Solid-state nanopore channels with DNA selectivity

Nature Nanotechnology

Volumn 2, Issue 4, 2007, Pages 243-248

  Iqbal, Samir M ^a   Akin, Demir ^a,b   Bashir, Rashid ^a,b  

^a PURDUE UNIVERSITY   (United States)

^b PURDUE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; DNA SEQUENCES; GENE ENCODING; PROBES;

CHANNEL INTERACTIONS; CONCEPTUAL FRAMEWORKS; MOLECULAR TRANSPORT; MOLECULE INTERACTIONS; NEXT-GENERATION DNA SEQUENCING; SINGLE MOLECULE MEASUREMENTS; SINGLE-BASE MISMATCH; SOLID-STATE NANOPORE;

NANOPORES;

DNA BASE; NANOCHANNEL; SINGLE STRANDED DNA;

ARTICLE; CONCEPTUAL FRAMEWORK; DNA SEQUENCE; DNA TRANSFER; ELECTRIC FIELD; GENE TARGETING; GENE TRANSLOCATION; GENETIC SELECTION; MISMATCH REPAIR; MOLECULAR INTERACTION; NANOPORE; NANOPROBE; PRIORITY JOURNAL; SOLID STATE;

EID: 34248399955     PISSN: 17483387     EISSN: 17483395     Source Type: Journal    
DOI: 10.1038/nnano.2007.78     Document Type: Article

References (25)

1. Kasianowicz, J. J., Brandin, E., Branton, D. & Deamer, D.W. Characterization of individual polynucleotide molecules using a membrane channel. Proc. Natl Acad. Sci. USA 93, 13770-13773 (1996).
2. Akeson, M., Branton, D., Kasianowicz, J. J., Brandin, E. & Deamer, D. W. Microsecond time-scale discrimination among polycytidylic acid, polyadenylic acid, and polyuridylic acid as homopolymers or as segments within single RNA molecules. Biophys. J. 77, 3227-3233 (1999).
3. Vercoutere, W. A. et al. Discrimination among individual Watson-Crick base pairs at the termini of single DNA hairpin molecules. Nucleic Acids Res. 31, 1311-1318 (2003).
4. Mathe, J., Visram, H., Viasnoff, V., Rabin, Y. & Meller, A. Nanopore unzipping of individual DNA hairpin molecules. Biophys. J. 87, 3205-3212 (2004).
5. Li, J. et al. Ion-beam sculpting at nanometre length scales. Nature 412, 166-169 (2001).
6. Storm, A. J., Chen, J. H., Ling, X. S., Zandbergen, H. W. & Dekker, C. Fabrication of solid-state nanopores with single-nanometre precision. Nature Mater. 2, 537-540 (2003).
7. Chang, H. et al. Towards integrated micro-machined silicon-based nanopores for characterization of DNA. Hilton Head MEMS conference, Hilton Head, South Carolina (2004).
8. Li, J., Gershow, M., Stein, D., Brandin, E. & Golovchenko, J. A. DNA molecules and configurations in a solid-state nanopore microscope. Nature Mater. 2, 611-615 (2003).
9. Chang, H. et al. DNA-mediated fluctuations in ionic current through silicon oxide nanopore channels. Nano Lett. 4, 1551-1556 (2004).
10. Smeets, R. M. M. et al. Salt dependence of ion transport and DNA translocation through solid-state nanopores. Nano Lett. 6, 89-95 (2006).
11. Gu, L.-Q., Braha, O., Conlan, S., Cheley, S. & Bayley, H. Stochastic sensing of organic analytes by a pore-forming protein containing a molecular adapter. Nature 398, 686-690 (1999).
12. Meller, A., Nivon, L., Brandin, E., Golovchenko, J. & Branton, D. Rapid nanopore discrimination between single polynucleotide molecules. Proc. Natl Acad. Sci. USA 97, 1079-1084 (2000).
13. Howorka, S., Cheley, S. & Bayley, H. Sequence-specific detection of individual DNA strands using engineered nanopores. Nature Biotechnol. 19, 636-639 (2001).
14. Siwy, Z. Troffin, L. Kohli, P. Baker, L. A. Trautmann, C. Martin, C. R. Protein biosensors based on biofunctionalized conical gold nanotubes. J. Am. Chem. Soc. 127, 5000-5001 (2005).
15. Kohli, P. et al. DNA-functionalized nanotube membranes with single-base mismatch selectivity. Science 305, 984-986 (2004).
16. Bauer, W. R. & Nadler, W. Molecular transport through channels and pores: Effects of in-channel interactions and blocking. Proc. Natl Acad. Sci. USA 103, 11446-11451 (2006).
17. Noble, R. D., Pellegrino, J. J. & Koval, C.A. Overview of facilitated transport membrane systems. Chem. Eng. Prog. 85, 58-70 (1989).
18. Noble, R. D. Generalized microscopic mechanism of facilitated transport in fixed carrier membranes. J. Membr. Sci. 75, 121-129 (1991).
19. Manning, M., Harvey, S., Galvin, P. & Redmond, G. A versatile multi-platform biochip surface attachment chemistry. Mater. Sci. Eng. C 23, 347-351 (2003).
20. Nilsson, J., Jonathan R. I. L., Ratto, T. V. & Létant, S. E. Localized functionalization of single nanopores. Adv. Mater. 18, 427-431 (2006).
21. Tyagi, S. & Kramer, F. R. Molecular beacons: Probes that fluoresce upon hybridization. Nature Biotechnol. 14, 303-308 (1996).
22. Berezhkovskii, A. M. & Bezrukov, S. M. Optimizing transport of metabolites through large channels: Molecular sieves with and without binding. Biophys. J. 88, L17-L19 (2005).
23. Gao, Y., Wolf L. K. & Georgiadis, R. M. Secondary structure effects on DNA hybridization kinetics: a solution versus surface comparison. Nucleic Acids Res. 34, 3370-3377 (2006).
24. Hamaguchi, N., Ellington A. & Stanton M. Aptamer beacons for the direct detection of proteins. Anal. Biochem. 294, 126-131 (2001).
25. Kasianowicz, J. J., Nguyen, T. L. & Stanford, V. M. Enhancing molecular flux through nanopores by means of attractive interactions. Proc. Natl Acad. Sci. USA 103, 11431-11432 (2006).