When translocation dynamics becomes anomalous

Abstract

Recent single molecule experiments probing the passage process of a short single-stranded DNA (ssDNA) through a membrane channel (translocation) allow to measure the passage time distribution. Building on a recent modelling approach (D. K. Lubensky and D. R. Nelson, Biophys. J. 77, 1824 (1999)), which has been demonstrated to be valid for chains of up to $\simeq 300$ nucleotides and therefore well applies to the system we have in mind, we discuss the consequences if the associated dynamics is not of Markov origin, but if strong memory effects prevail during the translocation. Motivation is drawn from recent results indicating that the distribution of translocation times is broader than predicted by simple Markovian models based on Brownian motion.

5 pages, 2 figures, RevTeX4, submitted to Biophys. J

Cited by in corpus (50)

• Influence of polymer-pore interactions on translocation
• Sequence dependence of DNA translocation through a nanopore
• Langevin Dynamics Simulations of Polymer Translocation through Nanopores
• Polymer translocation through a nanopore - a showcase of anomalous diffusion
• Driven polymer translocation through nanopores: slow versus fast dynamics
• Driven polymer translocation through a nanopore: a manifestation of anomalous diffusion
• Anomalous Dynamics of Unbiased Polymer Translocation through a Narrow Pore
• Polymer translocation through a nanopore under an applied external field
• Pore-blockade Times for Field-Driven Polymer Translocation
• Influence of non-universal effects on dynamical scaling in driven polymer translocation
• Anomalous Polymer Dynamics Is Non-Markovian: Memory Effects and The Generalized Langevin Equation Formulation
• Polymer translocation through a nanopore under a pulling force
• Translocation of structured polynucleotides through nanopores
• Diffusion mechanisms of localised knots along a polymer
• Active polymer translocation through flickering pores
• Iso-Flux Tension Propagation Theory of Driven Polymer Translocation: The Role of Initial Configurations
• Heteropolymer translocation through nanopores
• Scaling theory of driven polymer translocation
• Fractional Brownian motion approach to polymer translocation: the governing equation of motion
• Chaperone assisted translocation
• Through the Eye of the Needle: Recent Advances in Understanding Biopolymer Translocation
• Polymer Translocation out of Planar Confinements
• Polymer translocation into a fluidic channel through a nanopore
• Translocation Dynamics with Attractive Nanopore-Polymer Interactions
• First passage times and asymmetry of DNA translocation
• Theory of pore-driven and end-pulled polymer translocation dynamics through a nanopore: An overview
• Theory of polymer translocation through a flickering nanopore under an alternating driving force
• Non-driven polymer translocation through a nanopore: computational evidence that the escape and relaxation processes are coupled
• Directed motion emerging from two coupled random processes: Translocation of a chain through a membrane nanopore driven by binding proteins
• Dynamics of DNA translocation through an attractive nanopore
• The chain sucker: translocation dynamics of a polymer chain into a long narrow channel driven by longitudinal flow
• Role of Non-Equilibrium Conformations on Driven Polymer Translocation
• Polymer translocation out of confined environments
• Stochastic sensing of polynucleotides using patterned nanopores
• Driven translocation of a polymer: fluctuations at work
• Translocation through environments with time dependent mobility
• Effect of Inhomogeneity in Translocation of Polymers through Nanopores
• Translocation of a Single Stranded DNA Through a Conformationally Changing Nanopore
• Sequencing of semiflexible polymers of varying bending rigidity using patterned pores
• Dynamics of end-pulled polymer translocation through a nanopore
• Effect of charge distribution on the translocation of an inhomogeneously charged polymer through a nanopore
• Polymer translocation into laterally unbounded confined environments
• Probabilistic Phase Space Trajectory Description for Anomalous Polymer Dynamics
• Translocation of polymers with folded configurations across nanopores
• Pulling a DNA molecule through a nanopore embedded in an anionic membrane: tension propagation coupled to electrostatics
• Anomalous scaling in nanopore translocation of structured heteropolymers
• First passage time for subdiffusion: The nonextensive entropy approach versus the fractional model
• Speeding up the first-passage for subdiffusion by introducing a finite potential barrier
• Finite-size scaling in unbiased translocation dynamics
• An empirical method to characterize displacement distribution functions for anomalous and transient diffusion