Simulation of longitudinal string waves through a single polymer molecule

Anders Korsbäck; Anders E. Wallin; Edward Hæggström

doi:10.1016/j.wavemoti.2013.05.005

Simulation of longitudinal string waves through a single polymer molecule

Anders Korsbäck, Anders E. Wallin, Edward Hæggström

Not published at VTT

University of Helsinki

Research output: Contribution to journal › Article › Scientific › peer-review

Abstract

The capability of an individual polymer molecule to carry an acoustic wave along its length was investigated by a Brownian dynamics simulation using the algorithm of Ermak and McCammon and the discrete worm-like chain model. A 3 μm long DNA strand featuring 50 nm persistence length was subjected to longitudinal oscillations (2 kHz to 25 kHz) at one end, and the properties of the resulting propagating interaction were studied and shown to be wave-like. A proof of concept experiment is proposed, where an optical tweezers dumbbell experiment is conducted to induce and receive the wave, and the result is compared to that of a control experiment with the DNA strand absent. Simulations were conducted to show what one might expect to see in such an experiment.

Original language	English
Pages (from-to)	41-51
Journal	Wave Motion
Volume	51
Issue number	1
DOIs	https://doi.org/10.1016/j.wavemoti.2013.05.005
Publication status	Published - 1 Jan 2014
MoE publication type	A1 Journal article-refereed

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10.1016/j.wavemoti.2013.05.005

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title = "Simulation of longitudinal string waves through a single polymer molecule",

abstract = "The capability of an individual polymer molecule to carry an acoustic wave along its length was investigated by a Brownian dynamics simulation using the algorithm of Ermak and McCammon and the discrete worm-like chain model. A 3 μm long DNA strand featuring 50 nm persistence length was subjected to longitudinal oscillations (2 kHz to 25 kHz) at one end, and the properties of the resulting propagating interaction were studied and shown to be wave-like. A proof of concept experiment is proposed, where an optical tweezers dumbbell experiment is conducted to induce and receive the wave, and the result is compared to that of a control experiment with the DNA strand absent. Simulations were conducted to show what one might expect to see in such an experiment.",

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AU - Hæggström, Edward

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N2 - The capability of an individual polymer molecule to carry an acoustic wave along its length was investigated by a Brownian dynamics simulation using the algorithm of Ermak and McCammon and the discrete worm-like chain model. A 3 μm long DNA strand featuring 50 nm persistence length was subjected to longitudinal oscillations (2 kHz to 25 kHz) at one end, and the properties of the resulting propagating interaction were studied and shown to be wave-like. A proof of concept experiment is proposed, where an optical tweezers dumbbell experiment is conducted to induce and receive the wave, and the result is compared to that of a control experiment with the DNA strand absent. Simulations were conducted to show what one might expect to see in such an experiment.

AB - The capability of an individual polymer molecule to carry an acoustic wave along its length was investigated by a Brownian dynamics simulation using the algorithm of Ermak and McCammon and the discrete worm-like chain model. A 3 μm long DNA strand featuring 50 nm persistence length was subjected to longitudinal oscillations (2 kHz to 25 kHz) at one end, and the properties of the resulting propagating interaction were studied and shown to be wave-like. A proof of concept experiment is proposed, where an optical tweezers dumbbell experiment is conducted to induce and receive the wave, and the result is compared to that of a control experiment with the DNA strand absent. Simulations were conducted to show what one might expect to see in such an experiment.

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DO - 10.1016/j.wavemoti.2013.05.005

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JO - Wave Motion

JF - Wave Motion

IS - 1

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Simulation of longitudinal string waves through a single polymer molecule

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