Effects of electrostatic screening on the conformation of single DNA molecules confined in a nanochannel

Journal of Chemical Physics

Volumn 128, Issue 22, 2008, Pages

  Zhang, Ce ^a   Zhang, Fang ^a   Van Kan, Jeroen A ^a   Van Der Maarel, Johan R C ^a  

^a NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

Author keywords

[No Author keywords available]

Indexed keywords

BIOASSAY; DNA; ELECTROSTATICS; FLUORESCENCE MICROSCOPY; GENES; IMAGING TECHNIQUES; IONIC STRENGTH; MICROARRAYS; MICROFLUIDICS; MICROSCOPIC EXAMINATION; MOLECULAR STRUCTURE; MOLECULES; NANOFLUIDICS; NANOSTRUCTURED MATERIALS; NUCLEIC ACIDS; ORGANIC ACIDS; PHOTOACOUSTIC EFFECT;

AMERICAN INSTITUTE OF PHYSICS (AIP); ATTRACTIVE FORCES; BENDING RIGIDITIES; COLLAPSE (DRYING); CONDENSED STRUCTURES; CONTOUR LENGTHS; CORRELATION LENGTHS; COUNTER IONS; DIVALENT CATIONS; DNA INTERCALATIONS; DNA MOLECULES; ELECTROSTATIC SCREENING; NANO CHANNELS; PARTIAL NEUTRALIZATION (PN); PERSISTENCE LENGTHS; POLY-DIMETHYL SILOXANE (PDMS); SCALING THEORIES; SELF-AVOIDANCE; SHAPED CHANNELS; SINGLE DNA MOLECULES; STRENGTH (IGC: D5/D6);

BIOCHIPS;

BUFFER; CALCIUM; DNA; DRUG DERIVATIVE; ELECTROLYTE; INORGANIC SALT; INTERCALATING AGENT; MAGNESIUM; NANOMATERIAL; PUTRESCINE;

ARTICLE; CHEMISTRY; CONFORMATION; DRUG EFFECT; ELECTRICITY; NANOTECHNOLOGY; OSMOLARITY;

BUFFERS; CALCIUM; DNA; ELECTROLYTES; ELECTROSTATICS; INTERCALATING AGENTS; MAGNESIUM; NANOSTRUCTURES; NANOTECHNOLOGY; NUCLEIC ACID CONFORMATION; OSMOLAR CONCENTRATION; PUTRESCINE; SALTS;

EID: 45149092098     PISSN: 00219606     EISSN: None     Source Type: Journal    
DOI: 10.1063/1.2937441     Document Type: Article

References (40)

1. G. W. Slater, Y. Gratton, M. Kenward, L. McCormick, and F. Tessier, Soft Matter 1, 365 (2003).
2. J. Han and H. G. Craighead, Science 288, 1026 (2000).
3. N. Kaji, Y. Tezuka, Y. Takamura, M. Ueda, T. Nishimoto, H. Nakanishi, Y. Horiike, and Y. Baba, Anal. Chem. 76, 15 (2004).
4. J. L. Li, M. Gershow, D. Stein, E. Brandin, and J. A. Golovchenko, Nat. Mater. 2, 611 (2003).
5. C. Bustamante, J. F. Marko, E. Siggia, and S. Smith, Science 265, 1599 (1994).
6. M. D. Wang, H. Yin, R. Landick, J. Gelles, and S. M. Block, Biophys. J. 72, 1335 (1997).
7. C. G. Baumann, S. B. Smith, V. A. Bloomfield, and C. Bustamante, Proc. Natl. Acad. Sci. U.S.A. 94, 6185 (1997).
8. M. Fixman and J. Kovac, J. Chem. Phys. 58, 1564 (1973).
9. P.-G. de Gennes, Scaling Concepts in Polymer Physics (Cornell University Press, Ithaca, New York, 1979).
10. J. R. C. van der Maarel, Introduction to Biopolymer Physics (World Scientific, Singapore, 2008).
11. T. Odijk, Macromolecules 16, 1340 (1983).
12. W. Reisner, K. J. Morton, R. Riehn, Y. M. Wang, Z. Yu, M. Rosen, J. C. Sturm, S. Y. Chou, E. Frey, and R. H. Austin, Phys. Rev. Lett. 94, 196101 (2005).
13. K. Jo, D. Dhingra, T. Odijk, J. de Pablo, M. Graham, R. Runnheim, D. Forrest, and D. Schwartz, Proc. Natl. Acad. Sci. U.S.A. 104, 2673 (2007).
14. W. Reisner, J. P. Beech, N. B. Larsen, H. Flyvbjerg, A. Kristensen, and J. O. Tegenfeldt, Phys. Rev. Lett. 99, 058302 (2007).
15. J. A. van Kan, A. A. Bettiol, and F. Watt, Appl. Phys. Lett. 83, 1629 (2003).
16. J. A. van Kan, A. A. Bettiol, and F. Watt, Nano Lett. 6, 579 (2006).
17. M. L. Chabinyc, D. T. Chiu, J. Cooper McDonald, A. D. Strook, J. F. Christian, A. M. Karger, and G. M. Whitesides, Anal. Chem. 73, 4491 (2001).
18. P. G. Shao, J. A. van Kan, K. Ansari, A. A. Bettiol, and F. Watt, Nucl. Instrum. Methods Phys. Res. B 260, 479 (2007).
19. A. Y. Grosberg and A. R. Khokhlov, Statistical Physics of Macromolecules, AIP Series in Polymers and Complex Materials (AIP, New York, 1994).
20. T. Odijk, J. Chem. Phys. 125, 204904 (2006).
21. M. Fixman and J. Skolnick, Macromolecules 11, 863 (1978).
22. H. Yamakawa, Modern Theory of Polymer Solutions (Harper & Row, New York, 1971).
23. H. Benoit and P. Doty, J. Phys. Chem. 57, 958 (1953).
24. T. Odijk, J. Polym. Sci., Polym. Phys. Ed. 15, 477 (1977).
25. J. Skolnick and M. Fixman, Macromolecules 10, 944 (1977).
26. D. Stigter, Biopolymers 16, 1435 (1977).
27. H. P. Spielmann, D. E. Wemmer, and J. P. Jacobsen, Biochemistry 34, 8542 (1995).
28. F. Johansen and J. P. Jacobsen, J. Biomol. Struct. Dyn. 16, 205 (1998).
29. O. B. Bakajin, T. A. J. Duke, C. F. Chou, S. S. Chan, R. H. Austin, and E. C. Cox, Phys. Rev. Lett. 80, 2737 (1998).
30. J. O. Tegenfeldt, C. Prinz, H. Cao, S. Chou, W. W. Reisner, R. Riehn, Y. M. Wang, E. C. Cox, J. C. Sturm, P. Silberzan, and R. H. Austin, Proc. Natl. Acad. Sci. U.S.A. 101, 10979 (2004).
31. A. Sischka, K. Toensing, R. Eckel, S. D. Wilking, N. Sewald, R. Ros, and D. Anselmetti, Biophys. J. 88, 404 (2005).
32. J. A. Schellman and N. Parthasarathy, J. Mol. Biol. 175, 313 (1984).
33. V. A. Bloomfield, Curr. Opin. Struct. Biol. 6, 334 (1996).
34. N. V. Hud and I. D. Vilfan, Annu. Rev. Biophys. Biomol. Struct. 34, 295 (2005).
35. R. W. Wilson and V. A. Bloomfield, Biochemistry 18, 2192 (1979).
36. C. Zhang and J. R. C. van der Maarel, J. Phys. Chem. B 112, 3552 (2008).
37. X. Qiu, K. Andresen, L. W. Kwok, J. S. Lamb, H. Y. Park, and L. Pollack, Phys. Rev. Lett. 99, 038104 (2007).
38. J. R. C. van der Maarel and K. Kassapidou, Macromolecules 31, 5734 (1998).
39. L. Dai, Y. Mu, L. Nordenskiöld, and J. R. C. van der Maarel, Phys. Rev. Lett. 100, 118301 (2008).
40. E. Dubois and F. Boue, Macromolecules 34, 3684 (2001).