1
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Ferrocene conjugated oligonucleotide for electrochemical detection of DNA base mismatch. Bioorg Med Chem Lett 2017; 27:3555-3557. [PMID: 28583799 DOI: 10.1016/j.bmcl.2017.05.049] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2017] [Revised: 05/01/2017] [Accepted: 05/16/2017] [Indexed: 01/25/2023]
Abstract
We describe the synthesis, binding, and electrochemical properties of ferrocene-conjugated oligonucleotides (Fc-oligos). The key step for the preparation of Fc-oligos contains the coupling of vinylferrocene to 5-iododeoxyuridine via Heck reaction. The Fc-conjugated deoxyuridine phosphoramidite was used in the Fc-oligonucleotide synthesis. We show that thiol-modified Fc-oligos deposited onto gold electrodes possess potential ability in electrochemical detection of DNA base mismatch.
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2
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Rahman MM, Alam MM, Asiri AM, Awual MR. Fabrication of 4-aminophenol sensor based on hydrothermally prepared ZnO/Yb2O3nanosheets. NEW J CHEM 2017. [DOI: 10.1039/c7nj01623a] [Citation(s) in RCA: 118] [Impact Index Per Article: 16.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
A facile hydrothermal process was used to prepare nanostructures of ZnO/Yb2O3in alkaline medium, which were applied for efficient chemical sensor development. The sensor fabricated with ZnO/Yb2O3nanostructures may be a promising sensitive chemical sensor for the effective detection of environmental effluents.
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Affiliation(s)
- Mohammed M. Rahman
- Chemistry Department
- King Abdulaziz University
- Faculty of Science
- Jeddah 21589
- Saudi Arabia
| | - M. M. Alam
- Department of Chemical Engineering and Polymer Science
- Shahjalal University of Science and Technology
- Sylhet 3100
- Bangladesh
- RENESA
| | - Abdullah M. Asiri
- Chemistry Department
- King Abdulaziz University
- Faculty of Science
- Jeddah 21589
- Saudi Arabia
| | - Md Rabiul Awual
- Department of Chemical Engineering and Polymer Science
- Shahjalal University of Science and Technology
- Sylhet 3100
- Bangladesh
- RENESA
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3
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Lin SH, Fujitsuka M, Majima T. Sequence-Dependent Photocurrent Generation through Long-Distance Excess-Electron Transfer in DNA. Angew Chem Int Ed Engl 2016; 55:8715-7. [PMID: 27243800 DOI: 10.1002/anie.201602850] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2016] [Indexed: 12/15/2022]
Abstract
Given its well-ordered continuous π stacking of nucleobases, DNA has been considered as a biomaterial for charge transfer in biosensors. For cathodic photocurrent generation resulting from hole transfer in DNA, sensitivity to DNA structure and base-pair stacking has been confirmed. However, such information has not been provided for anodic photocurrent generation resulting from excess-electron transfer in DNA. In the present study, we measured the anodic photocurrent of a DNA-modified Au electrode. Our results demonstrate long-distance excess-electron transfer in DNA, which is dominated by a hopping mechanism, and the photocurrent generation is sequence dependent.
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Affiliation(s)
- Shih-Hsun Lin
- The Institute of Scientific and Industrial Research (SANKEN), Osaka University, Mihogaoka 8-1, Ibaraki, Osaka, 567-0047, Japan
| | - Mamoru Fujitsuka
- The Institute of Scientific and Industrial Research (SANKEN), Osaka University, Mihogaoka 8-1, Ibaraki, Osaka, 567-0047, Japan.
| | - Tetsuro Majima
- The Institute of Scientific and Industrial Research (SANKEN), Osaka University, Mihogaoka 8-1, Ibaraki, Osaka, 567-0047, Japan.
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4
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Sequence-Dependent Photocurrent Generation through Long-Distance Excess-Electron Transfer in DNA. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201602850] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
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5
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Enhanced chemiluminescence detection of glutathione based on isoluminol-PSM nanoparticles probe. Talanta 2016; 150:666-70. [DOI: 10.1016/j.talanta.2016.01.004] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2015] [Revised: 12/23/2015] [Accepted: 01/03/2016] [Indexed: 01/15/2023]
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6
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Takada T, Takemura M, Kawano Y, Nakamura M, Yamana K. Photoresponsive DNA monolayer prepared by primer extension reaction on the electrode. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2015; 31:3993-3998. [PMID: 25807074 DOI: 10.1021/la505013u] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
We describe a simple and convenient method for the preparation of photoresponsive DNA-modified electrodes using primer extension (PEX) reactions. A naphthalimide derivative was used as the photosensitizer that was attached to the C5-position of 2'-deoxyuridine-5'-triphosphate (dUTP(NI)). It has been found that dUTP(NI) is a good substrate for the PEX reactions using KOD Dash and Vent (exo-) enzymes in solutions to incorporate naphthalimide (NI) moieties into the DNA sequences. On the electrode surface immobilized with the primer/template DNA, the PEX reactions to incorporate dUTP(NI) molecules into the DNA sequence were found to efficiently proceed. With this solid-phase method, the DNA monolayers capable of generating photocurrent due to the photoresponsive NI molecule can be constructed. It was shown that the photocurrent generation was significantly suppressed by a single-nucleotide mismatch included in the primer/template DNA, which is applicable for the design of photoelectrochemical sensors to discriminate single-nucleotide sequences.
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Affiliation(s)
- Tadao Takada
- Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671-2280, Japan
| | - Mai Takemura
- Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671-2280, Japan
| | - Yuta Kawano
- Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671-2280, Japan
| | - Mitsunobu Nakamura
- Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671-2280, Japan
| | - Kazushige Yamana
- Department of Materials Science and Chemistry, Graduate School of Engineering, University of Hyogo, 2167 Shosha, Himeji, Hyogo 671-2280, Japan
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7
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Takada T, Ido M, Ashida A, Nakamura M, Fujitsuka M, Kawai K, Majima T, Yamana K. Photocurrent Generation through Charge-Transfer Processes in Noncovalent Perylenediimide/DNA Complexes. Chemistry 2015; 21:6846-51. [DOI: 10.1002/chem.201406592] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2014] [Indexed: 12/30/2022]
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8
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Abstract
This review provides a panoramic snapshot of the state of the art in the dynamically developing field of photoelectrochemical bioanalysis.
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Affiliation(s)
- Wei-Wei Zhao
- State Key Laboratory of Analytical Chemistry for Life Sciences
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093
- China
| | - Jing-Juan Xu
- State Key Laboratory of Analytical Chemistry for Life Sciences
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093
- China
| | - Hong-Yuan Chen
- State Key Laboratory of Analytical Chemistry for Life Sciences
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093
- China
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9
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LI J, HE H, PENG X, HUANG M, ZHANG X, WANG S. Electrochemical Investigation of Interaction between a Bifunctional Probe and GG Mismatch Duplex. ANAL SCI 2015; 31:663-7. [DOI: 10.2116/analsci.31.663] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Affiliation(s)
- Jiao LI
- Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules, College of Chemistry and Chemical Engineering, Hubei University
| | - Hanping HE
- Hubei Collaborative Innovation Center for Advanced Organic Chemical Materials, Hubei University
- Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules, College of Chemistry and Chemical Engineering, Hubei University
| | - Xiaoqian PENG
- Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules, College of Chemistry and Chemical Engineering, Hubei University
| | - Min HUANG
- Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules, College of Chemistry and Chemical Engineering, Hubei University
| | - Xiuhua ZHANG
- Hubei Collaborative Innovation Center for Advanced Organic Chemical Materials, Hubei University
- Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules, College of Chemistry and Chemical Engineering, Hubei University
| | - Shengfu WANG
- Hubei Collaborative Innovation Center for Advanced Organic Chemical Materials, Hubei University
- Ministry of Education Key Laboratory for the Synthesis and Application of Organic Functional Molecules, College of Chemistry and Chemical Engineering, Hubei University
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10
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Bag SS, Pradhan MK, Das SK, Jana S, Bag R. Wavelength shifting oligonucleotide probe for the detection of adenosine of a target DNA with enhanced fluorescence signal. Bioorg Med Chem Lett 2014; 24:4678-4681. [DOI: 10.1016/j.bmcl.2014.08.031] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2014] [Revised: 07/23/2014] [Accepted: 08/12/2014] [Indexed: 12/23/2022]
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11
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Affiliation(s)
- Wei-Wei Zhao
- State Key
Laboratory of Analytical
Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210093, China
| | - Jing-Juan Xu
- State Key
Laboratory of Analytical
Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210093, China
| | - Hong-Yuan Chen
- State Key
Laboratory of Analytical
Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210093, China
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12
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A highly sensitive photoelectrochemical sensor for 4-aminophenol based on CdS-graphene nanocomposites and molecularly imprinted polypyrrole. Electrochim Acta 2014. [DOI: 10.1016/j.electacta.2013.12.139] [Citation(s) in RCA: 84] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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13
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Vilian ATE, Rajkumar M, Chen SM, Hu CC, Piraman S. A promising photoelectrochemical sensor based on a ZnO particle decorated N-doped reduced graphene oxide modified electrode for simultaneous determination of catechol and hydroquinone. RSC Adv 2014. [DOI: 10.1039/c4ra09260k] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
This paper describes the two-step synthesis of a nitrogen-doped reduced graphene oxide–ZnO (N-doped RGO–ZnO) nanocomposite and its photo electrochemical application.
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Affiliation(s)
- A. T. Ezhil Vilian
- Department of Chemical Engineering and Biotechnology
- National Taipei University of Technology
- Taipei 106, Republic of China
| | - Muniyandi Rajkumar
- Laboratory of Electrochemistry & Advanced Materials
- Department of Chemical Engineering
- National Tsing Hua University
- Hsinchu 30013, Republic of China
| | - Shen-Ming Chen
- Department of Chemical Engineering and Biotechnology
- National Taipei University of Technology
- Taipei 106, Republic of China
| | - Chi-Chang Hu
- Laboratory of Electrochemistry & Advanced Materials
- Department of Chemical Engineering
- National Tsing Hua University
- Hsinchu 30013, Republic of China
| | - Shakkthivel Piraman
- Sustainable and Smart Materials Research Lab
- Department of Nano Science and Technology
- Alagappa University
- Karaikudi 630 002, India
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14
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Takada T, Kawano Y, Ashida A, Nakamura M, Kawai K, Majima T, Yamana K. Synthesis and charge transferability of DNA possessing a naphthalimide photosensitizer at an extrahelical position. Tetrahedron Lett 2013. [DOI: 10.1016/j.tetlet.2013.06.140] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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15
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Zhang X, Guo Y, Liu M, Zhang S. Photoelectrochemically active species and photoelectrochemical biosensors. RSC Adv 2013. [DOI: 10.1039/c2ra22238h] [Citation(s) in RCA: 127] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022] Open
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16
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Farjami E, Campos R, Ferapontova EE. Effect of the DNA end of tethering to electrodes on electron transfer in methylene blue-labeled DNA duplexes. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2012; 28:16218-16226. [PMID: 23106377 DOI: 10.1021/la3032336] [Citation(s) in RCA: 49] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Electron transfer (ET) in redox-labeled double-stranded (ds) DNA tethered to electrodes through the alkanethiol linker at either the 3' or 5' DNA end and bearing methylene blue (MB) conjugated to the opposite end of DNA is shown to depend on the DNA end of tethering to electrodes. For 3' tethering, a nanoscale diffusion of the positively charged MB redox probe (and thus of the individual DNA molecules) to the negatively charged electrode surface provided the highest apparent diffusion and ET rates as a result of the tilting of 3'-tethered DNA (as compared to 5'-tethered DNA) versus the normal to the surface. Dynamic values of the tilting angle varied between 57 and 45° for 16-mer and 22-mer 3'-tethered DNA, and 5'-tethering was correlated with an upright orientation of DNA at the electrode surface. The values of the diffusion coefficient D(MB) corrected for tilting angles were similar for 5'- and 3'-tethered DNA and ranged between 5.4 × 10(-12) and 2.5 × 10(-12) cm(2) s(-1), whereas the ET rate constant k(ET)(dif) fit the 4.7 × 10(-6)-10.3 × 10(-6) cm s(-1) range for 22-mer and 16-mer dsDNA, respectively. Those values, when related to the nanometer (10(-7) cm) diffusion distances (the length of the studied DNA), allow relatively fast diffusion-limited ET at an apparent rate that may exceed the rate of the corresponding surface-confined ET process. This phenomenon is of particular importance for molecular electronics and electrochemical genosensor development.
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Affiliation(s)
- Elaheh Farjami
- Interdisciplinary Nanoscience Center (iNANO), Aarhus University, Aarhus C, Denmark
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17
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Zhang X, Xu Y, Yang Y, Jin X, Ye S, Zhang S, Jiang L. A New Signal-On Photoelectrochemical Biosensor Based on a Graphene/Quantum-Dot Nanocomposite Amplified by the Dual-Quenched Effect of Bipyridinium Relay and AuNPs. Chemistry 2012; 18:16411-8. [DOI: 10.1002/chem.201202213] [Citation(s) in RCA: 63] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2012] [Revised: 09/18/2012] [Indexed: 11/06/2022]
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18
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Doi K, Nishioka Y, Kawano S. Theoretical study of electric current in DNA base molecules trapped between nanogap electrodes. COMPUT THEOR CHEM 2012. [DOI: 10.1016/j.comptc.2012.08.039] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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19
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Muren NB, Olmon ED, Barton JK. Solution, surface, and single molecule platforms for the study of DNA-mediated charge transport. Phys Chem Chem Phys 2012; 14:13754-71. [PMID: 22850865 PMCID: PMC3478128 DOI: 10.1039/c2cp41602f] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
The structural core of DNA, a continuous stack of aromatic heterocycles, the base pairs, which extends down the helical axis, gives rise to the fascinating electronic properties of this molecule that is so critical for life. Our laboratory and others have developed diverse experimental platforms to investigate the capacity of DNA to conduct charge, termed DNA-mediated charge transport (DNA CT). Here, we present an overview of DNA CT experiments in solution, on surfaces, and with single molecules that collectively provide a broad and consistent perspective on the essential characteristics of this chemistry. DNA CT can proceed over long molecular distances but is remarkably sensitive to perturbations in base pair stacking. We discuss how this foundation, built with data from diverse platforms, can be used both to inform a mechanistic description of DNA CT and to inspire the next platforms for its study: living organisms and molecular electronics.
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Affiliation(s)
- Natalie B. Muren
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena CA 91125, USA
| | - Eric D. Olmon
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena CA 91125, USA
| | - Jacqueline K. Barton
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena CA 91125, USA
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20
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Abi A, Ferapontova EE. Unmediated by DNA Electron Transfer in Redox-Labeled DNA Duplexes End-Tethered to Gold Electrodes. J Am Chem Soc 2012; 134:14499-507. [DOI: 10.1021/ja304864w] [Citation(s) in RCA: 88] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Alireza Abi
- Interdisciplinary Nanoscience Center (iNANO) and Center for DNA Nanotechnology (CDNA), Aarhus University, Gustav Wieds Vej 1590-14, DK-8000
Aarhus C, Denmark
| | - Elena E. Ferapontova
- Interdisciplinary Nanoscience Center (iNANO) and Center for DNA Nanotechnology (CDNA), Aarhus University, Gustav Wieds Vej 1590-14, DK-8000
Aarhus C, Denmark
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21
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Fujitsuka M, Majima T. Photoinduced Electron Transfer Processes in Biological and Artificial Supramolecules. Supramol Chem 2012. [DOI: 10.1002/9780470661345.smc090] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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22
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Affiliation(s)
- Emil Paleček
- Institute of Biophysics, Academy of Sciences of the Czech Republic, v.v.i., Kralovopolska 135, 612
65 Brno, Czech Republic
| | - Martin Bartošík
- Institute of Biophysics, Academy of Sciences of the Czech Republic, v.v.i., Kralovopolska 135, 612
65 Brno, Czech Republic
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23
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Ahangar LE, Mehrgardi MA. 3,4-Diaminobenzoic acid (DABA) as a redox label for electrochemical detection of single base mismatches. Electrochim Acta 2011. [DOI: 10.1016/j.electacta.2011.09.014] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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24
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Kato D, Goto K, Fujii SI, Takatsu A, Hirono S, Niwa O. Electrochemical DNA methylation detection for enzymatically digested CpG oligonucleotides. Anal Chem 2011; 83:7595-9. [PMID: 21905720 DOI: 10.1021/ac201761c] [Citation(s) in RCA: 84] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
We describe the electrochemical detection of DNA methylation through the direct oxidation of both 5-methylcytosine (mC) and cytosine (C) in 5'-CG-3' sequence (CpG) oligonucleotides using a sputtered nanocarbon film electrode after digesting a longer CpG oligonucleotide with endonuclease P1. Direct electrochemistry of the longer CpG oligonucleotides was insufficient for obtaining the oxidation currents of these bases because the CG rich sequence inhibited the direct oxidation of each base in the longer CpG oligonucleotides, owing to the conformational structure and its very low diffusion coefficient. To detect C methylation with better quantitativity and sensitivity in the relatively long CpG oligonucleotides, we successfully used an endonuclease P1 to digest the target CpG oligonucleotide and yield an identical mononucleotide 2'-deoxyribonucleoside 5'-monophosphate (5'-dNMP). Compared with results obtained without P1 treatment, we achieved 4.4 times higher sensitivity and a wider concentration range for mC detection with a resolution capable of detecting a subtle methylated cytosine difference in the CpG oligonucleotides (60mer).
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Affiliation(s)
- Dai Kato
- Biomedical Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1 Higashi, Tsukuba, Ibaraki 305-8566, Japan
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25
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Zhang X, Li S, Jin X, Li X. Aptamer based photoelectrochemical cytosensor with layer-by-layer assembly of CdSe semiconductor nanoparticles as photoelectrochemically active species. Biosens Bioelectron 2011; 26:3674-8. [PMID: 21342758 DOI: 10.1016/j.bios.2011.01.030] [Citation(s) in RCA: 80] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2010] [Revised: 01/22/2011] [Accepted: 01/24/2011] [Indexed: 10/18/2022]
Abstract
A label-free photoelectrochemical cytosensor for highly sensitive and specific detection of Ramos cell was developed based on photoactive films. The films were fabricated by a layer-by-layer (LBL) assembly of positively charged poly(dimethyldiallylammonium chloride) (PDDA) and negatively charged CdSe semiconductor nanoparticles (NPs) capped with mercaptoacetic acid. The resulting modified electrodes were tested as sensors for Ramos cell through the recognition of DNA aptamer which was covalently bound to the electrode using the classic coupling reactions between -COOH groups on the surfaces of CdSe NPs and -NH(2) groups of the aptamer. The newly developed cytosensor exhibited excellent sensitivity and selectivity. The linear range was from 160 to 1600 cells/mL and the detection limit was 84 cells/mL.
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Affiliation(s)
- Xiaoru Zhang
- State Key Laboratory Base of Eco-chemical Engineering, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao 266042, PR China
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26
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A new strategy for photoelectrochemical DNA biosensor using chemiluminescence reaction as light source. Biosens Bioelectron 2011; 26:2737-41. [DOI: 10.1016/j.bios.2010.09.051] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2010] [Accepted: 09/26/2010] [Indexed: 11/23/2022]
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27
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Ikeda A, Nakasu M, Ogasawara S, Nakanishi H, Nakamura M, Kikuchi JI. Photoelectrochemical sensor with porphyrin-deposited electrodes for determination of nucleotides in water. Org Lett 2010; 11:1163-6. [PMID: 19193047 DOI: 10.1021/ol900037q] [Citation(s) in RCA: 62] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
A 5,10,15,20-tetra(4-pyridyl)porphyrin (TPyP)-deposited ITO electrode as a sensor of nucleotides using photocurrent change was prepared. The TPyP-deposited ITO electrode could repeatedly detect nucleotides having concentrations of the microM order by a decrease in the photocurrent.
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Affiliation(s)
- Atsushi Ikeda
- Graduate School of Materials Science, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara 630-0192, Japan.
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28
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G-C Content Independent Long-Range Charge Transfer Through DNA. ELECTRONIC AND MAGNETIC PROPERTIES OF CHIRAL MOLECULES AND SUPRAMOLECULAR ARCHITECTURES 2010; 298:129-42. [DOI: 10.1007/128_2010_90] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
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29
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Doi K, Yonebayashi T, Kawano S. Perturbation theory analysis for electronic response of DNA base pairs. ACTA ACUST UNITED AC 2010. [DOI: 10.1016/j.theochem.2009.09.046] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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30
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Miyachi H, Matsui T, Shigeta Y, Hirao K. Effects of mercury(ii) on structural properties, electronic structure and UV absorption spectra of a duplex containing thymine–mercury(ii)–thymine nucleobase pairs. Phys Chem Chem Phys 2010; 12:909-17. [DOI: 10.1039/b912807g] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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31
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Ding C, Li H, Li X, Zhang S. A new strategy of photoelectrochemical analysis without an external light source based on isoluminol chemiluminescence probe. Chem Commun (Camb) 2010; 46:7990-2. [DOI: 10.1039/c0cc01507e] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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32
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Abstract
Binding target strands with single base selectivity at a terminal position is difficult with natural DNA or RNA hybridization probes. Nature uses a degenerate genetic code that is based on RNA:RNA codon:anticodon duplexes tolerating wobble base pairs at the terminus. The importance of short RNA strands in regulatory processes in the cell make it desirable to develop receptor-like approaches for high fidelity binding, even at the very 3'-terminus of a probe. Here, we report the three-dimensional structure of a DNA duplex with a 3'-terminal 2'-anthraquinoylamido-2'-deoxyuridine (Uaq) residue that was solved by NMR and restrained molecular dynamics. The Uaq residue binds the 5'-terminus of the target strand through a combination of pi-stacking, hydrogen bonding, and interactions in the minor groove. The acylated aminonucleoside is the best molecular cap for 3'-termini reported to date. The Uaq motif assists binding of DNA strands, but is particularly effective in enhancing the affinity for RNA target strands, with a DeltaT(m) in the UV melting point of up to +18.2 degrees C per residue. Increased base pairing selectivity is induced for all sequence motifs tested, even in cases where unmodified duplexes show no preference for the canonical base pair at all. A single mismatched nucleobase facing the 3'-terminus gives DeltaDeltaT(m) values as large as -23.9 degrees C (RNA) or -29.5 degrees C (DNA). The 5'-phosphoramidite of the Uaq cap reported here allows for routine incorporation during automated syntheses.
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Affiliation(s)
- Amritraj Patra
- Institute for Organic Chemistry, University of Karlsruhe (TH), 76131 Karlsruhe, Germany
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33
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Kawai K, Kodera H, Majima T. Long-Range Charge Transfer through DNA by Replacing Adenine with Diaminopurine. J Am Chem Soc 2009; 132:627-30. [DOI: 10.1021/ja907409z] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Kiyohiko Kawai
- The Institute of Scientific and Industrial Research (SANKEN), Osaka University, Mihogaoka 8-1, Ibaraki, Osaka 567-0047, Japan
| | - Haruka Kodera
- The Institute of Scientific and Industrial Research (SANKEN), Osaka University, Mihogaoka 8-1, Ibaraki, Osaka 567-0047, Japan
| | - Tetsuro Majima
- The Institute of Scientific and Industrial Research (SANKEN), Osaka University, Mihogaoka 8-1, Ibaraki, Osaka 567-0047, Japan
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34
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Abou-Elkhair RAI, Dixon DW, Netzel TL. Synthesis and Electrochemical Evaluation of Conjugates between 2′-Deoxyadenosine and Modified Anthraquinone: Probes for Hole-Transfer Studies in DNA. J Org Chem 2009; 74:4712-9. [DOI: 10.1021/jo900306g] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
| | - Dabney W. Dixon
- Department of Chemistry, Georgia State University, P.O. Box 4098, Atlanta, Georgia 30302-4098
| | - Thomas L. Netzel
- Department of Chemistry, Georgia State University, P.O. Box 4098, Atlanta, Georgia 30302-4098
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35
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Abstract
The base pair stack of DNA has been demonstrated as a medium for long-range charge transport chemistry both in solution and at DNA-modified surfaces. This chemistry is exquisitely sensitive to structural perturbations in the base pair stack as occur with lesions, single base mismatches, and protein binding. We have exploited this sensitivity for the development of reliable electrochemical assays based on DNA charge transport at self-assembled DNA monolayers. Here, we discuss the characteristic features, applications, and advantages of DNA-mediated electrochemistry.
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Affiliation(s)
- Alon A Gorodetsky
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California 91125, USA
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36
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Jacobsen MF, Ferapontova EE, Gothelf KV. Synthesis and electrochemical studies of an anthraquinone-conjugated nucleoside and derived oligonucleotides. Org Biomol Chem 2009; 7:905-8. [PMID: 19225673 DOI: 10.1039/b816820b] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
The synthesis of a 2'-deoxyuridine nucleoside linked to an anthraquinone moiety, and its incorporation into oligonucleotides are described, including a facile oxidative demethylation with phenyliodine(iii) bis(trifluoroacetate) to reveal the anthraquinone motif. Furthermore, some useful physical and electrochemical properties of the obtained oligonucleotide are also reported, which allow its principal use in electrochemical DNA assays.
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Affiliation(s)
- Mikkel F Jacobsen
- Danish National Research Foundation: Centre for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the Department of Chemistry, University of Aarhus, Langelandsgade 140, 8000 Aarhus C, Denmark
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37
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Gorodetsky AA, Hammond WJ, Hill MG, Slowinski K, Barton JK. Scanning electrochemical microscopy of DNA monolayers modified with Nile Blue. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2008; 24:14282-14288. [PMID: 19053641 PMCID: PMC2668266 DOI: 10.1021/la8029243] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Scanning electrochemical microscopy (SECM) is used to probe long-range charge transport (CT) through DNA monolayers containing the redox-active Nile Blue (NB) intercalator covalently affixed at a specific location in the DNA film. At substrate potentials negative of the formal potential of covalently attached NB, the electrocatalytic reduction of Fe(CN)6(3-) generated at the SECM tip is observed only when NB is located at the DNA/solution interface; for DNA films containing NB in close proximity to the DNA/electrode interface, the electrocatalytic effect is absent. This behavior is consistent with both rapid DNA-mediated CT between the NB intercalator and the gold electrode as well as a rate-limiting electron transfer between NB and the solution phase Fe(CN)6(3-). The DNA-mediated nature of the catalytic cycle is confirmed through sequence-specific and localized detection of attomoles of TATA-binding protein, a transcription factor that severely distorts DNA upon binding. Importantly, the strategy outlined here is general and allows for the local investigation of the surface characteristics of DNA monolayers both in the absence and in the presence of DNA binding proteins. These experiments highlight the utility of DNA-modified electrodes as versatile platforms for SECM detection schemes that take advantage of CT mediated by the DNA base pair stack.
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38
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Matsui T, Miyachi H, Sato T, Shigeta Y, Hirao K. Structural Origin of Copper Ion Containing Artificial DNA: A Density Functional Study. J Phys Chem B 2008; 112:16960-5. [DOI: 10.1021/jp8080707] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Toru Matsui
- Department of Applied Chemistry, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan, and Graduate School of Life Science, University of Hyogo, 3-2-1 Kouto, Kamigouri-cho, Ako-gun, Hyogo 678-1297, Japan
| | - Hideaki Miyachi
- Department of Applied Chemistry, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan, and Graduate School of Life Science, University of Hyogo, 3-2-1 Kouto, Kamigouri-cho, Ako-gun, Hyogo 678-1297, Japan
| | - Takeshi Sato
- Department of Applied Chemistry, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan, and Graduate School of Life Science, University of Hyogo, 3-2-1 Kouto, Kamigouri-cho, Ako-gun, Hyogo 678-1297, Japan
| | - Yasuteru Shigeta
- Department of Applied Chemistry, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan, and Graduate School of Life Science, University of Hyogo, 3-2-1 Kouto, Kamigouri-cho, Ako-gun, Hyogo 678-1297, Japan
| | - Kimihiko Hirao
- Department of Applied Chemistry, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan, and Graduate School of Life Science, University of Hyogo, 3-2-1 Kouto, Kamigouri-cho, Ako-gun, Hyogo 678-1297, Japan
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39
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Won BY, Lee DW, Shin SC, Cho DY, Lee SS, Yoon HC, Park HG. A DNA intercalation-based electrochemical method for detection of Chlamydia trachomatis utilizing peroxidase-catalyzed signal amplification. Biosens Bioelectron 2008; 24:665-9. [DOI: 10.1016/j.bios.2008.06.020] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2008] [Revised: 06/10/2008] [Accepted: 06/12/2008] [Indexed: 10/21/2022]
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40
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Enhanced photoelectrochemical method for linear DNA hybridization detection using Au-nanopaticle labeled DNA as probe onto titanium dioxide electrode. Biosens Bioelectron 2008; 23:1534-9. [DOI: 10.1016/j.bios.2008.01.011] [Citation(s) in RCA: 81] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2007] [Revised: 12/09/2007] [Accepted: 01/09/2008] [Indexed: 01/02/2023]
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41
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Kawai K, Osakada Y, Fujitsuka M, Majima T. Mechanism of Charge Separation in DNA by Hole Transfer through Consecutive Adenines. Chemistry 2008; 14:3721-6. [DOI: 10.1002/chem.200701835] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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42
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Kawai K, Osakada Y, Fujitsuka M, Majima T. Charge separation in acridine- and phenothiazine-modified DNA. J Phys Chem B 2008; 112:2144-9. [PMID: 18225880 DOI: 10.1021/jp075326+] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The formation of the long-lived, charge-separated state in DNA upon visible light irradiation is of particular interest in molecular-scale optoelectronics, sensor design, and other areas of nanotechnology. However, the efficient generation of the charge-separated state is hampered by fast charge recombination within a contact ion pair, which limits the application of DNA for photoelectrochemical sensors and devices. In this study, a series of protonated 9-alkylamino-6-chloro-2-methoxyacridine (Acr+)- and phenothiazine (Ptz)-modified DNAs were synthesized for the further understanding of the mechanism of charge separation in DNA to generate a long-lived, charge-separated state with a high quantum yield (Phi). The Acr+ serves as a photosensitizer to produce a hole on guanine (G), and the G-C base pairs were used as a hole-transporting pathway to separate a hole from Acr* (the one-electron-reduced form of Acr+) to be trapped at Ptz. Since Acr+ oxides only G upon photoexcitation, the A-T base pair can be used as a spacer between Acr+ and the G-C base pair to avoid the formation of a contact ion pair. The charge injection dynamics was investigated by steady-state fluorescence spectra and fluorescence lifetime measurements, and the Phi and the lifetime of the charge-separated state produced upon photoirradiation were assessed by nanosecond laser flash photolysis of the Acr+- and Ptz-modified DNA. A long-lived, charge-separated state was successfully formed upon visible-light irradiation, and the Phi was the highest for the DNA having a single intervening A-T base pair between Acr+ and the G-C base pair. These results clearly demonstrated that the charge separation process in DNA can be refined by putting a redox-inactive intervening base pair as a spacer between a photosensitizer and the nucleobase to be oxidized to slow down the charge recombination rate.
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Affiliation(s)
- Kiyohiko Kawai
- The Institute of Scientific and Industrial Research (SANKEN), Osaka University, Mihogaoka 8-1, Ibaraki, Osaka 567-0047, Japan.
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43
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Liang M, Jia S, Zhu S, Guo LH. Photoelectrochemical sensor for the rapid detection of in situ DNA damage induced by enzyme-catalyzed fenton reaction. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2008; 42:635-639. [PMID: 18284175 DOI: 10.1021/es071633h] [Citation(s) in RCA: 72] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
Photoelectrochemical sensors were developed for the rapid detection of oxidative DNA damage induced by Fe2+ and H2O2 generated in situ by the enzyme glucose oxidase. The sensor is a multilayer film prepared on a tin oxide nanoparticle electrode by layer-by-layer self-assembly and is composed of separate layers of a photoelectrochemical indicator, DNA, and glucose oxidase. The enzyme catalyzes the formation of H2O2 in the presence of glucose, which then reacts with Fe2+ and generates hydroxyl radicals by the Fenton reaction. The radicals attack DNA in the sensor film, mimicking metal toxicity pathways in vivo. The DNA damage is detected by monitoring the change of photocurrent of the indicator. In one sensor configuration, a DNA intercalator, Ru(bpy)2(dppz)2+ (bpy = 2,2'-bipyridine, dppz = dipyrido[3,2-a:2',3'-c]phenazine), was employed as the photoelectrochemical indicator. The damaged DNA on the sensor bound less Ru(bpy)2(dppz)2+ than the intact DNA, resulting in a drop in photocurrent. In another configuration, ruthenium tris(bipyridine) was used as the indicator and was immobilized on the electrode underneath the DNA layer. After oxidative damage, the DNA bases became more accessible to photoelectrochemical oxidation than the intact DNA, producing a rise in photocurrent. Both sensors displayed substantial photocurrent change after incubation in Fe2+/glucose in a time-dependent manner. And the detection limit of the first sensor was less than 50 microM. The results were verified independently by fluorescence and gel electrophoresis experiments. When fully integrated with cell-mimicking components, the photoelectrochemical DNA sensor has the potential to become a rapid, high-throughput, and inexpensive screening tool for chemical genotoxicity.
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Affiliation(s)
- Minmin Liang
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, P.O. Box 2871, Beijing 100085, China
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44
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Yamada H, Tanabe K, Nishimoto SI. Photocurrent response after enzymatic treatment of DNA duplexes immobilized on gold electrodes: electrochemical discrimination of 5-methylcytosine modification in DNA. Org Biomol Chem 2007; 6:272-7. [PMID: 18174996 DOI: 10.1039/b715260d] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We demonstrate a photoelectrochemical approach to the detection of the methylation status of cytosine bases in DNA. We prepared anthraquinone (AQ) photosensitizer-tethered oligodeoxynucleotide (ODN) duplexes bearing 5-methylcytosine (mC) or the corresponding cytosine (C) at a restriction site of the ODN strand immobilized on gold electrodes, and measured their photocurrent responses arising from hole transport after enzymatic digestion. Treatment with HapII or HhaI of the duplexes bearing normal C led to strand cleavage, and the photosensitizer unit was eliminated from the ODN strand immobilized on the gold electrode, exclusively reducing the photocurrent density. With a similar treatment, the duplexes bearing mC showed higher photocurrent responses arising from hole transport through the duplex. This significant difference in the photocurrent response between mC and normal C residues in DNA on the gold electrodes is potentially applicable to the detection of mC modification in DNA.
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Affiliation(s)
- Hisatsugu Yamada
- Department of Energy and Hydrocarbon Chemistry, Graduate School of Engineering, Kyoto University, Katsura Campus, Kyoto 615-8510, Japan
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45
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Takada T, Lin C, Majima T. Relationship between Charge Transfer and Charge Recombination Determines Photocurrent Efficiency through DNA Films. Angew Chem Int Ed Engl 2007. [DOI: 10.1002/ange.200701525] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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46
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Takada T, Lin C, Majima T. Relationship between Charge Transfer and Charge Recombination Determines Photocurrent Efficiency through DNA Films. Angew Chem Int Ed Engl 2007; 46:6681-3. [PMID: 17665389 DOI: 10.1002/anie.200701525] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Tadao Takada
- The Institute of Scientific and Industrial Research (SANKEN), Osaka University, Mihogaoka 8-1, Ibaraki, Osaka 567-0047, Japan
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47
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Nakamura M, Ueda M, Watanabe S, Kumamoto S, Yamana K. Syntheses of anthraquinone capped hairpin DNAs and electrochemical redox responses from their self-assembled monolayers on gold electrode. Tetrahedron Lett 2007. [DOI: 10.1016/j.tetlet.2007.06.153] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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48
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Tsukamoto T, Ishikawa Y, Natsume T, Dedachi K, Kurita N. A combined molecular dynamics/density-functional theoretical study on the structure and electronic properties of hydrating water molecules in the minor groove of decameric DNA duplex. Chem Phys Lett 2007; 441:136-142. [PMID: 19587836 PMCID: PMC2706513 DOI: 10.1016/j.cplett.2007.05.009] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
A combined molecular dynamics/density-functional theoretical study was carried out to address the propensity of ambient water to form cross-strand bridging water (CSBW) and their effects on the electronic properties of a fully hydrated DNA duplex 5'-d(CCATTAATGG)(2)-3'. The simulation shows ubiquitous presence of up to five CSBWs along the minor groove, each with residence time ranging from 400 ps to 750 ps. The molecular orbitals localized on these CSBWs are nearly degenerate in energy with the highest occupied molecular orbital of DNA localized on guanine bases, strongly indicating that the hole transport along the guanines is mediated by the ubiquitous CSBWs.
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Affiliation(s)
- Takayuki Tsukamoto
- Department of Knowledge-based Information Engineering, Toyohashi University of Technology, Tenpaku-cho, Toyohashi, Aichi 441-8580, Japan
| | - Yasuyuki Ishikawa
- Department of Chemistry, University of Puerto Rico, P. O. Box 23346, UPR Station, San Juan, PR 00931-3346, USA
| | - Takayuki Natsume
- Department of Knowledge-based Information Engineering, Toyohashi University of Technology, Tenpaku-cho, Toyohashi, Aichi 441-8580, Japan
| | - Kenichi Dedachi
- Department of Knowledge-based Information Engineering, Toyohashi University of Technology, Tenpaku-cho, Toyohashi, Aichi 441-8580, Japan
| | - Noriyuki Kurita
- Department of Knowledge-based Information Engineering, Toyohashi University of Technology, Tenpaku-cho, Toyohashi, Aichi 441-8580, Japan
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49
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Liu S, Li C, Cheng J, Zhou Y. Selective photoelectrochemical detection of DNA with high-affinity metallointercalator and tin oxide nanoparticle electrode. Anal Chem 2007; 78:4722-6. [PMID: 16808488 DOI: 10.1021/ac052022f] [Citation(s) in RCA: 61] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Selective detection of double-stranded DNA (ds-DNA) in solution was achieved by photoelectrochemistry using a high-affinity DNA intercalator, Ru(bpy)2dppz (bpy = 2,2'-bipyridine, dppz = dipyrido[3,2-a:2',3'-c]phenazine) as the signal indicator and tin oxide nanoparticle as electrode material. When Ru(bpy)2dppz alone was irradiated with 470-nm light, anodic photocurrent was detected on the semiconductor electrode due to electron injection from its excited state into the conduction band of the electrode. The current was sustained in the presence of oxalate in solution, which acted as a sacrificial electron donor to regenerate the ground-state metal complex. After addition of double-stranded calf thymus DNA into the solution, photocurrent dropped substantially. The drop was attributed to the intercalation of Ru(bpy)2dppz into DNA and, consequently, the reduced mass diffusion of the indicator to the electrode, as well as electrostatic repulsion between oxalate anion and negative charges on DNA. The degree of signal reduction was a function of the DNA concentration, thus forming the basis for real-time DNA detection. The signal reduction was selective for ds-DNA, as no such effect was observed for single-stranded polynucleotides such as poly-G, poly-C, poly-A, and poly-U. The detection limit of calf thymus ds-DNA reached 1.8 x 10(-10) M in solution.
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Affiliation(s)
- Shili Liu
- Department of Biological Sciences, Tsinghua University, Beijing 100084, China
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50
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Tanabe K, Iida H, Haruna KI, Kamei T, Okamoto A, Nishimoto SI. Electrochemical evaluation of alternating duplex-triplex conversion effect on the anthraquinone-photoinjected hole transport through DNA duplex immobilized on a gold electrode. J Am Chem Soc 2006; 128:692-3. [PMID: 16417338 DOI: 10.1021/ja0568244] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Amperometry was employed to characterize the anthraquinone (AQ)-photoinjected hole transport through a 20-mer oligodeoxynucleotide (ODN) duplex, as immobilized on the surface of a gold electrode, and its triplex forms converted by association with several third oligopyrimidine (OPD) short strands. While the cathodic photocurrent was observed upon irradiation at 365 nm of the AQ photosensitizer linked to the end of DNA duplex, a marked lowering of the current density was identified to occur by the triplex formation of a duplex with a given third OPD short strand. The photocurrent through the DNA duplex showed a reversible fall-rise response concomitant with alternating association-dissociation cycle of the OPD short-strand, as regulated by temperature change around the corresponding melting temperature of the DNA triplex. Both the switched photoirradiation and the thermally alternating duplex-triplex conversion could provide tools of regulating the DNA hole transport.
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Affiliation(s)
- Kazuhito Tanabe
- Department of Energy and Hydrocarbon Chemistry, Graduate School of Engineering, Kyoto University, Katsura Campus, Kyoto 615-8510, Japan.
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