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Ma Z, Wang J, Lu X, Zhou G, Wu Y, Zhang D, Li L, Guo L. A dual-blocker aided and dual-label-free electrochemical biosensor based on mbHCR/rGO nanocomplexes for ultrasensitive DNA detection. Talanta 2023; 260:124646. [PMID: 37187028 DOI: 10.1016/j.talanta.2023.124646] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2023] [Revised: 04/10/2023] [Accepted: 05/03/2023] [Indexed: 05/17/2023]
Abstract
Heterogeneous electrochemical DNA biosensors have attracted huge attention due to their enhanced signal sensitivity, compared to homogeneous biosensors. However, the high cost of probe labeling and the reduced recognition efficiency associated with current heterogeneous electrochemical biosensors confine their potential applications. In the present work, a dual-blocker assisted and dual-label-free heterogeneous electrochemical strategy based on multi-branched hybridization chain reaction (mbHCR) and reduced graphene oxide (rGO) was fabricated for ultrasensitive detection of DNA. The target DNA could trigger the mbHCR of two DNA hairpin probes, resulting in the generation of multi-branched long chain of DNA duplexes with bidirectional arms. One direction of the multi-branched arms in the mbHCR products were then bound to the label-free capture probe on the gold electrode through multivalent hybridization with enhanced recognition efficiency. The other direction of multi-branched arms in mbHCR product could adsorb rGO via π-π stacking interactions. Two DNA blockers were ingeniously designed to block the binding of excessive H1-pAT on electrode and to prevent the adsorption of rGO by residual unbound capture probes. As a result, with the electrochemical reporter methylene blue selectively intercalated into the long chain of DNA duplex and absorbed on rGO, a remarkable electrochemical signal rise was observed. Thus, a dual-blocker aided and dual-label-free electrochemical strategy for ultrasensitive DNA detection is readily realized with the merit of cost-effective. The as-developed dual-label-free electrochemical biosensor has great potential to be employed in nucleic acid related medical diagnostics.
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Affiliation(s)
- Zeyu Ma
- College of Chemistry and Life Science, Zhejiang Normal University, Jinhua, 321004, PR China; Jiaxing Key Laboratory of Molecular Recognition and Sensing, College of Biological, Chemical Sciences and Engineering, Jiaxing University, Jiaxing, 314001, PR China
| | - Jingyu Wang
- Department of Pathology, First Hospital of Jiaxing, Affiliated Hospital of Jiaxing University, Jiaxing, 314000, PR China
| | - Xing Lu
- Jiaxing Key Laboratory of Molecular Recognition and Sensing, College of Biological, Chemical Sciences and Engineering, Jiaxing University, Jiaxing, 314001, PR China
| | - Guobao Zhou
- College of Chemistry and Life Science, Zhejiang Normal University, Jinhua, 321004, PR China; Jiaxing Key Laboratory of Molecular Recognition and Sensing, College of Biological, Chemical Sciences and Engineering, Jiaxing University, Jiaxing, 314001, PR China.
| | - Yi Wu
- College of Chemistry and Life Science, Zhejiang Normal University, Jinhua, 321004, PR China; Jiaxing Key Laboratory of Molecular Recognition and Sensing, College of Biological, Chemical Sciences and Engineering, Jiaxing University, Jiaxing, 314001, PR China
| | - Dan Zhang
- College of Chemistry and Life Science, Zhejiang Normal University, Jinhua, 321004, PR China; Jiaxing Key Laboratory of Molecular Recognition and Sensing, College of Biological, Chemical Sciences and Engineering, Jiaxing University, Jiaxing, 314001, PR China
| | - Lei Li
- College of Chemistry and Life Science, Zhejiang Normal University, Jinhua, 321004, PR China; Jiaxing Key Laboratory of Molecular Recognition and Sensing, College of Biological, Chemical Sciences and Engineering, Jiaxing University, Jiaxing, 314001, PR China.
| | - Longhua Guo
- College of Chemistry and Life Science, Zhejiang Normal University, Jinhua, 321004, PR China; Jiaxing Key Laboratory of Molecular Recognition and Sensing, College of Biological, Chemical Sciences and Engineering, Jiaxing University, Jiaxing, 314001, PR China
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Chanarsa S, Jakmunee J, Ounnunkad K. A sandwich-like configuration with a signal amplification strategy using a methylene blue/aptamer complex on a heterojunction 2D MoSe 2/2D WSe 2 electrode: Toward a portable and sensitive electrochemical alpha-fetoprotein immunoassay. Front Cell Infect Microbiol 2022; 12:916357. [PMID: 36389169 PMCID: PMC9646986 DOI: 10.3389/fcimb.2022.916357] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2022] [Accepted: 09/26/2022] [Indexed: 09/29/2023] Open
Abstract
Liver cancer is one of the most common global health problems that features a high mortality rate. Alpha-fetoprotein (AFP) is a potential liver cancer biomarker for the diagnosis of liver cancer. The quantitative detection of AFP at an ultratrace level has important medical significance. Using the reaction of the antibody-antigen pair in an immunosensor enables the sensitive and selective AFP assay. Finding a strategy in signal generation and amplification is challenging to fabricate new sensitive electrochemical immunosensors for AFP detection. This study demonstrates the construction of a simple, reliable, and label-free immunosensor for the detection of AFP on a smart phone. Exfoliated two-dimensional (2D) molybdenum diselenide (MoSe2) and 2D tungsten diselenide (WSe2) were employed to modify the disposable screen-printed carbon electrode (SPCE) to use as the electrochemical platform, which is affixed to a small potentiostat connected to a smart phone. The modified electrode offers antibody immobilization and allows detection of AFP via an immunocomplex forming a sandwich-like configuration with the AFP-corresponding aptamer. A heterojunction 2D MoSe2/2D WSe2 composite improves the SPCE's reactivity and provides a large surface area and good adsorption capacity for the immobilizing antibodies. The signal generation for the immunosensor is from the electrochemical response of methylene blue (MB) intercalating into the aptamer bound on the electrode. The response for the proposed sandwich-like immunosensor is proportional to the AFP concentration (1.0-50,000 pg ml-1). The biosensor has potential for the development of a simple and robust point-of-care diagnostic platform for the clinical diagnosis of liver cancer, achieving a low limit of detection (0.85 pg ml-1), high sensitivity, high selectivity, good stability, and excellent reproducibility.
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Affiliation(s)
- Supakeit Chanarsa
- Department of Chemistry, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
- Center of Excellence for Innovation in Chemistry, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
| | - Jaroon Jakmunee
- Department of Chemistry, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
- Center of Excellence for Innovation in Chemistry, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
- Research Center on Chemistry for Development of Health Promoting Products from Northern Resources, Chiang Mai University, Chiang Mai, Thailand
| | - Kontad Ounnunkad
- Department of Chemistry, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
- Center of Excellence for Innovation in Chemistry, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand
- Research Center on Chemistry for Development of Health Promoting Products from Northern Resources, Chiang Mai University, Chiang Mai, Thailand
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3
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DNA/Au-Pt bimetallic nanoparticles/graphene oxide-chitosan composites modified pencil graphite electrode used as an electrochemical biosensor for sub-picomolar detection of anti-HIV drug zidovudine. Microchem J 2021. [DOI: 10.1016/j.microc.2021.106005] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
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4
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Zhao L, Zhang X, Zhou Y. Electrochemical Investigation of Heterogeneous Affinity Behaviour of Methylene Blue and G‐quadruplex. ELECTROANAL 2020. [DOI: 10.1002/elan.202060315] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
- Ling‐Li Zhao
- Beijing National Laboratory for Molecular Sciences (BNLMS), MOE Key Laboratory of Bioorganic Chemistry and Molecular Engineering, College of Chemistry and Molecular Engineering Peking University Beijing 100871 China
| | - Xin‐Xiang Zhang
- Beijing National Laboratory for Molecular Sciences (BNLMS), MOE Key Laboratory of Bioorganic Chemistry and Molecular Engineering, College of Chemistry and Molecular Engineering Peking University Beijing 100871 China
| | - Ying‐Lin Zhou
- Beijing National Laboratory for Molecular Sciences (BNLMS), MOE Key Laboratory of Bioorganic Chemistry and Molecular Engineering, College of Chemistry and Molecular Engineering Peking University Beijing 100871 China
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5
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Electrochemical synthesis of polyaniline nanocomposite based on modified gold nanoparticles and its application for electrochemical aptasensor. J Solid State Electrochem 2020. [DOI: 10.1007/s10008-020-04761-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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6
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Shlyapnikov YM, Malakhova EA, Shlyapnikova EA. Rapid Amplification-Free Microarray-Based Ultrasensitive Detection of DNA. Anal Chem 2019; 91:11209-11214. [DOI: 10.1021/acs.analchem.9b02149] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Yuri M. Shlyapnikov
- Institute of Theoretical and Experimental Biophysics, Russian Academy of Sciences, Pushchino, Moscow
Region, 142290, Russia
| | - Ekaterina A. Malakhova
- Institute of Theoretical and Experimental Biophysics, Russian Academy of Sciences, Pushchino, Moscow
Region, 142290, Russia
| | - Elena A. Shlyapnikova
- Institute of Theoretical and Experimental Biophysics, Russian Academy of Sciences, Pushchino, Moscow
Region, 142290, Russia
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7
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Vidic J, Vizzini P, Manzano M, Kavanaugh D, Ramarao N, Zivkovic M, Radonic V, Knezevic N, Giouroudi I, Gadjanski I. Point-of-Need DNA Testing for Detection of Foodborne Pathogenic Bacteria. SENSORS (BASEL, SWITZERLAND) 2019; 19:E1100. [PMID: 30836707 PMCID: PMC6427207 DOI: 10.3390/s19051100] [Citation(s) in RCA: 58] [Impact Index Per Article: 11.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/29/2019] [Revised: 02/27/2019] [Accepted: 02/28/2019] [Indexed: 12/18/2022]
Abstract
Foodborne pathogenic bacteria present a crucial food safety issue. Conventional diagnostic methods are time-consuming and can be only performed on previously produced food. The advancing field of point-of-need diagnostic devices integrating molecular methods, biosensors, microfluidics, and nanomaterials offers new avenues for swift, low-cost detection of pathogens with high sensitivity and specificity. These analyses and screening of food items can be performed during all phases of production. This review presents major developments achieved in recent years in point-of-need diagnostics in land-based sector and sheds light on current challenges in achieving wider acceptance of portable devices in the food industry. Particular emphasis is placed on methods for testing nucleic acids, protocols for portable nucleic acid extraction and amplification, as well as on the means for low-cost detection and read-out signal amplification.
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Affiliation(s)
- Jasmina Vidic
- Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, 78350 Jouy-en-Josas, France.
| | - Priya Vizzini
- Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, 78350 Jouy-en-Josas, France.
- Dipartimento di Scienze AgroAlimentari, Ambientali e Animali, Università di Udine, 33100 Udine, Italy.
| | - Marisa Manzano
- Dipartimento di Scienze AgroAlimentari, Ambientali e Animali, Università di Udine, 33100 Udine, Italy.
| | - Devon Kavanaugh
- Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, 78350 Jouy-en-Josas, France.
| | - Nalini Ramarao
- Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, 78350 Jouy-en-Josas, France.
| | - Milica Zivkovic
- Institute of Molecular Genetics and Genetic Engineering (IMGGE), University of Belgrade, 11000 Belgrade, Serbia.
| | - Vasa Radonic
- BioSense-Research and Development Institute for Information Technologies in Biosystems, University of Novi Sad, 21000 Novi Sad, Serbia.
| | - Nikola Knezevic
- BioSense-Research and Development Institute for Information Technologies in Biosystems, University of Novi Sad, 21000 Novi Sad, Serbia.
| | - Ioanna Giouroudi
- BioSense-Research and Development Institute for Information Technologies in Biosystems, University of Novi Sad, 21000 Novi Sad, Serbia.
| | - Ivana Gadjanski
- BioSense-Research and Development Institute for Information Technologies in Biosystems, University of Novi Sad, 21000 Novi Sad, Serbia.
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8
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Yang K, Huang LJ, Wang YX, Du YC, Tang JG, Wang Y, Cheng MM, Zhang Y, Kipper MJ, Belfiore LA, Wickramasinghe SR. Graphene oxide/nanometal composite membranes for nanofiltration: synthesis, mass transport mechanism, and applications. NEW J CHEM 2019. [DOI: 10.1039/c8nj06045b] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We reviewed the recent developments in graphene-based composite membranes and discussed their challenges in this paper.
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9
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Campuzano S, Yáñez-Sedeño P, Pingarrón JM. Nanoparticles for nucleic-acid-based biosensing: opportunities, challenges, and prospects. Anal Bioanal Chem 2018; 411:1791-1806. [DOI: 10.1007/s00216-018-1273-6] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2018] [Accepted: 07/13/2018] [Indexed: 12/20/2022]
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10
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Zhou Z, Luo G, Wulf V, Willner I. Application of DNA Machineries for the Barcode Patterned Detection of Genes or Proteins. Anal Chem 2018; 90:6468-6476. [PMID: 29737162 DOI: 10.1021/acs.analchem.7b04916] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
The study introduces an analytical platform for the detection of genes or aptamer-ligand complexes by nucleic acid barcode patterns generated by DNA machineries. The DNA machineries consist of nucleic acid scaffolds that include specific recognition sites for the different genes or aptamer-ligand analytes. The binding of the analytes to the scaffolds initiate, in the presence of the nucleotide mixture, a cyclic polymerization/nicking machinery that yields displaced strands of variable lengths. The electrophoretic separation of the resulting strands provides barcode patterns for the specific detection of the different analytes. Mixtures of DNA machineries that yield, upon sensing of different genes (or aptamer ligands), one-, two-, or three-band barcode patterns are described. The combination of nucleic acid scaffolds acting, in the presence of polymerase/nicking enzyme and nucleotide mixture, as DNA machineries, that generate multiband barcode patterns provide an analytical platform for the detection of an individual gene out of many possible genes. The diversity of genes (or other analytes) that can be analyzed by the DNA machineries and the barcode patterned imaging is given by the Pascal's triangle. As a proof-of-concept, the detection of one of six genes, that is, TP53, Werner syndrome, Tay-Sachs normal gene, BRCA1, Tay-Sachs mutant gene, and cystic fibrosis disorder gene by six two-band barcode patterns is demonstrated. The advantages and limitations of the detection of analytes by polymerase/nicking DNA machineries that yield barcode patterns as imaging readout signals are discussed.
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Affiliation(s)
- Zhixin Zhou
- Institute of Chemistry, The Minerva Center for Biohybrid Complex Systems , The Hebrew University of Jerusalem , Jerusalem 91904 , Israel
| | - Guofeng Luo
- Institute of Chemistry, The Minerva Center for Biohybrid Complex Systems , The Hebrew University of Jerusalem , Jerusalem 91904 , Israel
| | - Verena Wulf
- Institute of Chemistry, The Minerva Center for Biohybrid Complex Systems , The Hebrew University of Jerusalem , Jerusalem 91904 , Israel
| | - Itamar Willner
- Institute of Chemistry, The Minerva Center for Biohybrid Complex Systems , The Hebrew University of Jerusalem , Jerusalem 91904 , Israel
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11
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A label-free genetic biosensor for diabetes based on AuNPs decorated ITO with electrochemiluminescent signaling. Anal Chim Acta 2017; 982:62-71. [DOI: 10.1016/j.aca.2017.05.028] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2017] [Revised: 05/17/2017] [Accepted: 05/19/2017] [Indexed: 01/19/2023]
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12
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Rahman MM, Kim YJ, Lee JJ. Sensitivity Control of Label-free DNA Hybridization Detection Based on Poly(thionine)-Modified Glassy Carbon and Gold Electrodes. B KOREAN CHEM SOC 2016. [DOI: 10.1002/bkcs.11037] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Md. Mahbubur Rahman
- Nanotechnology Research Center & Department of Applied Life Science, College of Biomedical and Health Science; Konkuk University; Chungju 27478 Korea
| | - Young Jun Kim
- Nanotechnology Research Center & Department of Applied Life Science, College of Biomedical and Health Science; Konkuk University; Chungju 27478 Korea
| | - Jae-Joon Lee
- Department of Energy Materials Science and Engineering; Dongguk University; Seoul 04620 Korea
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13
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Samanta A, Medintz IL. Nanoparticles and DNA - a powerful and growing functional combination in bionanotechnology. NANOSCALE 2016; 8:9037-95. [PMID: 27080924 DOI: 10.1039/c5nr08465b] [Citation(s) in RCA: 131] [Impact Index Per Article: 16.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
Functionally integrating DNA and other nucleic acids with nanoparticles in all their different physicochemical forms has produced a rich variety of composite nanomaterials which, in many cases, display unique or augmented properties due to the synergistic activity of both components. These capabilities, in turn, are attracting greater attention from various research communities in search of new nanoscale tools for diverse applications that include (bio)sensing, labeling, targeted imaging, cellular delivery, diagnostics, therapeutics, theranostics, bioelectronics, and biocomputing to name just a few amongst many others. Here, we review this vibrant and growing research area from the perspective of the materials themselves and their unique capabilities. Inorganic nanocrystals such as quantum dots or those made from gold or other (noble) metals along with metal oxides and carbon allotropes are desired as participants in these hybrid materials since they can provide distinctive optical, physical, magnetic, and electrochemical properties. Beyond this, synthetic polymer-based and proteinaceous or viral nanoparticulate materials are also useful in the same role since they can provide a predefined and biocompatible cargo-carrying and targeting capability. The DNA component typically provides sequence-based addressability for probes along with, more recently, unique architectural properties that directly originate from the burgeoning structural DNA field. Additionally, DNA aptamers can also provide specific recognition capabilities against many diverse non-nucleic acid targets across a range of size scales from ions to full protein and cells. In addition to appending DNA to inorganic or polymeric nanoparticles, purely DNA-based nanoparticles have recently surfaced as an excellent assembly platform and have started finding application in areas like sensing, imaging and immunotherapy. We focus on selected and representative nanoparticle-DNA materials and highlight their myriad applications using examples from the literature. Overall, it is clear that this unique functional combination of nanomaterials has far more to offer than what we have seen to date and as new capabilities for each of these materials are developed, so, too, will new applications emerge.
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Affiliation(s)
- Anirban Samanta
- Center for Bio/Molecular Science and Engineering, Code 6900, U.S. Naval Research Laboratory, Washington, DC 20375, USA. and College of Science, George Mason University, Fairfax, Virginia 22030, USA
| | - Igor L Medintz
- Center for Bio/Molecular Science and Engineering, Code 6900, U.S. Naval Research Laboratory, Washington, DC 20375, USA.
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Chao J, Li Z, Li J, Peng H, Su S, Li Q, Zhu C, Zuo X, Song S, Wang L, Wang L. Hybridization chain reaction amplification for highly sensitive fluorescence detection of DNA with dextran coated microarrays. Biosens Bioelectron 2016; 81:92-96. [PMID: 26922047 DOI: 10.1016/j.bios.2016.01.093] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2015] [Revised: 01/29/2016] [Accepted: 01/30/2016] [Indexed: 12/25/2022]
Abstract
Microarrays of biomolecules hold great promise in the fields of genomics, proteomics, and clinical assays on account of their remarkably parallel and high-throughput assay capability. However, the fluorescence detection used in most conventional DNA microarrays is still limited by sensitivity. In this study, we have demonstrated a novel universal and highly sensitive platform for fluorescent detection of sequence specific DNA at the femtomolar level by combining dextran-coated microarrays with hybridization chain reaction (HCR) signal amplification. Three-dimensional dextran matrix was covalently coated on glass surface as the scaffold to immobilize DNA recognition probes to increase the surface binding capacity and accessibility. DNA nanowire tentacles were formed on the matrix surface for efficient signal amplification by capturing multiple fluorescent molecules in a highly ordered way. By quantifying microscopic fluorescent signals, the synergetic effects of dextran and HCR greatly improved sensitivity of DNA microarrays, with a detection limit of 10fM (1×10(5) molecules). This detection assay could recognize one-base mismatch with fluorescence signals dropped down to ~20%. This cost-effective microarray platform also worked well with samples in serum and thus shows great potential for clinical diagnosis.
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Affiliation(s)
- Jie Chao
- Key Laboratory for Organic Electronics & Information Displays (KLOEID), Institute of Advanced Materials (IAM), and School of Materials Science and Engineering, Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing 210046, China
| | - Zhenhua Li
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, 2019 Jialuo Road, Shanghai 201800, China
| | - Jing Li
- Pulmonary Medcine Department, Zhongshan Hospital, 180 Fenglin Road, Shanghai 200032, China
| | - Hongzhen Peng
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, 2019 Jialuo Road, Shanghai 201800, China
| | - Shao Su
- Key Laboratory for Organic Electronics & Information Displays (KLOEID), Institute of Advanced Materials (IAM), and School of Materials Science and Engineering, Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing 210046, China
| | - Qian Li
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, 2019 Jialuo Road, Shanghai 201800, China
| | - Changfeng Zhu
- Pulmonary Medcine Department, Zhongshan Hospital, 180 Fenglin Road, Shanghai 200032, China
| | - Xiaolei Zuo
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, 2019 Jialuo Road, Shanghai 201800, China
| | - Shiping Song
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, 2019 Jialuo Road, Shanghai 201800, China
| | - Lianhui Wang
- Key Laboratory for Organic Electronics & Information Displays (KLOEID), Institute of Advanced Materials (IAM), and School of Materials Science and Engineering, Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing 210046, China
| | - Lihua Wang
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, 2019 Jialuo Road, Shanghai 201800, China.
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15
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Highly sensitive electrochemical detection of genomic DNA based on stem loop probes structured for magnetic collection and measurement via metalised hollow polyelectrolyte shells. Biosens Bioelectron 2015; 73:181-187. [DOI: 10.1016/j.bios.2015.05.068] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2015] [Revised: 05/27/2015] [Accepted: 05/28/2015] [Indexed: 11/21/2022]
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16
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Shamsipur M, Farzin L, Amouzadeh Tabrizi M, Molaabasi F. Highly sensitive label free electrochemical detection of VGEF165 tumor marker based on "signal off" and "signal on" strategies using an anti-VEGF165 aptamer immobilized BSA-gold nanoclusters/ionic liquid/glassy carbon electrode. Biosens Bioelectron 2015; 74:369-75. [PMID: 26162327 DOI: 10.1016/j.bios.2015.06.079] [Citation(s) in RCA: 80] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2015] [Revised: 06/12/2015] [Accepted: 06/28/2015] [Indexed: 11/17/2022]
Abstract
In this work, a label free electrochemical aptasensor for the detection of ultra-traces of vascular endothelial growth factor (VEGF165) based on "signal off" and "signal on" mechanisms of response was developed. The BSA-gold nanoclusters/ionic liquid (BSA-AuNCs/IL) was used as a suitable nanocomposite platform for immobilization of the aptamer on a glassy carbon electrode. In "signal off" mechanism, the interaction of VEGF165 with its anti-VEGF165 aptamers, resulted in desorption of methylene blue (MB) probe from aptamer and its release into solution. Consequently, the decrease in current intensity of the differential pulse voltammogram of adsorbed MB was monitored and found to be linearly proportional with increasing concentration of VEGF165 in sample solution in the range of 1-120 pM with a limit of detection of 0.32p M. While, in "signal on" mechanism, the interaction of immobilized anti-VEGF165 aptamers on the electrode surface with VEGF165, led to more mass-transfer limiting of the [Fe(CN)6](3-/4-) probe to the electrode surface. Therefore, the charge transfer resistance (Rct) of the probe was increased linearly with increasing concentration of VEGF165 in the range of 2.5-250 pM with a limit of detection of 0.48 pM. The experimental results demonstrated that both of these mechanisms are suitable for determination of low levels of the VEGF165 tumor marker in serum samples.
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Affiliation(s)
| | - Leila Farzin
- Department of Analytical Chemistry, School of Chemistry, College of Science, University of Tehran, Tehran, Iran
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17
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Yang J, Wen W, Zhang X, Wang S. Electrochemical immunosensor for the prostate specific antigen detection based on carbon nanotube and gold nanoparticle amplification strategy. Mikrochim Acta 2015. [DOI: 10.1007/s00604-015-1523-7] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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18
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Rasheed PA, Sandhyarani N. A highly sensitive DNA sensor for attomolar detection of the BRCA1 gene: signal amplification with gold nanoparticle clusters. Analyst 2015; 140:2713-8. [DOI: 10.1039/c5an00004a] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
Gold nanoparticle clusters were successfully implemented signal amplification in an electrochemical DNA sensor.
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Affiliation(s)
- P. Abdul Rasheed
- Nanoscience Research Laboratory
- School of Nano Science and Technology
- National Institute of Technology Calicut
- Calicut
- India
| | - N. Sandhyarani
- Nanoscience Research Laboratory
- School of Nano Science and Technology
- National Institute of Technology Calicut
- Calicut
- India
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19
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20
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Huang X, Li Y, Huang X, Chen Y, Gao W. Combining a loop-stem aptamer sequence with methylene blue: a simple assay for thrombin detection by resonance light scattering technique. RSC Adv 2015. [DOI: 10.1039/c4ra14729d] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Schematic illustration of the RLS aptasensor for selective detection of human thrombin.
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Affiliation(s)
- Xiaopeng Huang
- Department of Chemistry
- Shantou University
- Shantou
- P. R. China
| | - Yuqin Li
- Department of Pharmacy
- Taishan Medicine College
- Taian
- P. R. China
| | - Xiang Huang
- Department of Chemistry
- Shantou University
- Shantou
- P. R. China
| | - Yaowen Chen
- Analysis & Testing Center
- Shantou University
- Shantou
- P. R. China
| | - Wenhua Gao
- Department of Chemistry
- Shantou University
- Shantou
- P. R. China
- Analysis & Testing Center
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21
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Tortolini C, Bollella P, Antonelli ML, Antiochia R, Mazzei F, Favero G. DNA-based biosensors for Hg(2+) determination by polythymine-methylene blue modified electrodes. Biosens Bioelectron 2014; 67:524-31. [PMID: 25263314 DOI: 10.1016/j.bios.2014.09.031] [Citation(s) in RCA: 52] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2014] [Revised: 09/12/2014] [Accepted: 09/15/2014] [Indexed: 11/26/2022]
Abstract
In this work we have developed a new electrochemical DNA-based biosensor for the selective determination of the Hg(2+) ion by the use of different electrodes modified with polythymine, bearing methylene blue, as redox probe, in 3' position. The determination of Hg(2+) can be employed with an excellent degree of selectivity by the use of DNA biosensors through the formation of the complex Thymine-Hg-Thymine (T-Hg-T): in fact, Hg(2+) tends to bind two thymines, generating a T-Hg-T complex with a formation constant higher than that one of the coupling Adenine-Thymine, which can be employed for a selective, fast and cost-effective Hg(2+) detection. The presence of the Hg(2+) in solution leads to the formation of T-Hg-T complex thus causing the "hairpin-like" folding of oligonucleotide, leading to an improved electronic exchange of methylene blue with the electrode surface due to the reduced distance and thus to an increase of the faradic current which is detected by means of square wave voltammetry (SWV). To test the feasibility of this kind of biosensor to be applied to the analysis of Hg(2+) we have developed several biosensors configuration by modifying the electrochemical sensor transducer: (a) Au electrode; (b) Au screen-printed electrode (SPE). The proposed system, allows the determination of Hg(2+) in the range 0.2-100 nM (0.05-20 ppb), with a sensitivity 0.327 µA/nM, LOD 0.1 nM (0.02 ppb), LOQ 0.2 nM (0.05 ppb) and RSD ≤4.3% when Au electrode is used as electrochemical transducer; on the other hand, in the case of Au SPE the linear range is 0.2-50 nM (0.05-10 ppb), with a sensitivity 0.285 µA/nM, while LOD and LOQ are the same as previously and RSD is ≤3.8%. This enabled the detection of mercury in real samples (waters and fishes) with good accuracy (recoveries 92-101% on waters and 92-107% on fishes, respectively) and reproducibility (RSD ≤9.6% for measurements on waters and ≤8.8% on fishes, respectively).
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Affiliation(s)
- Cristina Tortolini
- Department of Chemistry and Drug Technologies, Sapienza University of Rome, Italy; Department of Chemistry, Sapienza University of Rome, Italy
| | - Paolo Bollella
- Department of Chemistry, Sapienza University of Rome, Italy
| | | | - Riccarda Antiochia
- Department of Chemistry and Drug Technologies, Sapienza University of Rome, Italy
| | - Franco Mazzei
- Department of Chemistry and Drug Technologies, Sapienza University of Rome, Italy
| | - Gabriele Favero
- Department of Chemistry and Drug Technologies, Sapienza University of Rome, Italy
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22
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He Y, Chen D, Li M, Fang L, Yang W, Xu L, Fu F. Rolling circle amplification combined with gold nanoparticles-tag for ultra sensitive and specific quantification of DNA by inductively coupled plasma mass spectrometry. Biosens Bioelectron 2014; 58:209-13. [DOI: 10.1016/j.bios.2014.02.072] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2013] [Revised: 02/17/2014] [Accepted: 02/25/2014] [Indexed: 11/16/2022]
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23
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Wang G, Chen L, He X, Zhu Y, Zhang X. Detection of polynucleotide kinase activity by using a gold electrode modified with magnetic microspheres coated with titanium dioxide nanoparticles and a DNA dendrimer. Analyst 2014; 139:3895-900. [DOI: 10.1039/c4an00499j] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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24
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Yola ML, Eren T, Atar N. A novel and sensitive electrochemical DNA biosensor based on Fe@Au nanoparticles decorated graphene oxide. Electrochim Acta 2014. [DOI: 10.1016/j.electacta.2014.01.074] [Citation(s) in RCA: 165] [Impact Index Per Article: 16.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
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25
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Tak M, Gupta V, Tomar M. Flower-like ZnO nanostructure based electrochemical DNA biosensor for bacterial meningitis detection. Biosens Bioelectron 2014; 59:200-7. [PMID: 24727606 DOI: 10.1016/j.bios.2014.03.036] [Citation(s) in RCA: 66] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2013] [Revised: 03/07/2014] [Accepted: 03/07/2014] [Indexed: 02/01/2023]
Abstract
Zinc oxide (ZnO) nanostructures possessing flower-like morphology have been synthesised onto platinized silicon substrate by simple and economical hydrothermal method. The interaction of physically immobilized single stranded thiolated DNA (ss th-DNA) probe of N. meningitides onto the nanostructured ZnO (ZNF) matrix surface have been investigated using cyclic voltammetry (CV) and electrochemical impeadance spectroscopy (EIS). The electrochemical sensing response behaviour of the DNA bioelectrode (ss th-DNA/ZNF/Pt/Si) has been studied by both differential pulse voltammetric (DPV) as well as impedimetric techniques. The fabricated DNA biosensor can quantify wide range of the complementary target ss th-DNA in the range 5-240 ng μl(-1) with good linearity (R=0.98), high sensitivity (168.64 μA ng(-1) μl cm(-2)) and low detection limit of about 5 ng μl(-1). Results emphasise that the fabricated flower-like ZnO nanostructures offer a useful platform for the immobilization of DNA molecules and could be exploited for efficient detection of complementary target single stranded DNA corresponding to N. meningitides.
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Affiliation(s)
- Manvi Tak
- Department of Physics and Astrophysics, University of Delhi, Delhi 110007, India
| | - Vinay Gupta
- Department of Physics and Astrophysics, University of Delhi, Delhi 110007, India
| | - Monika Tomar
- Department of Physics, Miranda House, University of Delhi, Delhi 110007, India.
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26
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Wang Z, Zhang J, Zhu C, Wu S, Mandler D, Marks RS, Zhang H. Amplified detection of femtomolar DNA based on a one-to-few recognition reaction between DNA-Au conjugate and target DNA. NANOSCALE 2014; 6:3110-3115. [PMID: 24488333 DOI: 10.1039/c3nr05625b] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
A sensitive electrochemical DNA biosensor based on the amplification of Au nanoparticles (AuNPs) has been developed. The AuNPs were modified with two types of signaling reporter DNAs, i.e. a methylene blue probe (MB-probe 2-SH) and T10 with a methylene blue signaling molecule (MB-T10-SH), forming DNA-AuNP conjugates. The MB-probe 2-SH is complementary to the target DNA, while MB-T10-SH is not. The presence of MB-T10-SH reduces the cross-reaction between target DNA and MB-probe 2-SH on the AuNPs, resulting in increased sensitivity of the biosensor. In our assay, the DNA sensor is fabricated by immobilizing a capture probe on the surface of the Au electrode, which then hybridizes with the corresponding target DNA, and further hybridizes with a DNA-Au conjugate. The signal of MB is measured by differential pulse voltammetry, while the DNA-Au conjugate enables the detection of target DNA in the linear range of 10(-13) to 10(-8) M with the detection limit as low as 50 fM.
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Affiliation(s)
- Zhijuan Wang
- School of Materials Science and Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, Singapore.
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27
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Taleat Z, Cristea C, Marrazza G, Mazloum-Ardakani M, Săndulescu R. Electrochemical immunoassay based on aptamer–protein interaction and functionalized polymer for cancer biomarker detection. J Electroanal Chem (Lausanne) 2014. [DOI: 10.1016/j.jelechem.2014.01.015] [Citation(s) in RCA: 54] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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28
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Wang F, Lu CH, Willner I. From cascaded catalytic nucleic acids to enzyme-DNA nanostructures: controlling reactivity, sensing, logic operations, and assembly of complex structures. Chem Rev 2014; 114:2881-941. [PMID: 24576227 DOI: 10.1021/cr400354z] [Citation(s) in RCA: 486] [Impact Index Per Article: 48.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Fuan Wang
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem , Jerusalem 91904, Israel
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29
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30
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Chen YT, Liu YC, Fang WF, Huang CJ, Fan SK, Chen WJ, Chang WT, Huang CH, Yang JT. DNA diagnosis in a microseparator based on particle aggregation. Biosens Bioelectron 2013; 50:8-13. [PMID: 23827371 DOI: 10.1016/j.bios.2013.06.017] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2013] [Revised: 05/27/2013] [Accepted: 06/07/2013] [Indexed: 10/26/2022]
Abstract
A novel aggregation-based biosensing method to achieve detection of oligonucleotides in a pinched-flow fractionation (PFF) microseparator was developed. Employing functionalized polystyrene microspheres, this method is capable of the direct detection of the concentration of a specific DNA sequence. The label-free target DNA hybridizes with probe DNA of two kinds on the surface of the microspheres and causes the formation of an aggregate, thus increasing the average size of the aggregate particles. On introducing the sample into a PFF microseparator, the aggregate particles locate at a specific position depending on the size of the aggregate. Through a multi-outlet asymmetric PFF microseparator, the aggregate particles become separated according to outlets. Because the size of the aggregate particles is proportional to the concentration of the target DNA, a rapid quantitative analysis is achievable with an optical microscope. A biological dose-response curve with concentration in a dynamic range 0.33-10nM has been achieved; the limit of detection is between 33 and 330 pM. The specificity of the method and the potential to detect single-nucleotide polymorphism (SNP) of known concentration were examined. The method features simple, direct and cheap detection, with a prospect of detecting other biochemical samples with distinct aggregation behavior, such as heavy-metal ions, bacteria and proteins.
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Affiliation(s)
- Yu-Tzu Chen
- Department of Mechanical Engineering, National Taiwan University, No.1, Sec. 4, Roosevelt Road, Taipei 10617, Taiwan
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31
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Wang G, Chen L, Zhu Y, Wang L, Zhang X. Adenosine Triphosphate Sensing by Electrocatalysis with DNAzyme. ELECTROANAL 2013. [DOI: 10.1002/elan.201300425] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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32
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Facile synthesis of hierarchically aloe-like gold micro/nanostructures for ultrasensitive DNA recognition. Biosens Bioelectron 2013; 49:184-91. [DOI: 10.1016/j.bios.2013.05.012] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2013] [Revised: 04/24/2013] [Accepted: 05/06/2013] [Indexed: 11/22/2022]
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33
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Xu L, Su HR, Sun GR, Wang Y, Guo SJ, Zhang XR, Zhang SS, Xing SC. Fluorescein-labeled "arch-like" DNA probes for electrochemical detection of DNA on gold nanoparticle-modified gold electrodes. J Biotechnol 2013; 168:388-93. [PMID: 24140637 DOI: 10.1016/j.jbiotec.2013.09.022] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2013] [Revised: 09/26/2013] [Accepted: 09/30/2013] [Indexed: 10/26/2022]
Abstract
In the present study, a gold nanoparticle-modified gold electrode (nanogold electrode) was used to develop a novel fluorescein electrochemical DNA biosensor based on a target-induced conformational change. The nanogold electrode was obtained by electrodepositing gold nanoparticles onto a bare gold electrode. This modification not only immobilized probe oligonucleotides, but also adsorbed fluorescein onto the surface of the gold nanoparticles to form an "arch-like" structure. This article compares the electrochemical signal changes caused by the hybridization of "arch-like" DNA on nanogold electrode and linear DNA on bare gold electrode. The results showed that the adsorption effect of nanogold can enhance the sensitivity of the sensor. The linear range of target ssDNA is from 2.0 × 10(-9)M to 2.0 × 10(-8)M with a correlation coefficient of 0.9956 and detection limit (3σ) of 7.10 × 10(-10)M. Additionally, the specificity and hybridization response of this simple sensor were investigated.
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Affiliation(s)
- Lin Xu
- The Affiliated Hospital of Medical College Qingdao University, 266003, PR China
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34
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Gao A, Zou N, Dai P, Lu N, Li T, Wang Y, Zhao J, Mao H. Signal-to-noise ratio enhancement of silicon nanowires biosensor with rolling circle amplification. NANO LETTERS 2013; 13:4123-30. [PMID: 23937430 DOI: 10.1021/nl401628y] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
Herein, we describe a novel approach for rapid, label-free and specific DNA detection by applying rolling circle amplification (RCA) based on silicon nanowire field-effect transistor (SiNW-FET) for the first time. Highly responsive SiNWs were fabricated with a complementary metal oxide semiconductor (CMOS) compatible anisotropic self-stop etching technique which eliminated the need for hybrid method. The probe DNA was immobilized on the surface of SiNW, followed by sandwich hybridization with the perfectly matched target DNA and RCA primer that acted as a primer to hybridize the RCA template. The RCA reaction created a long single-stranded DNA (ssDNA) product and thus enhanced the electronic responses of SiNW significantly. The signal-to-noise ratio (SNR) as a figure-of-merit was analyzed to estimate the signal enhancement and possible detection limit. The nanosensor showed highly sensitive concentration-dependent conductance change in response to specific target DNA sequences. Because of the binding of an abundance of repeated sequences of RCA products, the SNR of >20 for 1 fM DNA detection was achieved, implying a detection floor of 50 aM. This RCA-based SiNW biosensor also discriminated perfectly matched target DNA from one-base mismatched DNA with high selectivity due to the substantially reduced nonspecific binding onto the SiNW surface through RCA. The combination of SiNW FET sensor with RCA will increase diagnostic capacity and the ability of laboratories to detect unexpected viruses, making it a potential tool for early diagnosis of gene-related diseases.
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Affiliation(s)
- Anran Gao
- State Key Laboratories of Transducer Technology & Science and Technology on Micro-system Laboratory, Shanghai Institute of Microsystem and Information Technology, Chinese Academy of Sciences , Shanghai, 200050, China
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35
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Liu P, Yang X, Sun S, Wang Q, Wang K, Huang J, Liu J, He L. Enzyme-free colorimetric detection of DNA by using gold nanoparticles and hybridization chain reaction amplification. Anal Chem 2013; 85:7689-95. [PMID: 23895103 DOI: 10.1021/ac4001157] [Citation(s) in RCA: 248] [Impact Index Per Article: 22.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
A novel, high sensitive, and specific DNA assay based on gold nanoparticle (AuNP) colorimetric detection and hybridization chain reaction (HCR) amplification has been demonstrated in this article. Two hairpin auxiliary probes were designed with single-stranded DNA (ssDNA) sticky ends which stabilize AuNPs and effectively prevent them from salt-induced aggregation. The target DNA hybridized with the hairpin auxiliary probes and triggered the formation of extended double-stranded DNA (dsDNA) polymers through HCR. As a result, the formed dsDNA polymers provide less stabilization without ssDNA sticky ends, and AuNPs undergo aggregation when salt concentration is increased. Subsequently, a pale purple-to-blue color variation is observed in the colloid solution. The system is simple in design and convenient in operation. The novel strategy eliminates the need for enzymatic reactions, separation processes, chemical modifications, and sophisticated instrumentation. The detection and discrimination process can be seen with the naked eye. The detection limit of this method is lower than or at least comparable to previous AuNP-based methods. Importantly, the protocol offers high selectivity for the determination between perfectly matched target oligonucleotides and targets with single base-pair mismatches.
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Affiliation(s)
- Pei Liu
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province, Changsha 410082, China
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36
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Ren W, Liu H, Yang W, Fan Y, Yang L, Wang Y, Liu C, Li Z. A cytometric bead assay for sensitive DNA detection based on enzyme-free signal amplification of hybridization chain reaction. Biosens Bioelectron 2013; 49:380-6. [PMID: 23807231 DOI: 10.1016/j.bios.2013.05.055] [Citation(s) in RCA: 51] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2013] [Revised: 05/19/2013] [Accepted: 05/30/2013] [Indexed: 01/20/2023]
Abstract
A versatile flow cytometric bead assay (CBA) is developed for sensitive DNA detection by integrating the advantages of hybridization chain reaction (HCR) for enzyme-free signal amplification, flow cytometry for robust and rapid signal readout as well as magnetic beads (MBs) for facile separation. In this HCR-CBA, a biotinylated hairpin DNA (Bio-H1) is firstly immobilized on streptavidin-functionalized MBs. Upon the addition of target DNA, each target would hybridize with one Bio-H1 to open its hairpin structure and subsequently initiate a cascade of hybridization events between two species of fluorescent DNA hairpin probes (H1*/H2*) to form a nicked double helical DNA structure, resulting in amplified accumulation of numerous fluorophores on the MBs. Finally, the fluorescent MBs are directly analyzed by flow cytometry. This technique enables quantitative analysis of the HCR products anchored on the MBs as a function of target DNA concentration, and analysis of each sample can be completed within few minutes. Therefore, the HCR-CBA approach provides a practical DNA assay with greatly improved sensitivity. The detection limit of a model DNA target is 0.5 pM (3σ), which is about 3 orders of magnitude lower compared with traditional hybridization methods without HCR. Furthermore, the signal of complementary target can be clearly distinguished from that of single-base mismatched sequences, indicating the high specificity of the HCR-CBA. Moreover, this strategy is also successfully applied to the DNA analysis in complex biological samples, showing great potential in gene analysis and disease diagnosis in clinical samples.
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Affiliation(s)
- Wei Ren
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis, Ministry of Education; College of Chemistry and Environmental Science, Hebei University, Baoding 071002, Hebei Province, PR China
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37
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Yola ML, Atar N, Üstündağ Z, Solak AO. A novel voltammetric sensor based on p-aminothiophenol functionalized graphene oxide/gold nanoparticles for determining quercetin in the presence of ascorbic acid. J Electroanal Chem (Lausanne) 2013. [DOI: 10.1016/j.jelechem.2013.03.016] [Citation(s) in RCA: 131] [Impact Index Per Article: 11.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
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38
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Zhang J, Wu X, Yang W, Chen J, Fu F. Ultra-sensitive electrochemical detection of single nucleotide polymorphisms based on an electrically controllable magnetic gold electrode. Chem Commun (Camb) 2013; 49:996-8. [DOI: 10.1039/c2cc37783g] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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39
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Gai W, Yang Q, Xiang J, Jiang W, Li Q, Sun H, Yu L, Shang Q, Guan A, Zhang H, Tang Y. A novel signal-amplified strategy based on assembly reactivation for highly specific and sensitive detection of chair-like antiparallel G-quadruplex. Analyst 2012. [PMID: 23207802 DOI: 10.1039/c2an36557j] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Specific and sensitive identification of special G-quadruplex structures is an important issue and attracts increasing interest. In this paper, a novel, signal-amplified strategy is proposed for the specific detection of G-quadruplexes, which is very different from those currently-dominating methods based on single-molecular fluorescent probes. In this strategy, a 'special designed' cyanine dye loses the ability of self-assembly in solution but still keeps its assembly potential. When the G-quadruplex with a specific structure is present, the assembly potential of the dye is reactivated so that it can assemble to J-aggregates. Other DNA motifs without this specific structure cannot activate its assembly potential no matter if they are double-stranded or quadruplex DNA. Since the assembly is quite specific to structure, the induced procedure of the aggregates provides high specificity for this strategy. In addition, the attached aggregates exponentially amplify the signal due to the signal stacking of those monomers within the aggregates, which then significantly enhances the sensitivity of this strategy. As a result, this strategy exhibits a highly specific and sensitive detection ability for specific G-quadruplex structures both between quadruplexes and non-quadruplexes and among diverse quadruplex motifs.
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Affiliation(s)
- Wei Gai
- Beijing National Laboratory for Molecular Sciences (BNLMS), Centre for Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences (ICCAS), Beijing, 100190, PR China
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40
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Huang J, Su X, Li Z. Enzyme-Free and Amplified Fluorescence DNA Detection Using Bimolecular Beacons. Anal Chem 2012; 84:5939-43. [DOI: 10.1021/ac3004727] [Citation(s) in RCA: 120] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Jiahao Huang
- Department of Mechanical Engineering, The Hong Kong University of Science and Technology,
Clear Water Bay, Kowloon, Hong Kong
| | - Xuefen Su
- School of Public Health and
Primary Care, Faculty of Medicine, Prince of Wales Hospital, The Chinese University of Hong Kong, Shatin, New Territories,
Hong Kong
| | - Zhigang Li
- Department of Mechanical Engineering, The Hong Kong University of Science and Technology,
Clear Water Bay, Kowloon, Hong Kong
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41
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Saha K, Agasti SS, Kim C, Li X, Rotello VM. Gold nanoparticles in chemical and biological sensing. Chem Rev 2012; 112:2739-79. [PMID: 22295941 PMCID: PMC4102386 DOI: 10.1021/cr2001178] [Citation(s) in RCA: 2742] [Impact Index Per Article: 228.5] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Krishnendu Saha
- Department of Chemistry, University of Massachusetts Amherst, 710 North Pleasant Street, Amherst, MA 01003, USA
| | - Sarit S. Agasti
- Department of Chemistry, University of Massachusetts Amherst, 710 North Pleasant Street, Amherst, MA 01003, USA
| | - Chaekyu Kim
- Department of Chemistry, University of Massachusetts Amherst, 710 North Pleasant Street, Amherst, MA 01003, USA
| | - Xiaoning Li
- Department of Chemistry, University of Massachusetts Amherst, 710 North Pleasant Street, Amherst, MA 01003, USA
| | - Vincent M. Rotello
- Department of Chemistry, University of Massachusetts Amherst, 710 North Pleasant Street, Amherst, MA 01003, USA
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42
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Alubaidy M, Soleymani L, Venkatakrishnan K, Tan B. Femtosecond laser nanostructuring for femtosensitive DNA detection. Biosens Bioelectron 2012; 33:82-7. [DOI: 10.1016/j.bios.2011.12.023] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2011] [Revised: 11/30/2011] [Accepted: 12/14/2011] [Indexed: 10/14/2022]
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43
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Zhou X, Xing D. Amplified electrochemiluminescence detection of nucleic acids by hairpin probe-based isothermal amplification. Analyst 2012; 137:4188-92. [DOI: 10.1039/c2an35367a] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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44
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Matharu Z, Bandodkar AJ, Gupta V, Malhotra BD. Fundamentals and application of ordered molecular assemblies to affinity biosensing. Chem Soc Rev 2012; 41:1363-402. [DOI: 10.1039/c1cs15145b] [Citation(s) in RCA: 83] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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45
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Shimron S, Wang F, Orbach R, Willner I. Amplified detection of DNA through the enzyme-free autonomous assembly of hemin/G-quadruplex DNAzyme nanowires. Anal Chem 2011; 84:1042-8. [PMID: 22242838 DOI: 10.1021/ac202643y] [Citation(s) in RCA: 273] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
An enzyme-free amplified detection platform is described using the horseradish peroxidase (HRP)-mimicking DNAzyme as an amplifying label. Two hairpin structures that include three-fourths and one-fourth of the HRP-mimicking DNAzyme in caged, inactive configurations are used as functional elements for the amplified detection of the target DNA. In the presence of the analyte DNA, one of the hairpins is opened, and this triggers the autonomous cross-opening of the two hairpins using the strand displacement principle. This leads to the formation of nanowires consisting of the HRP-mimicking DNAzyme. The resulting DNA nanowires act as catalytic labels for the colorimetric or chemiluminescent readout of the sensing processes (the term "enzyme-free" refers to a protein-free catalyst). The analytical platform allows the sensing of the analyte DNA with a detection limit corresponding to 1 × 10(-13) M. The optimized system acts as a versatile sensing platform, and by coaddition of a "helper" hairpin structure any DNA sequence may be analyzed by the system. This is exemplified with the detection of the BRCA1 oncogene with a detection limit of 1 × 10(-13) M.
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Affiliation(s)
- Simcha Shimron
- Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
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46
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Kong FY, Xu-Zhu, Xu MT, Xu JJ, Chen HY. Gold nanoparticle/DNA/methylene blue nanocomposites for the ultrasensitive electrochemical detection of carcinoembryonic antigen. Electrochim Acta 2011. [DOI: 10.1016/j.electacta.2011.08.018] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
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47
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Liu Z, Zhang W, Zhu S, Zhang L, Hu L, Parveen S, Xu G. Ultrasensitive signal-on DNA biosensor based on nicking endonuclease assisted electrochemistry signal amplification. Biosens Bioelectron 2011; 29:215-8. [PMID: 21855318 DOI: 10.1016/j.bios.2011.07.076] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2011] [Revised: 07/18/2011] [Accepted: 07/31/2011] [Indexed: 10/17/2022]
Abstract
Combining the advantages of signal-on strategy and nicking endonuclease assisted electrochemistry signal amplification (NEAESA), a new sensitive and signal-on electrochemical DNA biosensor for the sequence specific DNA detection based on NEAESA has been developed for the first time. A Hairpin-shape probe (HP), containing the target DNA recognition sequence, is thiol-modified at 5' end and immobilized on gold electrode via Au-S bonding. Subsequently, the HP modified electrode is hybridized with target DNA to form a duplex. Then the nicking endonuclease is added and nicks the HP strand in the duplex. After nicking, 3'-ferrocene (Fc)-labeled part complementary probe (Fc-PCP) is introduced on the electrode surface by hybridizing with the thiol-modified HP fragment, which results in the generation of electrochemical signal. Hence, the DNA biosensor is constructed successfully. The present DNA biosensor shows a wide linear range of 5.0×10(-13)-5.0×10(-8)M for detecting target DNA, with a low detection limit of 0.167pM. The proposed strategy does not require any amplifying labels (enzymes, DNAzymes, nanoparticles, etc.) for biorecognition events, which avoids false-positive results to occur frequently. Moreover, the strategy has the benefits of simple preparation, convenient operation, good selectivity, and high sensitivity. With the advantages mentioned above, this simple and sensitive strategy has the potential to be integrated in portable, low cost and simplified devices for diagnostic applications.
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Affiliation(s)
- Zhongyuan Liu
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, PR China
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48
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Pelossof G, Tel-Vered R, Liu XQ, Willner I. Amplified surface plasmon resonance based DNA biosensors, aptasensors, and Hg2+ sensors using hemin/G-quadruplexes and Au nanoparticles. Chemistry 2011; 17:8904-12. [PMID: 21726008 DOI: 10.1002/chem.201100601] [Citation(s) in RCA: 84] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2011] [Indexed: 11/07/2022]
Abstract
Thiolated nucleic acid hairpin nanostructures that include in their stem region a "caged" G-quadruplex sequence, and in their single-stranded loop region oligonucleotide recognition sequences for DNA, adenosine monophosphate (AMP), or Hg(2+) ions were linked to bare Au surfaces or to Au nanoparticles (NPs) linked to Au surfaces. The opening of the hairpin nanostructures associated with the bare Au surface by the complementary target DNA, AMP substrate, or Hg(2+) ions, in the presence of hemin, led to the self-assembly of hemin/G-quadruplexes on the surface. The resulting dielectric changes on the surface exhibited shifts in the surface plasmon resonance (SPR) spectra, thus providing a readout signal for the recognition events. A similar opening of the hairpin nanostructures, immobilized on the Au NPs associated with the Au surface, by the DNA, AMP, or Hg(2+) led to an ultrasensitive SPR-amplified detection of the respective analytes. The amplification originated from the coupling between the localized surface plasmon associated with the NPs and the surface plasmon wave, an effect that cooperatively amplifies the SPR shifts that result from the formation of the hemin/G-quadruplexes. The different sensing platforms reveal impressive sensitivities and selectivities toward the target analytes.
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Affiliation(s)
- Gilad Pelossof
- Institute of Chemistry, The Hebrew University of Jerusalem, Jerusalem, Israel
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Gasser G, Sosniak AM, Metzler-Nolte N. Metal-containing peptide nucleic acid conjugates. Dalton Trans 2011; 40:7061-76. [PMID: 21541385 DOI: 10.1039/c0dt01706j] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Peptide Nucleic Acids (PNAs) are non-natural DNA/RNA analogues with favourable physico-chemical properties and promising applications. Discovered nearly 20 years ago, PNAs have recently re-gained quite a lot of attention. In this Perspective article, we discuss the latest advances on the preparation and utilisation of PNA monomers and oligomers containing metal complexes. These metal- conjugates have found applications in various research fields such as in the sequence-specific detection of nucleic acids, in the hydrolysis of nucleic acids and peptides, as radioactive probes or as modulators of PNA·DNA hybrid stability, and last but not least as probes for molecular and cell biology.
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Affiliation(s)
- Gilles Gasser
- Institute of Inorganic Chemistry, University of Zurich, Winterthurerstrasse 190, CH-8057, Zurich, Switzerland.
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Liu ZF, Ge J, Zhao XS. Quantitative detection of adenosine in urine using silver enhancement of aptamer-gold nanoparticle aggregation and progressive dilution. Chem Commun (Camb) 2011; 47:4956-8. [PMID: 21445394 DOI: 10.1039/c1cc10460h] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
We implement the progressive dilution strategy to bring assays based on gold nanoparticles to a quantitative level. This is demonstrated by the detection of adenosine in urine by combining progressive dilution with the silver enhancement of aptamer-gold nanoparticle aggregation, giving good accuracy, high selectivity, and an unlimited dynamic range above LOD.
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Affiliation(s)
- Zhao Fang Liu
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Structural Chemistry of Unstable and Stable Species, Department of Chemical Biology, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
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