title: Effects of Polymer Length and Salt Concentration on the Transport of ssDNA in Nanofluidic Channels.
abstract: Electrokinetic phenomena in micro/nanofluidic channels have attracted considerable attention because precise control of molecular transport in liquids is required to optically and electrically capture the behavior of single molecules. However, the detailed mechanisms of polymer transport influenced by electroosmotic flows and electric fields in micro/nanofluidic channels have not yet been elucidated. In this study, a Langevin dynamics simulation was used to investigate the electrokinetic transport of single-stranded DNA (ssDNA) in a cylindrical nanochannel, employing a coarse-grained bead-spring model that quantitatively reproduced the radius of gyration, diffusion coefficient, and electrophoretic mobility of the polymer. Using this practical scale model, transport regimes of ssDNA with respect to the ζ-potential of the channel wall, the ion concentration, and the polymer length were successfully characterized. It was found that the relationship between the radius of gyration of ssDNA and the channel radius is critical to the formation of deformation regimes in a narrow channel. We conclude that a combination of electroosmotic flow velocity gradients and electric fields due to electrically polarized channel surfaces affects the alignment of molecular conformations, such that the ssDNA is stretched/compressed at negative/positive ζ-potentials in comparatively low-concentration solutions. Furthermore, this work suggests the possibility of controlling the center-of-mass position by tuning the salt concentration. These results should be applicable to the design of molecular manipulation techniques based on liquid flows in micro/nanofluidic devices.
authors.affiliation: Department of Mechanical Science and Bioengineering, Graduate School of Engineering Science, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka, Japan.
authors.forename: Weixin
authors.initials: W
authors.lastname: Qian
authors.affiliation: Department of Mechanical Science and Bioengineering, Graduate School of Engineering Science, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka, Japan. Electronic address: doi@me.es.osaka-u.ac.jp.
authors.forename: Kentaro
authors.initials: K
authors.lastname: Doi
authors.affiliation: Department of Mechanical Science and Bioengineering, Graduate School of Engineering Science, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka, Japan. Electronic address: kawano@me.es.osaka-u.ac.jp.
authors.forename: Satoyuki
authors.initials: S
authors.lastname: Kawano
mesh_terms: D004277:DNA, Single-Stranded / Q000737:chemistry* / Q000378:metabolism; D004058:Diffusion; D004305:Dose-Response Relationship, Drug; D053841:Electroosmosis; D056656:Lab-On-A-Chip Devices; D008958:Models, Molecular; D036103:Nanotechnology; D009690:Nucleic Acid Conformation; D012399:Rotation; D012492:Salts / Q000494:pharmacology*
chemical_list: D004277:DNA, Single-Stranded; D012492:Salts