Elasticity of flexible and semiflexible polymers with extensible bonds in the Gibbs and Helmholtz ensembles

Journal of Chemical Physics

Volumn 136, Issue 15, 2012, Pages

  Manca, Fabio ^a   Giordano, Stefano ^b   Palla, Pier Luca ^b   Zucca, Rinaldo ^b   Cleri, Fabrizio ^b   Colombo, Luciano ^a,c  

^a UNIVERSITY OF CAGLIARI   (Italy)

^b INSTITUT D ELECTRONIQUE   (France)

^c IOM CNR LABORATORIO TASC   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTICAL EXPRESSIONS; CONTOUR LENGTHS; FORCE-DISPLACEMENT CURVES; FREELY JOINTED CHAINS; GIBBS ENSEMBLE; HELMHOLTZ; HELMHOLTZ ENSEMBLE; MACROSCOPIC BOUNDARY CONDITION; MONTE CARLO SIMULATION; POLYMER MODELS; SCALING EXPONENT; SEMIFLEXIBLE POLYMERS; SINGLE MOLECULE; SMALL SYSTEMS; THERMODYNAMIC LIMITS; WORM-LIKE CHAIN MODELS;

ELASTICITY; MONTE CARLO METHODS; STATISTICAL MECHANICS;

POLYMERS;

POLYMER;

ARTICLE; CHEMISTRY; ELASTICITY; MONTE CARLO METHOD; THERMODYNAMICS;

ELASTICITY; MONTE CARLO METHOD; POLYMERS; THERMODYNAMICS;

EID: 84860159768     PISSN: 00219606     EISSN: None     Source Type: Journal    
DOI: 10.1063/1.4704607     Document Type: Article

References (48)

1. F. Ritort, J. Phys.: Condens. Matter 18, R531 (2006). 10.1088/0953-8984/18/32/R01
2. K. R. Chaurasiya, T. Paramanathan, M. J. McCauley, and M. C. Williams, Phys. Life Rev. 7, 299 (2010). 10.1016/j.plrev.2010.06.001
3. A. Ashkin, Proc. Natl Acad. Sci. U.S.A. 94, 4853 (1997). 10.1073/pnas.94.10.4853
4. C. Gosse and V. Croquette, Biophys. J. 82, 3314 (2002). 10.1016/S0006-3495(02)75672-5
5. D. M. Czajkowsky and Z. Shao, FEBS Lett. 430, 51 (1998). 10.1016/S0014-5793(98)00461-X
6. C. R. Calladine, H. R. Drew, B. F. Luisi, and A. A. Travers, Understanding DNA: The Molecule and How it Works (Elsevier/Academic, Amsterdam, 1992).
7. H. Yang, G. Luo, P. Karnchanaphanurach, T. M. Louie, I. Rech, S. Cova, L. Xun, and X. S. Xie, Science 302, 262 (2003). 10.1126/science.1086911
8. E. A. Lipman, B. Schuler, O. Bakajin, and W. A. Eaton, Science 301, 1233 (2003). 10.1126/science.1085399
9. F. Jlicher, A. Adjari, and J. Prost, Rev. Mod. Phys. 69, 1269 (1997). 10.1103/RevModPhys.69.1269
10. M. Rief, F. Oesterhelt, B. Heymann, and H. E. Gaub, Science 275, 28 (1997). 10.1126/science.275.5304.1295
11. J. Liphardt, S. Dumont, S. B. Smith, I. Tinoco, and C. Bustamante, Science 296, 1832 (2002). 10.1126/science.1071152
12. F. Cleri, Sci. Model. Simul. 15, 369 (2008). 10.1007/s10820-008-9104-2
13. A. Alemany and F. Ritort, Europhys. News 41, 27 (2010). 10.1051/epn/2010205
14. S. B. Smith, L. Finzi, and C. Bustamante, Science 258, 1122 (1992). 10.1126/science.1439819
15. J. F. Marko and E. D. Siggia, Macromolecules 28, 8759 (1995). 10.1021/ma00130a008
16. J. M. Huguet, C. V. Bizarro, N. Forns, S. B. Smith, C. Bustamante, and F. Ritort, Proc. Natl. Acad. Sci. U.S.A. 107, 15341 (2010). 10.1073/pnas. 1001454107
17. R. D. Kamien, Rev. Mod. Phys. 74, 953 (2002). 10.1103/RevModPhys.74.953
18. C. Anselmi, P. DeSantis, and A. Scipioni, Biophys. Chem. 113, 209 (2005). 10.1016/j.bpc.2004.09.007
19. A. Rosa, T. X. Hoang, D. Marenduzzo, and A. Maritan, Macromolecules 36, 10095 (2003). 10.1021/ma0348831
20. A. Rosa, T. X. Hoang, D. Marenduzzo, and A. Maritan, Biophys. Chem. 115, 251 (2005). 10.1016/j.bpc.2004.12.030
21. P. K. Purohit, M. E. Arsenault, Y. Goldmanb, and H. H. Bau, Int. J. Non-Linear Mech. 43, 1056 (2008). 10.1016/j.ijnonlinmec.2008.05.009
22. T. Su and P. K. Purohit, J. Mech. Phys. Solids 58, 164 (2010). 10.1016/j.jmps.2009.10.007
23. J. H. Weiner and M. R. Pear, Macromolecules 10, 317 (1977). 10.1021/ma60056a017
24. R. M. Neumann, Phys. Rev. A 31, 3516 (1985). 10.1103/PhysRevA.31.3516
25. D. Keller, D. Swigon, and C. Bustamante, Biophys. J. 84, 733 (2003). 10.1016/S0006-3495(03)74892-9
26. R. M. Neumann, Biophys. J. 85, 3418 (2003). 10.1016/S0006-3495(03)74760-2
27. T. Strick, J.-F. Allemand, V. Croquette, and D. Bensimon, Prog. Biophys. Mol. Biol. 74, 115 (2000). 10.1016/S0079-6107(00)00018-3
28. M. D. Wang, H. Yin, R. Landick, J. Gelles, and S. M. Block, Biophys. J. 72, 1335 (1997). 10.1016/S0006-3495(97)78780-0
29. P. Cluzel, A. Lebrun, R. Lavery, J.-L. Viovy, D. Chatenay, and F. Caron, Science 271, 792 (1997). 10.1126/science.271.5250.792
30. T. Hugel, M. Grosholz, H. Clausen-Schaumann, A. Pfau, H. Gaub, and M. Seitz, Macromolecules 34, 1039 (2001). 10.1021/ma0009404
31. X. Liu and G. H. Pollack, Biophys. J. 83, 2705 (2002). 10.1016/S0006-3495(02)75280-6
32. C. Bouchiat, M. D. Wang, J.-F. Allemand, T. Strick, M. Block, and V. Croquette, Biophys. J. 76, 409 (1999). 10.1016/S0006-3495(99)77207-3
33. J. Kierfeld, O. Niamploy, V. Sa-yakanit, and R. Lipowsky, Eur. Phys. J. E 14, 17 (2004). 10.1140/epje/i2003-10089-3
34. J. W. Gibbs, Elementary Principles in Statistical Mechanics (Charles Scribners Sons, New York, 1902).
35. J. H. Weiner, Statistical Mechanics of Elasticity (Dover, New York, 2002).
36. A. Erdelyi, Asymptotic Expansions (Dover, New York, 1956).
37. R. R. Netz, Macromolecules 34, 7522 (2001). 10.1021/ma010555u
38. M. Abramowitz and I. A. Stegun, Handbook of Mathematical Functions (Dover, New York, 1970).
39. M. Rubinstein and R. H. Colby, Polymer Physics (Oxford University Press, New York, 2003).
40. H. J. Kreuzer and S. H. Payne, Phys. Rev. E 63, 021906 (2001). 10.1103/PhysRevE.63.021906
41. S. Sinha and J. Samuel, Phys. Rev. E 71, 021104 (2005). 10.1103/PhysRevE.71.021104
42. A. Dhar and D. Chaudhuri, Phys. Rev. Lett. 89, 065502 (2002). 10.1103/PhysRevLett.89.065502
43. K. Binder, Rep. Progr. Phys. 60, 487 (1997). 10.1088/0034-4885/60/5/001
44. D. Frenkel and B. Smit, Understanding Molecular Simulation (Academic, San Diego, 1996).
45. M. P. Allen and D. J. Tildesley, Computer Simulations of Liquids (Clarendon, Oxford, 1987).
46. M. A. Miller, L. M. Amon, and W. P. Reinhardt, Chem. Phys. Lett. 331, 278 (2000). 10.1016/S0009-2614(00)01217-3
47. J. R. Blundell and E. M. Terentjev, Soft Matter 7, 3967 (2011). 10.1039/c0sm01322f
48. M. Tanase, N. Biais, and M. Sheetz, Methods Cell Biol. 83, 473 (2007). 10.1016/S0091-679X(07)83020-2