Exploring the Impact of Lipid Domain Size on the Lifetime: A Dissipative Particle Dynamics Study

  • Kan Sornbundit Ratchaburi Learning Park, King Mongkut’s University of Technology Thonburi (Ratchaburi), Ratchaburi, Thailand https://orcid.org/0000-0003-0787-8580
DOI: https://doi.org/10.26565/2312-4334-2023-3-52
Keywords: Lipid bilayer, Dissipative particle dynamics, Domain fluctuation lifetime

Abstract

In this research, we have used the dissipative particle dynamics (DPD), a mesoscopic simulation technique, in order to investigate the dynamics of lipid domains in near critical temperature. Our specific focus has been on exploring the influence of lipid domain size on its lifetime, which mimics the behavior of lipid rafts within cellular membranes. The lipid membranes used in this study were composed of saturated and unsaturated lipids, which have been immersed in water. Through the simulation of these membranes close to their critical temperature, we have successfully generated fluctuating domains that mimic the lipid rafts observed in cellular systems. We have proposed a method to obtain the lifetime of the fluctuating domains by analyzing the sizes of the lipid domains at specific intervals of time. Our investigations have revealed a linear correlation between the initial size of the lipid domain and its lifetime. Our research finding give an insight into the underlying mechanisms that govern lipid rafts and their vital role in various cellular processes.

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References

L.J. Pike, Journal of lipid research 47(7), 1597 (2006). https://doi.org/10.1194/jlr.E600002-JLR200

D. Lingwood, and K. Simons, Science, 327(5961), 46 (2010). https://doi.org/10.1126/science.1174621

I. Levental, K.R. Levental, and F.A. Heberle, Trends in cell biology, 30(5), 341 (2020). https://doi.org/10.1016/j.tcb.2020.01.009

K. Simons, and E. Ikonen, Nature, 387(6633), 569 (1997). https://doi.org/10.1038/42408

K. Simons, and D. Toomre, Nature reviews Molecular cell biology, 1(1), 31 (2000). http://dx.doi.org/10.1038/35036052

M. Sorice, R. Misasi, G. Riitano, V. Manganelli, S. Martellucci, A. Longo, T. Garofalo, and V. Mattei, Frontiers in Cell and Developmental Biology, 8, 618296 (2021). https://doi.org/10.3389/fcell.2020.618296

F. Mollinedo, and C. Gajate, Journal of lipid research, 61(5), 611 (2020). https://doi.org/10.1194/jlr.tr119000439

S.L. Veatch, and S.L. Keller, Biophysical journal, 85(5), 3074 (2003). https://doi.org/10.1016%2FS0006-3495(03)74726-2

S.L. Veatch, P. Cicuta, P. Sengupta, A. Honerkamp-Smith, D. Holowka and B. Baird, ACS chemical biology, 3(5), 287 (2008). https://doi.org/10.1021/cb800012x

W. K. Subczynski, and A. Kusumi, Biochimica et Biophysica Acta (BBA)-Biomembranes 1610(2), 231 (2003). https://doi.org/10.1016/S0005-2736(03)00021-X

R. Brewster, P.A. Pincus, and S.A. Safran, Biophysical journal, 97(4), 1087 (2009). https://doi.org/10.1016%2Fj.bpj.2009.05.051

K. Sornbundit, Journal of the Korean Physical Society, 73, 1899 (2018). https://doi.org/10.3938/jkps.73.1899

B. Palmieri, and S. A. Safran, Physical Review E, 88(3), 032708 (2013). https://doi.org/10.1103/PhysRevE.88.032708

K. Sornbundit, Journal of the Korean Physical Society, 76, 860 (2020). https://doi.org/10.3938/jkps.76.860

S. Yamamoto, Y. Maruyama, and S.-A. Hyodo, The Journal of chemical physics, 116(13), 5842 (2002). https://doi.org/10.1063/1.1456031

M. Laradji, and P.S. Kumar, The Journal of chemical physics, 123(22), 224902 (2005). https://doi.org/10.1063/1.2102894

M. Laradji, and P.S. Kumar, Physical review letters, 93(19), 198105 (2004). https://doi.org/10.1103/PhysRevLett.93.198105

P. Espanol, and P. Warren, Europhysics letters, 30(4), 191 (1995). https://doi.org/10.1209/0295-5075/30/4/001

P. Nikunen, M. Karttunen, and I. Vattulainen, Computer physics communications, 153(3), 407 (2003). https://doi.org/10.1016/S0010-4655(03)00202-9

G. Besold, I. Vattulainen, M. Karttunen, and J.M. Polson, Physical Review E, 62(6), R7611 (2000). https://doi.org/10.1103/PhysRevE.62.R7611

J.G. Amar, F.E. Sullivan, and R.D. Mountain, Physical Review B, 37(1), 196 (1988). https://doi.org/10.1103/PhysRevB.37.196

R.F. de Almeida, L.M. Loura, A. Fedorov and M. Prieto, Journal of molecular biology, 346(4), 1109 (2005). https://doi.org/10.1016/j.jmb.2004.12.026

Published
2023-09-04
Cited
How to Cite
Sornbundit, K. (2023). Exploring the Impact of Lipid Domain Size on the Lifetime: A Dissipative Particle Dynamics Study. East European Journal of Physics, (3), 466-470. https://doi.org/10.26565/2312-4334-2023-3-52
Issue
No. 3 (2023): East European Journal of Physics
Section
Original Papers

Copyright (c) 2023 Kan Sornbundit

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