title: Fluctuating bottleneck model studies on kinetics of DNA escape from α-hemolysin nanopores.
abstract: We have proposed a fluctuation bottleneck (FB) model to investigate the non-exponential kinetics of DNA escape from nanometer-scale pores. The basic idea is that the escape rate is proportional to the fluctuating cross-sectional area of DNA escape channel, the radius r of which undergoes a subdiffusion dynamics subjected to fractional Gaussian noise with power-law memory kernel. Such a FB model facilitates us to obtain the analytical result of the averaged survival probability as a function of time, which can be directly compared to experimental results. Particularly, we have applied our theory to address the escape kinetics of DNA through α-hemolysin nanopores. We find that our theoretical framework can reproduce the experimental results very well in the whole time range with quite reasonable estimation for the intrinsic parameters of the kinetics processes. We believe that FB model has caught some key features regarding the long time kinetics of DNA escape through a nanopore and it might provide a sound starting point to study much wider problems involving anomalous dynamics in confined fluctuating channels.
authors.affiliation: Institute of Atomic and Molecular Physics, Sichuan University, Chengdu 610065, China.
authors.forename: Yukun
authors.initials: Y
authors.lastname: Bian
authors.affiliation: College of Chemistry, Sichuan University, Chengdu 610064, China.
authors.forename: Zilin
authors.initials: Z
authors.lastname: Wang
authors.affiliation: College of Chemistry, Sichuan University, Chengdu 610064, China.
authors.forename: Anpu
authors.initials: A
authors.lastname: Chen
authors.affiliation: College of Chemistry, Sichuan University, Chengdu 610064, China.
authors.forename: Nanrong
authors.initials: N
authors.lastname: Zhao
mesh_terms: D004247:DNA / Q000737:chemistry*; D006460:Hemolysin Proteins / Q000737:chemistry*; D007700:Kinetics; D008958:Models, Molecular; D058608:Nanopores
chemical_list: D006460:Hemolysin Proteins; D004247:DNA