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Sahraneshin Samani S, Sameiyan E, Tabatabaei Yazdi F, Mortazavi SA, Alibolandi M, Ramezani M, Taghdisi SM, Abnous K. Sandwich-type aptamer-based biosensors for thrombin detection. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2024; 16:1985-2001. [PMID: 38502201 DOI: 10.1039/d3ay02196c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/21/2024]
Abstract
Thrombin, a proteolytic enzyme, plays an essential role in catalyzing many blood clotting reactions. Thrombin can act as a marker for some blood-related diseases, such as leukemia, thrombosis, Alzheimer's disease and liver disease. Therefore, its diagnosis is of great importance in the fields of biological and medical research. Biosensors containing sandwich-type structures have attracted much consideration owing to their superior features such as reproducible and stable responses with easy improvement in the sensitivity of detection. Sandwich-type platforms can be designed using a pair of receptors that are able to bind to diverse locations of the same target. Herein, we investigate recent advances in the progress and applications of thrombin aptasensors containing a sandwich-type structure, in which two thrombin-binding aptamers (TBAs) identify different parts of the thrombin molecule, leading to the formation of a sandwich structure and ultimately signal detection. We also discuss the pros and cons of these approaches and outline the most logical approach in each section.
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Affiliation(s)
- Somayeh Sahraneshin Samani
- Department of Food Science and Technology, Faculty of Agriculture, Ferdowsi University of Mashhad (FUM), Mashhad, Iran
| | - Elham Sameiyan
- Department of Pharmaceutical Biotechnology, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, Iran
- Targeted Drug Delivery Research Center, Pharmaceutical Technology Institute, Mashhad University of Medical Sciences, Mashhad, Iran.
| | - Farideh Tabatabaei Yazdi
- Department of Food Science and Technology, Faculty of Agriculture, Ferdowsi University of Mashhad (FUM), Mashhad, Iran
| | - Sayed Ali Mortazavi
- Department of Food Science and Technology, Faculty of Agriculture, Ferdowsi University of Mashhad (FUM), Mashhad, Iran
| | - Mona Alibolandi
- Pharmaceutical Research Center, Pharmaceutical Technology Institute, Mashhad University of Medical Sciences, Mashhad, Iran.
| | - Mohammad Ramezani
- Pharmaceutical Research Center, Pharmaceutical Technology Institute, Mashhad University of Medical Sciences, Mashhad, Iran.
| | - Seyed Mohammad Taghdisi
- Targeted Drug Delivery Research Center, Pharmaceutical Technology Institute, Mashhad University of Medical Sciences, Mashhad, Iran.
| | - Khalil Abnous
- Pharmaceutical Research Center, Pharmaceutical Technology Institute, Mashhad University of Medical Sciences, Mashhad, Iran.
- Department of Medicinal Chemistry, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, Iran
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Banu M, Simion M, Popescu MC, Varasteanu P, Kusko M, Farcasanu IC. Specific detection of stable single nucleobase mismatch using SU-8 coated silicon nanowires platform. Talanta 2018; 185:281-290. [PMID: 29759201 DOI: 10.1016/j.talanta.2018.03.095] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2017] [Revised: 03/26/2018] [Accepted: 03/29/2018] [Indexed: 10/17/2022]
Abstract
Novel microarray platform for single nucleotide polymorphisms (SNPs) detection has been developed using silicon nanowires (SiNWs) as support and two different surface modification methods for attaining the necessary functional groups. Accordingly, we compared the detection specificity and stability over time of the probes printed on SiNWs modified with (3-aminopropyl)triethoxysilane (APTES) and glutaraldehyde (GAD), or coated with a simpler procedure using epoxy-based SU-8 photoresist. Scanning electron microscopy (SEM) and energy dispersive X-ray spectroscopy (EDX) were used for comparative characterization of the unmodified and coated SiNWs. The hybridization efficiency was assessed by comprehensive statistical analysis of the acquired data from confocal fluorescence scanning of the manufactured biochips. The high detection specificity between the hybridized probes containing different mismatch types was demonstrated on SU-8 coating by one way ANOVA test (adjusted p value *** < .0001). The stability over time of the probes tethered on SiNWs coated with SU-8 was evaluated after 1, 4, 8 and 21 days of probe incubation, revealing values for coefficient of variation (CV) between 2.4% and 5.6%. The signal-to-both-standard-deviations ratio measured for SU-8 coated SiNWs platform was similar to the commercial support, while the APTES-GAD coated SiNWs exhibited the highest values.
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Affiliation(s)
- Melania Banu
- National Institute for Research and Development in Microtechnologies - IMT Bucharest, 126 A Erou Iancu Nicolae Street, 077190 Bucharest, Romania; Faculty of Biology, University of Bucharest, 91-95 Splaiul Independentei Avenue, 050095, Bucharest, Romania.
| | - Monica Simion
- National Institute for Research and Development in Microtechnologies - IMT Bucharest, 126 A Erou Iancu Nicolae Street, 077190 Bucharest, Romania.
| | - Marian C Popescu
- National Institute for Research and Development in Microtechnologies - IMT Bucharest, 126 A Erou Iancu Nicolae Street, 077190 Bucharest, Romania
| | - Pericle Varasteanu
- National Institute for Research and Development in Microtechnologies - IMT Bucharest, 126 A Erou Iancu Nicolae Street, 077190 Bucharest, Romania; Faculty of Physics, University of Bucharest, 405 Atomistilor Street, 077125 Magurele, Romania
| | - Mihaela Kusko
- National Institute for Research and Development in Microtechnologies - IMT Bucharest, 126 A Erou Iancu Nicolae Street, 077190 Bucharest, Romania
| | - Ileana C Farcasanu
- Faculty of Biology, University of Bucharest, 91-95 Splaiul Independentei Avenue, 050095, Bucharest, Romania; Faculty of Chemistry, University of Bucharest, 90-92 Panduri Street, 050663, Bucharest, Romania
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Penmatsa V, Rahim RA, Kawarada H, Wang C. Functionalized carbon microarrays platform for high sensitive detection of HIV-Tat peptide. RSC Adv 2015. [DOI: 10.1039/c5ra10214f] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Detection of HIV-TAT peptide on functionalized 3-dimensional carbon micropillar array platform with detection limit of 50 pmol.
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Affiliation(s)
- Varun Penmatsa
- Department of Mechanical and Materials Engineering
- Florida International University
- Miami
- USA
- Department of Ophthalmology and Visual Science
| | - Ruslinda A. Rahim
- Institute of Nano Electronic Engineering (INEE)
- Universiti Malaysia Perlis
- Perlis
- Malaysia
| | - Hiroshi Kawarada
- School of Science and Engineering
- Waseda University
- Shinjuku 169-8555
- Japan
| | - Chunlei Wang
- Department of Mechanical and Materials Engineering
- Florida International University
- Miami
- USA
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Sharma H, Wood JB, Lin S, Corn R, Khine M. Shrink-induced silica multiscale structures for enhanced fluorescence from DNA microarrays. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2014; 30:10979-83. [PMID: 25191785 PMCID: PMC4172299 DOI: 10.1021/la501123b] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/24/2014] [Revised: 08/08/2014] [Indexed: 05/22/2023]
Abstract
We describe a manufacturable and scalable method for fabrication of multiscale wrinkled silica (SiO2) structures on shrink-wrap film to enhance fluorescence signals in DNA fluorescence microarrays. We are able to enhance the fluorescence signal of hybridized DNA by more than 120 fold relative to a planar glass slide. Notably, our substrate has improved detection sensitivity (280 pM) relative to planar glass slide (11 nM). Furthermore, this is accompanied by a 30-45 times improvement in the signal-to-noise ratio (SNR). Unlike metal enhanced fluorescence (MEF) based enhancements, this is a far-field and uniform effect based on surface concentration and photophysical effects from the nano- to microscale SiO2 structures. Notably, the photophysical effects contribute an almost 2.5 fold enhancement over the concentration effects alone. Therefore, this simple and robust method offers an efficient technique to enhance the detection capabilities of fluorescence based DNA microarrays.
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Affiliation(s)
- Himanshu Sharma
- Department
of Chemical Engineering & Materials Science, Department of Chemistry, and Department of
Biomedical Engineering, University of California,
Irvine, Irvine, California 92697, United States
| | - Jennifer B. Wood
- Department
of Chemical Engineering & Materials Science, Department of Chemistry, and Department of
Biomedical Engineering, University of California,
Irvine, Irvine, California 92697, United States
| | - Sophia Lin
- Department
of Chemical Engineering & Materials Science, Department of Chemistry, and Department of
Biomedical Engineering, University of California,
Irvine, Irvine, California 92697, United States
| | - Robert
M. Corn
- Department
of Chemical Engineering & Materials Science, Department of Chemistry, and Department of
Biomedical Engineering, University of California,
Irvine, Irvine, California 92697, United States
| | - Michelle Khine
- Department
of Chemical Engineering & Materials Science, Department of Chemistry, and Department of
Biomedical Engineering, University of California,
Irvine, Irvine, California 92697, United States
- E-mail:
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Penmatsa V, Ruslinda AR, Beidaghi M, Kawarada H, Wang C. Platelet-derived growth factor oncoprotein detection using three-dimensional carbon microarrays. Biosens Bioelectron 2012; 39:118-23. [PMID: 22841446 DOI: 10.1016/j.bios.2012.06.055] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2012] [Revised: 06/13/2012] [Accepted: 06/29/2012] [Indexed: 01/31/2023]
Abstract
The potential of aptamers as ligand binding molecule has opened new avenues in the development of biosensors for cancer oncoproteins. In this paper, a label-free detection strategy using signaling aptamer/protein binding complex for platelet-derived growth factor (PDGF-BB) oncoprotein detection is reported. The detection mechanism is based on the release of fluorophore (TOTO intercalating dye) from the target binding aptamer's stem structure when it captures PDGF. Amino-terminated three-dimensional carbon microarrays fabricated by pyrolyzing patterned photoresist were used as a detection platform. The sensor showed near linear relationship between the relative fluorescence difference and protein concentration even in the sub-nanomolar range with an excellent detection limit of 5pmol. This detection strategy is promising in a wide range of applications in the detection of cancer biomarkers and other proteins.
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Affiliation(s)
- Varun Penmatsa
- Department of Mechanical and Materials Engineering, Florida International University, United States
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Lee SJ, Tatavarty R, Gu MB. Electrospun polystyrene-poly(styrene-co-maleic anhydride) nanofiber as a new aptasensor platform. Biosens Bioelectron 2012; 38:302-7. [PMID: 22776178 DOI: 10.1016/j.bios.2012.06.009] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2012] [Revised: 06/02/2012] [Accepted: 06/06/2012] [Indexed: 11/20/2022]
Abstract
Here, we report the use of an aptamer-immobilized electrospun polystyrene-poly(styrene-co-maleic anhydride) (PS-PSMA) nanofiber as a new aptasensor platform for protein detection. Two thrombin-binding aptamers (TBA29 and TBA15) were used as a model platform to facilitate efficient detection of thrombin in a sandwich manner. Thrombin concentration was measured by fluorescence microscopy and spectroscopy, in which aptamers were labeled with either fluorescein dye or quantum dots. The results indicated that thrombin was captured uniformly on the surface of the nanofiber. Using this sandwich-type biosensor, the minimum detectable concentration of thrombin was 10 pM, with a dynamic range of 0.1-50 nM, when quantum dots were used for labeling. In contrast, the limit of detection was 1 nM, with a dynamic range of 10-200 nM, when using fluorescein dye labeling. This aptamers-on-nanofiber-based biosensor showed 2500-fold higher sensitivity than a 96-microwell plate format, attributed mainly to the large surface area of the nanofibers. In addition, this novel platform also exhibited similar high sensitivity in the detection of exogenously added thrombin in diluted human serum. This aptamers-on-nanofiber system, which is competitive with other sensing platforms and clinically meaningful in terms of its detection limit, is expected to be useful for the detection of various other targets because of its ease of application and manipulation.
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Affiliation(s)
- Su Jin Lee
- College of Life Sciences and Biotechnology, Korea University Anam-Dong, Seongbuk-Gu, Seoul 136-701, Republic of Korea
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Lai SL, Chen CH, Yang KL. Enhancing the fluorescence intensity of DNA microarrays by using cationic surfactants. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2011; 27:5659-5664. [PMID: 21469684 DOI: 10.1021/la2004694] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
DNA microarrays have been used as powerful tools in genomics studies and single nucleotide polymorphisms analysis. However, the fluorescence detection used in most conventional DNA microarrays is still limited by its sensitivity. The aim of this study is to use a cationic surfactant, cetyl trimethylammonium bromide (CTAB), to enhance the fluorescence intensity of 6-carboxy-fluorescene (FAM)-labeled DNA probes immobilized on a DNA microarray. We show that in the presence of CTAB the immobilized FAM-labeled DNA probes is 11-fold brighter than that without exposure to CTAB. Similarly, when we hybridize FAM-labeled DNA targets to a DNA microarray and treat the surface with CTAB solution, the fluorescence intensity shows a 26-fold increase for perfect-match DNA targets. More importantly, the contrast between perfect-match and 1-mismatch DNA is also increased from 1.3-fold to 15-fold. This method offers a simple and efficient technique to enhance the detection limit of DNA microarrays.
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Affiliation(s)
- Siok Lian Lai
- Department of Chemical and Biomolecular Engineering, National University of Singapore, 4 Engineering Drive, Singapore 117576
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Jradi K, Laour D, Daneault C, Chabot B. Control of the chemical and physical behaviour of silicon surfaces for enhancing the transition from hydrophilic to superhydrophobic surfaces. Colloids Surf A Physicochem Eng Asp 2011. [DOI: 10.1016/j.colsurfa.2010.10.050] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Kim JS, Cho JB, Park BG, Lee W, Lee KB, Oh MK. Size-controllable quartz nanostructure for signal enhancement of DNA chip. Biosens Bioelectron 2011; 26:2085-9. [DOI: 10.1016/j.bios.2010.09.010] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2010] [Revised: 09/05/2010] [Accepted: 09/06/2010] [Indexed: 11/27/2022]
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Rathor N, Panda S. Aminosilane densities on nanotextured silicon. MATERIALS SCIENCE & ENGINEERING. C, MATERIALS FOR BIOLOGICAL APPLICATIONS 2009. [DOI: 10.1016/j.msec.2009.06.003] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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Murthy BR, Ng J, Selamat E, Balasubramanian N, Liu W. Silicon nanopillar substrates for enhancing signal intensity in DNA microarrays. Biosens Bioelectron 2008; 24:723-8. [DOI: 10.1016/j.bios.2008.06.044] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2008] [Revised: 06/20/2008] [Accepted: 06/23/2008] [Indexed: 11/15/2022]
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12
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Marino V, Galati C, Arnone C. Optimization of fluorescence enhancement for silicon-based microarrays. JOURNAL OF BIOMEDICAL OPTICS 2008; 13:054060. [PMID: 19021439 DOI: 10.1117/1.2992142] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
An optical technique for the enhancement of fluorescence detection sensitivity on planar samples is presented. Such a technique is based on the simultaneous optimization of excitation and light collection by properly combining interference and reflectance from the sample holder. Comparative tests have been performed in microarray applications, by evaluating the proposed solution against commercial glass-based devices, using popular labeling dyes, such as Cy3 and Cy5. The proposed technique is implemented on a substrate built with standard silicon technology and is therefore well suited for integrated micro total analysis systems (microTAS) applications.
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Affiliation(s)
- Vanessa Marino
- University of Palermo, Dipartimento di Ingegneria Elettrica, Elettronica e delle Telecomunicazioni, Viale delle Scienze, edif. 9, Palermo, I-90128, Italy
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