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Dual platform based sandwich assay surface-enhanced Raman scattering DNA biosensor for the sensitive detection of food adulteration

Surface enhanced Raman scattering (SERS) DNA biosensing is an ultrasensitive, selective, and rapid detection technique with the ability to produce molecule-specific distinct fingerprint spectra. It supersedes the long amplicon based PCR assays, the fluorescence and spectroscopic techniques with thei...

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Main Authors:	Khalil, Ibrahim, Yehye, Wageeh A. A., Nurhidayatullaili, Muhd Julkapli, Sina, Abu Ali Ibn, Rahmati, Shahrooz, Basirun, Wan Jefrey, Seyfoddin, Ali
Format:	Article
Published:	2020
Subjects:	Q Science (General) T Technology (General) TS Manufactures
Online Access:	http://eprints.um.edu.my/36878/
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spelling	my.um.eprints.368782023-12-31T06:29:36Z http://eprints.um.edu.my/36878/ Dual platform based sandwich assay surface-enhanced Raman scattering DNA biosensor for the sensitive detection of food adulteration Khalil, Ibrahim Yehye, Wageeh A. A. Nurhidayatullaili, Muhd Julkapli Sina, Abu Ali Ibn Rahmati, Shahrooz Basirun, Wan Jefrey Seyfoddin, Ali Q Science (General) T Technology (General) TS Manufactures Surface enhanced Raman scattering (SERS) DNA biosensing is an ultrasensitive, selective, and rapid detection technique with the ability to produce molecule-specific distinct fingerprint spectra. It supersedes the long amplicon based PCR assays, the fluorescence and spectroscopic techniques with their quenching and narrow spectral bandwidth, and the electrochemical detection techniques using multiplexing. However, the performance of the SERS DNA biosensor relies on the DNA probe length, platform composition, both the presence and position of Raman tags and the chosen sensing strategy. In this context, we herein report a SERS biosensor based on dual nanoplatforms with a uniquely designed Raman tag (ATTO Rho6G) intercalated short-length DNA probe for the sensitive detection of the pig species Sus scrofa. In the design of the signal probe (SP), a Raman tag was incorporated adjacent to the spacer arm, followed by a terminal thiol modifier, which consequently had a strong influence on the SERS signal enhancement. The detection strategy involves the probe-target DNA hybridization mediated coupling of the two platforms, i.e., the graphene oxide-gold nanorod (GO-AuNR) functionalized capture probe (CP) and SP-conjugated gold nanoparticles (AuNPs), consequently enhancing the SERS intensity by both the electromagnetic hot spots generated at the junctions or interstices of the two platforms and the chemical enhancement between the AuNPs and the adsorbed intercalated Raman tag. This dual platform based SERS DNA biosensor exhibited outstanding sensitivity in detecting pork DNA with a limit of detection (LOD) of 100 aM validated with DNA extracted from a pork sample (LOD 1 fM). Moreover, the fabricated SERS biosensor showed outstanding selectivity and specificity for differentiating the DNA sequences of six closely related non-target species from the target DNA sequences with single and three nucleotide base-mismatches. Therefore, the developed short-length DNA linked dual platform based SERS biosensor could replace the less sensitive traditional methods of pork DNA detection and be adopted as a universal detection approach for the qualitative and quantitative detection of DNA from any source. 2020-02 Article PeerReviewed Khalil, Ibrahim and Yehye, Wageeh A. A. and Nurhidayatullaili, Muhd Julkapli and Sina, Abu Ali Ibn and Rahmati, Shahrooz and Basirun, Wan Jefrey and Seyfoddin, Ali (2020) Dual platform based sandwich assay surface-enhanced Raman scattering DNA biosensor for the sensitive detection of food adulteration. Analyst, 145 (4). pp. 1414-1426. ISSN 0003-2654, DOI https://doi.org/10.1039/c9an02106j <https://doi.org/10.1039/c9an02106j>. 10.1039/c9an02106j
institution	Universiti Malaya
building	UM Library
collection	Institutional Repository
continent	Asia
country	Malaysia
content_provider	Universiti Malaya
content_source	UM Research Repository
url_provider	http://eprints.um.edu.my/
topic	Q Science (General) T Technology (General) TS Manufactures
spellingShingle	Q Science (General) T Technology (General) TS Manufactures Khalil, Ibrahim Yehye, Wageeh A. A. Nurhidayatullaili, Muhd Julkapli Sina, Abu Ali Ibn Rahmati, Shahrooz Basirun, Wan Jefrey Seyfoddin, Ali Dual platform based sandwich assay surface-enhanced Raman scattering DNA biosensor for the sensitive detection of food adulteration
description	Surface enhanced Raman scattering (SERS) DNA biosensing is an ultrasensitive, selective, and rapid detection technique with the ability to produce molecule-specific distinct fingerprint spectra. It supersedes the long amplicon based PCR assays, the fluorescence and spectroscopic techniques with their quenching and narrow spectral bandwidth, and the electrochemical detection techniques using multiplexing. However, the performance of the SERS DNA biosensor relies on the DNA probe length, platform composition, both the presence and position of Raman tags and the chosen sensing strategy. In this context, we herein report a SERS biosensor based on dual nanoplatforms with a uniquely designed Raman tag (ATTO Rho6G) intercalated short-length DNA probe for the sensitive detection of the pig species Sus scrofa. In the design of the signal probe (SP), a Raman tag was incorporated adjacent to the spacer arm, followed by a terminal thiol modifier, which consequently had a strong influence on the SERS signal enhancement. The detection strategy involves the probe-target DNA hybridization mediated coupling of the two platforms, i.e., the graphene oxide-gold nanorod (GO-AuNR) functionalized capture probe (CP) and SP-conjugated gold nanoparticles (AuNPs), consequently enhancing the SERS intensity by both the electromagnetic hot spots generated at the junctions or interstices of the two platforms and the chemical enhancement between the AuNPs and the adsorbed intercalated Raman tag. This dual platform based SERS DNA biosensor exhibited outstanding sensitivity in detecting pork DNA with a limit of detection (LOD) of 100 aM validated with DNA extracted from a pork sample (LOD 1 fM). Moreover, the fabricated SERS biosensor showed outstanding selectivity and specificity for differentiating the DNA sequences of six closely related non-target species from the target DNA sequences with single and three nucleotide base-mismatches. Therefore, the developed short-length DNA linked dual platform based SERS biosensor could replace the less sensitive traditional methods of pork DNA detection and be adopted as a universal detection approach for the qualitative and quantitative detection of DNA from any source.
format	Article
author	Khalil, Ibrahim Yehye, Wageeh A. A. Nurhidayatullaili, Muhd Julkapli Sina, Abu Ali Ibn Rahmati, Shahrooz Basirun, Wan Jefrey Seyfoddin, Ali
author_facet	Khalil, Ibrahim Yehye, Wageeh A. A. Nurhidayatullaili, Muhd Julkapli Sina, Abu Ali Ibn Rahmati, Shahrooz Basirun, Wan Jefrey Seyfoddin, Ali
author_sort	Khalil, Ibrahim
title	Dual platform based sandwich assay surface-enhanced Raman scattering DNA biosensor for the sensitive detection of food adulteration
title_short	Dual platform based sandwich assay surface-enhanced Raman scattering DNA biosensor for the sensitive detection of food adulteration
title_full	Dual platform based sandwich assay surface-enhanced Raman scattering DNA biosensor for the sensitive detection of food adulteration
title_fullStr	Dual platform based sandwich assay surface-enhanced Raman scattering DNA biosensor for the sensitive detection of food adulteration
title_full_unstemmed	Dual platform based sandwich assay surface-enhanced Raman scattering DNA biosensor for the sensitive detection of food adulteration
title_sort	dual platform based sandwich assay surface-enhanced raman scattering dna biosensor for the sensitive detection of food adulteration
publishDate	2020
url	http://eprints.um.edu.my/36878/
_version_	1787133828295294976
score	13.211869

Dual platform based sandwich assay surface-enhanced Raman scattering DNA biosensor for the sensitive detection of food adulteration

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