Driven polymer translocation through a cylindrical nanochannel: interplay between the channel length and the chain length

Abstract

Using analytical techniques and Langevin dynamics simulations, we investigate the dynamics of polymer translocation through a nanochannel embedded in two dimensions under an applied external field. We examine the translocation time for various ratio of the channel length L to the polymer length N . For short channels L ≪ N , the translocation time τ ∼ N 1+ν under weak driving force F , while τ ∼ F −1 L for long channels L ≫ N , independent of the chain length N . Moreover, we observe a minimum of translocation time as a function of L/N for different driving forces and channel widths. These results are interpreted by the waiting time of a single segment.

Effect of hydrodynamic interaction on flow-induced polymer translocation through a nanotube

“…The lattice spacing in LBM, ∆x, is identical(σ) along the lattice axes. The other dimensionless parameters in our simulations are R 0 =2, κ=7 [14] , ξ=0.5, and L n =3. For the channel, we set L y =L z =17, and L x =L x0 +L, where L x0 =80.…”

“…In principle, these methods and models studied the effects of factors, e.g., external field [13] , polymer-pore interactions [10] , and chain length [14,18] . According to the type of external field, all these simulation methods can be roughly classified into three types.…”

“…Because of this, much simulation work has been performed with different simulation methods and simulation models, such as Langevin dynamics(LD) [8][9][10][11][12][13][14] , Monte Carlo (MC) simulation [15][16][17] , molecular dynamics(MD) [18][19][20] , Brownian dynamics(BD) [21] , Disipative particle dynamics (DPD) [22,23] , and Lattice Boltzmann method(LBM) [24,25] . In principle, these methods and models studied the effects of factors, e.g., external field [13] , polymer-pore interactions [10] , and chain length [14,18] .…”

DNA translocation through short nanofluidic channels under asymmetric pulsed electric field

“…However, most of the studies have focused on the movement of DNA either through short nanopores which physically constrain only a small fraction of the polymer [27][28][29][30][31] or through long nanochannels which completely constrain the DNA leading to equilibrium dynamics studies. [5][6][7]16,32,33 Some recent theoretical treatments [34][35][36][37] have given us insight into the situation by characterizing the time scales. Yong et al 34 studied the translocation time for various ratio of the channel length L to the polymer length N and found that the translocation time s $ N 1þ for short channels L(N, while s $ L/F for long channels L ) N, and is independent of the chain length.…”

“…[5][6][7]16,32,33 Some recent theoretical treatments [34][35][36][37] have given us insight into the situation by characterizing the time scales. Yong et al 34 studied the translocation time for various ratio of the channel length L to the polymer length N and found that the translocation time s $ N 1þ for short channels L(N, while s $ L/F for long channels L ) N, and is independent of the chain length. Slonkina addressed polymer translocation through a long nanopore and reported that the length of the pore is a critical parameter for polymer translocation dynamics and that for polymer chains longer than the pore length, the velocity of translocation is nearly constant.…”