Measurement of the Docking Time of a DNA Molecule onto a Solid-State Nanopore

被引:57
作者
Kowalczyk, Stefan W. [1 ]
Dekker, Cees [1 ]
机构
[1] Delft Univ Technol, Dept Bionanosci, Kavli Inst Nanosci, NL-2628 CJ Delft, Netherlands
基金
欧洲研究理事会;
关键词
Nanopore; access resistance; DNA; translocation; IONIC CURRENT; TRANSLOCATION; TRANSPORT;
D O I
10.1021/nl301719a
中图分类号
O6 [化学];
学科分类号
0703 ;
摘要
We present measurements of the change in ionic conductance due to double-stranded (ds) DNA translocation through small (6 nm diameter) nanopores at low salt (100 rnM KCl). At both low (<200 mV) and high (>600 mV) voltages we observe a current enhancement during DNA translocation, similar to earlier reports. Intriguingly, however, in the intermediate voltage range, we observe a new type of composite events, where within each single event the current first decreases and then increases. From the voltage dependence of the magnitude and timing of these current changes, we conclude that the current decrease is caused by the docking of the DNA random coil onto the nanopore. Unexpectedly, we find that the docking time is exponentially dependent on voltage (t proportional to e(-V/V0)). We discuss a physical picture where the docking time is set by the time that a DNA end needs to move from a random location within the DNA coil to the nanopore. Upon entrance of the pore, the current subsequently increases due to enhanced flow of counterions along the DNA. Interestingly, these composite events thus allow to independently measure the actual translocation time as well as the docking time before translocation.
引用
收藏
页码:4159 / 4163
页数:5
相关论文
共 23 条
[1]   Microscopic kinetics of DNA translocation through synthetic nanopores [J].
Aksimentiev, A ;
Heng, JB ;
Timp, G ;
Schulten, K .
BIOPHYSICAL JOURNAL, 2004, 87 (03) :2086-2097
[2]   Deciphering ionic current signatures of DNA transport through a nanopore [J].
Aksimentiev, Aleksei .
NANOSCALE, 2010, 2 (04) :468-483
[3]   The potential and challenges of nanopore sequencing [J].
Branton, Daniel ;
Deamer, David W. ;
Marziali, Andre ;
Bayley, Hagan ;
Benner, Steven A. ;
Butler, Thomas ;
Di Ventra, Massimiliano ;
Garaj, Slaven ;
Hibbs, Andrew ;
Huang, Xiaohua ;
Jovanovich, Stevan B. ;
Krstic, Predrag S. ;
Lindsay, Stuart ;
Ling, Xinsheng Sean ;
Mastrangelo, Carlos H. ;
Meller, Amit ;
Oliver, John S. ;
Pershin, Yuriy V. ;
Ramsey, J. Michael ;
Riehn, Robert ;
Soni, Gautam V. ;
Tabard-Cossa, Vincent ;
Wanunu, Meni ;
Wiggin, Matthew ;
Schloss, Jeffery A. .
NATURE BIOTECHNOLOGY, 2008, 26 (10) :1146-1153
[4]   DNA-mediated fluctuations in ionic current through silicon oxide nanopore channels [J].
Chang, H ;
Kosari, F ;
Andreadakis, G ;
Alam, MA ;
Vasmatzis, G ;
Bashir, R .
NANO LETTERS, 2004, 4 (08) :1551-1556
[5]   Solid-state nanopores [J].
Dekker, Cees .
NATURE NANOTECHNOLOGY, 2007, 2 (04) :209-215
[6]   DNA translocation in inorganic nanotubes [J].
Fan, R ;
Karnik, R ;
Yue, M ;
Li, DY ;
Majumdar, A ;
Yang, PD .
NANO LETTERS, 2005, 5 (09) :1633-1637
[7]   Sizing DNA using a nanometer-diameter pore [J].
Heng, JB ;
Ho, C ;
Kim, T ;
Timp, R ;
Aksimentiev, A ;
Grinkova, YV ;
Sligar, S ;
Schulten, K ;
Timp, G .
BIOPHYSICAL JOURNAL, 2004, 87 (04) :2905-2911
[8]   Nanopore analytics: sensing of single molecules [J].
Howorka, Stefan ;
Siwy, Zuzanna .
CHEMICAL SOCIETY REVIEWS, 2009, 38 (08) :2360-2384
[9]   Controlling molecular transport through nanopores [J].
Keyser, Ulrich F. .
JOURNAL OF THE ROYAL SOCIETY INTERFACE, 2011, 8 (63) :1369-1378
[10]  
Kowalczyk S. W., 2012, P NAN C LAN IN PRESS