Design, fabrication and characterization of silicon nanowire-based DNA biosensor for dengue virus DNA detection

Silicon nanowire (SiNW) has attracted significant interest because of its potential applications from nanoscale electronics to biomedical engineering. The SiNW represent an important class of materials with unique features such as identical diameters to biomolecules, applicable to apply in biomolecu...

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Main Author:	Abd Rahman, Siti Fatimah
Format:	Thesis
Language:	English
Published:	2016
Subjects:	Nanowires - Design and construction Biosensors Dengue viruses
Online Access:	http://psasir.upm.edu.my/id/eprint/69947/1/ITMA%202016%208%20IR.pdf
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spelling	my-upm-ir.699472019-11-12T01:03:34Z Design, fabrication and characterization of silicon nanowire-based DNA biosensor for dengue virus DNA detection 2016-08 Abd Rahman, Siti Fatimah Silicon nanowire (SiNW) has attracted significant interest because of its potential applications from nanoscale electronics to biomedical engineering. The SiNW represent an important class of materials with unique features such as identical diameters to biomolecules, applicable to apply in biomolecule or chemical detection and can be fabricated as highly sensitive biosensor device. Thus, this study demonstrates the development of SiNW biosensor for detecting deoxyribonucleic acid (DNA) of dengue virus utilizing electron beam lithography (EBL) coupled with conventional lithography (CL) for device fabrication. The surface of fabricated SiNW is chemically modified using 3-aminopropyltrieloxysilane (APTES) in order to transform the devices as a functional sensing element. Prior to biomolecule testing, the amine-terminated SiNW device is first evaluated in response to the pH level detection for optimizing the sensor sensitivity that related to the effect of SiNW width and SiNW number. It was found that, the device consist of single SiNW with 60 nm in width shows the highest sensitivity as compared to those devices consists of larger SiNW and in array formation as well. The optimized SiNW device is then employed for the detection of dengue virus DNA by introduced the additional of three-step procedure involving glutaraldehyde surface treatment, DNA immobilization and DNA hybridization. Contact angle measurement, fourier transform infrared spectroscopy (FTIR) and x-ray photoelectron spectrometry (XPS) are used to assess the effectiveness of the attachment protocol. The detection principle works by detecting the changes in the electrical current of SiNW which bridge the source and drain terminal to sense the immobilization of probe DNA and their hybridization with target DNA. The oxygen (O2) plasma is proposed as an effective strategy for increasing the binding amounts of target DNA by modified the SiNW surface. It was found that the detection limit of the 60 sec plasma treated-SiNW device could be reduce to 1.985 x 10-14 M as compared to 4.131 x 10-13 M for the untreated-SiNW device with a linear detection range from 1.0 x 10-9 M to 1.0 x 10-13 M of complementary target DNA. In addition, the developed biosensor device was able to discriminate between complementary, single mismatch and non-complementary DNA sequences. This highly sensitive assay is also able to detect reverse transcription-polymerase chain reaction (RT-PCR) product of dengue virus DNA in real samples, making it as a potential method for disease diagnosis through electrical biosensor detection. Nanowires - Design and construction Biosensors Dengue viruses 2016-08 Thesis http://psasir.upm.edu.my/id/eprint/69947/ http://psasir.upm.edu.my/id/eprint/69947/1/ITMA%202016%208%20IR.pdf text en public doctoral Universiti Putra Malaysia Nanowires - Design and construction Biosensors Dengue viruses
institution	Universiti Putra Malaysia
collection	PSAS Institutional Repository
language	English
topic	Nanowires - Design and construction Biosensors Dengue viruses
spellingShingle	Nanowires - Design and construction Biosensors Dengue viruses Abd Rahman, Siti Fatimah Design, fabrication and characterization of silicon nanowire-based DNA biosensor for dengue virus DNA detection
description	Silicon nanowire (SiNW) has attracted significant interest because of its potential applications from nanoscale electronics to biomedical engineering. The SiNW represent an important class of materials with unique features such as identical diameters to biomolecules, applicable to apply in biomolecule or chemical detection and can be fabricated as highly sensitive biosensor device. Thus, this study demonstrates the development of SiNW biosensor for detecting deoxyribonucleic acid (DNA) of dengue virus utilizing electron beam lithography (EBL) coupled with conventional lithography (CL) for device fabrication. The surface of fabricated SiNW is chemically modified using 3-aminopropyltrieloxysilane (APTES) in order to transform the devices as a functional sensing element. Prior to biomolecule testing, the amine-terminated SiNW device is first evaluated in response to the pH level detection for optimizing the sensor sensitivity that related to the effect of SiNW width and SiNW number. It was found that, the device consist of single SiNW with 60 nm in width shows the highest sensitivity as compared to those devices consists of larger SiNW and in array formation as well. The optimized SiNW device is then employed for the detection of dengue virus DNA by introduced the additional of three-step procedure involving glutaraldehyde surface treatment, DNA immobilization and DNA hybridization. Contact angle measurement, fourier transform infrared spectroscopy (FTIR) and x-ray photoelectron spectrometry (XPS) are used to assess the effectiveness of the attachment protocol. The detection principle works by detecting the changes in the electrical current of SiNW which bridge the source and drain terminal to sense the immobilization of probe DNA and their hybridization with target DNA. The oxygen (O2) plasma is proposed as an effective strategy for increasing the binding amounts of target DNA by modified the SiNW surface. It was found that the detection limit of the 60 sec plasma treated-SiNW device could be reduce to 1.985 x 10-14 M as compared to 4.131 x 10-13 M for the untreated-SiNW device with a linear detection range from 1.0 x 10-9 M to 1.0 x 10-13 M of complementary target DNA. In addition, the developed biosensor device was able to discriminate between complementary, single mismatch and non-complementary DNA sequences. This highly sensitive assay is also able to detect reverse transcription-polymerase chain reaction (RT-PCR) product of dengue virus DNA in real samples, making it as a potential method for disease diagnosis through electrical biosensor detection.
format	Thesis
qualification_level	Doctorate
author	Abd Rahman, Siti Fatimah
author_facet	Abd Rahman, Siti Fatimah
author_sort	Abd Rahman, Siti Fatimah
title	Design, fabrication and characterization of silicon nanowire-based DNA biosensor for dengue virus DNA detection
title_short	Design, fabrication and characterization of silicon nanowire-based DNA biosensor for dengue virus DNA detection
title_full	Design, fabrication and characterization of silicon nanowire-based DNA biosensor for dengue virus DNA detection
title_fullStr	Design, fabrication and characterization of silicon nanowire-based DNA biosensor for dengue virus DNA detection
title_full_unstemmed	Design, fabrication and characterization of silicon nanowire-based DNA biosensor for dengue virus DNA detection
title_sort	design, fabrication and characterization of silicon nanowire-based dna biosensor for dengue virus dna detection
granting_institution	Universiti Putra Malaysia
publishDate	2016
url	http://psasir.upm.edu.my/id/eprint/69947/1/ITMA%202016%208%20IR.pdf
_version_	1747812737123090432

Design, fabrication and characterization of silicon nanowire-based DNA biosensor for dengue virus DNA detection

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