Erratum: Effect of the DNA End of Tethering to Electrodes on Electron Transfer in Methylene Blue-Labeled DNA Duplexes (Langmuir (2012) 28:46 (16218-16226) DOI: 10.1021/la3032336);Effect of the DNA end of tethering to electrodes on electron transfer in methylene blue-labeled DNA duplexes

Langmuir

Volumn 28, Issue 46, 2012, Pages 16218-16226

  Farjami, Elaheh ^a   Campos, Rui ^a   Ferapontova, Elena E ^a  

^a AARHUS UNIVERSITY   (Denmark)

Author keywords

[No Author keywords available]

Indexed keywords

AROMATIC COMPOUNDS; DIFFUSION; ELECTRODES; ELECTRON TRANSITIONS; ORGANIC POLYMERS; RATE CONSTANTS;

DIFFUSION DISTANCE; DOUBLE STRANDED (DS) DNA; ELECTROCHEMICAL GENOSENSORS; ELECTRODE SURFACES; ELECTRON TRANSFER; NEGATIVELY CHARGED; POSITIVELY CHARGED; UPRIGHT ORIENTATIONS;

DNA;

EID: 84869426754     PISSN: 07437463     EISSN: 15205827     Source Type: Journal    
DOI: 10.1021/acs.langmuir.5b03487     Document Type: Erratum

References (51)

1. DNA-Based Molecular Electronics; International Symposium on DNA-Based Molecular Electronics; AIP Conference Proceedings; Fritzsche, W., Ed.; AIP-Press: Jena, Germany, 2004.
2. Boussicault, F.; Robert, M. Electron transfer in DNA and DNA-related biological processes. Electrochemical insights Chem. Rev. 2008, 108, 2622-2645
3. Palecek, E.; Bartosik, M. Electrochemistry of nucleic acids Chem. Rev. 2012, 112, 3427-3481
4. Shiddicky, M. J. A.; Torriero, A. A. J.; Zeng, Z.; Spiccia, L.; Bond, A. M. Highly selective and sensitive DNA assay based on electrocatalytic oxidation if ferrocene bearing zinc(II)-cyclen complexes with diethylamine J. Am. Chem. Soc. 2010, 132, 10053-10063
5. Kelley, S. O.; Boon, E. M.; Barton, J. K.; Jackson, N. M.; Hill, M. G. Single-base mismatch detection based on charge transduction through DNA Nucleic Acids Res. 1999, 27, 4830-4837
6. Hartwich, G.; Caruana, D. J.; de Lumley-Woodyear, T.; Wu, Y.; Campbell, C. N.; Heller, A. Electrochemical study of electron transfer through thin DNA films J. Am. Chem. Soc. 1999, 121, 10803-10812
7. Wong, E. L. S.; Gooding, J. J. Charge transfer through DNA: a selective electrochemical DNA biosensor Anal. Chem. 2006, 78, 2138-2144
8. Okamoto, A.; Kamei, T.; Tanaka, K.; Saito, I. Photostimulated hole transport through a DNA duplex immobilized on a gold electrode J. Am. Chem. Soc. 2004, 126, 14732-14733
9. Li, X.; Song, H.; Nakatani, K.; Kraatz, H.-B. Exploiting small molecule binding to DNA for the detection of single-nucleotide mismatches and their base environment Anal. Chem. 2007, 79, 2552-2555
10. Wong, E. L. S.; Gooding, J. J. The electrochemical monitoring of the pertubation of charge transfer through DNA by cisplatin J. Am. Chem. Soc. 2007, 129, 8950-8951
11. Satterwhite, J. E.; Pugh, A. M.; Danell, A. S.; Hvastkovs, E. G. Electrochemical dtetection of anti-benzo[a]pyrene diol epoxide DNA damage on TP53 codon 273 oligomers Anal. Chem. 2011, 83, 3327-3335
12. Ferapontova, E. E. Electrochemical indicators for DNA electroanalysis Curr. Anal. Chem. 2011, 7, 51-62
13. Boon, E. M.; Jackson, N. M.; Wightman, M. D.; Kelley, S. O.; Hill, M. G.; Barton, J. K. Intercalative stacking: a critical feature of DNA charge-transport electrochemistry J. Phys. Chem. B 2003, 107, 11805-11812
14. Slinker, J. D.; Muren, N. B.; Renfrew, S. E.; Barton, J. K. DNA charge transport over 34 nm Nat. Chem. 2011, 3, 228-233
15. Kelley, S. O.; Barton, J. K.; Jackson, N. M.; McPherson, L. D.; Potter, A. B.; Spain, E. M.; Allen, M. J.; Hill, M. G. Orienting DNA helices on gold using applied electric fields Langmuir 1998, 14, 6781-6784
16. Abi, A.; Ferapontova, E. E. Unmediated by DNA electron transfer in redox-labeled DNA duplexes end-tethered to gold electrodes J. Am. Chem. Soc. 2012, 134, 14499-14507
17. Anne, A.; Bouchardon, A.; Moiroux, J. 3′-Ferrocene-labeled oligonucleotide chains end-tethered to gold electrode surfaces: novel model systems for exploring flexibility of short DNA using cyclic voltammetry J. Am. Chem. Soc. 2003, 125, 1112-1113
18. Anne, A.; Demaille, C. Dynamics of electron transport by elastic bending of short DNA duplexes. Experimental study and quantitative modelling of the cyclic voltammetric behaviour of 3′-ferrocenyl DNA end-grafted om gold J. Am. Chem. Soc. 2006, 128, 542-557
19. Ikeda, R.; Kobayashi, S.; Chiba, J.; Inouye, M. Detection of mismatched duplexes by synchronizing the pulse potential frequency with the dynamics of ferrocene/isoquinoline conjugate-connected DNA probes immobilized onto electrodes Chem. Eur. J. 2009, 15, 4822-4828
20. Farjami, E.; Clima, L.; Gothelf, K. V.; Ferapontova, E. E. An "off-on" electrochemical hairpin DNA-based genosensor for cancer diagnostics Anal. Chem. 2011, 83, 1594-1602
21. Rant, U.; Arinaga, K.; Fujita, S.; Yokoyama, N.; Abstreiter, G.; Tornow, M. Structural properties of oligonucleotide monolayers on gold surfaces probed by fluorescence investigations Langmuir 2004, 20, 10086-10092
22. Ricci, F.; Lai, R. Y.; Heeger, A. J.; Plaxco, K. W.; Sumner, J. J. Effect of molecular crowding on the response of an electrochemical DNA sensor Langmuir 2007, 23, 6827-6834
23. Kaiser, W.; Rant, U. Conformations of end-tethered DNA molecules on gold surfaces: influences of applied electric potential, electrolyte screening, and temperature J. Am. Chem. Soc. 2010, 132, 7935-7945
24. Inouye, M.; Ikeda, R.; Takase, M.; Tsuri, T.; Chiba, J. Single-nucleotide polymorphism detection with "wire-like" DNA probes that dispaly quasi "on-off" digital action Proc. Natl. Acad. Sci. U.S.A. 2005, 102, 11606-11610
25. Long, Y.-T.; Li, C.-Z.; Sutherland, T. C.; Chahma, M.; Lee, J. S.; Kraatz, H.-B. A comparison of electron-transfer rates of ferrocenoyl-linked DNA J. Am. Chem. Soc. 2003, 125, 8724-8725
26. 6 linkers J. Am. Chem. Soc. 2008, 130, 9812-9823
27. Pänke, O.; Kirbs, A.; Lisdat, F. Voltammetric detection of single base-pair mismatches and quantification of able-free target ssDNA using a competative binding assay Biosens. Bioelectron. 2007, 11, 2656-2662
28. Lai, R. Y.; Lagally, E. T.; Lee, S.-H.; Soh, H. T.; Plaxco, K. W.; Heeger, A. J. Rapid, sequence-specific detection of unpurified PCR amplicons via a reusable, electrochemical sensor Proc. Natl. Acad. Sci. U.S.A. 2006, 103, 4017-4021
29. Lubin, A. A.; Hunt, B. V. S.; White, R. J.; Plaxco, K. W. Effects of probe length, probe geometry, and redox -tag displacement on the performance of the electrochemical E-DNA sensor Anal. Chem. 2009, 81, 2150-2158
30. Mie, Y.; Kojima, N.; Kowata, K.; Komatsu, Y. End-tether structure of DNA alters electron-transfer pathway of redox-labeled oligo-DNA duplex at electrode surface Chem. Lett. 2012, 41, 62-64
31. Boon, E. M.; Sam, M.; Barton, J. K.; Hill, M. G.; Spain, E. M. Morphology of 15-mer duplexes tethered to Au(111) probed using scanning probe microscopy Langmuir 2001, 17, 5727-5730
32. Invitrogen, http://probes.invitrogen.com/media/pis/mp00143.pdf.
33. Markham, N. R.; Zuker, M. DINAMelt web server for nucleic acid melting prediction Nucleic Acids Res. 2005, 33, W577-W581
34. Ferapontova, E. E.; Gothelf, K. V. Optimization of the electrochemical RNA-aptamer based biosensor for theophylline by using a methylene blue redox label Electroanalysis 2009, 21, 1261-1266
35. Hoare, J. P. A cyclic study of the gold-oxygen system J. Electrochem. Soc. 1984, 131, 1808-1815
36. Rand, D. A. J.; Woods, R. The nature of adsorbed oxygen on rhodium, palladium and gold electrodes J. Electroan. Chem. 1971, 31, 29-38
37. Fan, C.; Plaxco, K. W.; Heeger, A. J. Electrochemical interrogation of conformational changes as a reagentless method for the sequence-specific detection of DNA Proc. Natl. Acad. Sci. U.S.A. 2003, 100, 9134-9137
38. Immoos, C. E.; Lee, J. S.; Grinstaff, M. W. Conformationally gated electrochemical gene detection ChemBioChem 2004, 5, 1100-1103
39. Bard, A. J.; Faulkner, L. R. Electrochemical Methods: Fundamental and Applications, 2 nd ed.; Wiley: New York, 2001.
40. Svetlicic, V.; Clavilier, J.; Zutic, V.; Chevalet, J. Electrochemical evidence of two-dimensional surface compounds of heterocyclic molecules at sulphur-covered gold and platinum J. Electroanal. Chem. 1991, 312, 205-218
41. Farjami, E.; Clima, L.; Gothelf, K. V.; Ferapontova, E. E. DNA interactions with a methylene blue redox indicator depend on the DNA length and are sequence specific Analyst 2010, 135, 1443-1448
42. Laviron, E. General expression of the linear potential sweep voltammogram in the case of diffusionless electrochemical systems J. Electroanal. Chem. 1979, 101, 19-28
43. Immoos, C. E.; Lee, S. J.; Grinstaff, M. W. DNA-PEG-DNA triblock macromolecules for reagentless DNA detection J. Am. Chem. Soc. 2004, 126, 10814-10815
44. Zuo, X.; Song, S.; Zhang, J.; Pan, D.; Wang, L.; Fan, C. A target-responsive electrochemical aptamer switch (TREAS) for reagentless detection of nanomolar ATP J. Am. Chem. Soc. 2007, 129, 1042-1043
45. Peterlinz, K. A.; Georgiadis, R. M. Observation of hybridization and dehybridization of thiol-tethered DNA using two-color surface plasmon resonance spectroscopy J. Am. Chem. Soc. 1997, 119, 3401-3402
46. Mandelkern, M.; Elias, J. G.; Eden, D.; Crothers, D. M. The dimensions of DNA in solution J. Mol. Biol. 1981, 152, 153-161
47. Smith, S. B.; Cui, Y.; Bustamante, C. Overstretching B-DNA: the elastic response of individual double-stranded and single-stranded DNA molecules Science 1996, 271, 795-799
48. Fan, R.; Karnik, R.; Yue, M.; Li, D.; Majumdar, A.; Yang, P. DNA translocation in inorganic nanotubes Nano Lett. 2005, 5, 1633-1637
49. Daum, P.; Lenhard, J. R.; Rolison, D.; Murray, R. W. Diffusional charge transport through ultrathin films of radiofrequency plazma polymerized vinylferrocene at low temperature J. Am. Chem. Soc. 1980, 102, 4649-4653
50. Nicholson, R. S. Theory and application of cyclic voltammetry for measurement of electrode reaction kinetics Anal. Chem. 1965, 37, 1351-1355
51. Ferapontova, E.; Gothelf, K. V. Effect of serum on an RNA aptamer-based electrochemical sensor for theophylline Langmuir 2009, 25, 4279-4283