Thermal fluctuations in shape, thickness, and molecular orientation in lipid bilayers

Journal of Chemical Physics

Volumn 135, Issue 24, 2011, Pages

  Watson, Max C ^a   Penev, Evgeni S ^a,c   Welch, Paul M ^b   Brown, Frank L H ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b LOS ALAMOS NATIONAL LABORATORY   (United States)

^c Rice University   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BI-LAYER; MOLECULAR SIMULATIONS; MONOLAYER SURFACE; PHYSICAL QUANTITIES; THERMAL FLUCTUATIONS;

LIPID BILAYERS; MONOLAYERS;

MOLECULAR ORIENTATION;

ARTICLE; BIOMECHANICS; CHEMICAL MODEL; CHEMICAL STRUCTURE; CHEMISTRY; COMPUTER SIMULATION; LIPID BILAYER; THERMODYNAMICS;

BIOMECHANICS; COMPUTER SIMULATION; LIPID BILAYERS; MODELS, CHEMICAL; MODELS, MOLECULAR; THERMODYNAMICS;

EID: 84855289570     PISSN: 00219606     EISSN: None     Source Type: Journal    
DOI: 10.1063/1.3660673     Document Type: Article

References (91)

1. E. Browicz, Zbl. Med. Wiss. 28, 625 (1890).
2. F. Brochard and J. F. Lennon, J. Phys. (France) 36, 1035 (1975). 10.1051/jphys:0197500360110103500
3. J. Israelachvili and H. Wennerström, J. Phys. Chem. 96, 520 (1992). 10.1021/j100181a007
4. R. Lipowsky, Nature (London) 349, 475 (1991). 10.1038/349475a0
5. C. S. Peskin, G. M. Odell, and G. F. Oster, Biophys. J. 65, 316 (1993). 10.1016/S0006-3495(93)81035-X
6. R. Bruinsma and P. Pincus, Curr. Opin. Solid State Mater. Sci. 1, 401 (1996). 10.1016/S1359-0286(96)80032-5 (Pubitemid 126407987)
7. R. Golestanian, M. Goulian, and M. Kardar, Phys. Rev. E 54, 6725 (1996). 10.1103/PhysRevE.54.6725
8. W. Helfrich, Z. Naturforsch. C 28, 693 (1973).
9. P. B. Canham, J. Theor. Biol. 26, 61 (1970). 10.1016/S0022-5193(70)80032- 7
10. F. C. Frank, Discuss. Faraday Soc. 25, 19 (1958). 10.1039/df9582500019
11. R. Lipowsky and S. Grotehans, Biophys. Chem. 49, 27 (1994). 10.1016/0301-4622(93)E0079-K (Pubitemid 24047758)
12. J. N. Israelachvili, Intermolecular and Surface Forces (Academic, New York, 1985).
13. F. C. MacKintosh and T. C. Lubensky, Phys. Rev. Lett. 67, 1169 (1991). 10.1103/PhysRevLett.67.1169
14. M. Hamm and M. M. Kozlov, Eur. J. Phys. E. 3, 323 (2000). 10.1007/s101890070003
15. Y. Kozlovsky and M. M. Kozlov, Biophys. J. 82, 882 (2002). 10.1016/S0006-3495(02)75450-7
16. P. I. Kuzmin, S. A. Akimov, Y. A. Chizmadzhev, J. Zimmerberg, and F. S. Cohen, Biophys. J. 88, 1120 (2005). 10.1529/biophysj.104.048223 (Pubitemid 40975943)
17. A. Kessel, N. Ben-Tal, and S. May, Biophys. J. 81, 643 (2001). 10.1016/S0006-3495(01)75729-3
18. G. Khelashvili, G. Pabst, and D. Harries, J. Phys. Chem. B 114, 7524 (2010). 10.1021/jp101889k
19. J. Aittoniemi, T. Rg, P. Niemelä, M. Pasenkiewicz-Gierula, M. Karttunen, and I. Vattulainen, J. Phys. Chem. B 110, 25562 (2006). 10.1021/jp064931u (Pubitemid 46137754)
20. S. May and A. Ben-Shaul, Phys. Chem. Chem. Phys. 2, 4494 (2000). 10.1039/b003570j
21. S. May and A. Ben-Shaul, Biophys. J. 76, 751 (1999). 10.1016/S0006- 3495(99)77241-3
22. S. May, Eur. Biophys. J. 29, 17 (2000). 10.1007/s002490050247
23. S. May, Langmuir 18, 6356 (2002). 10.1021/la025747c (Pubitemid 35383370)
24. M. Fosari, A. Igli, and S. May, Phys. Rev. E 74, 051503 (2006). 10.1103/PhysRevE.74.051503 (Pubitemid 44721792)
25. K. Bohinc, V. Kralj-Igli, and S. May, J. Chem. Phys. 119, 7433 (2000). 10.1063/1.1607305
26. Y. Kozlovsky, J. Zimmerberg, and M. M. Kozlov, Biophys. J. 87, 999 (2004). 10.1529/biophysj.104.041467 (Pubitemid 39095080)
27. J.-B. Fournier, Eur. J. Phys. E 11, 261 (1999). 10.1088/0953-8984/11/25/ 101
28. J.-B. Fournier, Europhys. Lett. 43, 725 (1998). 10.1209/epl/i1998-00424-4
29. B. West, F. L. H. Brown, and F. Schmid, Biophys. J. 96, 101 (2009). 10.1529/biophysj.108.138677
30. M. Hamm and M. M. Kozlov, Eur. J. Phys. E 6, 519 (1998). 10.1007/s100510050579
31. S. Tristram-Nagle, R. Zhang, R. M. Suter, C. R. Worthington, W. J. Sun, and J. F. Nagle, Biophys. J. 64, 1097 (1993). 10.1016/S0006-3495(93)81475-9
32. T. C. Lubensky and F. C. MacKintosh, Phys. Rev. Lett. 71, 1565 (1993). 10.1103/PhysRevLett.71.1565
33. C.-M. Chen, T. C. Lubensky, and F. C. MacKintosh, Phys. Rev. E 51, 504 (1995). 10.1103/PhysRevE.51.504
34. K. Sengupta, V. A. Raghunathan, and Y. Hatwalne, Phys. Rev. Lett. 87, 055705 (2001). 10.1103/PhysRevLett.87.055705
35. U. Seifert, J. Shillcock, and P. Nelson, Phys. Rev. Lett. 77, 5237 (1996). 10.1103/PhysRevLett.77.5237
36. E. A. G. Aniansson, S. N. Wall, M. Almgren, H. Hoffmann, I. Kielmann, W. Ulbricht, R. Zana, J. Lang, and C. Tondre, J. Phys. Chem. 80, 905 (1976). 10.1021/j100550a001
37. T. J. McIntosh, S. Advani, R. E. Burton, D. V. Zhelev, D. Needham, and S. A. Simon, Biochemistry 34, 8520 (1995). 10.1021/bi00027a002
38. A. Halperin and O. Mouritsen, Eur. Biophys. J. 34, 967 (2005). 10.1007/s00249-005-0466-z (Pubitemid 41430460)
39. R. Goetz, G. Gompper, and R. Lipowsky, Phys. Rev. Lett. 82, 221 (1999). 10.1103/PhysRevLett.82.221
40. E. Lindahl and O. Edholm, J. Chem. Phys. 113, 3882 (2000). 10.1063/1.1287423
41. E. Lindahl and O. Edholm, Biophys. J. 79, 426 (2000). 10.1016/S0006-3495(00)76304-1
42. S. J. Marrink and A. E. Mark, J. Phys. Chem. 105, 6122 (2001). 10.1021/jp0103474 (Pubitemid 35339078)
43. S. W. Chiu, S. Vasudevan, E. Jakobsson, R. J. Mashl, and H. L. Scott, Biophys. J 85, 3624 (2003). 10.1016/S0006-3495(03)74780-8
44. G. Brannigan and F. Brown, Biophys. J. 90, 1501 (2006). 10.1529/biophysj.105.075838
45. G. Brannigan, P. F. Philips, and F. L. H. Brown, Phys. Rev. E 72, 011915 (2005). 10.1103/PhysRevE.72.011915 (Pubitemid 41521069)
46. G. Brannigan, A. C. Tamboli, and F. L. H. Brown, J. Chem. Phys. 121 (2004). 10.1063/1.1770569
47. M. J. Stevens, J. Chem. Phys. 121, 11942 (2004). 10.1063/1.1814058 (Pubitemid 40044293)
48. I. R. Cooke, K. Kremer, and M. Deserno, Phys. Rev. E 72, 011506 (2005). 10.1103/PhysRevE.72.011506 (Pubitemid 41521033)
49. W. K. den Otter, J. Chem. Phys. 123, 214906 (2005). 10.1063/1.2132287 (Pubitemid 41779795)
50. J. Neder, B. West, P. Nielaba, and F. Schmid, J. Chem. Phys. 132, 115101 (2009). 10.1063/1.3352583
51. B. West and F. Schmid, Soft Matter 6, 1275 (2010). 10.1039/b920978f
52. E. R. May, A. Narang, and D. I. Kopelevich, Phys. Rev. E 76, 021913 (2007). 10.1103/PhysRevE.76.021913 (Pubitemid 47258006)
53. E. R. May, A. Narang, and D. I. Kopelevich, Mol. Simul. 33, 787 (2007). 10.1080/08927020701308323 (Pubitemid 47347011)
54. F. M. Thakkar, P. K. Maiti, V. Kumaran, and K. G. Ayappa, Soft Matter 7, 3963 (2011). 10.1039/c0sm00876a
55. S. J. Marrink, J. H. Risselada, S. Yefimov, P. D. Tieleman, and A. H. de Vries, J. Phys. Chem. B 111, 7812 (2007). 10.1021/jp071097f (Pubitemid 47169693)
56. S. J. Marrink, A. H. de Vries, and A. E. Mark, J. Phys. Chem. B 108, 750 (2004). 10.1021/jp036508g
57. I. W. Stewart, The Static and Dynamic Continuum Theory of Liquid Crystals: A Mathematical Introduction (Taylor Francis, London, 2004).
58. A. Imparato, J. Chem. Phys. 124, 154714 (2006). 10.1063/1.2189847
59. J.-B. Fournier and C. Barbetta, Phys. Rev. Lett. 100, 078103 (2008). 10.1103/PhysRevLett.100.078103 (Pubitemid 351393546)
60. W. Cai, T. C. Lubensky, P. Nelson, and T. Powers, J. Phys. II 4, 931 (1994). 10.1051/jp2:1994175
61. O. Farago and P. Pincus, Eur. Phys. J. E 11, 399 (2003). 10.1140/epje/i2003-10049-y
62. O. Farago and P. Pincus, J. Chem. Phys. 120, 2934 (2004). 10.1063/1.1639000
63. J. Stecki, J. Chem. Phys. 125, 154902 (2006). 10.1063/1.2357943 (Pubitemid 44601830)
64. F. Schmid, Eur. Phys. Lett. 95, 28008 (2011). 10.1209/0295-5075/95/28008
65. S. A. Safran, Statistical Thermodynamics of Surfaces, Interfaces and Membranes (Westview Press, Boulder, CO, 1994).
66. N. G. V. Kampen, Stochastic Processes in Physics and Chemistry (Amsterdam, North Holland, 2007).
67. S. J. Plimpton, J. Comput. Phys. 117, 1 (1995). 10.1006/jcph.1995.1039
68. R. Goetz and R. Lipowsky, J. Chem. Phys. 108, 7397 (1998). 10.1063/1.476160
69. P. J. Steinbach and B. B. Brooks, J. Comput. Chem. 15, 667 (1994). 10.1002/jcc.540150702
70. O. Farago, J. Chem. Phys. 119, 596 (2003). 10.1063/1.1578612
71. D. Marsh, Biochim. Biophys. Acta. 1286, 183 (1996). 10.1016/S0304- 4157(96)00009-3 (Pubitemid 26426521)
72. E. Lindahl and O. Edholm, J. Chem. Phys. 113, 3882 (2000). 10.1063/1.1287423
73. M. Bhandarkar, NAMD Users Guide. Version 2.7b2, University of Illinois and Beckman Institute, Urbana, IL (2009), sec. 12.2.
74. A. Harasima, Adv. Chem. Phys. 1, 203 (1958). 10.1002/SERIES2007
75. D. van der Spoel, E. Lindahl, B. Hess, G. Groenhof, A. E. Mark, and H. J. C. Berendsen, J. Comput. Chem. 26, 1701 (2005). 10.1002/jcc.20291 (Pubitemid 43076182)
76. H. J. C. Berendsen, D. van der Spoel, and R. van Drunen, Comput. Phys. Commun. 91, 43 (1995). 10.1016/0010-4655(95)00042-E
77. B. Hess, C. Kutzner, D. van der Spoel, and E. Lindahl, J. Chem. Theory Comput. 4, 435 (2008). 10.1021/ct700301q
78. See http://md.chem.rug.nl/cgmartini to download pre-assembled bilayer coordinates and force field files.
79. S. O. H. Ollila, J. H. Risselada, M. Louhivuori, E. Lindahl, I. Vattulainen, and S. J. Marrink, Phys. Rev. Lett. 102, 078101 (2009). 10.1103/PhysRevLett.102.078101
80. J. H. Irving and J. G. Kirkwood, J. Chem. Phys. 18, 817 (1950). 10.1063/1.1747782
81. J. Sonne, F. Y. Hansen, and G. H. Peters, J. Chem. Phys. 122, 124903 (2005). 10.1063/1.1862624 (Pubitemid 40552476)
82. W. H. Press, S. A. Teukolsky, W. T. Vetterling, and B. P. Flannery, Numerical Recipes: The Art of Scientific Computing, 3rd ed. (Cambridge University Press, Cambridge, England, 2007).
83. S. E. Feller and R. W. Pastor, J. Chem. Phys. 111, 1281 (1999). 10.1063/1.479313
84. S. Shkulipa, Computer Simulations of Lipid Bilayer Dynamics, Ph.D. dissertation, University of Twente, The Netherlands, 2006).
85. Q. Waheed and O. Edholm, Biophys. J. 97, 2754 (2009). 10.1016/j.bpj.2009.08.048
86. J. S. Rowlinson and B. Widom, Molecular Theory of Capillarity (Dover, New York, 2003).
87. G. Brannigan and F. L. H. Brown, Biophys. J. 92, 864 (2007). 10.1529/biophysj.106.094953 (Pubitemid 46203216)
88. M. Watson and F. L. H. Brown, Biophys. J 98, L9 (2010). 10.1016/j.bpj.2009.11.026
89. E. G. Brandt, A. R. Braun, J. N. Sachs, J. F. Nagle, and O. Edholm, Biophys. J. 100, 2104 (2011). 10.1016/j.bpj.2011.03.010
90. S. May, Y. Kozlovsky, A. Ben-Shaul, and M. M. Kozlov, Eur. Phys. J. E 14, 299 (2004). 10.1140/epje/i2004-10019-y (Pubitemid 40877381)
91. M. Frigo and S. G. Johnson, Proccedings of IEEE 93, 216 (2005). 10.1109/JPROC.2004.840301 (Pubitemid 40851223)