbock, L. J.; Keyser, U. F. Nanopore-Based Technology. In Methods in Molecular Biology; Gracheva, M. E., Ed.; Springer Science: Totowa, NJ, 2012; Vol. 870, pp 135-145.
27. Steinbock, L. J.; Lucas, A.; Otto, O.; Keyser, U. F. Voltage-Driven Transport of Ions and DNA through Nanocapillaries Electrophoresis 2012, 33, 3480-3487
28. Li, J.; Gershow, M.; Stein, D.; Brandin, E.; Golovchenko, J. A. DNA Molecules and Configurations in a Solid-State Nanopore Microscope Nat. Mater. 2003, 2, 611-615
29. Levis, R. A.; Rae, J. L. The Use of Quartz Patch Pipettes for Low Noise Single Channel Recording Biophys. J. 1993, 65, 1666-1677
30. Smeets, R. M. M.; Keyser, U. F.; Dekker, N. H.; Dekker, C. Noise in Solid-State Nanopores Proc. Natl. Acad. Sci. U.S.A. 2008, 105, 417-421
31. Prabhu, A. S.; Jubery, T. Z. N.; Freedman, K. J.; Mulero, R.; Dutta, P.; Kim, M. J. Chemically Modified Solid State Nanopores for High Throughput Nanoparticle Separation J. Phys.: Condens. Matter 2010, 22, 454107
32. Raillon, C.; Cousin, P.; Traversi, F.; Garcia-Cordero, E.; Hernandez, N.; Radenovic, A. Nanopore Detection of Single Molecule RNAP-DNA Transcription Complex Nano Lett. 2012, 12, 1157-1164
33. Raillon, C.; Granjon, P.; Graf, M.; Steinbock, L. J.; Radenovic, A. Fast and Automatic Processing of Multi-Level Events in Nanopore Translocation Experiments Nanoscale 2012, 4, 4916-4924