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Muslihati A, Septiani NLW, Gumilar G, Nugraha N, Wasisto HS, Yuliarto B. Peptide-Based Flavivirus Biosensors: From Cell Structure to Virological and Serological Detection Methods. ACS Biomater Sci Eng 2024; 10:2041-2061. [PMID: 38526408 DOI: 10.1021/acsbiomaterials.3c01965] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/26/2024]
Abstract
In tropical and developing countries, mosquito-borne diseases by flaviviruses pose a serious threat to public health. Early detection is critical for preventing their spread, but conventional methods are time-consuming and require skilled technicians. Biosensors have been developed to address this issue, but cross-reactivity with other flaviviruses remains a challenge. Peptides are essentially biomaterials used in diagnostics that allow virological and serological techniques to identify flavivirus selectively. This biomaterial originated as a small protein consisting of two to 50 amino acid chains. They offer flexibility in chemical modification and can be easily synthesized and applied to living cells in the engineering process. Peptides could potentially be developed as robust, low-cost, sensitive, and selective receptors for detecting flaviviruses. However, modification and selection of the receptor agents are crucial to determine the effectiveness of binding between the targets and the receptors. This paper addresses two potential peptide nucleic acids (PNAs) and affinity peptides that can detect flavivirus from another target-based biosensor as well as the potential peptide behaviors of flaviviruses. The PNAs detect flaviviruses based on the nucleotide base sequence of the target's virological profile via Watson-Crick base pairing, while the affinity peptides sense the epitope or immunological profile of the targets. Recent developments in the functionalization of peptides for flavivirus biosensors are explored in this Review by division into electrochemical, optical, and other detection methods.
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Affiliation(s)
- Atqiya Muslihati
- Doctoral Program of Engineering Physics, Faculty of Industrial Technology, Institut Teknologi Bandung, Ganesha 10, Bandung 40132, Indonesia
- Advanced Functional Material Laboratory, Faculty of Industrial Technology, Institut Teknologi Bandung, Jl. Ganesha No. 10, Bandung 41032, Indonesia
- PT Biostark Analitika Inovasi, Bandung 40375, Indonesia
| | - Ni Luh Wulan Septiani
- Advanced Functional Material Laboratory, Faculty of Industrial Technology, Institut Teknologi Bandung, Jl. Ganesha No. 10, Bandung 41032, Indonesia
- Research Center for Nanotechnology Systems, National Research and Innovation Agency (BRIN), Kawasan Puspiptek, South Tangerang 15134, Indonesia
| | - Gilang Gumilar
- Research Center for Electronics, National Research and Innovation Agency (BRIN), Bandung 40135, Indonesia
| | - Nugraha Nugraha
- Advanced Functional Material Laboratory, Faculty of Industrial Technology, Institut Teknologi Bandung, Jl. Ganesha No. 10, Bandung 41032, Indonesia
- Research Center for Nanosciences and Nanotechnology (RCNN), Institut Teknologi Bandung, Jl. Ganesha No. 10, Bandung 41032, Indonesia
| | | | - Brian Yuliarto
- Advanced Functional Material Laboratory, Faculty of Industrial Technology, Institut Teknologi Bandung, Jl. Ganesha No. 10, Bandung 41032, Indonesia
- Research Center for Nanosciences and Nanotechnology (RCNN), Institut Teknologi Bandung, Jl. Ganesha No. 10, Bandung 41032, Indonesia
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TABATA M, MIYAHARA Y. Control of interface functions in solid-state biosensors for stable detection of molecular recognition. PROCEEDINGS OF THE JAPAN ACADEMY. SERIES B, PHYSICAL AND BIOLOGICAL SCIENCES 2024; 100:32-56. [PMID: 38199246 PMCID: PMC10864167 DOI: 10.2183/pjab.100.004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2023] [Accepted: 09/25/2023] [Indexed: 01/12/2024]
Abstract
Significant progress has been achieved in the field of solid-state biosensors over the past 50 years. Various sensing devices with high-density integration and flexible configuration, as well as new applications for clinical diagnosis and healthcare, have been developed using blood, serum, and other body fluids such as sweat, tears, and saliva. A high-density array of ion-sensitive field effect transistors was developed by exploiting the advantages of advanced semiconductor technologies and commercialized in combination with an enzymatic primer extension reaction as a DNA sequencer in 2011. Different types of materials such as inorganic materials, metals, polymers, and biomolecules are mixed together on the surface of the gate while maintaining their own functions; therefore, compatibility among different materials has to be optimized so that the best detection performance of solid-state biosensors, including stability and reliability, is achieved as designed. Solid-state biosensors are suitable for the rapid, cost-effective, and noninvasive identification of biomarkers at various timepoints over the course of a disease.
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Affiliation(s)
- Miyuki TABATA
- Graduate School of Bio-Applications and Systems Engineering, Tokyo University of Agriculture and Technology, Koganei, Tokyo, Japan
| | - Yuji MIYAHARA
- Institute of Biomaterials and Bioengineering, Tokyo Medical and Dental University, Tokyo, Japan
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Wang ZK, Yuan ZX, Qian C, Liu XW. Plasmonic Probing of Deoxyribonucleic Acid Hybridization at the Single Base Pair Resolution. Anal Chem 2023; 95:18398-18406. [PMID: 38055795 DOI: 10.1021/acs.analchem.3c03316] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/08/2023]
Abstract
Partial DNA duplex formation greatly impacts the quality of DNA hybridization and has been extensively studied due to its significance in many biological processes. However, traditional DNA sensing methods suffer from time-consuming amplification steps and hinder the acquisition of information about single-molecule behavior. In this work, we developed a plasmonic method to probe the hybridization process at a single base pair resolution and study the relationship between the complementarity of DNA analytes and DNA hybridization behaviors. We measured single-molecule hybridization events with Au NP-modified ssDNA probes in real time and found two hybridization adsorption events: stable and transient adsorption. The ratio of these two hybridization adsorption events was correlated with the length of the complementary sequences, distinguishing DNA analytes from different complementary sequences. By using dual incident angle excitation, we recognized different single-base complementary sequences. These results demonstrated that the plasmonic method can be applied to study partial DNA hybridization behavior and has the potential to be incorporated into the identification of similar DNA sequences, providing a sensitive and quantitative tool for DNA analysis.
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Affiliation(s)
- Zhao-Kun Wang
- School of Life Sciences, Division of Life Sciences and Medicine, University of Science and Technology of China, Hefei 230027, China
| | - Zhen-Xuan Yuan
- Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
| | - Chen Qian
- Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
| | - Xian-Wei Liu
- Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei 230026, China
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Hashem A, Hossain MAM, Marlinda AR, Mamun MA, Sagadevan S, Shahnavaz Z, Simarani K, Johan MR. Nucleic acid-based electrochemical biosensors for rapid clinical diagnosis: Advances, challenges, and opportunities. Crit Rev Clin Lab Sci 2021; 59:156-177. [PMID: 34851806 DOI: 10.1080/10408363.2021.1997898] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Abstract
Clinical diagnostic tests should be quick, reliable, simple to perform, and affordable for diagnosis and treatment of diseases. In this regard, owing to their novel properties, biosensors have attracted the attention of scientists as well as end-users. They are efficient, stable, and relatively cheap. Biosensors have broad applications in medical diagnosis, including point-of-care (POC) monitoring, forensics, and biomedical research. The electrochemical nucleic acid (NA) biosensor, the latest invention in this field, combines the sensitivity of electroanalytical methods with the inherent bioselectivity of deoxyribonucleic acid (DNA) and ribonucleic acid (RNA). The NA biosensor exploits the affinity of single-stranded DNA/RNA for its complementary strand and is used to detect complementary sequences of NA based on hybridization. After the NA component in the sensor detects the analyte, a catalytic reaction or binding event that generates an electrical signal in the transducer ensues. Since 2000, much progress has been made in this field, but there are still numerous challenges. This critical review describes the advances, challenges, and prospects of NA-based electrochemical biosensors for clinical diagnosis. It includes the basic principles, classification, sensing enhancement strategies, and applications of biosensors as well as their advantages, limitations, and future prospects, and thus it should be useful to academics as well as industry in the improvement and application of EC NA biosensors.
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Affiliation(s)
- Abu Hashem
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, Kuala Lumpur, Malaysia.,Microbial Biotechnology Division, National Institute of Biotechnology, Dhaka, Bangladesh
| | - M A Motalib Hossain
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, Kuala Lumpur, Malaysia
| | - Ab Rahman Marlinda
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, Kuala Lumpur, Malaysia
| | - Mohammad Al Mamun
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, Kuala Lumpur, Malaysia.,Department of Chemistry, Jagannath University, Dhaka, Bangladesh
| | - Suresh Sagadevan
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, Kuala Lumpur, Malaysia
| | - Zohreh Shahnavaz
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, Kuala Lumpur, Malaysia
| | - Khanom Simarani
- Department of Microbiology, Institute of Biological Sciences, Faculty of Sciences, University of Malaya, Kuala Lumpur, Malaysia
| | - Mohd Rafie Johan
- Nanotechnology and Catalysis Research Centre, Institute for Advanced Studies, University of Malaya, Kuala Lumpur, Malaysia
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Bajaj A, Shrivastav AM, Eltzov E, Alkan N, Abdulhalim I. Detection of necrotrophic DNA marker of anthracnose causing Colletotrichum gloeosporioides fungi in harvested produce using surface plasmon resonance. Talanta 2021; 235:122776. [PMID: 34517633 DOI: 10.1016/j.talanta.2021.122776] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2021] [Revised: 07/26/2021] [Accepted: 07/31/2021] [Indexed: 01/18/2023]
Abstract
Agriculture and food crops monitoring is extremely important for securing the food supply chain to human society. Here, we developed a highly specific detection method for monitoring pathogenic fungus Colletotrichum gloeosporioides using necrotrophic DNA biomarker as the recognition element and surface plasmon resonance (SPR) as transducing mechanism in the prism coupling configuration. The sensor shows its response for a wide range of concentrations from pM to μM of target DNA sequence using a complementary DNA probe immobilized on the sensor surface, which could detect concentrations as low as 7 pM. The detection limit is found to be comparable with conventional molecular-based detection platforms, achieved due to optimized spectral SPR bimetallic substrate with subpixel resolution obtained by post processing. The response time of the sensor for detection is less than 30 min at room temperature. The quick detection scheme of the sensor may facilitate the screening of a large number of samples acquired for the sorting of harvested produce. This sensor is fast, reliable, cost-effective, and can be miniaturized for portability for the screening of real samples (mRNA) in the field and packaging house.
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Affiliation(s)
- Aabha Bajaj
- Department of Electro-optics and Photonics Engineering and the Ilse-Katz Center for Nanoscale Science and Technology, ECE-School, Ben Gurion University, Beer Sheva, 84105, Israel.
| | - Anand M Shrivastav
- Department of Electro-optics and Photonics Engineering and the Ilse-Katz Center for Nanoscale Science and Technology, ECE-School, Ben Gurion University, Beer Sheva, 84105, Israel.
| | - Evgeny Eltzov
- Institute of Postharvest and Food Science, Department of Postharvest Science, Volcani Center, Agricultural Research Organization, Rishon LeZion, 7505101, Israel; Agro-Nanotechnology Research Center, Agriculture Research Organization, The Volcani Center, Rishon LeZion, 7505101, Israel.
| | - Noam Alkan
- Institute of Postharvest and Food Science, Department of Postharvest Science, Volcani Center, Agricultural Research Organization, Rishon LeZion, 7505101, Israel.
| | - Ibrahim Abdulhalim
- Department of Electro-optics and Photonics Engineering and the Ilse-Katz Center for Nanoscale Science and Technology, ECE-School, Ben Gurion University, Beer Sheva, 84105, Israel.
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Espinosa JR, Galván M, Quiñones AS, Ayala JL, Ávila V, Durón SM. Electrochemical Resistive DNA Biosensor for the Detection of HPV Type 16. Molecules 2021; 26:molecules26113436. [PMID: 34198893 PMCID: PMC8200989 DOI: 10.3390/molecules26113436] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2021] [Revised: 05/29/2021] [Accepted: 06/03/2021] [Indexed: 11/16/2022] Open
Abstract
In this work, a low-cost and rapid electrochemical resistive DNA biosensor based on the current relaxation method is described. A DNA probe, complementary to the specific human papillomavirus type 16 (HPV-16) sequence, was immobilized onto a screen-printed gold electrode. DNA hybridization was detected by applying a potential step of 30 mV to the system, composed of an external capacitor and the modified electrode DNA/gold, for 750 µs and then relaxed back to the OCP, at which point the voltage and current discharging curves are registered for 25 ms. From the discharging curves, the potential and current relaxation were evaluated, and by using Ohm's law, the charge transfer resistance through the DNA-modified electrode was calculated. The presence of a complementary sequence was detected by the change in resistance when the ssDNA is transformed in dsDNA due to the hybridization event. The target DNA concentration was detected in the range of 5 to 20 nM. The results showed a good fit to the regression equation ΔRtotal(Ω)=2.99 × [DNA]+81.55, and a detection limit of 2.39 nM was obtained. As the sensing approach uses a direct current, the electronic architecture of the biosensor is simple and allows for the separation of faradic and nonfaradaic contributions. The simple electrochemical resistive biosensor reported here is a good candidate for the point-of-care diagnosis of HPV at a low cost and in a short detection time.
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Affiliation(s)
- José R. Espinosa
- Unidad Académica de Ingeniería Eléctrica, Universidad Autónoma de Zacatecas, Col. Centro, Av. Ramón López Velarde 801. Zacatecas, Zacatecas C.P. 98000, Mexico
- Unidad Académica de Ingeniería I, Ingeniería Mecánica, Universidad Autónoma de Zacatecas, Col. Centro, Av. Ramón López Velarde 801. Zacatecas, Zacatecas C.P. 98000, Mexico
- Correspondence: (J.R.E.); (S.M.D.); Tel.:+52−4929256690 (ext. 4655) (S.M.D.)
| | - Marisol Galván
- Unidad Académica de Ciencias Químicas, Universidad Autónoma de Zacatecas, Campus Siglo XXI, Edif. 6, Km 6 carr. Zacatecas-Guadalajara, Zacatecas C.P. 98160, Mexico; (M.G.); (A.S.Q.); (J.L.A.)
| | - Arturo S. Quiñones
- Unidad Académica de Ciencias Químicas, Universidad Autónoma de Zacatecas, Campus Siglo XXI, Edif. 6, Km 6 carr. Zacatecas-Guadalajara, Zacatecas C.P. 98160, Mexico; (M.G.); (A.S.Q.); (J.L.A.)
| | - Jorge L. Ayala
- Unidad Académica de Ciencias Químicas, Universidad Autónoma de Zacatecas, Campus Siglo XXI, Edif. 6, Km 6 carr. Zacatecas-Guadalajara, Zacatecas C.P. 98160, Mexico; (M.G.); (A.S.Q.); (J.L.A.)
| | - Verónica Ávila
- Instituto Politécnico Nacional, Unidad Profesional Interdisciplinaria de Ingeniería Campus Zacatecas, Ingeniería Ambiental, Zacatecas C.P. 98160, Mexico;
| | - Sergio M. Durón
- Unidad Académica de Ciencias Químicas, Universidad Autónoma de Zacatecas, Campus Siglo XXI, Edif. 6, Km 6 carr. Zacatecas-Guadalajara, Zacatecas C.P. 98160, Mexico; (M.G.); (A.S.Q.); (J.L.A.)
- Correspondence: (J.R.E.); (S.M.D.); Tel.:+52−4929256690 (ext. 4655) (S.M.D.)
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Tabata M, Kataoka-Hamai C, Nogami K, Tsuya D, Goda T, Matsumoto A, Miyahara Y. Organic and inorganic mixed phase modification of a silver surface for functionalization with biomolecules and stabilization of electromotive force. RSC Adv 2021; 11:24958-24967. [PMID: 35481016 PMCID: PMC9036890 DOI: 10.1039/d1ra03449a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2021] [Accepted: 07/12/2021] [Indexed: 02/06/2023] Open
Abstract
A solid-state potentiometric biosensor based on the organic and inorganic mixed phase modification of a silver surface is proposed. Stabilization of the electromotive force and functionalization with biomolecules on the sensing surface were simultaneously achieved using silver chloride chemically deposited with 1,3-diaminopropanetetraacetic acid ferric ammonium salt monohydrate and a self-assembled monolayer with oligonucleotide probes, respectively. The formation of silver chloride and adsorption of alkanethiol on the silver surface were confirmed with X-ray photoelectron spectroscopy. The resulting modified surface reduced the nonspecific binding of interfering biomolecules and achieved a high signal to noise ratio. The electromotive forces of the modified silver thin film electrodes were stable under constant chloride ion concentrations. Hybridization assays were performed to detect microRNA 146. The lower limit of detection was 0.1 pM because of the small standard deviation. The proposed biosensor could be useful as a disposable single-use sensor in medical fields such as liquid biopsies. The organic and inorganic mixed phase modification of a silver surface is proposed for solid-state potentiometric biosensors.![]()
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Affiliation(s)
- Miyuki Tabata
- Tokyo Medical and Dental University
- Tokyo 101-0062
- Japan
| | | | - Kozue Nogami
- Tokyo Medical and Dental University
- Tokyo 101-0062
- Japan
| | - Daiju Tsuya
- National Institute for Materials Science
- Ibaraki
- 305-0047 Japan
| | - Tatsuro Goda
- Tokyo Medical and Dental University
- Tokyo 101-0062
- Japan
| | | | - Yuji Miyahara
- Tokyo Medical and Dental University
- Tokyo 101-0062
- Japan
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Takase S, Miyagawa K, Ikeda H. Label-Free Detection of Zeptomol miRNA via Peptide Nucleic Acid Hybridization Using Novel Cyclic Voltammetry Method. SENSORS 2020; 20:s20030836. [PMID: 32033197 PMCID: PMC7038687 DOI: 10.3390/s20030836] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/16/2019] [Revised: 01/30/2020] [Accepted: 02/01/2020] [Indexed: 11/26/2022]
Abstract
To harness the applicability of microribonucleic acid (miRNA) as a cancer biomarker, the detection sensitivity of serum miRNA needs to be improved. This study evaluated the detection sensitivity of miRNA hybridization using cyclic voltammograms (CVs) and microelectrode array chips modified with peptide nucleic acid (PNA) probes and 6-hydroxy-1-hexanethiol. We investigated the PNA probe modification pattern on array chips using fluorescently labeled cDNA. The pattern was not uniformly spread over the working electrode (WE) and had a one-dimensional swirl-like pattern. Accordingly, we established a new ion-channel sensor model wherein the WE is negatively biased through the conductive π–π stacks of the PNA/DNA duplexes. This paper discusses the mechanism underlying the voltage shift in the CV curves based on the electric double-layer capacitance. Additionally, the novel hybridization evaluation parameter ΔE is introduced. Compared to conventional evaluation using oxidation current changes, ΔE was more sensitive. Using ΔE and a new hybridization system for ultrasmall amounts of aqueous solutions (as low as 35 pL), 140 zeptomol label-free miRNA were detected without polymerase chain reaction (PCR) amplification at an adequate sensitivity. Herein, the differences in the target molar amount and molar concentration are elucidated from the viewpoint of hybridization sensitivity.
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Affiliation(s)
- Shintaro Takase
- New Business Management Division, Management Planning H.Q., YOKOWO CO. LTD., 5-11, Takinogawa 7-Chome, Kita-ku, Tokyo 114-8515, Japan;
- Correspondence: ; Tel.: +81-90-8313-9108; Fax: +81-3-3962-6001
| | - Kouta Miyagawa
- New Business Management Division, Management Planning H.Q., YOKOWO CO. LTD., 5-11, Takinogawa 7-Chome, Kita-ku, Tokyo 114-8515, Japan;
| | - Hisafumi Ikeda
- Department of Environmental Science and Education, Faculty of Home Economics, Tokyo Kasei University, 1-18-1 Kaga, Itabashi City, Tokyo 173-8602, Japan;
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Saadati A, Hassanpour S, Guardia MDL, Mosafer J, Hashemzaei M, Mokhtarzadeh A, Baradaran B. Recent advances on application of peptide nucleic acids as a bioreceptor in biosensors development. Trends Analyt Chem 2019. [DOI: 10.1016/j.trac.2019.02.030] [Citation(s) in RCA: 39] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
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Hlongwane GN, Dodoo-Arhin D, Wamwangi D, Daramola MO, Moothi K, Iyuke SE. DNA hybridisation sensors for product authentication and tracing: State of the art and challenges. SOUTH AFRICAN JOURNAL OF CHEMICAL ENGINEERING 2019. [DOI: 10.1016/j.sajce.2018.11.002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
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Surface regeneration and reusability of label-free DNA biosensors based on weak polyelectrolyte-modified capacitive field-effect structures. Biosens Bioelectron 2018; 126:510-517. [PMID: 30476882 DOI: 10.1016/j.bios.2018.11.019] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2018] [Revised: 11/05/2018] [Accepted: 11/13/2018] [Indexed: 11/21/2022]
Abstract
The reusability of capacitive field-effect electrolyte-insulator-semiconductor (EIS) sensors modified with a cationic weak polyelectrolyte (poly(allylamine hydrochloride) (PAH)) for the label-free electrical detection of single-stranded DNA (ssDNA), in-solution- and on-chip-hybridized double-stranded DNA (dsDNA) has been studied. It has been demonstrated that via simply regeneration of the gate surface of the EIS sensor by means of an electrostatic adsorption of a new PAH layer, the same biosensor can be reused for at least five DNA-detection measurements. Because of the reversal of the charge sign of the outermost layer after each surface modification with the cationic PAH or negatively charged DNA molecules, the EIS-biosensor signal exhibits a zigzag-like behavior. The amplitude of the signal changes has a tendency to decrease with increasing number of macromolecular layers. The direction of the EIS-signal shifts can serve as an indicator for a successful DNA-immobilization or -hybridization process. In addition, we observed that the EIS-signal changes induced by each surface-modification step (PAH adsorption, immobilization of ssDNA or dsDNA molecules and on-chip hybridization of complementary target cDNA) is decreased with increasing the ionic strength of the measurement solution, due to the more efficient macromolecular charge-screening by counter ions. The results of field-effect experiments were supported by fluorescence-intensity measurements of the PAH- or DNA-modified EIS surface using various fluorescence dyes.
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Conformational and energetic properties of pyrrolidinyl PNA-DNA duplexes: A molecular dynamics simulation. COMPUT THEOR CHEM 2017. [DOI: 10.1016/j.comptc.2017.10.017] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
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14
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Impedimetric genosensor for miRNA-34a detection in cell lysates using polypyrrole. J Solid State Electrochem 2017. [DOI: 10.1007/s10008-017-3819-5] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
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15
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Detection principles of biological and chemical FET sensors. Biosens Bioelectron 2017; 98:437-448. [PMID: 28711826 DOI: 10.1016/j.bios.2017.07.010] [Citation(s) in RCA: 209] [Impact Index Per Article: 29.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2017] [Revised: 06/21/2017] [Accepted: 07/04/2017] [Indexed: 01/08/2023]
Abstract
The seminal importance of detecting ions and molecules for point-of-care tests has driven the search for more sensitive, specific, and robust sensors. Electronic detection holds promise for future miniaturized in-situ applications and can be integrated into existing electronic manufacturing processes and technology. The resulting small devices will be inherently well suited for multiplexed and parallel detection. In this review, different field-effect transistor (FET) structures and detection principles are discussed, including label-free and indirect detection mechanisms. The fundamental detection principle governing every potentiometric sensor is introduced, and different state-of-the-art FET sensor structures are reviewed. This is followed by an analysis of electrolyte interfaces and their influence on sensor operation. Finally, the fundamentals of different detection mechanisms are reviewed and some detection schemes are discussed. In the conclusion, current commercial efforts are briefly considered.
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Makra I, Brajnovits A, Jágerszki G, Fürjes P, Gyurcsányi RE. Potentiometric sensing of nucleic acids using chemically modified nanopores. NANOSCALE 2017; 9:739-747. [PMID: 27973633 DOI: 10.1039/c6nr05886h] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Unlike the overwhelming majority of nanopore sensors that are based on the measurement of a transpore ionic current, here we introduce a potentiometric sensing scheme and demonstrate its application for the selective detection of nucleic acids. The sensing concept uses the charge inversion that occurs in the sensing zone of a nanopore upon binding of negatively charged microRNA strands to positively charged peptide-nucleic acid (PNA) modified nanopores. The initial anionic permselectivity of PNA-modified nanopores is thus gradually changed to cationic permselectivity, which can be detected simply by measuring the nanoporous membrane potential. A quantitative theoretical treatment of the potentiometric microRNA response is provided based on the Nernst-Planck/Poisson model for the nanopore system assuming first order kinetics for the nucleic acid hybridization. An excellent correlation between the theoretical and experimental results was observed, which revealed that the binding process is focused at the nanopore entrance with contributions from both in pore and out of pore sections of the nanoporous membrane. The theoretical treatment is able to give clear guidelines for further optimization of potentiometric nanopore-based nucleic acid sensors by predicting the effect of the most important experimental parameters on the potential response.
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Affiliation(s)
- István Makra
- MTA-BME "Lendület" Chemical Nanosensors Research Group, Department of Inorganic and Analytical Chemistry, Budapest University of Technology and Economics, Szt. Gellért tér 4, 1111 Budapest, Hungary.
| | - Alexandra Brajnovits
- MTA-BME "Lendület" Chemical Nanosensors Research Group, Department of Inorganic and Analytical Chemistry, Budapest University of Technology and Economics, Szt. Gellért tér 4, 1111 Budapest, Hungary.
| | - Gyula Jágerszki
- MTA-BME Research Group of Technical Analytical Chemistry, Budapest University of Technology and Economics, Szt. Gellért tér 4, 1111 Budapest, Hungary
| | - Péter Fürjes
- MTA Centre for Energy Research - Institute of Technical Physics and Materials Science, Konkoly-Thege str. 29-33, H-1121 Budapest, Hungary
| | - Róbert E Gyurcsányi
- MTA-BME "Lendület" Chemical Nanosensors Research Group, Department of Inorganic and Analytical Chemistry, Budapest University of Technology and Economics, Szt. Gellért tér 4, 1111 Budapest, Hungary.
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Kaisti M, Boeva Z, Koskinen J, Nieminen S, Bobacka J, Levon K. Hand-Held Transistor Based Electrical and Multiplexed Chemical Sensing System. ACS Sens 2016. [DOI: 10.1021/acssensors.6b00520] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Matti Kaisti
- University of Turku, Technology Research
Center, 20014 Turun Yliopisto, Finland
| | - Zhanna Boeva
- Åbo Akademi University, Faculty of
Science and Engineering, Johan Gadolin Process Chemistry Centre, Laboratory
of Analytical Chemistry, Biskopsgatan 8, Turku/Åbo, 20500, Finland
- Lomonosov Moscow State University, Chemistry Department,
Polymer Division, Leninskie
gory, 1, build, 119991, Moscow, Russian Federation
| | - Juho Koskinen
- University of Turku, Technology Research
Center, 20014 Turun Yliopisto, Finland
| | - Sami Nieminen
- University of Turku, Technology Research
Center, 20014 Turun Yliopisto, Finland
| | - Johan Bobacka
- Åbo Akademi University, Faculty of
Science and Engineering, Johan Gadolin Process Chemistry Centre, Laboratory
of Analytical Chemistry, Biskopsgatan 8, Turku/Åbo, 20500, Finland
| | - Kalle Levon
- NYU Tandon School of Engineering, Department
of Chemical and Biomolecular Engineering, Six Metrotech Center, Brooklyn, New York 11201, United States
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18
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Dak P, Ebrahimi A, Swaminathan V, Duarte-Guevara C, Bashir R, Alam MA. Droplet-based Biosensing for Lab-on-a-Chip, Open Microfluidics Platforms. BIOSENSORS 2016; 6:14. [PMID: 27089377 PMCID: PMC4931474 DOI: 10.3390/bios6020014] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/11/2016] [Revised: 03/31/2016] [Accepted: 04/09/2016] [Indexed: 01/09/2023]
Abstract
Low cost, portable sensors can transform health care by bringing easily available diagnostic devices to low and middle income population, particularly in developing countries. Sample preparation, analyte handling and labeling are primary cost concerns for traditional lab-based diagnostic systems. Lab-on-a-chip (LoC) platforms based on droplet-based microfluidics promise to integrate and automate these complex and expensive laboratory procedures onto a single chip; the cost will be further reduced if label-free biosensors could be integrated onto the LoC platforms. Here, we review some recent developments of label-free, droplet-based biosensors, compatible with "open" digital microfluidic systems. These low-cost droplet-based biosensors overcome some of the fundamental limitations of the classical sensors, enabling timely diagnosis. We identify the key challenges that must be addressed to make these sensors commercially viable and summarize a number of promising research directions.
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Affiliation(s)
- Piyush Dak
- Purdue University, West Lafayette 47906, IN, USA.
| | | | | | | | - Rashid Bashir
- University of Illinois at Urbana-Champaign, Urbana 61801, IL, USA.
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19
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Yang F, Dong B, Nie K, Shi H, Wu Y, Wang H, Liu Z. Light-Directed Synthesis of High-Density Peptide Nucleic Acid Microarrays. ACS COMBINATORIAL SCIENCE 2015; 17:608-14. [PMID: 26339951 DOI: 10.1021/acscombsci.5b00074] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Peptide nucleic acids (PNAs) are a class of nucleic acid mimics that can bind to the complementary DNA or RNA with high specificity and sensitivity. PNA-based microarrays have distinct characteristics and have improved performance in many aspects compared to DNA microarrays. A new set of PNA monomers has been synthesized and used as the building blocks for the preparation of high density PNA microarrays. These monomers have their backbones protected by the photolabile group 2-(2-nitrophenyl)propyloxy carbonyl (NPPOC), and their exocyclic amino groups protected by amide carbonyl groups. A light-directed synthesis system was designed and applied to the in situ synthesis of a PNA microarray with a density of over 10,000 probes per square centimeter. This PNA microarray was able to detect single and multiple base-mismatches correctly with a high discrimination ratio.
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Affiliation(s)
- Feipeng Yang
- Department
of Biomedical
Engineering, School of Geosciences and Info-Physics, Central South University, Changsha, 410083, China
| | - Bo Dong
- Department
of Biomedical
Engineering, School of Geosciences and Info-Physics, Central South University, Changsha, 410083, China
| | - Kaixuan Nie
- Department
of Biomedical
Engineering, School of Geosciences and Info-Physics, Central South University, Changsha, 410083, China
| | - Huanhuan Shi
- Department
of Biomedical
Engineering, School of Geosciences and Info-Physics, Central South University, Changsha, 410083, China
| | - Yanqi Wu
- Department
of Biomedical
Engineering, School of Geosciences and Info-Physics, Central South University, Changsha, 410083, China
| | - Hongyin Wang
- Department
of Biomedical
Engineering, School of Geosciences and Info-Physics, Central South University, Changsha, 410083, China
| | - Zhengchun Liu
- Department
of Biomedical
Engineering, School of Geosciences and Info-Physics, Central South University, Changsha, 410083, China
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20
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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.
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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.
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21
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22
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Shi H, Yang F, Li W, Zhao W, Nie K, Dong B, Liu Z. A review: fabrications, detections and applications of peptide nucleic acids (PNAs) microarray. Biosens Bioelectron 2014; 66:481-9. [PMID: 25499661 DOI: 10.1016/j.bios.2014.12.010] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2014] [Revised: 11/25/2014] [Accepted: 12/02/2014] [Indexed: 01/24/2023]
Abstract
Peptide nucleic acid (PNA) is a mimic of DNA that shows a high chemical stability and can survive the enzymatic degradation of nucleases and proteases. The superior binding properties of PNA enable the formation of PNA/DNA or PNA/RNA duplex with excellent thermal stability and unique ionic strength effect. The introduction of microarray makes it possible to achieve accurate, high throughput parallel analysis of DNA or RNA with a highly integrated and low reagents consuming device. This powerful tool expands the applications of PNA in genotyping based on single nucleotide polymorphism (SNP) detection, the monitoring of disease-related miRNA expression and pathogen detection. This review paper discusses the fabrications of PNA microarrays through in situ synthesis strategy or spotting method by automatic devices, the various detection methods for the microarray-based hybridization and the current applications of PNA microarrays.
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Affiliation(s)
- Huanhuan Shi
- Institute of Biomedical Engineering, School of Geosciences and Info-Physics, Central South University, Changsha 410083, China
| | - Feipeng Yang
- Institute of Biomedical Engineering, School of Geosciences and Info-Physics, Central South University, Changsha 410083, China
| | - Wenjia Li
- Institute of Biomedical Engineering, School of Geosciences and Info-Physics, Central South University, Changsha 410083, China
| | - Weiwei Zhao
- Institute of Biomedical Engineering, School of Geosciences and Info-Physics, Central South University, Changsha 410083, China
| | - Kaixuan Nie
- Institute of Biomedical Engineering, School of Geosciences and Info-Physics, Central South University, Changsha 410083, China
| | - Bo Dong
- Institute of Biomedical Engineering, School of Geosciences and Info-Physics, Central South University, Changsha 410083, China
| | - Zhengchun Liu
- Institute of Biomedical Engineering, School of Geosciences and Info-Physics, Central South University, Changsha 410083, China.
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23
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Hamidi-Asl E, Daems D, De Wael K, Van Camp G, Nagels LJ. Concentration-related response potentiometric titrations to study the interaction of small molecules with large biomolecules. Anal Chem 2014; 86:12243-9. [PMID: 25390494 DOI: 10.1021/ac503385x] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
In the present paper, the utility of a special potentiometric titration approach for recognition and calculation of biomolecule/small-molecule interactions is reported. This approach is fast, sensitive, reproducible, and inexpensive in comparison to the other methods for the determination of the association constant values (Ka) and the interaction energies (ΔG). The potentiometric titration measurement is based on the use of a classical polymeric membrane indicator electrode in a solution of the small-molecule ligand. The biomolecule is used as a titrant. The potential is measured versus a reference electrode and transformed into a concentration-related signal over the entire concentration interval, also at low concentrations, where the millivolt (y-axis) versus log canalyte (x-axis) potentiometric calibration curve is not linear. In the procedure, Ka is calculated for the interaction of cocaine with a cocaine binding aptamer and with an anticocaine antibody. To study the selectivity and cross-reactivity, other oligonucleotides and aptamers are tested, as well as other small ligand molecules such as tetrakis(4-chlorophenyl)borate, metergoline, lidocaine, and bromhexine. The calculated Ka compared favorably to the value reported in the literature using surface plasmon resonance. The potentiometric titration approach called "concentration-related response potentiometry" is used to study molecular interaction for seven macromolecular target molecules and four small-molecule ligands.
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Affiliation(s)
- Ezat Hamidi-Asl
- AXES Research Group and ‡Chromatographic Organic Trace Analysis, Department of Chemistry, University of Antwerp , Groenenborgerlaan 171, 2020 Antwerp, Belgium
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24
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Introduction to the special issue on "State-of-the-Art Sensor Technology in Japan 2012". SENSORS 2014; 14:11045-8. [PMID: 24960081 PMCID: PMC4118382 DOI: 10.3390/s140611045] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 06/16/2014] [Accepted: 06/19/2014] [Indexed: 12/24/2022]
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25
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Poghossian A, Schöning MJ. Label-Free Sensing of Biomolecules with Field-Effect Devices for Clinical Applications. ELECTROANAL 2014. [DOI: 10.1002/elan.201400073] [Citation(s) in RCA: 100] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
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26
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Kamath RR, Madou MJ. Three-Dimensional Carbon Interdigitated Electrode Arrays for Redox-Amplification. Anal Chem 2014; 86:2963-71. [DOI: 10.1021/ac4033356] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Rahul R. Kamath
- Biomedical Engineering, University of California at Irvine, Irvine, California 92697, United States
- Mechanical and Aerospace
Engineering and Biomedical Engineering, University of California at Irvine, Irvine, California 92697, United States
| | - Marc J. Madou
- Biomedical Engineering, University of California at Irvine, Irvine, California 92697, United States
- Mechanical and Aerospace
Engineering and Biomedical Engineering, University of California at Irvine, Irvine, California 92697, United States
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