1
|
Jamal RB, Vitasovic T, Gosewinkel U, Ferapontova EE. Detection of E.coli 23S rRNA by electrocatalytic "off-on" DNA beacon assay with femtomolar sensitivity. Biosens Bioelectron 2023; 228:115214. [PMID: 36906990 DOI: 10.1016/j.bios.2023.115214] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2022] [Revised: 02/27/2023] [Accepted: 03/06/2023] [Indexed: 03/09/2023]
Abstract
Prevention of food spoilage, environmental bio-contamination, and pathogenic infections requires rapid and sensitive bacterial detection systems. Among microbial communities, the bacterial strain of Escherichia coli is most widespread, with pathogenic and non-pathogenic strains being biomarkers of bacterial contamination. Here, we have developed a fM-sensitive, simple, and robust electrocatalytically-amplified assay facilitating specific detection of E.coli 23S ribosomal rRNA, in the total RNA sample, after its site-specific cleavage by RNase H enzyme. Gold screen-printed electrodes (SPE) were electrochemically pre-treated to be productively modified with a methylene-blue (MB) - labelled hairpin DNA probes, which hybridization with the E. coli-specific DNA placed MB in the top region of the DNA duplex. The formed duplex acted as an electrical wire, mediating electron transfer from the gold electrode to the DNA-intercalated MB, and further to ferricyanide in solution, enabling its electrocatalytic reduction otherwise impeded on the hairpin-modified SPEs. The assay facilitated 20 min 1 fM detection of both synthetic E. coli DNA and 23S rRNA isolated from E.coli (equivalent to 15 CFU mL-1), and can be extended to fM analysis of nucleic acids isolated from any other bacteria.
Collapse
Affiliation(s)
- Rimsha B Jamal
- Interdisciplinary Nanoscience Center (iNANO) and Aarhus University Center for Water Technology (WATEC), Faculty of Science, Aarhus University, Gustav Wieds Vej 14, 8000, Aarhus C, Denmark
| | - Toni Vitasovic
- Interdisciplinary Nanoscience Center (iNANO) and Aarhus University Center for Water Technology (WATEC), Faculty of Science, Aarhus University, Gustav Wieds Vej 14, 8000, Aarhus C, Denmark
| | - Ulrich Gosewinkel
- Department of Environmental Science, Aarhus University, Frederiksborgvej 399, DK-4000, Roskilde, Denmark
| | - Elena E Ferapontova
- Interdisciplinary Nanoscience Center (iNANO) and Aarhus University Center for Water Technology (WATEC), Faculty of Science, Aarhus University, Gustav Wieds Vej 14, 8000, Aarhus C, Denmark.
| |
Collapse
|
2
|
Alafeef M, Skrodzki D, Moitra P, Gunaseelan N, Pan D. Binding-Induced Folding of DNA Oligonucleotides Targeted to the Nucleocapsid Gene Enables Electrochemical Sensing of SARS-CoV-2. ACS APPLIED BIO MATERIALS 2023; 6:1133-1145. [PMID: 36877613 PMCID: PMC9999945 DOI: 10.1021/acsabm.2c00984] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2022] [Accepted: 02/19/2023] [Indexed: 03/07/2023]
Abstract
In the wake of the COVID-19 pandemic, millions of confirmed cases and deaths have been reported around the world. COVID-19 spread can be slowed and eventually stopped by a rapid test to diagnose positive cases of the disease on the spot. It is still important to test for COVID-19 quickly regardless of the availability of the vaccine. Using the binding-induced folding principle, we developed an electrochemical test for detecting SARS-CoV-2 with no RNA extraction or nucleic acid amplification. The test showed high sensitivity with a limit of detection of 2.5 copies/μL. An electrode mounted with a capture probe and a portable potentiostat are used to conduct the test. To target the N-gene of SARS-CoV-2, a highly specific oligo-capturing probe was used. Based on the binding-induced "folding" principle, the sensor detects binding between the oligo and RNA. When the target is absent, the capture probe tends to form a hairpin as a secondary structure, retaining the redox reporter close to the surface. This can be seen as a large anodic and cathodic peak current. When the target RNA is present, the hairpin structure will open to hybridize with its complementary sequence, causing the redox reporter to pull away from the electrode. Consequently, the anodic/cathodic peak currents are reduced, indicating the presence of the SARS-CoV-2 genetic material. Validation of the test performance was performed using 122 COVID-19 clinical samples (55 positives and 67 negatives) and benchmarked to the gold standard reverse transcription-polymerase chain reaction (RT-PCR) test. As a result of our test, the accuracy, sensitivity, and specificity have been measured at 98.4%, 98.2%, and 98.5%, respectively.
Collapse
Affiliation(s)
- Maha Alafeef
- Bioengineering
Department, The University of Illinois at
Urbana-Champaign, Urbana, Illinois 61801, United States
- Departments
of Diagnostic Radiology and Nuclear Medicine and Pediatrics, Center
for Blood Oxygen Transport and Hemostasis, Health Sciences Research
Facility III, University of Maryland School
of Medicine, 670 W Baltimore
Street, Baltimore, Maryland 21201, United States
- Biomedical
Engineering Department, Jordan University
of Science and Technology, Irbid 22110, Jordan
- Department
of Chemical, Biochemical and Environmental Engineering, University of Maryland, Baltimore County, Baltimore, Maryland 21250, United States
- Department
of Nuclear Engineering, Pennsylvania State
University, State
College, Pennsylvania 16801, United States
| | - David Skrodzki
- Department
of Materials Science and Engineering, Pennsylvania
State University, State College, Pennsylvania 16801, United States
| | - Parikshit Moitra
- Department
of Nuclear Engineering, Pennsylvania State
University, State
College, Pennsylvania 16801, United States
| | - Nivetha Gunaseelan
- Biomedical
Engineering Department, Pennsylvania State
University, State College, Pennsylvania 16801, United States
| | - Dipanjan Pan
- Bioengineering
Department, The University of Illinois at
Urbana-Champaign, Urbana, Illinois 61801, United States
- Departments
of Diagnostic Radiology and Nuclear Medicine and Pediatrics, Center
for Blood Oxygen Transport and Hemostasis, Health Sciences Research
Facility III, University of Maryland School
of Medicine, 670 W Baltimore
Street, Baltimore, Maryland 21201, United States
- Department
of Chemical, Biochemical and Environmental Engineering, University of Maryland, Baltimore County, Baltimore, Maryland 21250, United States
- Department
of Nuclear Engineering, Pennsylvania State
University, State
College, Pennsylvania 16801, United States
- Department
of Materials Science and Engineering, Pennsylvania
State University, State College, Pennsylvania 16801, United States
- Biomedical
Engineering Department, Pennsylvania State
University, State College, Pennsylvania 16801, United States
| |
Collapse
|
3
|
Chip-Based and Wearable Tools for Isothermal Amplification and Electrochemical Analysis of Nucleic Acids. CHEMOSENSORS 2022. [DOI: 10.3390/chemosensors10070278] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
The determination of nucleic acids has become an analytical diagnostic method with many applications in fields such as biomedical sciences, environmental monitoring, forensic identification, and food safety. Among the different methods for nucleic acid analysis, those based on the polymerase chain reaction (PCR) are nowadays considered the gold standards. Isothermal amplification methods are an interesting alternative, especially in the design of chip-based architectures. Biosensing platforms hold great promise for the simple and rapid detection of nucleic acids since they can be embedded in lab-on-a-chip tools to perform nucleic acid extraction, amplification, and detection steps. Electrochemical transduction schemes are particularly interesting in the design of small and portable devices due to miniaturization, low-energy consumption, and multianalyte detection capability. The aim of this review is to summarize the different applications of isothermal amplification methods combined with electrochemical biosensing techniques in the development of lab-on-a-chip tools and wearable sensors. Different isothermal amplification methods are revised, and examples of different applications are discussed. Finally, a discussion on patented devices is also included.
Collapse
|
4
|
Lin Q, Wu J, Jiang L, Kong D, Xing C, Lu C. Target-driven assembly of DNAzyme probes for simultaneous electrochemical detection of multiplex microRNAs. Analyst 2021; 147:262-267. [PMID: 34935782 DOI: 10.1039/d1an02036f] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this work, we employed target-driven assembly of a Mg2+-dependent DNAzyme to develop an ultrasensitive electrochemical biosensor for the simultaneous detection of miRNA-21 and miRNA-141. The target miRNAs could hybridize with two partial DNAzymes, facilitating the formation of a stable and active Mg2+-dependent DNAzyme. With the help of the Mg2+ cofactor, the DNAzyme could circularly cleave the ferrocene (Fc) or methylene blue (MB) labelled hairpin probes and release Fc and MB labels from the electrode surface, which could significantly amplify the current suppression to achieve multiple detection of small amounts of miRNA-21 and miRNA-141. This electrochemical biosensor showed high sensitivity and selectivity for the simultaneous detection of miRNA-21 and miRNA-141. Furthermore, the proposed method was also successfully applied for the determination of miRNA-21 and miRNA-141 from diluted serum samples. Overall, the proposed sensor showed several considerable advantages including simple preparation, high sensitivity, and enzyme-free signal amplification. Therefore, the proposed electrochemical biosensor could be used as a highly efficient amplification strategy for simultaneous detection of various miRNA biomarkers in bioanalysis and clinical diagnostics.
Collapse
Affiliation(s)
- Qitian Lin
- MOE Key Laboratory for Analytical Science of Food Safety and Biology, Fujian Provincial Key Laboratory of Analysis and Detection Technology for Food Safety, College of Chemistry, Fuzhou University, Fuzhou 350116, P.R. China.
| | - Junye Wu
- MOE Key Laboratory for Analytical Science of Food Safety and Biology, Fujian Provincial Key Laboratory of Analysis and Detection Technology for Food Safety, College of Chemistry, Fuzhou University, Fuzhou 350116, P.R. China.
| | - Lili Jiang
- MOE Key Laboratory for Analytical Science of Food Safety and Biology, Fujian Provincial Key Laboratory of Analysis and Detection Technology for Food Safety, College of Chemistry, Fuzhou University, Fuzhou 350116, P.R. China.
| | - Dexian Kong
- College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
| | - Chao Xing
- Fujian Key Laboratory of Functional Marine Sensing Materials, Center for Advanced Marine Materials and Smart Sensors, College of Materials and Chemical Engineering, Minjiang University, Fuzhou 350108, P. R. China.
| | - Chunhua Lu
- MOE Key Laboratory for Analytical Science of Food Safety and Biology, Fujian Provincial Key Laboratory of Analysis and Detection Technology for Food Safety, College of Chemistry, Fuzhou University, Fuzhou 350116, P.R. China.
| |
Collapse
|
5
|
Abdul Rashid JI, Yusof NA, Abdullah J, Shomiad Shueb RH. Strategies for the preparation of non-amplified and amplified genomic dengue gene samples for electrochemical DNA biosensing applications. RSC Adv 2021; 12:1-10. [PMID: 35424522 PMCID: PMC8978653 DOI: 10.1039/d1ra06753b] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2021] [Accepted: 11/25/2021] [Indexed: 11/21/2022] Open
Abstract
The application of electrochemical DNA biosensors in real genomic sample detection is challenging due to the existence of complex structures and low genomic concentrations, resulting in inconsistent and low current signals. This work highlights strategies for the treatment of non-amplified and amplified genomic dengue virus gene samples based on real samples before they can be used directly in our DNA electrochemical sensing system, using methylene blue (MB) as a redox indicator. The main steps in this study for preparing non-amplified cDNA were cDNA conversion, heat denaturation, and sonication. To prepare amplified cDNA dengue virus genomic samples using an RT-PCR approach, we optimized a few parameters, such as the annealing temperature, sonication time, and reverse to forward (R/F) primer concentration ratio. We discovered that the generated methylene blue (MB) signals during the electrochemical sensing of non-amplified and amplified samples differ due to the different MB binding affinities based on the sequence length and base composition. The findings show that our developed electrochemical DNA biosensor successfully discriminates MB current signals in the presence and absence of the target genomic dengue virus, indicating that both samples were successfully treated. This work also provides interesting information about the critical factors in the preparation of genomic gene samples for developing miniaturized PCR-based electrochemical sensing applications in the future. We also discuss the limitations and provide suggestions related to using redox-indicator-based electrochemical biosensors to detect real genomic nucleic acid genes.
Collapse
Affiliation(s)
- Jahwarhar Izuan Abdul Rashid
- Department of Chemistry and Biology, Centre for Defence Foundation Studies, National Defence University of Malaysia Sungai Besi Camp 57000 Kuala Lumpur Malaysia
| | - Nor Azah Yusof
- Department of Chemistry, Faculty of Science, Universiti Putra Malaysia Serdang Selangor 43400 Malaysia
| | - Jaafar Abdullah
- Department of Chemistry, Faculty of Science, Universiti Putra Malaysia Serdang Selangor 43400 Malaysia
| | - Rafidah Hanim Shomiad Shueb
- Institute for Research in Molecular Medicine (INFORMM), Universiti Sains Malaysia 16150 Kubang Kerian Kelantan Malaysia
| |
Collapse
|
6
|
He YQ, Gao Y, Gu HW, Meng XZ, Yi HC, Chen Y, Sun WY. Target-induced activation of DNAzyme for sensitive detection of bleomycin by using a simple MOF-modified electrode. Biosens Bioelectron 2021; 178:113034. [DOI: 10.1016/j.bios.2021.113034] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2020] [Revised: 12/28/2020] [Accepted: 01/20/2021] [Indexed: 12/26/2022]
|
7
|
Yiwei X, Yahui L, Weilong T, Jiyong S, Xiaobo Z, Wen Z, Xinai Z, Yanxiao L, Changqiang Z, Lele A, Hong L, Tingting S. Electrochemical determination of hantavirus using gold nanoparticle-modified graphene as an electrode material and Cu-based metal-organic framework assisted signal generation. Mikrochim Acta 2021; 188:112. [PMID: 33675442 DOI: 10.1007/s00604-021-04769-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2020] [Accepted: 02/20/2021] [Indexed: 11/29/2022]
Abstract
An electrochemical biosensor was prepared for nucleic acid-based hantavirus detection using a Cu-based metal-organic framework (CuMOF) as a signal tag. The CuMOF was synthesized by the solvothermal method and then covalently bonded with signal DNA (sDNA) probes. The Au nanoparticles and reduced graphene oxide composite were deposited on the electrode surface by electroreduction as support substrate and was then functionalized with capture DNA (cDNA) probes by self-assembly. Through the complementary base pairing, the target DNA (tDNA) fragment of hantavirus hybridized with the cDNA and the sDNA in a sandwich-type format. The tDNA was detected according to the current signal of the CuMOF catalyzed reaction using o-phenylenediamine as redox substrate. The peak current of the biosensor at - 0.55 V increased linearly in proportion to the logarithmic value of the tDNA concentration from 10-15 to 10-9 mol/L, with a detection limit of 0.74 × 10-15 mol/L. Moreover, the proposed biosensor was successfully applied to detect hantavirus and was able to distinguish hantavirus from other arboviruses.
Collapse
Affiliation(s)
- Xu Yiwei
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang, 212013, China
| | - Li Yahui
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang, 212013, China
| | - Tan Weilong
- Department of Vector Control, Huadong Research Institute for Medicine and Biotechnics, Nanjing, 210002, China.
| | - Shi Jiyong
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang, 212013, China
| | - Zou Xiaobo
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang, 212013, China.
| | - Zhang Wen
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang, 212013, China
| | - Zhang Xinai
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang, 212013, China
| | - Li Yanxiao
- Centre for instrumental analysis, Jiangsu University, Zhenjiang, 212013, China
| | - Zhu Changqiang
- Department of Vector Control, Huadong Research Institute for Medicine and Biotechnics, Nanjing, 210002, China
| | - Ai Lele
- Department of Vector Control, Huadong Research Institute for Medicine and Biotechnics, Nanjing, 210002, China
| | - Li Hong
- Department of Vector Control, Huadong Research Institute for Medicine and Biotechnics, Nanjing, 210002, China
| | - Shen Tingting
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang, 212013, China
| |
Collapse
|
8
|
Sinha K, Sharma P, Som Chaudhury S, Das Mukhopadhyay C, Ruidas B. Species detection using probe technology. FOOD TOXICOLOGY AND FORENSICS 2021:313-346. [DOI: 10.1016/b978-0-12-822360-4.00012-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/19/2023]
|
9
|
Ma T, Martens I, Bizzotto D. Thermal Stability of Thiolated DNA SAMs in Buffer: Revealing the Influence of Surface Crystallography and DNA Coverage via In Situ Combinatorial Surface Analysis. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2020; 36:14495-14506. [PMID: 33231463 DOI: 10.1021/acs.langmuir.0c01828] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
The thermal stability of thiol based DNA SAMs prepared on gold surfaces is an important parameter that is correlated to sensor lifetime. The thermal stability of DNA SAMs was evaluated in aqueous buffer through the use of fluorophore labeled DNA, a single crystal gold bead electrode, and microscopy. The stability of different crystallographic regions on the electrode was studied for thermal treatments up to 95 °C for 90 min. Using a in situ combinatorial surface analytical measurement showed that the crystallography of the underlying gold surface played a significant role, with the square or rectangular lattices (e.g., 110, 100, 210) having the highest stability. Surfaces with hexagonal lattices (e.g., 111, 311, 211) were less stable toward thermal treatments. These crystallographic trends were observed for both high and low coverage DNA SAMs. High coverage DNA SAMs were the most stable, with stability decreasing with decreasing coverage on average. Increasing DNA SAM coverage appears to slow the kinetics of thermal desorption, but the coordination to the underlying surface determined their relative stability. Preparing the DNA SAMs under nominally similar conditions were found to create surfaces that were similar at room temperature, but had significantly different thermal stability. Optimal DNA sensing with these surfaces most often requires low coverage DNA SAMs which results in poor thermal stability, which is predictive of a poor shelf life, making optimization of both parameters challenging. Furthermore, the crystallographically specific results should be taken into account when studying the typically used polycrystalline substrates since the underlying surface crystallography maybe different for different samples. It appears that preparing DNA SAMs with low coverage and significant thermal stability will be challenging using the current SAM preparation procedures.
Collapse
Affiliation(s)
- Tianxiao Ma
- Advanced Materials and Process Engineering Laboratory (AMPEL), University of British Columbia, Vancouver V6T 1Z4, Canada
- Department of Chemistry, University of British Columbia, Vancouver V6T 1Z4, Canada
| | - Isaac Martens
- Advanced Materials and Process Engineering Laboratory (AMPEL), University of British Columbia, Vancouver V6T 1Z4, Canada
- Department of Chemistry, University of British Columbia, Vancouver V6T 1Z4, Canada
| | - Dan Bizzotto
- Advanced Materials and Process Engineering Laboratory (AMPEL), University of British Columbia, Vancouver V6T 1Z4, Canada
- Department of Chemistry, University of British Columbia, Vancouver V6T 1Z4, Canada
| |
Collapse
|
10
|
Lin M, Wan H, Zhang J, Wang Q, Hu X, Xia F. Electrochemical DNA Sensors Based on MoS 2-AuNPs for Polynucleotide Kinase Activity and Inhibition Assay. ACS APPLIED MATERIALS & INTERFACES 2020; 12:45814-45821. [PMID: 32877162 DOI: 10.1021/acsami.0c13385] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
The determination of T4 polynucleotide kinase (PNK) activity and the screening of PNK inhibitors are critical to disease diagnosis and drug discovery. Numerous electrochemical strategies have been developed for the sensitive measurement of PNK activity and inhibition. However, they often suffer from additional labels and multiple steps of the detection process for the electrochemical readout. Herein, we have demonstrated an electrochemical DNA (E-DNA) sensor for the one-step detection of PNK with "signal-on" readout with no need for additional labels. In our design, the highly switchable double-stranded DNA (dsDNA) probes are immobilized on the gold nanoparticle-decorated molybdenum disulfide nanomaterial (MoS2-AuNPs), which possesses large surface area and high conductivity for elevating the signal gain in the PNK detection. This signal-on E-DNA sensor integrated with MoS2-AuNPs exhibits a much higher sensitivity than that without MoS2-AuNPs, showing a detection limit of 2.18 × 10-4 U/mL. Furthermore, this assay shows high selectivity, with the ability to discriminate PNK from other enzymes and proteins, and can be utilized to screen inhibitors. The proposed sensor is easy to operate with one-step readout and robust for PNK detection in the biological matrix and shows great potential for point-of-care in clinical diagnostics and drug screening.
Collapse
Affiliation(s)
- Meihua Lin
- Engineering Research Center of Nano-Geomaterials of Ministry of Education, Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan 430074, China
| | - Hao Wan
- Engineering Research Center of Nano-Geomaterials of Ministry of Education, Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan 430074, China
| | - Jian Zhang
- Engineering Research Center of Nano-Geomaterials of Ministry of Education, Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan 430074, China
| | - Quan Wang
- Engineering Research Center of Nano-Geomaterials of Ministry of Education, Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan 430074, China
| | - Xinyu Hu
- Engineering Research Center of Nano-Geomaterials of Ministry of Education, Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan 430074, China
| | - Fan Xia
- Engineering Research Center of Nano-Geomaterials of Ministry of Education, Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan 430074, China
| |
Collapse
|
11
|
Qin Z, Peng R, Baravik IK, Liu X. Fighting COVID-19: Integrated Micro- and Nanosystems for Viral Infection Diagnostics. MATTER 2020; 3:628-651. [PMID: 32838297 PMCID: PMC7346839 DOI: 10.1016/j.matt.2020.06.015] [Citation(s) in RCA: 62] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
Abstract
The pandemic of coronavirus disease 2019 (COVID-19) highlights the importance of rapid and sensitive diagnostics of viral infection that enables the efficient tracing of cases and the implementation of public health measures for disease containment. The immediate actions from both academia and industry have led to the development of many COVID-19 diagnostic systems that have secured fast-track regulatory approvals and have been serving our healthcare frontlines since the early stage of the pandemic. On diagnostic technologies, many of these clinically validated systems have significantly benefited from the recent advances in micro- and nanotechnologies in terms of platform design, analytical method, and system integration and miniaturization. The continued development of new diagnostic platforms integrating micro- and nanocomponents will address some of the shortcomings we have witnessed in the existing COVID-19 diagnostic systems. This Perspective reviews the previous and ongoing research efforts on developing integrated micro- and nanosystems for nucleic acid-based virus detection, and highlights promising technologies that could provide better solutions for the diagnosis of COVID-19 and other viral infectious diseases. With the summary and outlook of this rapidly evolving research field, we hope to inspire more research and development activities to better prepare our society for future public health crises.
Collapse
Affiliation(s)
- Zhen Qin
- Department of Mechanical and Industrial Engineering, University of Toronto, Toronto, ON M5S 3G8, Canada
| | - Ran Peng
- Department of Mechanical and Industrial Engineering, University of Toronto, Toronto, ON M5S 3G8, Canada
| | - Ilina Kolker Baravik
- Department of Mechanical and Industrial Engineering, University of Toronto, Toronto, ON M5S 3G8, Canada
| | - Xinyu Liu
- Department of Mechanical and Industrial Engineering, University of Toronto, Toronto, ON M5S 3G8, Canada
- Institute of Biomaterials and Biomedical Engineering, University of Toronto, Toronto, ON M5S 3G9, Canada
| |
Collapse
|
12
|
Chen JY, Liu ZJ, Wang XW, Ye CL, Zheng YJ, Peng HP, Zhong GX, Liu AL, Chen W, Lin XH. Ultrasensitive Electrochemical Biosensor Developed by Probe Lengthening for Detection of Genomic DNA in Human Serum. Anal Chem 2019; 91:4552-4558. [PMID: 30838849 DOI: 10.1021/acs.analchem.8b05692] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
As an alternative to most of the reported nucleic acid amplification-based electrochemical DNA biosensors used for detection of trace levels of genomic DNA, we herein present a novel detection concept. The proposed system involves the conversion of two short double-stranded DNAs (dsDNAs), labeled with a thiol-tag or biotin-tag, into a single integrated dsDNA containing thiol and biotin at both terminals in the presence of target DNA through ligase chain reaction (LCR) and followed by the immobilization of these integrated dsDNAs on a bovine serum albumin (BSA)-modified gold electrode surface. Owing to rapid depletion of the two short dsDNAs via LCR, the integrated dsDNAs were generated in an exponential manner so that this sensoring approach offered a limit of detection of 25 yoctomoles (15 copies in 50 μL sample volumes), a high discrimination of single-base mismatch and a wide linear concentration range (across 6 orders of magnitude) for target DNA. Significantly, the proposed sensor, which has simplicity in operation and ease of miniaturization, detected the target of interest in total nucleic acid extracts derived from clinical serum samples with excellent results, thereby demonstrating its considerable diagnostic potential in fields ranging from virus detection to the diagnosis of genetic diseases.
Collapse
Affiliation(s)
- Jin-Yuan Chen
- The Centralab , The First Affiliated Hospital of Fujian Medical University , Fuzhou 350005 , China
| | - Zhou-Jie Liu
- Department of Pharmaceutical Analysis, Higher Educational Key Laboratory for Nano Biomedical Technology of Fujian Province, Faculty of Pharmacy , Fujian Medical University , Fuzhou 350122 , China.,Department of Pharmacy , The First Affiliated Hospital of Fujian Medical University , Fuzhou 350005 , China
| | - Xue-Wen Wang
- Department of Pharmaceutical Analysis, Higher Educational Key Laboratory for Nano Biomedical Technology of Fujian Province, Faculty of Pharmacy , Fujian Medical University , Fuzhou 350122 , China
| | - Chen-Liu Ye
- Department of Pharmaceutical Analysis, Higher Educational Key Laboratory for Nano Biomedical Technology of Fujian Province, Faculty of Pharmacy , Fujian Medical University , Fuzhou 350122 , China
| | - Yan-Jie Zheng
- Department of Pharmaceutical Analysis, Higher Educational Key Laboratory for Nano Biomedical Technology of Fujian Province, Faculty of Pharmacy , Fujian Medical University , Fuzhou 350122 , China
| | - Hua-Ping Peng
- Department of Pharmaceutical Analysis, Higher Educational Key Laboratory for Nano Biomedical Technology of Fujian Province, Faculty of Pharmacy , Fujian Medical University , Fuzhou 350122 , China
| | - Guang-Xian Zhong
- The Centralab , The First Affiliated Hospital of Fujian Medical University , Fuzhou 350005 , China
| | - Ai-Lin Liu
- Department of Pharmaceutical Analysis, Higher Educational Key Laboratory for Nano Biomedical Technology of Fujian Province, Faculty of Pharmacy , Fujian Medical University , Fuzhou 350122 , China
| | - Wei Chen
- Department of Pharmaceutical Analysis, Higher Educational Key Laboratory for Nano Biomedical Technology of Fujian Province, Faculty of Pharmacy , Fujian Medical University , Fuzhou 350122 , China
| | - Xin-Hua Lin
- Department of Pharmaceutical Analysis, Higher Educational Key Laboratory for Nano Biomedical Technology of Fujian Province, Faculty of Pharmacy , Fujian Medical University , Fuzhou 350122 , China
| |
Collapse
|
13
|
Rapid and label-free, electrochemical DNA detection utilizing the oxidase-mimicking activity of cerium oxide nanoparticles. Electrochem commun 2019. [DOI: 10.1016/j.elecom.2018.12.008] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
|
14
|
Liu YH, Deng HH, Li HN, Shi TF, Peng HP, Liu AL, Chen W, Hong GL. A DNA electrochemical biosensor based on homogeneous hybridization for the determination of Cryptococcus neoformans. J Electroanal Chem (Lausanne) 2018. [DOI: 10.1016/j.jelechem.2018.09.001] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
|
15
|
Kékedy-Nagy L, Sørensen KD, Ferapontova EE. Picomolar sensitive and SNP-selective “Off-On” hairpin genosensor based on structure-tunable redox indicator signals. Biosens Bioelectron 2018; 117:444-449. [DOI: 10.1016/j.bios.2018.06.040] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2018] [Revised: 06/08/2018] [Accepted: 06/20/2018] [Indexed: 01/10/2023]
|
16
|
Zhu C, Liu M, Li X, Zhang X, Chen J. A new electrochemical aptasensor for sensitive assay of a protein based on the dual-signaling electrochemical ratiometric method and DNA walker strategy. Chem Commun (Camb) 2018; 54:10359-10362. [PMID: 30152501 DOI: 10.1039/c8cc05829f] [Citation(s) in RCA: 42] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Herein, a new electrochemical aptamer-based biosensor for highly sensitive assay of thrombin has been developed based on the dual-signaling electrochemical ratiometric method and the DNA walker strategy, and shows a low detection limit of about 56 fM.
Collapse
Affiliation(s)
- Caixia Zhu
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha, 410082, P. R. China.
| | | | | | | | | |
Collapse
|
17
|
Lee DJ, Mai J, Huang TJ. Microfluidic approaches for cell-based molecular diagnosis. BIOMICROFLUIDICS 2018; 12:051501. [PMID: 30271515 PMCID: PMC6138474 DOI: 10.1063/1.5030891] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2018] [Accepted: 08/27/2018] [Indexed: 06/08/2023]
Abstract
The search for next-generation biomarkers has enabled cell-based diagnostics in a number of disciplines ranging from oncology to pharmacogenetics. However, cell-based diagnostics are still far from clinical reality due to the complex assays and associated protocols which typically require cell isolation, lysis, DNA extraction, amplification, and detection steps. Leveraging recent advances in microfluidics, many biochemical assays have been translated onto microfluidic platforms. We have compared and summarized recent advances in modular approaches toward the realization of fully-integrated, cell-based molecular diagnostics for clinical and point-of-care applications.
Collapse
Affiliation(s)
- Dong Jun Lee
- Department of Biomedical Engineering, Duke University, Durham, North Carolina 27708, USA
| | - John Mai
- Alfred E. Mann Institute for Biomedical Engineering, University of Southern California, Los Angeles, California 90089, USA
| | | |
Collapse
|
18
|
Ye D, Zuo X, Fan C. DNA Nanotechnology-Enabled Interfacial Engineering for Biosensor Development. ANNUAL REVIEW OF ANALYTICAL CHEMISTRY (PALO ALTO, CALIF.) 2018; 11:171-195. [PMID: 29490188 DOI: 10.1146/annurev-anchem-061417-010007] [Citation(s) in RCA: 71] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Biosensors represent biomimetic analytical tools for addressing increasing needs in medical diagnosis, environmental monitoring, security, and biodefense. Nevertheless, widespread real-world applications of biosensors remain challenging due to limitations of performance, including sensitivity, specificity, speed, and reproducibility. In this review, we present a DNA nanotechnology-enabled interfacial engineering approach for improving the performance of biosensors. We first introduce the main challenges of the biosensing interfaces, especially under the context of controlling the DNA interfacial assembly. We then summarize recent progress in DNA nanotechnology and efforts to harness DNA nanostructures to engineer various biological interfaces, with a particular focus on the use of framework nucleic acids. We also discuss the implementation of biosensors to detect physiologically relevant nucleic acids, proteins, small molecules, ions, and other biomarkers. This review highlights promising applications of DNA nanotechnology in interfacial engineering for biosensors and related areas.
Collapse
Affiliation(s)
- Dekai Ye
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility (SSRF), Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China;
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xiaolei Zuo
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility (SSRF), Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China;
- Institute of Molecular Medicine, Renji Hospital, Schools of Medicine and Chemistry and Chemical Engineering, Shanghai Jiao Tong University, Shanghai 200127, China
| | - Chunhai Fan
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility (SSRF), Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China;
| |
Collapse
|
19
|
Li L, Wang L, Xu Q, Xu L, Liang W, Li Y, Ding M, Aldalbahi A, Ge Z, Wang L, Yan J, Lu N, Li J, Wen Y, Liu G. Bacterial Analysis Using an Electrochemical DNA Biosensor with Poly-Adenine-Mediated DNA Self-Assembly. ACS APPLIED MATERIALS & INTERFACES 2018; 10:6895-6903. [PMID: 29383931 DOI: 10.1021/acsami.7b17327] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
The spatial arrangement of DNA probes on the electrode surface is of critical significance for the performance of electrochemical biosensors. However, rational control of the probe surface remains challenging. In this work, we develop a capture probe carrying a poly-adenine anchoring block to construct a programmable self-assembled monolayer for a "sandwich-type" electrochemical biosensor. We show that with a co-assembling strategy using a polyA capture probe and 6-mercapto-1-hexanol, the density of the probes on the gold electrode can be simply adjusted by the length of polyA. The electron-transfer effect and thus the hybridization efficiency can as well be optimized by tuning the polyA length. As a result, we obtained an excellent biosensor performance with a limit of detection as low as 5 fM for a synthetic DNA target. We demonstrate the practicability of this system by analyzing a PCR product from Escherichia coli genomic DNA (0.2 pg/μL). On the basis of the ideal electrochemical interface, our polyA-based biosensor exhibited excellent reusability and stability, which is important for potential applications in the onsite analysis for a wide range of targets.
Collapse
Affiliation(s)
- Lanying Li
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology , Shanghai 201203, China
| | - Lele Wang
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology , Shanghai 201203, China
| | - Qin Xu
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology , Shanghai 201203, China
| | - Li Xu
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology , Shanghai 201203, China
| | - Wen Liang
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology , Shanghai 201203, China
| | - Yan Li
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology , Shanghai 201203, China
| | - Min Ding
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology , Shanghai 201203, China
| | - Ali Aldalbahi
- Chemistry Department, King Saud University , Riyadh 11451, Saudi Arabia
| | - Zhilei Ge
- Division of Physical Biology & Bioimaging Center, Shanghai Institute of Applied Physics, Chinese Academy of Science , Shanghai 201800, China
| | - Lihua Wang
- Division of Physical Biology & Bioimaging Center, Shanghai Institute of Applied Physics, Chinese Academy of Science , Shanghai 201800, China
| | - Juan Yan
- College of Food Science & Technology Shanghai Ocean University , Shanghai 201306, China
| | - Na Lu
- School of Materials Engineering, Shanghai University of Engineering Science , Shanghai 201620, China
| | - Jiang Li
- Division of Physical Biology & Bioimaging Center, Shanghai Institute of Applied Physics, Chinese Academy of Science , Shanghai 201800, China
| | - Yanli Wen
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology , Shanghai 201203, China
| | - Gang Liu
- Laboratory of Biometrology, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology , Shanghai 201203, China
| |
Collapse
|
20
|
Yang F, Zuo X, Fan C, Zhang XE. Biomacromolecular nanostructures-based interfacial engineering: from precise assembly to precision biosensing. Natl Sci Rev 2018. [DOI: 10.1093/nsr/nwx134] [Citation(s) in RCA: 51] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023] Open
Abstract
Abstract
Biosensors are a type of important biodevice that integrate biological recognition elements, such as enzyme, antibody and DNA, and physical or chemical transducers, which have revolutionized clinical diagnosis especially under the context of point-of-care tests. Since the performance of a biosensor depends largely on the bio–solid interface, design and engineering of the interface play a pivotal role in developing quality biosensors. Along this line, a number of strategies have been developed to improve the homogeneity of the interface or the precision in regulating the interactions between biomolecules and the interface. Especially, intense efforts have been devoted to controlling the surface chemistry, orientation of immobilization, molecular conformation and packing density of surface-confined biomolecular probes (proteins and nucleic acids). By finely tuning these surface properties, through either gene manipulation or self-assembly, one may reduce the heterogeneity of self-assembled monolayers, increase the accessibility of target molecules and decrease the binding energy barrier to realize high sensitivity and specificity. In this review, we summarize recent progress in interfacial engineering of biosensors with particular focus on the use of protein and DNA nanostructures. These biomacromolecular nanostructures with atomistic precision lead to highly regulated interfacial assemblies at the nanoscale. We further describe the potential use of the high-performance biosensors for precision diagnostics.
Collapse
Affiliation(s)
- Fan Yang
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
- School of Laboratory Medicine, Hubei University of Chinese Medicine, Wuhan 430065, China
| | - Xiaolei Zuo
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Chunhai Fan
- Division of Physical Biology & Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Xian-En Zhang
- National Key Laboratory of Biomacromolecules, CAS Excellence Center for Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China
| |
Collapse
|
21
|
Somasundaram S, Holtan MD, Easley CJ. Understanding Signal and Background in a Thermally Resolved, Single-Branched DNA Assay Using Square Wave Voltammetry. Anal Chem 2018; 90:3584-3591. [PMID: 29385341 DOI: 10.1021/acs.analchem.8b00036] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
Electrochemical bioanalytical sensors with oligonucleotide transducer molecules have been recently extended for quantifying a wide range of biomolecules, from small drugs to large proteins. Short DNA or RNA strands have gained attention recently due to the existence of circulating oligonucleotides in human blood, yet challenges remain for adequately sensing these targets at electrode surfaces. In this work, we have developed a quantitative electrochemical method which uses target-induced proximity of a single-branched DNA structure to drive hybridization at an electrode surface, with readout by square-wave voltammetry (SWV). Using custom instrumentation, we first show that precise control of temperature can provide both electrochemical signal amplification and background signal depreciation in SWV readout of small oligonucleotides. Next, we thoroughly compared 25 different combinations of binding energies by their signal-to-background ratios and differences. These data served as a guide to select the optimal parameters of binding energy, SWV frequency, and assay temperature. Finally, the influence of experimental workflow on the sensitivity and limit of detection (LOD) of the sensor is demonstrated. This study highlights the importance of precisely controlling temperature and SWV frequency in DNA-driven assays on electrode surfaces while also presenting a novel instrumental design for fine-tuning of such systems.
Collapse
Affiliation(s)
- Subramaniam Somasundaram
- Department of Chemistry and Biochemistry , Auburn University , Auburn , Alabama 36849 , United States
| | - Mark D Holtan
- Department of Chemistry and Biochemistry , Auburn University , Auburn , Alabama 36849 , United States
| | - Christopher J Easley
- Department of Chemistry and Biochemistry , Auburn University , Auburn , Alabama 36849 , United States
| |
Collapse
|
22
|
Yang X, Wen Y, Wang L, Zhou C, Li Q, Xu L, Li L, Shi J, Lal R, Ren S, Li J, Jia N, Liu G. PCR-Free Colorimetric DNA Hybridization Detection Using a 3D DNA Nanostructured Reporter Probe. ACS APPLIED MATERIALS & INTERFACES 2017; 9:38281-38287. [PMID: 29022698 DOI: 10.1021/acsami.7b11994] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
A "sandwich-like" biosensor was developed on the basis of the magnetic bead platform for sensitive detection of breast cancer 1 (BRCA1) DNA. In the present study, a tetrahedron-structured reporter probe (TSRP) was designed, in which 3 vertices of the tetrahedron were labeled with digoxin (Dig), and the other one was labeled with a detection probe. TSRP here provided accurate enzyme loading and well-organized spatial arrangement for optimized signal amplification. The detection limit of this biosensor was as low as 10 fM, which is at least 4 orders of magnitude lower than that of the single DNA probe (100 pM), and the signal gain was 2 times higher than the analysis using three one-dimensional (1D) reporter probes. We could distinguish DNA sequences with only 1 base mismatch, and the performance of our TSRP biosensor was proven to be equally good in both PCR products and real fetal calf serum (FCS) sample as in buffer. We believe this work provided a novel avenue for the development of signal amplification strategies.
Collapse
Affiliation(s)
- Xue Yang
- Laboratory of Biometrology, Shanghai Institute of Measurement and Testing Technology , 1500 Zhangheng Road, Shanghai 201203, People's Republic of China
- Department of Chemistry, College of Life and Environmental Sciences, Shanghai Normal University , 100 Guilin Road, Shanghai 200234, People's Republic of China
| | - Yanli Wen
- Laboratory of Biometrology, Shanghai Institute of Measurement and Testing Technology , 1500 Zhangheng Road, Shanghai 201203, People's Republic of China
| | - Lele Wang
- Laboratory of Biometrology, Shanghai Institute of Measurement and Testing Technology , 1500 Zhangheng Road, Shanghai 201203, People's Republic of China
| | - Chaoqun Zhou
- Materials Science and Engineering Program, Department of Bioengineering, Department of Mechanical and Aerospace Engineering, Institute of Engineering in Medicine, University of California, San Diego , La Jolla, California 92093, United States
| | - Qian Li
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences , Shanghai 201800, People's Republic of China
| | - Li Xu
- Laboratory of Biometrology, Shanghai Institute of Measurement and Testing Technology , 1500 Zhangheng Road, Shanghai 201203, People's Republic of China
| | - Lanying Li
- Laboratory of Biometrology, Shanghai Institute of Measurement and Testing Technology , 1500 Zhangheng Road, Shanghai 201203, People's Republic of China
| | - Jiye Shi
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences , Shanghai 201800, People's Republic of China
- UCB Pharma , 208 Bath Road, Slough SL1 3WE, United Kingdom
| | - Ratnesh Lal
- Materials Science and Engineering Program, Department of Bioengineering, Department of Mechanical and Aerospace Engineering, Institute of Engineering in Medicine, University of California, San Diego , La Jolla, California 92093, United States
| | - Shuzhen Ren
- Laboratory of Biometrology, Shanghai Institute of Measurement and Testing Technology , 1500 Zhangheng Road, Shanghai 201203, People's Republic of China
| | - Jiang Li
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences , Shanghai 201800, People's Republic of China
| | - Nengqin Jia
- Department of Chemistry, College of Life and Environmental Sciences, Shanghai Normal University , 100 Guilin Road, Shanghai 200234, People's Republic of China
| | - Gang Liu
- Laboratory of Biometrology, Shanghai Institute of Measurement and Testing Technology , 1500 Zhangheng Road, Shanghai 201203, People's Republic of China
| |
Collapse
|
23
|
Rashid JIA, Yusof NA. The strategies of DNA immobilization and hybridization detection mechanism in the construction of electrochemical DNA sensor: A review. SENSING AND BIO-SENSING RESEARCH 2017. [DOI: 10.1016/j.sbsr.2017.09.001] [Citation(s) in RCA: 78] [Impact Index Per Article: 11.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/18/2022] Open
|
24
|
Evtugyn GA, Porfireva AV, Stoikov II. Electrochemical DNA sensors based on spatially distributed redox mediators: challenges and promises. PURE APPL CHEM 2017. [DOI: 10.1515/pac-2016-1124] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
AbstractDNA and aptasensors are widely used for fast and reliable detection of disease biomarkers, pharmaceuticals, toxins, metabolites and other species necessary for biomedical diagnostics. In the overview, the concept of spatially distributed redox mediators is considered with particular emphasis to the signal generation and biospecific layer assembling. The application of non-conductive polymers bearing redox labels, supramolecular carriers with attached DNA aptamers and redox active dyes and E-sensor concept are considered as examples of the approach announced.
Collapse
Affiliation(s)
- Gennady A. Evtugyn
- A.M.Butlerov’ Chemistry Institute of Kazan Federal University, 420008 Kazan, Russian Federation
| | - Anna V. Porfireva
- A.M.Butlerov’ Chemistry Institute of Kazan Federal University, 420008 Kazan, Russian Federation
| | - Ivan I. Stoikov
- A.M.Butlerov’ Chemistry Institute of Kazan Federal University, 420008 Kazan, Russian Federation
| |
Collapse
|
25
|
Wang X, Chen F, Zhang D, Zhao Y, Wei J, Wang L, Song S, Fan C, Zhao Y. Single copy-sensitive electrochemical assay for circulating methylated DNA in clinical samples with ultrahigh specificity based on a sequential discrimination-amplification strategy. Chem Sci 2017; 8:4764-4770. [PMID: 28959399 PMCID: PMC5603958 DOI: 10.1039/c7sc01035d] [Citation(s) in RCA: 54] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2017] [Accepted: 05/15/2017] [Indexed: 12/18/2022] Open
Abstract
Tumor-related circulating methylated DNA represents only a small fraction of the total DNA in clinical samples (e.g. plasma), challenging the accurate analysis of specific DNA methylation patterns. Yet conventional assays based on the real-time quantitative methylation-specific PCR (qMSP) are generally limited in detection sensitivity and specificity due to its non-specific amplification interference including primer dimers and off-target amplification. Here we propose a single copy-sensitive electrochemical assay for circulating methylated DNA with ultrahigh specificity on the basis of a sequential discrimination-amplification strategy. Methylated DNA rather than unmethylated DNA in a bisulfite-modified sample is identified and amplified by the asymmetric MSP to generate abundant biotin-labeled single-stranded amplicons with reduced primer-dimer artifacts. Self-assembled tetrahedral DNA probes, which are readily decorated on an electrode surface as nanostructured probes with ordered orientation and well controlled spacing, enable the highly efficient hybridization of the specific single-stranded amplicons due to greatly increased target accessibility and significantly decreased noise. The interfacial hybridization event is quantitatively translated into electrochemical signals utilizing an enzymatic amplification. The proposed assay integrates dual sequence discrimination processes and cascade signal amplification processes, achieving the identification of as few as one methylated DNA molecule in the presence of a 1000-fold excess of unmethylated alleles. Furthermore, the excellent assay performance enables tumor related methylation detection in lung cancer patients with 200 microlitre plasma samples. The results are in good consistency with those of clinical diagnosis, whereas the conventional qMSP failed to detect the corresponding methylation pattern of these clinically confirmed positive patients in such trace amounts of samples.
Collapse
Affiliation(s)
- Xuyao Wang
- Key Laboratory of Biomedical Information Engineering of Education Ministry , School of Life Science and Technology , Xi'an Jiaotong University , Xianning West Road , Xi'an , Shaanxi 710049 , P. R. China .
| | - Feng Chen
- Key Laboratory of Biomedical Information Engineering of Education Ministry , School of Life Science and Technology , Xi'an Jiaotong University , Xianning West Road , Xi'an , Shaanxi 710049 , P. R. China .
| | - Dexin Zhang
- Department of Respiratory Medicine , The Second Affiliated Hospital of Medical College , Xi'an Jiaotong University , Xiwu Road , Xi'an , Shaanxi 710049 , P. R. China
| | - Yue Zhao
- Key Laboratory of Biomedical Information Engineering of Education Ministry , School of Life Science and Technology , Xi'an Jiaotong University , Xianning West Road , Xi'an , Shaanxi 710049 , P. R. China .
| | - Jing Wei
- Key Laboratory of Biomedical Information Engineering of Education Ministry , School of Life Science and Technology , Xi'an Jiaotong University , Xianning West Road , Xi'an , Shaanxi 710049 , P. R. China .
| | - Lihua Wang
- Division of Physical Biology , Bioimaging Center , Shanghai Synchrotron Radiation Facility , CAS Key Laboratory of Interfacial Physics and Technology , Shanghai Institute of Applied Physics , Chinese Academy of Sciences , Shanghai 201800 , P. R. China
| | - Shiping Song
- Division of Physical Biology , Bioimaging Center , Shanghai Synchrotron Radiation Facility , CAS Key Laboratory of Interfacial Physics and Technology , Shanghai Institute of Applied Physics , Chinese Academy of Sciences , Shanghai 201800 , P. R. China
| | - Chunhai Fan
- Division of Physical Biology , Bioimaging Center , Shanghai Synchrotron Radiation Facility , CAS Key Laboratory of Interfacial Physics and Technology , Shanghai Institute of Applied Physics , Chinese Academy of Sciences , Shanghai 201800 , P. R. China
| | - Yongxi Zhao
- Key Laboratory of Biomedical Information Engineering of Education Ministry , School of Life Science and Technology , Xi'an Jiaotong University , Xianning West Road , Xi'an , Shaanxi 710049 , P. R. China .
| |
Collapse
|
26
|
Effect of structure on sensing performance of a target induced signaling probe shifting DNA-based (TISPS-DNA) sensor. Biosens Bioelectron 2017; 91:817-823. [DOI: 10.1016/j.bios.2017.01.054] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2016] [Revised: 01/13/2017] [Accepted: 01/23/2017] [Indexed: 11/23/2022]
|
27
|
Liu D, Luo Q, Deng F, Li Z, Li B, Shen Z. Ultrasensitive electrochemical biosensor based on the oligonucleotide self-assembled monolayer-mediated immunosensing interface. Anal Chim Acta 2017; 971:26-32. [PMID: 28456280 DOI: 10.1016/j.aca.2017.03.046] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2015] [Revised: 07/06/2016] [Accepted: 03/24/2017] [Indexed: 11/16/2022]
Abstract
Highly sensitive and selective quantitation of a variety of proteins over a wide concentration range is highly desirable for increased accuracy of biomarker detection or for multidisease diagnostics. In the present contribution, using human immunoglobulin G (HIgG) as the model target protein, an electrochemical ultrasensitive immunosensing platform was developed based on the oligonucleotide self-assembled monolayer-mediated (OSAM) sensing interface. For this immunosensor, the "signal-on" signaling mechanism and enzymatic signal amplification effect were integrated into one sensing architecture. Moreover, the thiolated flexible single-stranded DNAs immobilized onto gold electrode surface not only performs the wobbling motion to facilitate the electron transfer between the electrode surface and biosensing layer but also fundamentally prohibiting the direct interaction of proteins with gold substrate. Thus, the electrochemical signal could be efficiently enhanced and the unspecific adsorption or cross-reaction might be eliminated. As a result, utilizing the newly-proposed immunosensor, the HIgG can be detected down to 0.5 ng/mL, and the high detection specificity is offered. The successful design of OSAM and the highly desirable detection capability of new immunosensor are expected to provide a perspective for fabricating new robust immunosensing platform and for promising potential of oligonucleotide probe in biological research and biomedical diagnosis.
Collapse
Affiliation(s)
- Dengyou Liu
- Science College of Hunan Agricultural University, Changsha 410128, PR China
| | - Qimei Luo
- Science College of Hunan Agricultural University, Changsha 410128, PR China
| | - Fawen Deng
- The Fourth Hospital of Chansha, Changsha 410006, PR China
| | - Zhen Li
- Science College of Hunan Agricultural University, Changsha 410128, PR China
| | - Benxiang Li
- Science College of Hunan Agricultural University, Changsha 410128, PR China.
| | - Zhifa Shen
- Key Laboratory of Laboratory Medicine, Ministry of Education, Zhejiang Provincial Key Laboratory of Medical Genetics, College of Laboratory Medicine and Life Sciences, Wenzhou Medical University, Wenzhou 325035, PR China.
| |
Collapse
|
28
|
Abstract
A number of electrochemical DNA sensors based on the target-induced change in the conformation and/or flexibility of surface-bound oligonucleotides have been developed in recent years. These sensors, which are often termed E-DNA sensors, are comprised of an oligonucleotide probe modified with a redox label (e.g., methylene blue) at one terminus and attached to a gold electrode via a thiol-gold bond at the other. Binding of the target to the DNA probe changes its structure and dynamics, which, in turn, influences the efficiency of electron transfer to the interrogating electrode. Since electrochemically active contaminants are less common, these sensors are resistant to false-positive signals arising from the nonspecific adsorption of contaminants and perform well even when employed directly in serum, whole blood, and other realistically complex sample matrices. Moreover, because all of the sensor components are chemisorbed to the electrode, the E-DNA sensors are essentially label-free and readily reusable. To date, these sensors have achieved state-of-the-art sensitivity, while offering the unprecedented selectivity, reusability, and the operational convenience of direct electrochemical detection. This chapter reviews the recent advances in the development of both "signal-off" and "signal-on" E-DNA sensors. Critical aspects that dictate the stability and performance of these sensors are also addressed so as to provide a realistic overview of this oligonucleotide detection platform.
Collapse
Affiliation(s)
- Rebecca Y Lai
- University of Nebraska-Lincoln, Lincoln, NE, United States.
| |
Collapse
|
29
|
Papadakis G, Palladino P, Chronaki D, Tsortos A, Gizeli E. Sample-to-answer acoustic detection of DNA in complex samples. Chem Commun (Camb) 2017; 53:8058-8061. [DOI: 10.1039/c6cc10175e] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
The present study demonstrates the sensitive and label-free acoustic detection of dsDNA amplicons produced from whole Salmonella Thyphimurium cells without employing any DNA extraction and/or purification step, in the presence of the lysed bacterial cells and in a hybridization-free assay.
Collapse
Affiliation(s)
- George Papadakis
- Institute of Molecular Biology and Biotechnology-FORTH
- Heraklion
- Greece
| | | | - Dimitra Chronaki
- Institute of Molecular Biology and Biotechnology-FORTH
- Heraklion
- Greece
- Dept. of Biology
- Univ. of Crete
| | - Achilleas Tsortos
- Institute of Molecular Biology and Biotechnology-FORTH
- Heraklion
- Greece
| | - Electra Gizeli
- Institute of Molecular Biology and Biotechnology-FORTH
- Heraklion
- Greece
- Dept. of Biology
- Univ. of Crete
| |
Collapse
|
30
|
Dauphin-Ducharme P, Plaxco KW. Maximizing the Signal Gain of Electrochemical-DNA Sensors. Anal Chem 2016; 88:11654-11662. [PMID: 27805364 DOI: 10.1021/acs.analchem.6b03227] [Citation(s) in RCA: 68] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
Electrochemical DNA (E-DNA) sensors have emerged as a promising class of biosensors capable of detecting a wide range of molecular analytes (nucleic acids, proteins, small molecules, inorganic ions) without the need for exogenous reagents or wash steps. In these sensors, a binding-induced conformational change in an electrode-bound "probe" (a target-binding nucleic acid or nucleic-acid-peptide chimera) alters the location of an attached redox reporter, leading to a change in electron transfer that is typically monitored using square-wave voltammetry. Because signaling in this class of sensors relies on binding-induced changes in electron transfer rate, the signal gain of such sensors (change in signal upon the addition of saturating target) is dependent on the frequency of the square-wave potential pulse used to interrogate them, with the optimal square-wave frequency depending on the structure of the probe, the nature of the redox reporter, and other features of the sensor. Here, we show that, because it alters the driving force of the redox reaction and thus electron transfer kinetics, signal gain in this class of sensors is also strongly dependent on the amplitude of the square-wave potential pulse. Specifically, we show here that the simultaneous optimization of square-wave frequency and amplitude produces large (often more than 2-fold) increases in the signal gain of a wide range of E-DNA-type sensors.
Collapse
Affiliation(s)
- Philippe Dauphin-Ducharme
- Department of Chemistry and Biochemistry, and ‡Center for Bioengineering, University of California Santa Barbara , Santa Barbara, California 93106, United States
| | - Kevin W Plaxco
- Department of Chemistry and Biochemistry, and ‡Center for Bioengineering, University of California Santa Barbara , Santa Barbara, California 93106, United States
| |
Collapse
|
31
|
Ferapontova EE. Hybridization Biosensors Relying on Electrical Properties of Nucleic Acids. ELECTROANAL 2016. [DOI: 10.1002/elan.201600593] [Citation(s) in RCA: 42] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Elena E. Ferapontova
- Interdisciplinary Nanoscience Center (iNANO); Center for DNA Nanotechnology (CDNA); Aarhus University; Gustav Wieds Vej 1590-14 DK-8000 Aarhus C Denmark
| |
Collapse
|
32
|
Kékedy-Nagy L, Shipovskov S, Ferapontova EE. Effect of a Dual Charge on the DNA-Conjugated Redox Probe on DNA Sensing by Short Hairpin Beacons Tethered to Gold Electrodes. Anal Chem 2016; 88:7984-90. [DOI: 10.1021/acs.analchem.6b01020] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- László Kékedy-Nagy
- Interdisciplinary
Nanoscience Center, and ‡Center for DNA Nanotechnology at
iNANO, Science and Technology, Aarhus University, Gustav Wieds Vej 1590-14, DK-8000 Aarhus C, Denmark
| | - Stepan Shipovskov
- Interdisciplinary
Nanoscience Center, and ‡Center for DNA Nanotechnology at
iNANO, Science and Technology, Aarhus University, Gustav Wieds Vej 1590-14, DK-8000 Aarhus C, Denmark
| | - Elena E. Ferapontova
- Interdisciplinary
Nanoscience Center, and ‡Center for DNA Nanotechnology at
iNANO, Science and Technology, Aarhus University, Gustav Wieds Vej 1590-14, DK-8000 Aarhus C, Denmark
| |
Collapse
|
33
|
Li C, Wu D, Hu X, Xiang Y, Shu Y, Li G. One-Step Modification of Electrode Surface for Ultrasensitive and Highly Selective Detection of Nucleic Acids with Practical Applications. Anal Chem 2016; 88:7583-90. [DOI: 10.1021/acs.analchem.6b01250] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Chao Li
- State Key Laboratory
of Pharmaceutical Biotechnology and Collaborative Innovation Center
of Chemistry for Life Sciences, Department of Biochemistry, Nanjing University, Nanjing 210093, P. R. China
| | - Dan Wu
- State Key Laboratory
of Pharmaceutical Biotechnology and Collaborative Innovation Center
of Chemistry for Life Sciences, Department of Biochemistry, Nanjing University, Nanjing 210093, P. R. China
| | - Xiaolu Hu
- State Key Laboratory
of Pharmaceutical Biotechnology and Collaborative Innovation Center
of Chemistry for Life Sciences, Department of Biochemistry, Nanjing University, Nanjing 210093, P. R. China
| | - Yang Xiang
- State Key Laboratory
of Pharmaceutical Biotechnology and Collaborative Innovation Center
of Chemistry for Life Sciences, Department of Biochemistry, Nanjing University, Nanjing 210093, P. R. China
| | - Yongqian Shu
- Department of Oncology, The First Affiliated Hospital of Nanjing Medical University, Nanjing 210029, P. R. China
| | - Genxi Li
- State Key Laboratory
of Pharmaceutical Biotechnology and Collaborative Innovation Center
of Chemistry for Life Sciences, Department of Biochemistry, Nanjing University, Nanjing 210093, P. R. China
- Laboratory of Biosensing Technology, School
of Life Sciences, Shanghai University, Shanghai, 200444, China
| |
Collapse
|
34
|
Li F, Xu Y, Yu X, Yu Z, He X, Ji H, Dong J, Song Y, Yan H, Zhang G. A "signal on" protection-displacement-hybridization-based electrochemical hepatitis B virus gene sequence sensor with high sensitivity and peculiar adjustable specificity. Biosens Bioelectron 2016; 82:212-6. [PMID: 27085953 DOI: 10.1016/j.bios.2016.04.014] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2016] [Revised: 04/02/2016] [Accepted: 04/05/2016] [Indexed: 11/18/2022]
Abstract
One "signal on" electrochemical sensing strategy was constructed for the detection of a specific hepatitis B virus (HBV) gene sequence based on the protection-displacement-hybridization-based (PDHB) signaling mechanism. This sensing system is composed of three probes, one capturing probe (CP) and one assistant probe (AP) which are co-immobilized on the Au electrode surface, and one 3-methylene blue (MB) modified signaling probe (SP) free in the detection solution. One duplex are formed between AP and SP with the target, a specific HBV gene sequence, hybridizing with CP. This structure can drive the MB labels close to the electrode surface, thereby producing a large detection current. Two electrochemical testing techniques, alternating current voltammetry (ACV) and cyclic voltammetry (CV), were used for characterizing the sensor. Under the optimized conditions, the proposed sensor exhibits a high sensitivity with the detection limit of ∼5fM for the target. When used for the discrimination of point mutation, the sensor also features an outstanding ability and its peculiar high adjustability.
Collapse
Affiliation(s)
- Fengqin Li
- College of Chemical and Environmental Engineering, Harbin University of Science and Technology, Harbin 150040, China
| | - Yanmei Xu
- College of Chemical and Environmental Engineering, Harbin University of Science and Technology, Harbin 150040, China
| | - Xiang Yu
- College of Chemical and Environmental Engineering, Guangdong University of Petrochemical Technology, Maoming 525000, China
| | - Zhigang Yu
- College of Chemical and Environmental Engineering, Harbin University of Science and Technology, Harbin 150040, China.
| | - Xunjun He
- Department of Electronic Science and Technology, Harbin University of Science and Technology, Harbin 150080, China
| | - Hongrui Ji
- College of Chemical and Environmental Engineering, Harbin University of Science and Technology, Harbin 150040, China
| | - Jinghao Dong
- College of Chemical and Environmental Engineering, Harbin University of Science and Technology, Harbin 150040, China
| | - Yongbin Song
- College of Chemical and Environmental Engineering, Harbin University of Science and Technology, Harbin 150040, China
| | - Hong Yan
- College of Chemical and Environmental Engineering, Harbin University of Science and Technology, Harbin 150040, China
| | - Guiling Zhang
- College of Chemical and Environmental Engineering, Harbin University of Science and Technology, Harbin 150040, China.
| |
Collapse
|
35
|
Gao ZF, Huang YL, Ren W, Luo HQ, Li NB. Guanine nanowire based amplification strategy: Enzyme-free biosensing of nucleic acids and proteins. Biosens Bioelectron 2016; 78:351-357. [DOI: 10.1016/j.bios.2015.11.070] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2015] [Revised: 11/20/2015] [Accepted: 11/23/2015] [Indexed: 01/25/2023]
|
36
|
Wen Y, Wang L, Xu L, Li L, Ren S, Cao C, Jia N, Aldalbahi A, Song S, Shi J, Xia J, Liu G, Zuo X. Electrochemical detection of PCR amplicons of Escherichia coli genome based on DNA nanostructural probes and polyHRP enzyme. Analyst 2016; 141:5304-10. [DOI: 10.1039/c6an01435f] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Fast, portable and sensitive analysis ofE. coliis becoming an important challenge in many critical fields (e.g., food safety, environmental monitoring and clinical diagnosis).
Collapse
|
37
|
Das R, Goel AK, Sharma MK, Upadhyay S. Electrochemical DNA sensor for anthrax toxin activator gene atxA-detection of PCR amplicons. Biosens Bioelectron 2015; 74:939-46. [DOI: 10.1016/j.bios.2015.07.066] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2015] [Revised: 07/15/2015] [Accepted: 07/28/2015] [Indexed: 02/08/2023]
|
38
|
Gonçalves HMR, Moreira L, Pereira L, Jorge P, Gouveia C, Martins-Lopes P, Fernandes JRA. Biosensor for label-free DNA quantification based on functionalized LPGs. Biosens Bioelectron 2015; 84:30-6. [PMID: 26456729 DOI: 10.1016/j.bios.2015.10.001] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2015] [Revised: 09/30/2015] [Accepted: 10/01/2015] [Indexed: 10/23/2022]
Abstract
A label-free fiber optic biosensor based on a long period grating (LPG) and a basic optical interrogation scheme using off the shelf components is used for the detection of in-situ DNA hybridization. A new methodology is proposed for the determination of the spectral position of the LPG mode resonance. The experimental limit of detection obtained for the DNA was 62±2nM and the limit of quantification was 209±7nM. The sample specificity was experimentally demonstrated using DNA targets with different base mismatches relatively to the probe and was found that the system has a single base mismatch selectivity.
Collapse
Affiliation(s)
- Helena M R Gonçalves
- University of Trás-os-Montes and Alto Douro, P.O. Box 1013, 5000-911 Vila Real, Portugal
| | - Luis Moreira
- University of Trás-os-Montes and Alto Douro, P.O. Box 1013, 5000-911 Vila Real, Portugal
| | - Leonor Pereira
- University of Trás-os-Montes and Alto Douro, P.O. Box 1013, 5000-911 Vila Real, Portugal; University of Lisboa, Faculty of Sciences, BioISI- Biosystems & Integrative Sciences Institute, Campo Grande, Lisboa, Portugal
| | - Pedro Jorge
- INESC TEC, Rua do Campo Alegre n. 687, 4169-007 Porto, Portugal
| | - Carlos Gouveia
- INESC TEC, Rua do Campo Alegre n. 687, 4169-007 Porto, Portugal
| | - Paula Martins-Lopes
- University of Trás-os-Montes and Alto Douro, P.O. Box 1013, 5000-911 Vila Real, Portugal; University of Lisboa, Faculty of Sciences, BioISI- Biosystems & Integrative Sciences Institute, Campo Grande, Lisboa, Portugal
| | - José R A Fernandes
- University of Trás-os-Montes and Alto Douro, P.O. Box 1013, 5000-911 Vila Real, Portugal; INESC TEC, Rua do Campo Alegre n. 687, 4169-007 Porto, Portugal.
| |
Collapse
|
39
|
Gao ZF, Chen DM, Lei JL, Luo HQ, Li NB. A regenerated electrochemical biosensor for label-free detection of glucose and urea based on conformational switch of i-motif oligonucleotide probe. Anal Chim Acta 2015; 897:10-6. [PMID: 26515000 DOI: 10.1016/j.aca.2015.09.045] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2014] [Revised: 03/24/2015] [Accepted: 09/18/2015] [Indexed: 01/21/2023]
Abstract
Improving the reproducibility of electrochemical signal remains a great challenge over the past decades. In this work, i-motif oligonucleotide probe-based electrochemical DNA (E-DNA) sensor is introduced for the first time as a regenerated sensing platform, which enhances the reproducibility of electrochemical signal, for label-free detection of glucose and urea. The addition of glucose or urea is able to activate glucose oxidase-catalyzed or urease-catalyzed reaction, inducing or destroying the formation of i-motif oligonucleotide probe. The conformational switch of oligonucleotide probe can be recorded by electrochemical impedance spectroscopy. Thus, the difference of electron transfer resistance is utilized for the quantitative determination of glucose and urea. We further demonstrate that the E-DNA sensor exhibits high selectivity, excellent stability, and remarkable regenerated ability. The human serum analysis indicates that this simple and regenerated strategy holds promising potential in future biosensing applications.
Collapse
Affiliation(s)
- Zhong Feng Gao
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, China
| | - Dong Mei Chen
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, China
| | - Jing Lei Lei
- School of Chemistry and Chemical Engineering, Chongqing University, Chongqing 400044, China
| | - Hong Qun Luo
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, China.
| | - Nian Bing Li
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), School of Chemistry and Chemical Engineering, Southwest University, Chongqing 400715, China.
| |
Collapse
|
40
|
Aoki H. Electrochemical Label-Free Nucleotide Sensors. Chem Asian J 2015; 10:2560-73. [PMID: 26227073 DOI: 10.1002/asia.201500449] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2015] [Revised: 07/20/2015] [Indexed: 11/10/2022]
Abstract
Numerous researchers have devoted a great deal of effort over the last few decades to the development of electrochemical oligonucleotide detection techniques, owing to their advantages of simple design, inherently small dimensions, and low power requirements. Their simplicity and rapidity of detection makes label-free oligonucleotide sensors of great potential use as first-aid screening tools in the analytical field of environmental measurements and healthcare management. This review article covers label-free oligonucleotide sensors, focusing specifically on topical electrochemical techniques, including intrinsic redox reaction of bases, conductive polymers, the use of electrochemical indicators, and highly ordered probe structures.
Collapse
Affiliation(s)
- Hiroshi Aoki
- Environmental Management Research Institute, National Institute of Advanced Industrial, Science and Technology (AIST), 16-1 Onogawa, Tsukuba, Ibaraki, 305-8569, Japan.
| |
Collapse
|
41
|
Kongpeth J, Jampasa S, Chaumpluk P, Chailapakul O, Vilaivan T. Immobilization-free electrochemical DNA detection with anthraquinone-labeled pyrrolidinyl peptide nucleic acid probe. Talanta 2015; 146:318-25. [PMID: 26695270 DOI: 10.1016/j.talanta.2015.08.059] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2015] [Revised: 08/25/2015] [Accepted: 08/26/2015] [Indexed: 01/04/2023]
Abstract
Electrochemical detection provides a simple, rapid, sensitive and inexpensive method for DNA detection. In traditional electrochemical DNA biosensors, the probe is immobilized onto the electrode. Hybridization with the DNA target causes a change in electrochemical signal, either from the intrinsic signal of the probe/target or through a label or a redox indicator. The major drawback of this approach is the requirement for probe immobilization in a controlled fashion. In this research, we take the advantage of different electrostatic properties between PNA and DNA to develop an immobilization-free approach for highly sequence-specific electrochemical DNA sensing on a screen-printed carbon electrode (SPCE) using a square-wave voltammetric (SWV) technique. Anthraquinone-labeled pyrrolidinyl peptide nucleic acid (AQ-PNA) was employed as a probe together with an SPCE that was modified with a positively-charged polymer (poly quaternized-(dimethylamino-ethyl)methacrylate, PQDMAEMA). The electrostatic attraction between the negatively-charged PNA-DNA duplex and the positively-charged modified SPCE attributes to the higher signal of PNA-DNA duplex than that of the electrostatically neutral PNA probe, resulting in a signal change. The calibration curve of this proposed method exhibited a linear range between 0.35 and 50 nM of DNA target with a limit of detection of 0.13 nM (3SD(blank)/Slope). The sub-nanomolar detection limit together with a small sample volume required (20 μL) allowed detection of <10 fmol (<1 ng) of DNA. With the high specificity of the pyrrolidinyl PNA probe used, excellent discrimination between complementary and various single-mismatched DNA targets was obtained. An application of this new platform for a sensitive and specific detection of isothermally-amplified shrimp's white spot syndrome virus (WSSV) DNA was successfully demonstrated.
Collapse
Affiliation(s)
- Jutatip Kongpeth
- Organic Synthesis Research Unit, Department of Chemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok 10330, Thailand
| | - Sakda Jampasa
- Program in Petrochemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok 10330, Thailand
| | - Piyasak Chaumpluk
- Laboratory of Plant Transgenic Technology and Biosensor, Department of Botany, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok 10330, Thailand
| | - Orawon Chailapakul
- Electrochemistry and Optical Spectroscopy Research Unit, Department of Chemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok 10330, Thailand
| | - Tirayut Vilaivan
- Organic Synthesis Research Unit, Department of Chemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok 10330, Thailand.
| |
Collapse
|
42
|
Moura-Melo S, Miranda-Castro R, de-Los-Santos-Álvarez N, Miranda-Ordieres AJ, Dos Santos Junior JR, da Silva Fonseca RA, Lobo-Castañón MJ. Targeting helicase-dependent amplification products with an electrochemical genosensor for reliable and sensitive screening of genetically modified organisms. Anal Chem 2015. [PMID: 26198403 DOI: 10.1021/acs.analchem.5b02271] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Cultivation of genetically modified organisms (GMOs) and their use in food and feed is constantly expanding; thus, the question of informing consumers about their presence in food has proven of significant interest. The development of sensitive, rapid, robust, and reliable methods for the detection of GMOs is crucial for proper food labeling. In response, we have experimentally characterized the helicase-dependent isothermal amplification (HDA) and sequence-specific detection of a transgene from the Cauliflower Mosaic Virus 35S Promoter (CaMV35S), inserted into most transgenic plants. HDA is one of the simplest approaches for DNA amplification, emulating the bacterial replication machinery, and resembling PCR but under isothermal conditions. However, it usually suffers from a lack of selectivity, which is due to the accumulation of spurious amplification products. To improve the selectivity of HDA, which makes the detection of amplification products more reliable, we have developed an electrochemical platform targeting the central sequence of HDA copies of the transgene. A binary monolayer architecture is built onto a thin gold film where, upon the formation of perfect nucleic acid duplexes with the amplification products, these are enzyme-labeled and electrochemically transduced. The resulting combined system increases genosensor detectability up to 10(6)-fold, allowing Yes/No detection of GMOs with a limit of detection of ∼30 copies of the CaMV35S genomic DNA. A set of general utility rules in the design of genosensors for detection of HDA amplicons, which may assist in the development of point-of-care tests, is also included. The method provides a versatile tool for detecting nucleic acids with extremely low abundance not only for food safety control but also in the diagnostics and environmental control areas.
Collapse
Affiliation(s)
- Suely Moura-Melo
- †Departamento de Química Física y Analítica, Universidad de Oviedo, 33006 Oviedo, Spain.,‡Departamento de Química, Centro de Ciências da Natureza. Universidade Federal do Piauí, Teresina, 64049-550 PI, Brasil
| | - Rebeca Miranda-Castro
- †Departamento de Química Física y Analítica, Universidad de Oviedo, 33006 Oviedo, Spain
| | | | | | - J Ribeiro Dos Santos Junior
- ‡Departamento de Química, Centro de Ciências da Natureza. Universidade Federal do Piauí, Teresina, 64049-550 PI, Brasil
| | | | | |
Collapse
|
43
|
Yu CY, Ang GY, Chan KG, Banga Singh KK, Chan YY. Enzymatic electrochemical detection of epidemic-causing Vibrio cholerae with a disposable oligonucleotide-modified screen-printed bisensor coupled to a dry-reagent-based nucleic acid amplification assay. Biosens Bioelectron 2015; 70:282-8. [DOI: 10.1016/j.bios.2015.03.048] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2015] [Revised: 03/09/2015] [Accepted: 03/21/2015] [Indexed: 01/25/2023]
|
44
|
Xiong E, Zhang X, Liu Y, Zhou J, Yu P, Li X, Chen J. Ultrasensitive Electrochemical Detection of Nucleic Acids Based on the Dual-Signaling Electrochemical Ratiometric Method and Exonuclease III-Assisted Target Recycling Amplification Strategy. Anal Chem 2015; 87:7291-6. [DOI: 10.1021/acs.analchem.5b01402] [Citation(s) in RCA: 131] [Impact Index Per Article: 14.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Erhu Xiong
- State Key
Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China
| | - Xiaohua Zhang
- State Key
Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China
| | - Yunqing Liu
- State Key
Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China
| | - Jiawan Zhou
- State Key
Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China
| | - Peng Yu
- State Key
Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China
| | - Xiaoyu Li
- State Key
Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China
| | - Jinhua Chen
- State Key
Laboratory of Chemo/Biosensing
and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China
| |
Collapse
|
45
|
Amouzadeh Tabrizi M, Shamsipur M. A label-free electrochemical DNA biosensor based on covalent immobilization of salmonella DNA sequences on the nanoporous glassy carbon electrode. Biosens Bioelectron 2015; 69:100-5. [DOI: 10.1016/j.bios.2015.02.024] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2015] [Revised: 02/12/2015] [Accepted: 02/13/2015] [Indexed: 02/08/2023]
|
46
|
A miniature quantitative PCR device for directly monitoring a sample processing on a microfluidic rapid DNA system. Biomed Microdevices 2015; 16:905-14. [PMID: 25106501 DOI: 10.1007/s10544-014-9895-8] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Abstract
We report a microfluidic device and measurement method to perform real-time PCR (or qPCR) in a miniaturized configuration for on-chip implementation using reaction volumes of less than 20 μL. The qPCR bioreactor is designed as a module to be embedded in an automated sample-in/profile-out system for rapid DNA biometrics or human identification. The PCR mixture is excited with a 505 nm diode-pumped solid-state laser (DPSSL) and the fluorescence build-up is measured using optical fibers directly embedded to the sidewalls of the microfluidic qPCR bioreactor. We discuss manufacturing and operating parameters necessary to adjust the internal surface conditions and temperature profiles of the bioreactor and to optimize the yield and quality of the PCR reaction for the amplification of 62 bp hTERT intron fragments using the commercial Quantifiler® kit (Life Technologies, Carlsbad, CA) commonly accepted for genotyping analysis. We designed a microfluidic device suitable for continuously processing a specimen by efficiently mixing the reagents from the kit to a set volume of DNA template on chip. Our approach relies on a calibration curve for the specific device using control DNA. We successfully applied this method to determine the concentration of genomic DNA extracted from a buccal swab on separate microfluidic devices which are operated upstream the qPCR device and perform buccal swab lysis and buccal DNA extraction. A precise correlation between the amount determined on chip and that obtained using a commercial cycler is demonstrated.
Collapse
|
47
|
Yang Z, Anglès d'Auriac M, Goggins S, Kasprzyk-Hordern B, Thomas KV, Frost CG, Estrela P. A novel DNA biosensor using a ferrocenyl intercalator applied to the potential detection of human population biomarkers in wastewater. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2015; 49:5609-5617. [PMID: 25853680 DOI: 10.1021/acs.est.5b00637] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
A new label-free electrochemical DNA (E-DNA) biosensor using a custom synthesized ferrocenyl (Fc) double-stranded DNA intercalator as a redox marker is presented. Single-stranded DNA (ssDNA) was co-immobilized on gold electrodes with 6-mecarpto-hexanol to control the surface density of the ssDNA probe, and hybridized with complementary DNA. The binding of the Fc intercalator to dsDNA was measured by differential pulse voltammetry. This new biosensor was optimized to allow the detection of single base pair mismatched sequences, able to detect as low as 10 pM target ssDNA with a dynamic range from 10 pM to 100 nM. DNA extracted from wastewater was analyzed by quantitative polymerase chain reaction targeting human-specific mitochondrial DNA (mtDNA). The aim of this approach is to enable the analysis of population biomarkers in wastewater for the evaluation of public health using wastewater-based epidemiology (WBE). The E-DNA biosensor was employed to detect human-specific mtDNA from wastewater before and after PCR amplification. The results demonstrate the feasibility of detecting human DNA biomarkers in wastewater using the developed biosensor, which may allow the further development of DNA population biomarkers for public health using WBE.
Collapse
Affiliation(s)
- Zhugen Yang
- †Department of Chemistry, University of Bath, Claverton Down, BA2 7AY, Bath, United Kingdom
- ‡Department of Electronic and Electrical Engineering, University of Bath, Claverton Down, BA2 7AY, Bath, United Kingdom
| | - Marc Anglès d'Auriac
- §Norwegian Institute for Water Research (NIVA), Gaustadalléen 21, 0349 Oslo, Norway
| | - Sean Goggins
- †Department of Chemistry, University of Bath, Claverton Down, BA2 7AY, Bath, United Kingdom
| | | | - Kevin V Thomas
- §Norwegian Institute for Water Research (NIVA), Gaustadalléen 21, 0349 Oslo, Norway
| | - Christopher G Frost
- †Department of Chemistry, University of Bath, Claverton Down, BA2 7AY, Bath, United Kingdom
| | - Pedro Estrela
- ‡Department of Electronic and Electrical Engineering, University of Bath, Claverton Down, BA2 7AY, Bath, United Kingdom
| |
Collapse
|
48
|
Hsieh K, Ferguson BS, Eisenstein M, Plaxco KW, Soh HT. Integrated electrochemical microsystems for genetic detection of pathogens at the point of care. Acc Chem Res 2015; 48:911-20. [PMID: 25785632 DOI: 10.1021/ar500456w] [Citation(s) in RCA: 117] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
The capacity to achieve rapid, sensitive, specific, quantitative, and multiplexed genetic detection of pathogens via a robust, portable, point-of-care platform could transform many diagnostic applications. And while contemporary technologies have yet to effectively achieve this goal, the advent of microfluidics provides a potentially viable approach to this end by enabling the integration of sophisticated multistep biochemical assays (e.g., sample preparation, genetic amplification, and quantitative detection) in a monolithic, portable device from relatively small biological samples. Integrated electrochemical sensors offer a particularly promising solution to genetic detection because they do not require optical instrumentation and are readily compatible with both integrated circuit and microfluidic technologies. Nevertheless, the development of generalizable microfluidic electrochemical platforms that integrate sample preparation and amplification as well as quantitative and multiplexed detection remains a challenging and unsolved technical problem. Recognizing this unmet need, we have developed a series of microfluidic electrochemical DNA sensors that have progressively evolved to encompass each of these critical functionalities. For DNA detection, our platforms employ label-free, single-step, and sequence-specific electrochemical DNA (E-DNA) sensors, in which an electrode-bound, redox-reporter-modified DNA "probe" generates a current change after undergoing a hybridization-induced conformational change. After successfully integrating E-DNA sensors into a microfluidic chip format, we subsequently incorporated on-chip genetic amplification techniques including polymerase chain reaction (PCR) and loop-mediated isothermal amplification (LAMP) to enable genetic detection at clinically relevant target concentrations. To maximize the potential point-of-care utility of our platforms, we have further integrated sample preparation via immunomagnetic separation, which allowed the detection of influenza virus directly from throat swabs and developed strategies for the multiplexed detection of related bacterial strains from the blood of septic mice. Finally, we developed an alternative electrochemical detection platform based on real-time LAMP, which not is only capable of detecting across a broad dynamic range of target concentrations, but also greatly simplifies quantitative measurement of nucleic acids. These efforts represent considerable progress toward the development of a true sample-in-answer-out platform for genetic detection of pathogens at the point of care. Given the many advantages of these systems, and the growing interest and innovative contributions from researchers in this field, we are optimistic that iterations of these systems will arrive in clinical settings in the foreseeable future.
Collapse
Affiliation(s)
- Kuangwen Hsieh
- Department of Mechanical Engineering, ‡Institute
for Collaborative Biotechnologies, §Interdepartmental Program in Biomolecular
Science and Engineering, ∥Department of Chemistry and Biochemistry, and ⊥Materials
Department, University of California, Santa Barbara, Santa Barbara, California 93106, United States
| | - B. Scott Ferguson
- Department of Mechanical Engineering, ‡Institute
for Collaborative Biotechnologies, §Interdepartmental Program in Biomolecular
Science and Engineering, ∥Department of Chemistry and Biochemistry, and ⊥Materials
Department, University of California, Santa Barbara, Santa Barbara, California 93106, United States
| | - Michael Eisenstein
- Department of Mechanical Engineering, ‡Institute
for Collaborative Biotechnologies, §Interdepartmental Program in Biomolecular
Science and Engineering, ∥Department of Chemistry and Biochemistry, and ⊥Materials
Department, University of California, Santa Barbara, Santa Barbara, California 93106, United States
| | - Kevin W. Plaxco
- Department of Mechanical Engineering, ‡Institute
for Collaborative Biotechnologies, §Interdepartmental Program in Biomolecular
Science and Engineering, ∥Department of Chemistry and Biochemistry, and ⊥Materials
Department, University of California, Santa Barbara, Santa Barbara, California 93106, United States
| | - H. Tom Soh
- Department of Mechanical Engineering, ‡Institute
for Collaborative Biotechnologies, §Interdepartmental Program in Biomolecular
Science and Engineering, ∥Department of Chemistry and Biochemistry, and ⊥Materials
Department, University of California, Santa Barbara, Santa Barbara, California 93106, United States
| |
Collapse
|
49
|
Yasukawa T, Yamashita Y, Moede R, Nakayama D, Iijima S, Mizutani F. A DNA hybridization sensor based on catalytic response by platinum deposition. Analyst 2015; 140:1014-8. [PMID: 25607535 DOI: 10.1039/c4an01561d] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We report a novel electrochemical sensing system for single-stranded DNA (ssDNA) with a specific sequence based on the catalytic reduction of protons with platinum deposited by the electrochemical reduction of chloro-2,2':6',2''-terpyridine platinum(II) chloride dihydrate (Pt complex) on a glassy carbon (GC) electrode. There was no catalytic property observed for proton reduction at the GC electrode, while the platinum deposited by the reduction of the Pt complex shows the catalytic activity of proton reduction. The intercalation of the Pt complex with double-stranded DNA (dsDNA) decreased the concentration of the free Pt complex with a concomitant diminution in the electrochemical catalytic current due to steric hindrance and a decrease in the diffusion coefficient of the intercalated Pt complex. Thus, the catalytic current of proton reduction by platinum deposited on a GC electrode decreased with an increase in the concentration of target ssDNA, when capture DNA with a complementary sequence was present in the solution to form the hybrid dsDNA. A detectable concentration range was estimated and found to be 0.1-1.0 μM. The catalytic current was significantly larger than the reduction current of the Pt complex, resulting in the sensitive detection of ssDNA. Furthermore, the present method is simply due to the immobilization of capture DNA being unnecessary.
Collapse
Affiliation(s)
- Tomoyuki Yasukawa
- Graduate School of Material Science, University of Hyogo, 3-2-1 Kouto, Kamigori, Ako, Hyogo 678-1297, Japan.
| | | | | | | | | | | |
Collapse
|
50
|
Crisalli P, McCallum C, Pennathur S. Label free detection of nucleic acids by modulating nanochannel surfaces. Chem Commun (Camb) 2015; 51:2335-8. [PMID: 25562395 DOI: 10.1039/c4cc09599e] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We develop surface-modified 100 nm silica nanofluidic channels that change in measured conductivity upon exposure to single- or double-stranded DNA. Through careful monitoring of both electromigrative and advective current in the channel, we can detect nanomolar concentrations of DNA. These results can be exploited for inexpensive, all-electronic DNA sensors.
Collapse
Affiliation(s)
- Pete Crisalli
- Engineering Science Building, Department of Mechanical Engineering, University of California, Santa Barbara, Santa Barbara, CA 93106, USA.
| | | | | |
Collapse
|