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Volumn 239, Issue 1-2, 2011, Pages 105-113

DNA strands attached inside single conical nanopores: Ionic pore characteristics and insight into DNA biophysics

Author keywords

DNA strand; Ion transport; Nanopore

Indexed keywords

ION; POTASSIUM CHLORIDE; SINGLE STRANDED DNA;

EID: 79955672678     PISSN: 00222631     EISSN: 14321424     Source Type: Journal    
DOI: 10.1007/s00232-010-9328-4     Document Type: Article
Times cited : (26)

References (69)
  • 1
    • 22244445788 scopus 로고    scopus 로고
    • Imaging alpha-hemolysin with molecular dynamics: Ionic conductance, osmotic permeability, and the electrostatic potential map
    • DOI 10.1529/biophysj.104.058727
    • Aksimentiev A, Schulten K (2005) Imaging alpha-hemolysin with molecular dynamics: ionic conductance, osmotic permeability, and the electrostatic potential map. Biophys J 88:3745-3761 (Pubitemid 40991090)
    • (2005) Biophysical Journal , vol.88 , Issue.6 , pp. 3745-3761
    • Aksimentiev, A.1    Schulten, K.2
  • 3
    • 0020799691 scopus 로고
    • Ion transport and water dissociation in bipolar ion exchange membranes
    • DOI 10.1016/S0376-7388(00)81360-5
    • Bassignana IC, Reiss H (1983) Ion transport and water dissociation in bipolar ion exchange membranes. J Membr Sci 15:27-41 (Pubitemid 13013303)
    • (1983) Journal of Membrane Science , vol.15 , Issue.1 , pp. 27-41
    • Bassignana, I.C.1    Reiss, H.2
  • 4
    • 53649108801 scopus 로고    scopus 로고
    • The potential and challenges of nanopore sequencing
    • Branton D et al (2008) The potential and challenges of nanopore sequencing. Nat Biotechnol 26:1146-1153
    • (2008) Nat Biotechnol , vol.26 , pp. 1146-1153
    • Branton, D.1
  • 5
    • 33646153053 scopus 로고    scopus 로고
    • Determination of RNA orientation during translocation through a biological nanopore
    • Butler TZ, Gundlach JH, Troll MA (2006) Determination of RNA orientation during translocation through a biological nanopore. Biophys J 90:190-199
    • (2006) Biophys J , vol.90 , pp. 190-199
    • Butler, T.Z.1    Gundlach, J.H.2    Troll, M.A.3
  • 6
    • 21744445488 scopus 로고    scopus 로고
    • A poisson/nernst-planck model for ionic transport through synthetic conical nanopores
    • DOI 10.1209/epl/i2005-10054-x
    • Cervera J, Schiedt B, Ramirez P (2005) A Poisson/Nernst-Planck model for ionic transport through synthetic conical nanopores. Europhys Lett 71:35-41 (Pubitemid 40945349)
    • (2005) Europhysics Letters , vol.71 , Issue.1 , pp. 35-41
    • Cervera, J.1    Schiedt, B.2    Ramirez, P.3
  • 7
    • 34547925988 scopus 로고    scopus 로고
    • Ionic conduction, rectification, and selectivity in single conical nanopores
    • Cervera J, Schiedt B, Neumann R, Mafe S, Ramirez P (2006) Ionic conduction, rectification, and selectivity in single conical nanopores. J Chem Phys 124:104706
    • (2006) J Chem Phys , vol.124 , pp. 104706
    • Cervera, J.1    Schiedt, B.2    Neumann, R.3    Mafe, S.4    Ramirez, P.5
  • 8
    • 34548572513 scopus 로고    scopus 로고
    • Asymmetric selectivity of synthetic conical nanopores probed by reversal potential measurements
    • DOI 10.1021/jp071884c
    • Cervera J, Alcaraz A, Schiedt B, Neumann R, Ramirez P (2007) Asymmetric selectivity of synthetic conical nanopores probed by reversal potential measurements. J Phys Chem C 111:12265-12273 (Pubitemid 47387780)
    • (2007) Journal of Physical Chemistry C , vol.111 , Issue.33 , pp. 12265-12273
    • Cervera, J.1    Alcaraz, A.2    Schiedt, B.3    Neumann, R.4    Ramirez, P.5
  • 9
    • 9644273841 scopus 로고    scopus 로고
    • Probing single DNA molecule transport using fabricated nanopores
    • Chen P, Gu JJ, Brandin E, Kim YR, Wang D, Branton D (2004) Probing single DNA molecule transport using fabricated nanopores. Nano Lett 4:2293-2298
    • (2004) Nano Lett , vol.4 , pp. 2293-2298
    • Chen, P.1    Gu, J.J.2    Brandin, E.3    Kim, Y.R.4    Wang, D.5    Branton, D.6
  • 10
    • 64649086349 scopus 로고    scopus 로고
    • Ionic current rectification, breakdown, and switching in heterogeneous oxide nanofluidic devices
    • Cheng L-J, Guo LJ (2009) Ionic current rectification, breakdown, and switching in heterogeneous oxide nanofluidic devices. ACS Nano 3:575-584
    • (2009) ACS Nano , vol.3 , pp. 575-584
    • Cheng, L.-J.1    Guo, L.J.2
  • 11
    • 70349281564 scopus 로고    scopus 로고
    • Molecular control of ionic conduction in polymer nanopores
    • Cruz-Chu E, Ritz T, Siwy ZS, Schulten K (2009) Molecular control of ionic conduction in polymer nanopores. Faraday Discuss 143:47-62
    • (2009) Faraday Discuss , vol.143 , pp. 47-62
    • Cruz-Chu, E.1    Ritz, T.2    Siwy, Z.S.3    Schulten, K.4
  • 12
    • 28144464064 scopus 로고    scopus 로고
    • Nanofluidic diode and bipolar transistor
    • DOI 10.1021/nl051646y
    • Daiguji H, Oka Y, Shirono K (2005) Nanofluidic diode and bipolar transistor. Nano Lett 5:2274-2280 (Pubitemid 41698952)
    • (2005) Nano Letters , vol.5 , Issue.11 , pp. 2274-2280
    • Daiguji, H.1    Oka, Y.2    Shirono, K.3
  • 13
    • 0036797062 scopus 로고    scopus 로고
    • Characterization of nucleic acids by nanopore analysis
    • Deamer DW, Branton D (2002) Characterization of nucleic acids by nanopore analysis. Acc Chem Res 35:817-825
    • (2002) Acc Chem Res , vol.35 , pp. 817-825
    • Deamer, D.W.1    Branton, D.2
  • 14
    • 34248351114 scopus 로고    scopus 로고
    • Solid-state nanopores
    • Dekker C (2007) Solid-state nanopores. Nat Nanotechnol 2:209-215
    • (2007) Nat Nanotechnol , vol.2 , pp. 209-215
    • Dekker, C.1
  • 16
    • 34548485416 scopus 로고    scopus 로고
    • DNA conformation and base number simultaneously determined in a nanopore
    • DOI 10.1002/elps.200700047
    • Fologea D, Brandin E, Uplinger J, Branton D (2007) DNA conformation and base number simultaneously determined in a nanopore. Electrophoresis 28:3186-3192 (Pubitemid 47506447)
    • (2007) Electrophoresis , vol.28 , Issue.18 , pp. 3186-3192
    • Fologea, D.1    Brandin, E.2    Uplinger, J.3    Branton, D.4    Li, J.5
  • 18
    • 47749097505 scopus 로고    scopus 로고
    • Synthetic nanopores as a test case for ion channel theories: The anomalous mole fraction effect
    • Gillespie D, Boda D, He Y, Apel P, Siwy ZS (2008) Synthetic nanopores as a test case for ion channel theories: the anomalous mole fraction effect. Biophys J 95:609-619
    • (2008) Biophys J , vol.95 , pp. 609-619
    • Gillespie, D.1    Boda, D.2    He, Y.3    Apel, P.4    Siwy, Z.S.5
  • 19
    • 64349105027 scopus 로고    scopus 로고
    • Artificial Brownian motors: Controlling transport on the nanoscale
    • Hanggi P, Marchesoni F (2009) Artificial Brownian motors: controlling transport on the nanoscale. Rev Mod Phys 81:387-442
    • (2009) Rev Mod Phys , vol.81 , pp. 387-442
    • Hanggi, P.1    Marchesoni, F.2
  • 22
    • 34548505259 scopus 로고    scopus 로고
    • Nanopore-based single-molecule DNA analysis
    • Healy K (2007) Nanopore-based single-molecule DNA analysis. Nanomedicine 2:459-481
    • (2007) Nanomedicine , vol.2 , pp. 459-481
    • Healy, K.1
  • 23
    • 38049115720 scopus 로고    scopus 로고
    • Solid-state nanopore technologies for nanopore-based DNA analysis
    • Healy K, Schiedt S, Morrison AP (2007) Solid-state nanopore technologies for nanopore-based DNA analysis. Nanomedicine 2:875-879
    • (2007) Nanomedicine , vol.2 , pp. 875-879
    • Healy, K.1    Schiedt, S.2    Morrison, A.P.3
  • 27
    • 0036931449 scopus 로고    scopus 로고
    • Probing distance and electrical potential within a protein pore with tethered DNA
    • Howorka S, Bayley H (2002) Probing distance and electrical potential within a protein pore with tethered DNA. Biophys J 83:3202-3210 (Pubitemid 36041939)
    • (2002) Biophysical Journal , vol.83 , Issue.6 , pp. 3202-3210
    • Howorka, S.1    Bayley, H.2
  • 28
    • 69249086081 scopus 로고    scopus 로고
    • Nanopore analytics: Sensing of single molecules
    • Howorka S, Siwy ZS (2009) Nanopore analytics: sensing of single molecules. Chem Soc Rev 38:2360-2384
    • (2009) Chem Soc Rev , vol.38 , pp. 2360-2384
    • Howorka, S.1    Siwy, Z.S.2
  • 30
    • 0034930381 scopus 로고    scopus 로고
    • Sequence-specific detection of individual DNA strands using engineered nanopores
    • DOI 10.1038/90236
    • Howorka S, Cheley S, Bayley H (2001b) Sequence-specific detection of individual DNA-strands using engineered nanopores. Nat Biotechnol 19:636-639 (Pubitemid 32625433)
    • (2001) Nature Biotechnology , vol.19 , Issue.7 , pp. 636-639
    • Howorka, S.1    Cheley, S.2    Bayley, H.3
  • 31
    • 34248399955 scopus 로고    scopus 로고
    • Solid-state nanopore channels with DNA selectivity
    • DOI 10.1038/nnano.2007.78, PII NNANO200778
    • Iqbal SM, Akin A, Bashir R (2007) Solid-state nanopore channels with DNA selectivity. Nat Nanotechnol 2:243-248 (Pubitemid 46739815)
    • (2007) Nature Nanotechnology , vol.2 , Issue.4 , pp. 243-248
    • Iqbal, S.M.1    Akin, D.2    Bashir, R.3
  • 32
    • 77953310103 scopus 로고    scopus 로고
    • Conformations of end-tethered DNA molecules on gold surfaces: Influences of applied electric potential, electrolyte screening, and temperature
    • Kaiser W, Rant U (2010) Conformations of end-tethered DNA molecules on gold surfaces: influences of applied electric potential, electrolyte screening, and temperature. J Am Chem Soc 132:7935-7945
    • (2010) J Am Chem Soc , vol.132 , pp. 7935-7945
    • Kaiser, W.1    Rant, U.2
  • 33
    • 34047096978 scopus 로고    scopus 로고
    • Rectification of ionic current in a nanofluidic diode
    • DOI 10.1021/nl062806o
    • Karnik R, Duan C, Castelino K, Daiguji H, Majumdar A (2007) Rectification of ionic current in a nanofluidic diode. Nano Lett 7:547-551 (Pubitemid 46516024)
    • (2007) Nano Letters , vol.7 , Issue.3 , pp. 547-551
    • Karnik, R.1    Duan, C.2    Castelino, K.3    Daiguji, H.4    Majumdar, A.5
  • 35
    • 0024621876 scopus 로고
    • Hindered diffusion of porphyrins and short-chain polystyrene in small pores
    • Kathawalla IA, Anderson JL, Lindsey JS (1989) Hindered diffusion of porphyrins and short-chain polystyrene in small pores. Macromolecules 22:1215-1219
    • (1989) Macromolecules , vol.22 , pp. 1215-1219
    • Kathawalla, I.A.1    Anderson, J.L.2    Lindsey, J.S.3
  • 37
    • 0141955818 scopus 로고    scopus 로고
    • DNA molecules and configurations in a solid-state nanopore microscope
    • Li JL, Gershow M, Stein D, Brandin E, Golovchenko JA (2003) DNA molecules and configurations in a solid-state nanopore microscope. Nat Mater 2:611-615
    • (2003) Nat Mater , vol.2 , pp. 611-615
    • Li, J.L.1    Gershow, M.2    Stein, D.3    Brandin, E.4    Golovchenko, J.A.5
  • 38
    • 0031186743 scopus 로고    scopus 로고
    • Electrochemical characterization of polymer ion-exchange bipolar membranes
    • Mafe S, Ramirez P (1997) Electrochemical characterization of polymer ion-exchange bipolar membranes. Acta Polym 48:234-250 (Pubitemid 127755151)
    • (1997) Acta Polymerica , vol.48 , Issue.7 , pp. 234-250
    • Mafe, S.1    Ramfaz, P.2
  • 39
    • 58149402384 scopus 로고    scopus 로고
    • Enhanced translocation of single DNA molecules through alpha-hemolysin nanopores by manipulation of internal charge
    • Maglia G, Restrepo MR, Mikhailova E, Bayley H (2008) Enhanced translocation of single DNA molecules through alpha-hemolysin nanopores by manipulation of internal charge. Proc Natl Acad Sci USA 105:19720-19725
    • (2008) Proc Natl Acad Sci USA , vol.105 , pp. 19720-19725
    • Maglia, G.1    Restrepo, M.R.2    Mikhailova, E.3    Bayley, H.4
  • 42
    • 0036674122 scopus 로고    scopus 로고
    • Single molecule measurements of DNA transport through a nanopore
    • DOI 10.1002/1522-2683(200208)23:16<2583::AID-ELPS2
    • Meller A, Branton D (2002) Single molecule measurements of DNA transport through a nanopore. Electrophoresis 23:2583-2591 (Pubitemid 35023698)
    • (2002) Electrophoresis , vol.23 , Issue.16 , pp. 2583-2591
    • Meller, A.1    Branton, D.2
  • 43
    • 0035831563 scopus 로고    scopus 로고
    • Voltage-driven DNA translocations through a nanopore
    • DOI 10.1103/PhysRevLett.86.3435
    • Meller A, Nivon L, Branton D (2001) Voltage-driven DNA translocation through a nanopore. Phys Rev Lett 86:3435-3438 (Pubitemid 32380654)
    • (2001) Physical Review Letters , vol.86 , Issue.15 , pp. 3435-3438
    • Meller, A.1    Nivon, L.2    Branton, D.3
  • 45
    • 3042736845 scopus 로고    scopus 로고
    • A nanosensor for transmembrane capture and identification of single nucleic acid molecules
    • DOI 10.1529/biophysj.104.040212
    • Nakane J, Wiggin M, Marziali A (2004) A nanosensor for transmembrane capture and identification of single nucleic acid molecules. Biophys J 87:615-621 (Pubitemid 38880113)
    • (2004) Biophysical Journal , vol.87 , Issue.1 , pp. 615-621
    • Nakane, J.1    Wiggin, M.2    Marziali, A.3
  • 46
    • 77953518239 scopus 로고    scopus 로고
    • Comparison of bipolar and unipolar ionic diodes
    • Nguyen G, Vlassiouk I, Siwy ZS (2010) Comparison of bipolar and unipolar ionic diodes. Nanotechnology 21:265301
    • (2010) Nanotechnology , vol.21 , pp. 265301
    • Nguyen, G.1    Vlassiouk, I.2    Siwy, Z.S.3
  • 47
    • 0017468271 scopus 로고
    • Polyelectrolytes near the rod limit
    • Odijk T (1977) Polyelectrolytes near the rod limit. J Polym Sci B Polym Phys 15:477-483
    • (1977) J Polym Sci B Polym Phys , vol.15 , pp. 477-483
    • Odijk, T.1
  • 49
    • 33645379679 scopus 로고    scopus 로고
    • Methods to electrophoretically stretch DNA: Microcontractions, gels, and hybrid gelmicrocontraction devices
    • Randall GC, Schultz KM, Doyle PS (2006) Methods to electrophoretically stretch DNA: microcontractions, gels, and hybrid gelmicrocontraction devices. Lab Chip 6:516-525
    • (2006) Lab Chip , vol.6 , pp. 516-525
    • Randall, G.C.1    Schultz, K.M.2    Doyle, P.S.3
  • 51
    • 38749105770 scopus 로고    scopus 로고
    • Detection of DNA sequences using an alternating electric field in a nanopore capacitor
    • DOI 10.1021/nl071890k
    • Sigalov G, Comer J, Timp G, Aksimentiev A (2008) Detection of DNA sequences using an alternating electric field in a nanopore capacitor. Nano Lett 8:56-63 (Pubitemid 351177775)
    • (2008) Nano Letters , vol.8 , Issue.1 , pp. 56-63
    • Sigalov, G.1    Comer, J.2    Timp, G.3    Aksimentiev, A.4
  • 52
    • 0037021311 scopus 로고    scopus 로고
    • Fabrication of a synthetic nanopore ion-pump
    • Siwy Z, Fulinski A (2002) Fabrication of a synthetic nanopore ion-pump. Phys Rev Lett 89:198103
    • (2002) Phys Rev Lett , vol.89 , pp. 198103
    • Siwy, Z.1    Fulinski, A.2
  • 53
    • 4243189532 scopus 로고
    • Electrostatic persistence length of a wormlike polyelectrolyte
    • Skolnick J, Fixman M (1977) Electrostatic persistence length of a wormlike polyelectrolyte. Macromolecules 10:944-948
    • (1977) Macromolecules , vol.10 , pp. 944-948
    • Skolnick, J.1    Fixman, M.2
  • 54
    • 31544471731 scopus 로고    scopus 로고
    • Salt dependence of ion transport and DMA translocation through solid-state nanopores
    • DOI 10.1021/nl052107w
    • Smeets RM, Keyser UF, Krapf D, Wu MY, Dekker NH, Dekker C (2006) Salt dependence of ion transport and DNA translocation through solid-state nanopores. Nano Lett 6:89-95 (Pubitemid 43166107)
    • (2006) Nano Letters , vol.6 , Issue.1 , pp. 89-95
    • Smeets, R.M.M.1    Keyser, U.F.2    Krapf, D.3    Wu, M.-Y.4    Dekker, N.H.5    Dekker, C.6
  • 55
    • 0003909433 scopus 로고
    • Methods and device to generate a predetermined number of ion tracks
    • German Patent DE2951376 C2, 15 Sept 1983; US Patent 4369370
    • Spohr R (1983) Methods and device to generate a predetermined number of ion tracks. German Patent DE2951376 C2, 15 Sept 1983; US Patent 4369370
    • (1983)
    • Spohr, R.1
  • 57
    • 26944479214 scopus 로고    scopus 로고
    • Translocation of double-strand DNA through a silicon oxide nanopore
    • Storm AJ, Chen JH, Zandbergen HW, Dekker C (2005) Translocation of double-strand DNA through a silicon oxide nanopore. Phys Rev E 71:051903
    • (2005) Phys Rev E , vol.71 , pp. 051903
    • Storm, A.J.1    Chen, J.H.2    Zandbergen, H.W.3    Dekker, C.4
  • 58
    • 0031238076 scopus 로고    scopus 로고
    • Persistence length of single-stranded DNA
    • Tinland B, Pluen A, Sturm J, Weill G (1997) Persistence length of single-stranded DNA. Macromolecules 30:5763-5765 (Pubitemid 127592220)
    • (1997) Macromolecules , vol.30 , Issue.19 , pp. 5763-5765
    • Tinland, B.1    Pluen, A.2    Sturm, J.3    Weill, G.4
  • 59
    • 0036897960 scopus 로고    scopus 로고
    • Biosensors for DNA sequence detection
    • DOI 10.1016/S1367-5931(02)00395-2
    • Vercoutere W, Akeson M (2002) Biosensors for DNA sequence detection. Curr Opin Chem Biol 6:816-822 (Pubitemid 35449342)
    • (2002) Current Opinion in Chemical Biology , vol.6 , Issue.6 , pp. 816-822
    • Vercoutere, W.1    Akeson, M.2
  • 60
    • 34047190449 scopus 로고    scopus 로고
    • Nanofluidic diode
    • DOI 10.1021/nl062924b
    • Vlassiouk I, Siwy Z (2007) Nanofluidic diode. Nano Lett 7:552-556 (Pubitemid 46516025)
    • (2007) Nano Letters , vol.7 , Issue.3 , pp. 552-556
    • Vlassiouk, I.1    Siwy, Z.S.2
  • 61
    • 51849139089 scopus 로고    scopus 로고
    • Nanofluidic ionic diodes. Comparison of analytical and numerical solutions
    • Vlassiouk I, Smirnov S, Siwy ZS (2008a) Nanofluidic ionic diodes. Comparison of analytical and numerical solutions. ACS Nano 2:1589-1602
    • (2008) ACS Nano , vol.2 , pp. 1589-1602
    • Vlassiouk, I.1    Smirnov, S.2    Siwy, Z.S.3
  • 62
    • 51849163087 scopus 로고    scopus 로고
    • Ionic selectivity of single nanochannels
    • Vlassiouk I, Smirnov S, Siwy ZS (2008b) Ionic selectivity of single nanochannels. Nano Lett 8:1978-1985
    • (2008) Nano Lett , vol.8 , pp. 1978-1985
    • Vlassiouk, I.1    Smirnov, S.2    Siwy, Z.S.3
  • 64
    • 40949098580 scopus 로고    scopus 로고
    • Orientation-dependent interactions of DNA with an alpha-hemolysin channel
    • Wanunu M, Chakrabarti B, Mathe J, Nelson DR, Meller A (2008) Orientation-dependent interactions of DNA with an alpha-hemolysin channel. Phys Rev E 77:031904
    • (2008) Phys Rev E , vol.77 , pp. 031904
    • Wanunu, M.1    Chakrabarti, B.2    Mathe, J.3    Nelson, D.R.4    Meller, A.5
  • 65
    • 84928468172 scopus 로고    scopus 로고
    • Single-molecule studies on nucleic acid interactions using nanopores
    • Hinterdorfer P, Van Oijen AM (eds) Springer, New York
    • Wanunu M, Soni GV, Meller A (2010) Single-molecule studies on nucleic acid interactions using nanopores. In: Hinterdorfer P, Van Oijen AM (eds) Handbook of single-molecule biophysics. Springer, New York, pp 265-291
    • (2010) Handbook of Single-molecule Biophysics , pp. 265-291
    • Wanunu, M.1    Soni, G.V.2    Meller, A.3
  • 66
    • 34547828799 scopus 로고    scopus 로고
    • A method for reproducibly preparing synthetic nanopores for resistive-pulse biosensors
    • DOI 10.1002/smll.200700106
    • Wharton JE, Jin P, Sexton LT, Horne LP, Sherrill SA, Mino WK, Martin CR (2007) A method for reproducibly preparing synthetic nanopores for resistive-pulse biosensors. Small 3:1424-1430 (Pubitemid 47245539)
    • (2007) Small , vol.3 , Issue.8 , pp. 1424-1430
    • Wharton, J.E.1    Jin, P.2    Sexton, L.T.3    Horne, L.P.4    Sherrill, S.A.5    Mino, W.K.6    Martin, C.R.7
  • 67
    • 41849137575 scopus 로고    scopus 로고
    • Ion current rectification at nanopores in glass membranes
    • DOI 10.1021/la702955k
    • White HS, Bund A (2008) Ion current rectification at nanopores in glass membranes. Langmuir 24:2212-2218 (Pubitemid 351500985)
    • (2008) Langmuir , vol.24 , Issue.5 , pp. 2212-2218
    • White, H.S.1    Bund, A.2
  • 68


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