TY - JOUR
T1 - Brownian ratchet for directional nanoparticle transport by repetitive stretch-relaxation of DNA
AU - Oh, Inrok
AU - Song, Jeongeun
AU - Hyun, Hye Ree
AU - Lee, Sang Hak
AU - Kim, Jun Soo
N1 - Publisher Copyright:
© 2022 American Physical Society.
PY - 2022/11
Y1 - 2022/11
N2 - Brownian motion subject to a periodic and asymmetric potential can be biased by external, nonequilibrium fluctuations, leading to directional movement of Brownian particles. Sequence-dependent flexibility variation along double-stranded DNA has been proposed as a tool to develop periodic and asymmetric potentials for DNA binding of cationic nanoparticles with sizes below tens of nanometers. Here, we propose that repetitive stretching and relaxation of a long, double-stranded DNA molecule with periodic flexibility gradient can induce nonequilibrium fluctuations that tune the amplitude of asymmetric potentials for DNA-nanoparticle binding to result in directional transport of nanometer-sized particles along DNA. Realization of the proposed Brownian ratchet was proven by Brownian dynamics simulations of coarse-grained models of a single, long DNA molecule with flexibility variation and a cationic nanoparticle.
AB - Brownian motion subject to a periodic and asymmetric potential can be biased by external, nonequilibrium fluctuations, leading to directional movement of Brownian particles. Sequence-dependent flexibility variation along double-stranded DNA has been proposed as a tool to develop periodic and asymmetric potentials for DNA binding of cationic nanoparticles with sizes below tens of nanometers. Here, we propose that repetitive stretching and relaxation of a long, double-stranded DNA molecule with periodic flexibility gradient can induce nonequilibrium fluctuations that tune the amplitude of asymmetric potentials for DNA-nanoparticle binding to result in directional transport of nanometer-sized particles along DNA. Realization of the proposed Brownian ratchet was proven by Brownian dynamics simulations of coarse-grained models of a single, long DNA molecule with flexibility variation and a cationic nanoparticle.
UR - http://www.scopus.com/inward/record.url?scp=85142196065&partnerID=8YFLogxK
U2 - 10.1103/PhysRevE.106.054117
DO - 10.1103/PhysRevE.106.054117
M3 - Article
C2 - 36559375
AN - SCOPUS:85142196065
SN - 2470-0045
VL - 106
JO - Physical Review E - Statistical, Nonlinear, and Soft Matter Physics
JF - Physical Review E - Statistical, Nonlinear, and Soft Matter Physics
IS - 5
M1 - 054117
ER -