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Mohammadi S, Kharrazi S, Mazlomi M, Amani A, Tavoosidana G. Investigation of Melphalan interaction as an alkylating agent with nucleotides by using surface enhanced Raman spectroscopy (SERS). SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 317:124359. [PMID: 38704996 DOI: 10.1016/j.saa.2024.124359] [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: 08/18/2023] [Revised: 03/07/2024] [Accepted: 04/26/2024] [Indexed: 05/07/2024]
Abstract
SERS (Surface Enhanced Raman Spectroscopy) is a new Raman spectroscopy which relies on Surface Plasmon Resonance (SPR) of metal nanoparticles. We have applied colloidal silver and gold nanoparticles as amplifier agents to enhance nucleotide Raman signals. It is observed that without these enhancing agents, it is impossible to investigate nucleotide spectrum due to weak Raman signals. Interaction mechanism of Melphalan, an anticancer drug with four nucleotides (Adenine, Cytosine, Guanine, Thymine) was investigated using SERS to detect and identify changes due to alkylating process in Raman spectra. After incubating Melphalan drug with nucleotides for 24 h at 37 °C, some changes occurred in SERS spectrum and interpretation of SERS spectra revealed the influence of the alkyl substitution on peaks and Raman shifts. After incubation of Melphalan with each nucleotide, intensity of relevant SERS signals assigned to Amid III group of Cytosine and Amid I of Thymine decreased significantly, confirming alkylating taking place. In this study, we also investigated the effect of nanoparticles type on nucleotide spectrum. We could not obtain useful information in the cases of guanine nucleotide. The SERS spectrum of Cytosine as an example of nucleotides in aqueous solution compared to solid state and results demonstrated that in solid state better signals were obtained than in liquid state.
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Affiliation(s)
- Simah Mohammadi
- Department of Medical Nanotechnology, School of Advanced Technologies in Medicine, Tehran University of Medical Sciences, Tehran, Iran
| | - Sharmin Kharrazi
- Department of Medical Nanotechnology, School of Advanced Technologies in Medicine, Tehran University of Medical Sciences, Tehran, Iran.
| | - Mohammadali Mazlomi
- Department of Medical Biotechnology, School of Advanced Technologies in Medicine, Tehran University of Medical Sciences, Tehran, Iran
| | - Amir Amani
- Department of Medical Nanotechnology, School of Advanced Technologies in Medicine, Tehran University of Medical Sciences, Tehran, Iran; Natural Products and Medicinal Plants research Center, North Khorasan University of Medical Sciences, Bojnurd, Iran
| | - Gholamreza Tavoosidana
- Department of Molecular Medicine, School of Advanced Technologies in Medicine, Tehran University of Medical Sciences, Tehran, Iran
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2
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Lee S, Dang H, Moon JI, Kim K, Joung Y, Park S, Yu Q, Chen J, Lu M, Chen L, Joo SW, Choo J. SERS-based microdevices for use as in vitro diagnostic biosensors. Chem Soc Rev 2024; 53:5394-5427. [PMID: 38597213 DOI: 10.1039/d3cs01055d] [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: 04/11/2024]
Abstract
Advances in surface-enhanced Raman scattering (SERS) detection have helped to overcome the limitations of traditional in vitro diagnostic methods, such as fluorescence and chemiluminescence, owing to its high sensitivity and multiplex detection capability. However, for the implementation of SERS detection technology in disease diagnosis, a SERS-based assay platform capable of analyzing clinical samples is essential. Moreover, infectious diseases like COVID-19 require the development of point-of-care (POC) diagnostic technologies that can rapidly and accurately determine infection status. As an effective assay platform, SERS-based bioassays utilize SERS nanotags labeled with protein or DNA receptors on Au or Ag nanoparticles, serving as highly sensitive optical probes. Additionally, a microdevice is necessary as an interface between the target biomolecules and SERS nanotags. This review aims to introduce various microdevices developed for SERS detection, available for POC diagnostics, including LFA strips, microfluidic chips, and microarray chips. Furthermore, the article presents research findings reported in the last 20 years for the SERS-based bioassay of various diseases, such as cancer, cardiovascular diseases, and infectious diseases. Finally, the prospects of SERS bioassays are discussed concerning the integration of SERS-based microdevices and portable Raman readers into POC systems, along with the utilization of artificial intelligence technology.
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Affiliation(s)
- Sungwoon Lee
- Department of Chemistry, Chung-Ang University, Seoul 06974, South Korea.
| | - Hajun Dang
- Department of Chemistry, Chung-Ang University, Seoul 06974, South Korea.
| | - Joung-Il Moon
- Department of Chemistry, Chung-Ang University, Seoul 06974, South Korea.
| | - Kihyun Kim
- Department of Chemistry, Chung-Ang University, Seoul 06974, South Korea.
| | - Younju Joung
- Department of Chemistry, Chung-Ang University, Seoul 06974, South Korea.
| | - Sohyun Park
- Department of Chemistry, Chung-Ang University, Seoul 06974, South Korea.
| | - Qian Yu
- Department of Chemistry, Chung-Ang University, Seoul 06974, South Korea.
| | - Jiadong Chen
- Department of Chemistry, Chung-Ang University, Seoul 06974, South Korea.
| | - Mengdan Lu
- Department of Chemistry, Chung-Ang University, Seoul 06974, South Korea.
| | - Lingxin Chen
- School of Pharmacy, Binzhou Medical University, Yantai, 264003, China
- CAS Key Laboratory of Coastal Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research, Yantai 264003, China.
| | - Sang-Woo Joo
- Department of Information Communication, Materials, and Chemistry Convergence Technology, Soongsil University, Seoul 06978, South Korea.
| | - Jaebum Choo
- Department of Chemistry, Chung-Ang University, Seoul 06974, South Korea.
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3
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Kim MJ, Haizan I, Ahn MJ, Park DH, Choi JH. Recent Advances in Lateral Flow Assays for Viral Protein Detection with Nanomaterial-Based Optical Sensors. BIOSENSORS 2024; 14:197. [PMID: 38667190 PMCID: PMC11048458 DOI: 10.3390/bios14040197] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/15/2024] [Revised: 04/12/2024] [Accepted: 04/15/2024] [Indexed: 04/28/2024]
Abstract
Controlling the progression of contagious diseases is crucial for public health management, emphasizing the importance of early viral infection diagnosis. In response, lateral flow assays (LFAs) have been successfully utilized in point-of-care (POC) testing, emerging as a viable alternative to more traditional diagnostic methods. Recent advancements in virus detection have primarily leveraged methods such as reverse transcription-polymerase chain reaction (RT-PCR), reverse transcription-loop-mediated isothermal amplification (RT-LAMP), and the enzyme-linked immunosorbent assay (ELISA). Despite their proven effectiveness, these conventional techniques are often expensive, require specialized expertise, and consume a significant amount of time. In contrast, LFAs utilize nanomaterial-based optical sensing technologies, including colorimetric, fluorescence, and surface-enhanced Raman scattering (SERS), offering quick, straightforward analyses with minimal training and infrastructure requirements for detecting viral proteins in biological samples. This review describes the composition and mechanism of and recent advancements in LFAs for viral protein detection, categorizing them into colorimetric, fluorescent, and SERS-based techniques. Despite significant progress, developing a simple, stable, highly sensitive, and selective LFA system remains a formidable challenge. Nevertheless, an advanced LFA system promises not only to enhance clinical diagnostics but also to extend its utility to environmental monitoring and beyond, demonstrating its potential to revolutionize both healthcare and environmental safety.
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Affiliation(s)
- Min Jung Kim
- School of Chemical Engineering, Clean Energy Research Center, Jeonbuk National University, 567 Baekje-daero, Deokjin-gu, Jeonju-si 54896, Jeollabuk-do, Republic of Korea; (M.J.K.); (D.-H.P.)
| | - Izzati Haizan
- Department of Bioprocess Engineering, Jeonbuk National University, 567 Baekje-daero, Deokjin-gu, Jeonju-si 54896, Jeollabuk-do, Republic of Korea;
| | - Min Ju Ahn
- Department of Biotechnology, Jeonbuk National University, 79 Gobongro, Iksan-si 54596, Jeollabuk-do, Republic of Korea;
| | - Dong-Hyeok Park
- School of Chemical Engineering, Clean Energy Research Center, Jeonbuk National University, 567 Baekje-daero, Deokjin-gu, Jeonju-si 54896, Jeollabuk-do, Republic of Korea; (M.J.K.); (D.-H.P.)
| | - Jin-Ha Choi
- School of Chemical Engineering, Clean Energy Research Center, Jeonbuk National University, 567 Baekje-daero, Deokjin-gu, Jeonju-si 54896, Jeollabuk-do, Republic of Korea; (M.J.K.); (D.-H.P.)
- Department of Bioprocess Engineering, Jeonbuk National University, 567 Baekje-daero, Deokjin-gu, Jeonju-si 54896, Jeollabuk-do, Republic of Korea;
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4
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Issatayeva A, Farnesi E, Cialla-May D, Schmitt M, Rizzi FMA, Milanese D, Selleri S, Cucinotta A. SERS-based methods for the detection of genomic biomarkers of cancer. Talanta 2024; 267:125198. [PMID: 37722343 DOI: 10.1016/j.talanta.2023.125198] [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] [Received: 04/24/2023] [Revised: 09/05/2023] [Accepted: 09/10/2023] [Indexed: 09/20/2023]
Abstract
Genomic biomarkers of cancer are based on changes in nucleic acids, which include abnormal expression levels of some miRNAs, point mutations in DNA sequences, and altered levels of DNA methylation. The presence of tumor-related nucleic acids in body fluids (blood, saliva, or urine) makes it possible to achieve a non-invasive early-stage cancer diagnosis. Currently existing techniques for the discovery of nucleic acids require complex, time-consuming, costly assays and have limited multiplexing abilities. Surface-enhanced Raman spectroscopy (SERS) is a vibrational spectroscopy technique that is able to provide molecular specificity combined with trace sensitivity. SERS has gained research attention as a tool for the detection of nucleic acids because of its promising potential: label-free SERS can decrease the complexity of assays currently used with fluorescence-based detection due to the absence of the label, while labeled SERS may outperform the gold standard in terms of the multiplexing ability. The first papers about SERS-based methods for the measurement of genomic biomarkers were written in 2008, and since then, more than 150 papers have been published. The aim of this paper is to review and evaluate the proposed SERS-based methods in terms of their level of development and their potential for liquid biopsy application, as well as to contribute to their further evolution by attracting research attention to the field. This goal will be reached by grouping, on the basis of their experimental protocol, all the published manuscripts on the topic and evaluating each group in terms of its limit of detection and applicability to real body fluids. Thus, the methods are classified according to their working principles into five main groups, including capture-based, displacement-based, sandwich-based, enzyme-assisted, and specialized protocols.
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Affiliation(s)
- Aizhan Issatayeva
- Department of Engineering and Architecture, University of Parma, Parco Area delle Scienze 181/a, 43124, Parma, Italy.
| | - Edoardo Farnesi
- Institute of Physical Chemistry (IPC) and Abbe Center of Photonics (ACP), Friedrich Schiller University Jena, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Helmholtzweg 4, 07743, Jena, Germany; Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert-Einstein-Straße 9, 07745, Jena, Germany
| | - Dana Cialla-May
- Institute of Physical Chemistry (IPC) and Abbe Center of Photonics (ACP), Friedrich Schiller University Jena, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Helmholtzweg 4, 07743, Jena, Germany; Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert-Einstein-Straße 9, 07745, Jena, Germany
| | - Michael Schmitt
- Institute of Physical Chemistry (IPC) and Abbe Center of Photonics (ACP), Friedrich Schiller University Jena, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Helmholtzweg 4, 07743, Jena, Germany
| | | | - Daniel Milanese
- Department of Engineering and Architecture, University of Parma, Parco Area delle Scienze 181/a, 43124, Parma, Italy
| | - Stefano Selleri
- Department of Engineering and Architecture, University of Parma, Parco Area delle Scienze 181/a, 43124, Parma, Italy
| | - Annamaria Cucinotta
- Department of Engineering and Architecture, University of Parma, Parco Area delle Scienze 181/a, 43124, Parma, Italy
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5
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Li JQ, Neng-Wang H, Canning AJ, Gaona A, Crawford BM, Garman KS, Vo-Dinh T. Surface-Enhanced Raman Spectroscopy-Based Detection of Micro-RNA Biomarkers for Biomedical Diagnosis Using a Comparative Study of Interpretable Machine Learning Algorithms. APPLIED SPECTROSCOPY 2024; 78:84-98. [PMID: 37908079 DOI: 10.1177/00037028231209053] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/02/2023]
Abstract
Surface-enhanced Raman spectroscopy (SERS) has wide diagnostic applications due to narrow spectral features that allow multiplex analysis. We have previously developed a multiplexed, SERS-based nanosensor for micro-RNA (miRNA) detection called the inverse molecular sentinel (iMS). Machine learning (ML) algorithms have been increasingly adopted for spectral analysis due to their ability to discover underlying patterns and relationships within large and complex data sets. However, the high dimensionality of SERS data poses a challenge for traditional ML techniques, which can be prone to overfitting and poor generalization. Non-negative matrix factorization (NMF) reduces the dimensionality of SERS data while preserving information content. In this paper, we compared the performance of ML methods including convolutional neural network (CNN), support vector regression, and extreme gradient boosting combined with and without NMF for spectral unmixing of four-way multiplexed SERS spectra from iMS assays used for miRNA detection. CNN achieved high accuracy in spectral unmixing. Incorporating NMF before CNN drastically decreased memory and training demands without sacrificing model performance on SERS spectral unmixing. Additionally, models were interpreted using gradient class activation maps and partial dependency plots to understand predictions. These models were used to analyze clinical SERS data from single-plexed iMS in RNA extracted from 17 endoscopic tissue biopsies. CNN and CNN-NMF, trained on multiplexed data, performed most accurately with RMSElabel = 0.101 and 9.68 × 10-2, respectively. We demonstrated that CNN-based ML shows great promise in spectral unmixing of multiplexed SERS spectra, and the effect of dimensionality reduction on performance and training speed.
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Affiliation(s)
- Joy Q Li
- Fitzpatrick Institute for Photonics, Durham, North Carolina, USA
- Department of Biomedical Engineering, Duke University, Durham, North Carolina, USA
| | - Hsin Neng-Wang
- Fitzpatrick Institute for Photonics, Durham, North Carolina, USA
- Department of Biomedical Engineering, Duke University, Durham, North Carolina, USA
| | - Aidan J Canning
- Fitzpatrick Institute for Photonics, Durham, North Carolina, USA
- Department of Biomedical Engineering, Duke University, Durham, North Carolina, USA
| | - Alejandro Gaona
- Fitzpatrick Institute for Photonics, Durham, North Carolina, USA
- Department of Biomedical Engineering, Duke University, Durham, North Carolina, USA
| | - Bridget M Crawford
- Fitzpatrick Institute for Photonics, Durham, North Carolina, USA
- Department of Biomedical Engineering, Duke University, Durham, North Carolina, USA
| | - Katherine S Garman
- Division of Gastroenterology, Department of Medicine, Duke University, Durham, North Carolina, USA
| | - Tuan Vo-Dinh
- Fitzpatrick Institute for Photonics, Durham, North Carolina, USA
- Department of Biomedical Engineering, Duke University, Durham, North Carolina, USA
- Department of Chemistry, Duke University, Durham, North Carolina, USA
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6
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Gupta P, Arvinden VR, Thakur P, Bhoyar RC, Saravanakumar V, Gottumukkala NV, Goswami SG, Nafiz M, Iyer AR, Vignesh H, Soni R, Bhargava N, Gunda P, Jain S, Gupta V, Sivasubbu S, Scaria V, Ramalingam S. Scalable noninvasive amplicon-based precision sequencing (SNAPseq) for genetic diagnosis and screening of β-thalassemia and sickle cell disease using a next-generation sequencing platform. Front Mol Biosci 2023; 10:1244244. [PMID: 38152111 PMCID: PMC10751313 DOI: 10.3389/fmolb.2023.1244244] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2023] [Accepted: 11/16/2023] [Indexed: 12/29/2023] Open
Abstract
β-hemoglobinopathies such as β-thalassemia (BT) and Sickle cell disease (SCD) are inherited monogenic blood disorders with significant global burden. Hence, early and affordable diagnosis can alleviate morbidity and reduce mortality given the lack of effective cure. Currently, Sanger sequencing is considered to be the gold standard genetic test for BT and SCD, but it has a very low throughput requiring multiple amplicons and more sequencing reactions to cover the entire HBB gene. To address this, we have demonstrated an extraction-free single amplicon-based approach for screening the entire β-globin gene with clinical samples using Scalable noninvasive amplicon-based precision sequencing (SNAPseq) assay catalyzing with next-generation sequencing (NGS). We optimized the assay using noninvasive buccal swab samples and simple finger prick blood for direct amplification with crude lysates. SNAPseq demonstrates high sensitivity and specificity, having a 100% agreement with Sanger sequencing. Furthermore, to facilitate seamless reporting, we have created a much simpler automated pipeline with comprehensive resources for pathogenic mutations in BT and SCD through data integration after systematic classification of variants according to ACMG and AMP guidelines. To the best of our knowledge, this is the first report of the NGS-based high throughput SNAPseq approach for the detection of both BT and SCD in a single assay with high sensitivity in an automated pipeline.
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Affiliation(s)
- Pragya Gupta
- CSIR- Institute for Genomics and Integrative Biology, New Delhi, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - V. R. Arvinden
- CSIR- Institute for Genomics and Integrative Biology, New Delhi, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Priya Thakur
- CSIR- Institute for Genomics and Integrative Biology, New Delhi, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Rahul C. Bhoyar
- CSIR- Institute for Genomics and Integrative Biology, New Delhi, India
| | | | | | - Sangam Giri Goswami
- CSIR- Institute for Genomics and Integrative Biology, New Delhi, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Mehwish Nafiz
- CSIR- Institute for Genomics and Integrative Biology, New Delhi, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Aditya Ramdas Iyer
- CSIR- Institute for Genomics and Integrative Biology, New Delhi, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Harie Vignesh
- CSIR- Institute for Genomics and Integrative Biology, New Delhi, India
| | - Rajat Soni
- CSIR- Institute for Genomics and Integrative Biology, New Delhi, India
| | - Nupur Bhargava
- CSIR- Institute for Genomics and Integrative Biology, New Delhi, India
| | - Padma Gunda
- Thalassemia and Sickle Cell Society, Hyderabad, India
| | - Suman Jain
- Thalassemia and Sickle Cell Society, Hyderabad, India
| | - Vivek Gupta
- Government Institute of Medical Sciences (GIMS), Greater Noida, India
| | - Sridhar Sivasubbu
- CSIR- Institute for Genomics and Integrative Biology, New Delhi, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Vinod Scaria
- CSIR- Institute for Genomics and Integrative Biology, New Delhi, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Sivaprakash Ramalingam
- CSIR- Institute for Genomics and Integrative Biology, New Delhi, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
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7
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Lv X, Zhang Z, Zhao Y, Sun X, Jiang H, Zhang S, Sun X, Qiu X, Li Y. Label-free detection of virus based on surface-enhanced Raman scattering. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2023; 302:123087. [PMID: 37406546 PMCID: PMC10300235 DOI: 10.1016/j.saa.2023.123087] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2023] [Revised: 06/24/2023] [Accepted: 06/27/2023] [Indexed: 07/07/2023]
Abstract
Due to the background interference from biological samples, detecting viruses using surface-enhanced Raman scattering (SERS) in clinical samples is challenging. This study is based on SERS by reducing sodium borohydride and aggregating silver nanoparticles to develop suitable virus detection "hot spot." The monkeypox virus and human papillomavirus fingerprints were quickly obtained, tested, and identified in serum and artificial vaginal discharge, respectively, by combining the principal component analysis method. Therefore, these viruses were successfully identified in the biological background. In addition, the lowest detection limit was 100 copies/mL showing good reproducibility and signal-to-noise ratio. The concentration-dependent curve of the monkeypox virus had a good linear relationship. This method helps solve the SERS signal interference problem in complex biological samples, with low detection limits and high selectivity in virus characterization and quantitative analysis. Therefore, this method has a reasonable prospect of clinical application.
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Affiliation(s)
- Xinpeng Lv
- Department of Emergency Medicine, the Second Affiliated Hospital of Harbin Medical University, Harbin 150081, China
| | - Zhe Zhang
- School of Pharmacy, Harbin Medical University, Harbin 150081, China
| | - Yue Zhao
- School of Pharmacy, Harbin Medical University, Harbin 150081, China
| | - Xiaomeng Sun
- School of Pharmacy, Harbin Medical University, Harbin 150081, China
| | - Heng Jiang
- College of Public Health, Harbin Medical University, Baojian Road No. 157, Harbin, Heilongjiang Province 150081, China
| | - Shuwen Zhang
- Department of Obstetrics and Gynecology, the Second Affiliated Hospital of Harbin Medical University, Harbin 150081, China
| | - Xianqi Sun
- Department of Dermatology, the Second Affiliated Hospital of Harbin Medical University, Harbin 150081, China
| | - Xiaohong Qiu
- Department of Obstetrics and Gynecology, the Second Affiliated Hospital of Harbin Medical University, Harbin 150081, China.
| | - Yang Li
- School of Pharmacy, Harbin Medical University, Harbin 150081, China; Research Unit of Health Sciences and Technology (HST), Faculty of Medicine University of Oulu, Oulu 90220, Finland; Genomics Research Center (Key Laboratory of Gut Microbiota and Pharmacogenomics of Heilongjiang Province), College of Pharmacy, Harbin Medical University, Harbin 150081, China.
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8
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Zhang X, Li H, Zhao W, Xu J, Wang S, Yu R. Development of a separation platform comprising magnetic beads combined with the CRISPR/Cas12a system enabling ultrasensitive and rapid detection of miRNA-21. Mikrochim Acta 2023; 190:458. [PMID: 37917353 DOI: 10.1007/s00604-023-06038-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2023] [Accepted: 10/09/2023] [Indexed: 11/04/2023]
Abstract
A separation platform has been developed mediated by a combination of magnetic beads and the CRISPR/Cas12a system to achieve ultrasensitive and rapid detection of miRNA-21 at a low level. In this system, with the assistance of an auxiliary probe, the target miRNA-21 can be specifically combined with three-stranded probes to initiate the SDR reaction. Abundant aptamer A3 was added to the solution that can activate the CRISPR/Cas12a system and initiate the trans-cleavage reaction to recover the fluorescence signal. Using magnetic beads to mediate the separation considerably greatly improves the signal conversion efficiency and detection sensitivity. At the 492 nm excitation wavelength, and 502-650 nm scan range, through analyzing the fluorescence peak intensity at 520 nm, the biosensor's determination range and limit of detection is 8 fM-250 nM and 2.42 fM, respectively, and the RSD is 19.03-37.80. Compared with other biosensors, the biosensor developed exhibited superior performance and the signal recovered excellently in 1% human serum and the LOD is 12.12 fM. This method provides a novel highly sensitive scheme for detecting miRNA .
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Affiliation(s)
- Xinyi Zhang
- Key Lab of Fluorine and Silicon for Energy Materials and Chemistry of Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, 330022, People's Republic of China
| | - Hongbo Li
- Key Lab of Fluorine and Silicon for Energy Materials and Chemistry of Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, 330022, People's Republic of China.
- State Key Laboratory for Chemo/Biosensing and Chemometrics, Hunan University, Changsha, 410082, People's Republic of China.
| | - Weihua Zhao
- Key Lab of Fluorine and Silicon for Energy Materials and Chemistry of Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, 330022, People's Republic of China
| | - Jun Xu
- Key Lab of Fluorine and Silicon for Energy Materials and Chemistry of Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, 330022, People's Republic of China
| | - Suqin Wang
- Key Lab of Fluorine and Silicon for Energy Materials and Chemistry of Ministry of Education, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang, 330022, People's Republic of China
| | - Ruqin Yu
- State Key Laboratory for Chemo/Biosensing and Chemometrics, Hunan University, Changsha, 410082, People's Republic of China
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9
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Wu K, Kong F, Zhang J, Tang Y, Chen Y, Chao L, Nie L, Huang Z. Recent Progress in Single-Nucleotide Polymorphism Biosensors. BIOSENSORS 2023; 13:864. [PMID: 37754098 PMCID: PMC10527258 DOI: 10.3390/bios13090864] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/19/2023] [Revised: 08/23/2023] [Accepted: 08/26/2023] [Indexed: 09/28/2023]
Abstract
Single-nucleotide polymorphisms (SNPs), the most common form of genetic variation in the human genome, are the main cause of individual differences. Furthermore, such attractive genetic markers are emerging as important hallmarks in clinical diagnosis and treatment. A variety of destructive abnormalities, such as malignancy, cardiovascular disease, inherited metabolic disease, and autoimmune disease, are associated with single-nucleotide variants. Therefore, identification of SNPs is necessary for better understanding of the gene function and health of an individual. SNP detection with simple preparation and operational procedures, high affinity and specificity, and cost-effectiveness have been the key challenge for years. Although biosensing methods offer high specificity and sensitivity, as well, they suffer drawbacks, such as complicated designs, complicated optimization procedures, and the use of complicated chemistry designs and expensive reagents, as well as toxic chemical compounds, for signal detection and amplifications. This review aims to provide an overview on improvements for SNP biosensing based on fluorescent and electrochemical methods. Very recently, novel designs in each category have been presented in detail. Furthermore, detection limitations, advantages and disadvantages, and challenges have also been presented for each type.
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Affiliation(s)
| | | | | | | | | | | | - Libo Nie
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou 412007, China; (K.W.); (F.K.); (J.Z.); (Y.T.); (Y.C.); (L.C.)
| | - Zhao Huang
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou 412007, China; (K.W.); (F.K.); (J.Z.); (Y.T.); (Y.C.); (L.C.)
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10
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Guan L, Wang H, Xu X, Fan H. Therapeutical Utilization and Repurposing of Artemisinin and Its Derivatives: A Narrative Review. Adv Biol (Weinh) 2023; 7:e2300086. [PMID: 37178448 DOI: 10.1002/adbi.202300086] [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] [Received: 02/22/2023] [Revised: 04/08/2023] [Indexed: 05/15/2023]
Abstract
Artemisinin (ART) and its derivatives have great therapeutical utility as antimalarials and can be repurposed for other indications, such as viral infections, autoimmune diseases, and cancer. This review presents a comprehensive overview of the therapeutic effects of ART-based drugs, beyond their antimalarial effects. This review also summarizes the information on their repurposing in other pathologies, with the hope that it will guide the future optimization of the use of ART-based drugs and of the treatment strategies for the listed diseases. By reviewing related literature, ART extraction and structure as well as the synthesis and structure of its derivatives are presented. Subsequently, the traditional roles of ART and its derivatives against malaria are reviewed, including antimalarial mechanism and occurrence of antimalarial resistance. Finally, the potential of ART and its derivatives to be repurposed for the treatment of other diseases are summarized. The great repurposing potential of ART and its derivatives may be useful for the control of emerging diseases with corresponding pathologies, and future research should be directed toward the synthesis of more effective derivatives or better combinations.
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Affiliation(s)
- Lin Guan
- College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, 100029, P. R. China
| | - Huiyong Wang
- Wuhan Humanwell Pharmaceutical Co. Ltd., Wuhan, 430206, P. R. China
| | - Xiaolong Xu
- Beijing Hospital of Traditional Chinese Medicine, Capital Medical University, Beijing Institute of Traditional Chinese Medicine, Beijing, 100010, P. R. China
| | - Huahao Fan
- College of Life Science and Technology, Beijing University of Chemical Technology, Beijing, 100029, P. R. China
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11
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Ultra-trace SERS detection of cocaine and heroin using bimetallic gold-silver nanostars (BGNS-Ag). Anal Chim Acta 2023; 1251:340956. [PMID: 36925275 DOI: 10.1016/j.aca.2023.340956] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2022] [Revised: 02/06/2023] [Accepted: 02/07/2023] [Indexed: 02/12/2023]
Abstract
A rapid, in-field, and reliable method for the detection of illegal drugs of abuse in biological fluids without any sample pretreatment would potentially be helpful for law enforcement, drug control officials, and public healthcare. In this study, we presented a cost-effective and highly reproducible solution-based surface-enhanced Raman scattering (SERS) platform utilizing a portable Raman instrument for fast sensitive SERS detection of illegal drugs, such as cocaine, and heroin in human urine without any sample preprocessing. The SERS platform was constructed for the first time by combining the superior SERS enhancement properties of bimetallic silver-coated gold nanostars (BGNS-Ag) and the advantages of suitable alkaline metal salts such as NaI for SERS signal amplification. The effects of the silver thickness of BGNS-Ag and alkaline salts on the SERS performance were investigated in detail; we observed that the maximum SERS enhancement was obtained for BGNS-Ag with the maximum silver thickness (54 ± 5 nm) in presence of NaI salt. Our SERS platform shows ultra-high sensitivity of cocaine and heroin with a limit of detection (LOD) as low as 10 pg/mL for cocaine and 100 pg/mL for heroin, which was 100 times lower than that of the traditional silver nanoparticle-based illegal drug detection. As a demonstration, the platform was further applied to detect cocaine and heroin spiked in human urine without any sample preprocessing achieving a LOD of 100 pg/mL for cocaine and 1 ng/mL for heroin. Overall, our SERS detection platform shows potential for rapid, onsite, ultra-low-cost portable applications for trace detection of illegal drugs and biomarkers.
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12
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Quarin SM, Macke AC, Kissell LN, Kelly MS, Dayananda A, Ungvary J, Stan G, Dima RI, Strobbia P. Design, Rationalization, and Automation of a Catalytic Sensing Mechanism for Homogeneous SERS Biosensors. ACS Sens 2023; 8:2000-2010. [PMID: 37079901 DOI: 10.1021/acssensors.3c00175] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/22/2023]
Abstract
The current pandemic has shown that we need sensitive and deployable diagnostic technologies. Surface-enhanced Raman scattering (SERS) sensors can be an ideal solution for developing such advanced point-of-need (PON) diagnostic tests. Homogeneous (reagentless) SERS sensors work by directly responding to the target without any processing step, making them capable for simple one-pot assays, but their limitation is the achievable sensitivity, insufficient compared to what is needed for sensing of viral biomarkers. Noncovalent DNA catalysis mechanisms have been recently exploited for catalytic amplification in SERS assays. These advances used catalytic hairpin assembly (CHA) and other DNA self-assembly processes to develop sensing mechanisms with improved sensitivities. However, these mechanisms have not been used in OFF-to-ON homogeneous sensors, and they often target the same biomarker, likely due to the complexity of the mechanism design. There is still a strong need for a catalytic SERS sensor with a homogeneous mechanism and a rationalization of the catalytic sensing mechanism to translate this sensing strategy to different targets and applications. We developed and investigated a homogeneous SERS sensing mechanism that uses catalytic amplification based on DNA self-assembly. We systematically investigated the role of three domains in the fuel strand (internal loop, stem, and toehold), which drives the catalytic mechanism. The thermodynamic parameters determined in our studies were used to build an algorithm for automated design of catalytic sensors that we validated on target sequences associated with malaria and SARS-CoV-2 strains. With our mechanism, we were able to achieve an amplification level of 20-fold for conventional DNA and of 36-fold using locked nucleic acids (LNAs), with corresponding improvements observed in the sensor limit of detection (LOD). We also show a single-base sequence specificity for a sensor targeting a sequence associated with the omicron variant, tested against a delta variant target. This work on catalytic amplification of homogeneous SERS sensors has the potential to enable the use of this sensing modality in new applications, such as infectious disease surveillance, by improving the LOD while conserving the sensor's homogeneous character.
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Affiliation(s)
- Steven M Quarin
- Department of Chemistry, University of Cincinnati, Cincinnati, Ohio 45221, United States
| | - Amanda C Macke
- Department of Chemistry, University of Cincinnati, Cincinnati, Ohio 45221, United States
| | - Lyndsay N Kissell
- Department of Chemistry, University of Cincinnati, Cincinnati, Ohio 45221, United States
| | - Maria S Kelly
- Department of Chemistry, University of Cincinnati, Cincinnati, Ohio 45221, United States
| | - Ashan Dayananda
- Department of Chemistry, University of Cincinnati, Cincinnati, Ohio 45221, United States
| | - Joseph Ungvary
- Department of Chemistry, University of Cincinnati, Cincinnati, Ohio 45221, United States
| | - George Stan
- Department of Chemistry, University of Cincinnati, Cincinnati, Ohio 45221, United States
| | - Ruxandra I Dima
- Department of Chemistry, University of Cincinnati, Cincinnati, Ohio 45221, United States
| | - Pietro Strobbia
- Department of Chemistry, University of Cincinnati, Cincinnati, Ohio 45221, United States
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13
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Cupil-Garcia V, Li JQ, Norton SJ, Odion RA, Strobbia P, Menozzi L, Ma C, Hu J, Zentella R, Boyanov MI, Finfrock YZ, Gursoy D, Douglas DS, Yao J, Sun TP, Kemner KM, Vo-Dinh T. Plasmonic nanorod probes' journey inside plant cells for in vivo SERS sensing and multimodal imaging. NANOSCALE 2023; 15:6396-6407. [PMID: 36924128 DOI: 10.1039/d2nr06235f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
Nanoparticle-based platforms are gaining strong interest in plant biology and bioenergy research to monitor and control biological processes in whole plants. However, in vivo monitoring of biomolecules using nanoparticles inside plant cells remains challenging due to the impenetrability of the plant cell wall to nanoparticles beyond the exclusion limits (5-20 nm). To overcome this physical barrier, we have designed unique bimetallic silver-coated gold nanorods (AuNR@Ag) capable of entering plant cells, while conserving key plasmonic properties in the near-infrared (NIR). To demonstrate cellular internalization and tracking of the nanorods inside plant tissue, we used a comprehensive multimodal imaging approach that included transmission electron microscopy (TEM), confocal fluorescence microscopy, two-photon luminescence (TPL), X-ray fluorescence microscopy (XRF), and photoacoustics imaging (PAI). We successfully acquired SERS signals of nanorods in vivo inside plant cells of tobacco leaves. On the same leaf samples, we applied orthogonal imaging methods, TPL and PAI techniques for in vivo imaging of the nanorods. This study first demonstrates the intracellular internalization of AuNR@Ag inside whole plant systems for in vivo SERS analysis in tobacco cells. This work demonstrates the potential of this nanoplatform as a new nanotool for intracellular in vivo biosensing for plant biology.
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Affiliation(s)
- Vanessa Cupil-Garcia
- Fitzpatrick Institute for Photonics, Durham, NC 27706, USA.
- Department of Chemistry, Duke University, Durham, NC 27706, USA
| | - Joy Q Li
- Fitzpatrick Institute for Photonics, Durham, NC 27706, USA.
- Department of Biomedical Engineering, Duke University, Durham, NC 27706, USA
| | | | - Ren A Odion
- Fitzpatrick Institute for Photonics, Durham, NC 27706, USA.
- Department of Biomedical Engineering, Duke University, Durham, NC 27706, USA
| | - Pietro Strobbia
- Fitzpatrick Institute for Photonics, Durham, NC 27706, USA.
- Department of Biomedical Engineering, Duke University, Durham, NC 27706, USA
| | - Luca Menozzi
- Fitzpatrick Institute for Photonics, Durham, NC 27706, USA.
- Department of Biomedical Engineering, Duke University, Durham, NC 27706, USA
| | - Chenshuo Ma
- Fitzpatrick Institute for Photonics, Durham, NC 27706, USA.
- Department of Biomedical Engineering, Duke University, Durham, NC 27706, USA
| | - Jianhong Hu
- Department of Biology, Duke University, Durham, NC 27706, USA
| | | | - Maxim I Boyanov
- Bulgarian Academy of Sciences, Institute of Chemical Engineering, Sofia 1113, Bulgaria
- Biosciences Division, Argonne National Laboratory, Argonne, IL 60439, USA
| | - Y Zou Finfrock
- X-ray Science Division, Advanced Photon Source, Argonne National Laboratory, Lemont, IL 60439, USA
| | - Doga Gursoy
- X-ray Science Division, Advanced Photon Source, Argonne National Laboratory, Lemont, IL 60439, USA
- Department of Electrical Engineering and Computer Science, Northwestern University, Evanston, IL 60208, USA
| | | | - Junjie Yao
- Fitzpatrick Institute for Photonics, Durham, NC 27706, USA.
- Department of Biomedical Engineering, Duke University, Durham, NC 27706, USA
| | - Tai-Ping Sun
- Department of Biology, Duke University, Durham, NC 27706, USA
| | - Kenneth M Kemner
- Biosciences Division, Argonne National Laboratory, Argonne, IL 60439, USA
| | - Tuan Vo-Dinh
- Fitzpatrick Institute for Photonics, Durham, NC 27706, USA.
- Department of Chemistry, Duke University, Durham, NC 27706, USA
- Department of Biomedical Engineering, Duke University, Durham, NC 27706, USA
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14
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Li Q, Huo H, Wu Y, Chen L, Su L, Zhang X, Song J, Yang H. Design and Synthesis of SERS Materials for In Vivo Molecular Imaging and Biosensing. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2023; 10:e2202051. [PMID: 36683237 PMCID: PMC10015885 DOI: 10.1002/advs.202202051] [Citation(s) in RCA: 16] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/08/2022] [Revised: 12/14/2022] [Indexed: 06/17/2023]
Abstract
Surface-enhanced Raman scattering (SERS) is a feasible and ultra-sensitive method for biomedical imaging and disease diagnosis. SERS is widely applied to in vivo imaging due to the development of functional nanoparticles encoded by Raman active molecules (SERS nanoprobes) and improvements in instruments. Herein, the recent developments in SERS active materials and their in vivo imaging and biosensing applications are overviewed. Various SERS substrates that have been successfully used for in vivo imaging are described. Then, the applications of SERS imaging in cancer detection and in vivo intraoperative guidance are summarized. The role of highly sensitive SERS biosensors in guiding the detection and prevention of diseases is discussed in detail. Moreover, its role in the identification and resection of microtumors and as a diagnostic and therapeutic platform is also reviewed. Finally, the progress and challenges associated with SERS active materials, equipment, and clinical translation are described. The present evidence suggests that SERS could be applied in clinical practice in the future.
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Affiliation(s)
- Qingqing Li
- MOE Key Laboratory for Analytical Science of Food Safety and BiologyCollege of ChemistryFuzhou UniversityFuzhou350108P. R. China
| | - Hongqi Huo
- Department of Nuclear MedicineHan Dan Central HospitalHandanHebei056001P. R. China
| | - Ying Wu
- MOE Key Laboratory for Analytical Science of Food Safety and BiologyCollege of ChemistryFuzhou UniversityFuzhou350108P. R. China
| | - Lanlan Chen
- MOE Key Laboratory for Analytical Science of Food Safety and BiologyCollege of ChemistryFuzhou UniversityFuzhou350108P. R. China
| | - Lichao Su
- MOE Key Laboratory for Analytical Science of Food Safety and BiologyCollege of ChemistryFuzhou UniversityFuzhou350108P. R. China
| | - Xuan Zhang
- MOE Key Laboratory for Analytical Science of Food Safety and BiologyCollege of ChemistryFuzhou UniversityFuzhou350108P. R. China
| | - Jibin Song
- MOE Key Laboratory for Analytical Science of Food Safety and BiologyCollege of ChemistryFuzhou UniversityFuzhou350108P. R. China
| | - Huanghao Yang
- MOE Key Laboratory for Analytical Science of Food Safety and BiologyCollege of ChemistryFuzhou UniversityFuzhou350108P. R. China
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15
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Atta S, Vo-Dinh T. Solution-Based Ultra-Sensitive Surface-Enhanced Raman Scattering Detection of the Toxin Bacterial Biomarker Pyocyanin in Biological Fluids Using Sharp-Branched Gold Nanostars. Anal Chem 2023; 95:2690-2697. [PMID: 36693215 PMCID: PMC9909734 DOI: 10.1021/acs.analchem.2c03210] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
There is a critical need for sensitive rapid point-of-care detection of bacterial infection biomarkers in complex biological fluids with minimal sample preparation, which can improve early-stage diagnosis and prevent several bacterial infections and fatal diseases. A solution-based surface-enhanced Raman scattering (SERS) detection platform has long been sought after for low cost, rapid, and on-site detection of analyte molecules, but current methods still exhibit poor sensitivity. In this study, we have tuned the morphology of the surfactant-free gold nanostars (GNSs) to achieve sharp protruding spikes for maximum SERS enhancement. We have controlled the GNS spike morphologies and optimized SERS performance in the solution phase using para-mercaptobenzoic acid as an SERS probe. To illustrate the potential for point-of-care applications, we have utilized a portable Raman instrument for measurements. For pathogenic agent sensing applications, we demonstrated rapid and sensitive detection of the toxin biomarker pyocyanin (PYO) used as the bacterial biomarker model system. Pyocyanin is a toxic compound produced and secreted by the common water-borne Gram-negative bacterium Pseudomonas aeruginosa, a pathogen known for advanced antibiotic resistance and association with serious diseases such as ventilator-associated pneumonia and cystic fibrosis. The limit of detection (LOD) achieved for PYO was 0.05 nM using sharp branched GNSs. Furthermore, as a proof of strategy, this SERS detection of PYO was performed directly in drinking water, human saliva, and human urine without any sample treatment pre-purification, achieving an LOD of 0.05 nM for drinking water and 0.4 nM for human saliva and urine. This work provides a proof-of-principle demonstration for the high sensitivity detection of the bacterial toxin biomarker with minimal sample preparation: the "mix and detect" detection of the GNS platform is simple, robust, and rapid, taking only 1-2 min for each measurement. Overall, our SERS detection platform shows great potential for point-of-need sensing and point-of-care diagnostics in biological fluids.
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Affiliation(s)
- Supriya Atta
- Fitzpatrick
Institute for Photonics, Duke University, Durham, North Carolina 27708, United States,Department
of Biomedical Engineering, Duke University, Durham, North Carolina 27708, United States
| | - Tuan Vo-Dinh
- Fitzpatrick
Institute for Photonics, Duke University, Durham, North Carolina 27708, United States,Department
of Biomedical Engineering, Duke University, Durham, North Carolina 27708, United States,Department
of Chemistry, Duke University, Durham, North Carolina 27708, United States,
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16
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Dina NE, Tahir MA, Bajwa SZ, Amin I, Valev VK, Zhang L. SERS-based antibiotic susceptibility testing: Towards point-of-care clinical diagnosis. Biosens Bioelectron 2023; 219:114843. [PMID: 36327563 DOI: 10.1016/j.bios.2022.114843] [Citation(s) in RCA: 17] [Impact Index Per Article: 17.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2022] [Revised: 08/09/2022] [Accepted: 10/19/2022] [Indexed: 11/06/2022]
Abstract
Emerging antibiotic resistant bacteria constitute one of the biggest threats to public health. Surface-enhanced Raman scattering (SERS) is highly promising for detecting such bacteria and for antibiotic susceptibility testing (AST). SERS is fast, non-destructive (can probe living cells) and it is technologically flexible (readily integrated with robotics and machine learning algorithms). However, in order to integrate into efficient point-of-care (PoC) devices and to effectively replace the current culture-based methods, it needs to overcome the challenges of reliability, cost and complexity. Recently, significant progress has been made with the emergence of both new questions and new promising directions of research and technological development. This article brings together insights from several representative SERS-based AST studies and approaches oriented towards clinical PoC biosensing. It aims to serve as a reference source that can guide progress towards PoC routines for identifying antibiotic resistant pathogens. In turn, such identification would help to trace the origin of sporadic infections, in order to prevent outbreaks and to design effective medical treatment and preventive procedures.
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Affiliation(s)
- Nicoleta Elena Dina
- Department of Molecular and Biomolecular Department, National Institute for Research and Development of Isotopic and Molecular Technologies, 400293, Cluj-Napoca, Romania.
| | - Muhammad Ali Tahir
- Shanghai Key Laboratory of Atmospheric Particle Pollution and Prevention, Department of Environmental Science & Engineering, Fudan University, Shanghai, 200433, People's Republic of China
| | - Sadia Z Bajwa
- National Institute for Biotechnology and Genetic Engineering (NIBGE), P.O. Box No. 577, Jhang Road, 38000, Faisalabad, Pakistan
| | - Imran Amin
- National Institute for Biotechnology and Genetic Engineering (NIBGE), P.O. Box No. 577, Jhang Road, 38000, Faisalabad, Pakistan
| | - Ventsislav K Valev
- Centre for Photonics and Photonic Materials, Department of Physics, University of Bath, Bath, BA2 7AY, United Kingdom; Centre for Therapeutic Innovation, University of Bath, Bath, United Kingdom; Centre for Nanoscience and Nanotechnology, University of Bath, Bath, United Kingdom.
| | - Liwu Zhang
- Shanghai Key Laboratory of Atmospheric Particle Pollution and Prevention, Department of Environmental Science & Engineering, Fudan University, Shanghai, 200433, People's Republic of China; Shanghai Institute of Pollution Control and Ecological Security, Shanghai, 200092, People's Republic of China.
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17
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Huang H, Zhang Z, Li G. A Review of Magnetic Nanoparticle-Based Surface-Enhanced Raman Scattering Substrates for Bioanalysis: Morphology, Function and Detection Application. BIOSENSORS 2022; 13:30. [PMID: 36671865 PMCID: PMC9855913 DOI: 10.3390/bios13010030] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/24/2022] [Revised: 12/15/2022] [Accepted: 12/24/2022] [Indexed: 06/17/2023]
Abstract
Surface-enhanced Raman scattering (SERS) is a kind of popular non-destructive and water-free interference analytical technology with fast response, excellent sensitivity and specificity to trace biotargets in biological samples. Recently, many researches have focused on the preparation of various magnetic nanoparticle-based SERS substrates for developing efficient bioanalytical methods, which greatly improved the selectivity and accuracy of the proposed SERS bioassays. There has been a rapid increase in the number of reports about magnetic SERS substrates in the past decade, and the number of related papers and citations have exceeded 500 and 2000, respectively. Moreover, most of the papers published since 2009 have been dedicated to analytical applications. In the paper, the recent advances in magnetic nanoparticle-based SERS substrates for bioanalysis were reviewed in detail based on their various morphologies, such as magnetic core-shell nanoparticles, magnetic core-satellite nanoparticles and non-spherical magnetic nanoparticles and their different functions, such as separation and enrichment, recognition and SERS tags. Moreover, the typical application progress on magnetic nanoparticle-based SERS substrates for bioanalysis of amino acids and protein, DNA and RNA sequences, cancer cells and related tumor biomarkers, etc., was summarized and introduced. Finally, the future trends and prospective for SERS bioanalysis by magnetic nanoparticle-based substrates were proposed based on the systematical study of typical and latest references. It is expected that this review would provide useful information and clues for the researchers with interest in SERS bioanalysis.
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18
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Odion RA, Vo-Dinh T. Optical recognition of constructs using hyperspectral imaging and detection (ORCHID). Sci Rep 2022; 12:21141. [PMID: 36476976 PMCID: PMC9729193 DOI: 10.1038/s41598-022-25735-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2022] [Accepted: 12/05/2022] [Indexed: 12/13/2022] Open
Abstract
Challenges to deep sample imaging have necessitated the development of special techniques such as spatially offset optical spectroscopy to collect signals that have travelled through several layers of tissue. However, these techniques provide only spectral information in one dimension (i.e., depth). Here, we describe a general and practical method, referred to as Optical Recognition of Constructs Using Hyperspectral Imaging and Detection (ORCHID). The sensing strategy integrates (1) the spatial offset detection concept by computationally binning 2D optical data associated with digital offsets based on selected radial pixel distances from the excitation source; (2) hyperspectral imaging using tunable filter; and (3) digital image binding and collation. ORCHID is a versatile modality that is designed to collect optical signals deep inside samples across three spatial (X, Y, Z) as well as spectral dimensions. The ORCHID method is applicable to various optical techniques that exhibit narrow-band structures, from Raman scattering to quantum dot luminescence. Samples containing surface-enhanced Raman scattering (SERS)-active gold nanostar probes and quantum dots embedded in gel were used to show a proof of principle for the ORCHID concept. The resulting hyperspectral data cube is shown to spatially locate target emitting nanoparticle volumes and provide spectral information for in-depth 3D imaging.
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Affiliation(s)
- Ren A. Odion
- grid.26009.3d0000 0004 1936 7961Fitzpatrick Institute for Photonics, Duke University, Durham, NC USA ,grid.26009.3d0000 0004 1936 7961Department of Biomedical Engineering, Duke University, Durham, NC USA
| | - Tuan Vo-Dinh
- grid.26009.3d0000 0004 1936 7961Fitzpatrick Institute for Photonics, Duke University, Durham, NC USA ,grid.26009.3d0000 0004 1936 7961Department of Biomedical Engineering, Duke University, Durham, NC USA ,grid.26009.3d0000 0004 1936 7961Department of Chemistry, Duke University, Durham, NC USA
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19
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Li JQ, Dukes PV, Lee W, Sarkis M, Vo‐Dinh T. Machine learning using convolutional neural networks for SERS analysis of biomarkers in medical diagnostics. JOURNAL OF RAMAN SPECTROSCOPY : JRS 2022; 53:2044-2057. [PMID: 37067872 PMCID: PMC10087982 DOI: 10.1002/jrs.6447] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/29/2022] [Revised: 07/14/2022] [Accepted: 08/09/2022] [Indexed: 05/30/2023]
Abstract
Surface-enhanced Raman spectroscopy (SERS) has wide diagnostic applications because of narrow spectral features that allow multiplexed analysis. Machine learning (ML) has been used for non-dye-labeled SERS spectra but has not been applied to SERS dye-labeled materials with known spectral shapes. Here, we compare the performances of spectral decomposition, support vector regression, random forest regression, partial least squares regression, and convolutional neural network (CNN) for SERS "spectral unmixing" from a multiplexed mixture of 7 SERS-active "nanorattles" loaded with different dyes for mRNA biomarker detection. We showed that CNN most accurately determined relative contributions of each distinct dye-loaded nanorattle. CNN and comparative models were then used to analyze SERS spectra from a singleplexed, point-of-care assay detecting an mRNA biomarker for head and neck cancer in 20 samples. The CNN, trained on simulated multiplexed data, determined the correct dye contributions from the singleplex assay with RMSElabel = 6.42 × 10-2. These results demonstrate the potential of CNN-based ML to advance SERS-based diagnostics.
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Affiliation(s)
- Joy Qiaoyi Li
- Fitzpatrick Institute for PhotonicsDuke UniversityDurhamNorth CarolinaUSA
- Biomedical Engineering DepartmentDuke UniversityDurhamNorth CarolinaUSA
| | - Priya Vohra Dukes
- Department of Head and Neck Surgery and Communication SciencesDuke University School of MedicineDurhamNorth CarolinaUSA
| | - Walter Lee
- Department of Head and Neck Surgery and Communication SciencesDuke University School of MedicineDurhamNorth CarolinaUSA
- Global Health InstituteDuke UniversityDurhamNorth CarolinaUSA
| | - Michael Sarkis
- Department of Statistical ScienceDuke UniversityDurhamNorth CarolinaUSA
| | - Tuan Vo‐Dinh
- Fitzpatrick Institute for PhotonicsDuke UniversityDurhamNorth CarolinaUSA
- Biomedical Engineering DepartmentDuke UniversityDurhamNorth CarolinaUSA
- Chemistry DepartmentDuke UniversityDurhamNorth CarolinaUSA
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20
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Gong T, Das CM, Yin MJ, Lv TR, Singh NM, Soehartono AM, Singh G, An QF, Yong KT. Development of SERS tags for human diseases screening and detection. Coord Chem Rev 2022. [DOI: 10.1016/j.ccr.2022.214711] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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21
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Ansah F, Krampa F, Donkor JK, Owusu-Appiah C, Ashitei S, Kornu VE, Danku RK, Chirawurah JD, Awandare GA, Aniweh Y, Kanyong P. Ultrasensitive electrochemical genosensors for species-specific diagnosis of malaria. Electrochim Acta 2022; 429:140988. [PMID: 36225971 PMCID: PMC9472471 DOI: 10.1016/j.electacta.2022.140988] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2022] [Revised: 08/02/2022] [Accepted: 08/07/2022] [Indexed: 11/21/2022]
Abstract
The absence of reliable species-specific diagnostic tools for malaria at point-of-care (POC) remains a major setback towards effective disease management. This is partly due to the limited sensitivity and specificity of the current malaria POC diagnostic kits especially in cases of low-density parasitaemia and mixed species infections. In this study, we describe the first label-free DNA-based genosensors based on electrochemical impedance spectroscopy (EIS) for species-specific detection of P. falciparum, P. malariae and P. ovale. The limits of detection (LOD) for the three species-specific genosensors were down in attomolar concentrations ranging from 18.7 aM to 43.6 aM, which is below the detection limits of previously reported malaria genosensors. More importantly, the diagnostic performance of the three genosensors were compared to quantitative real-time polymerase chain reaction (qPCR) assays using purified genomic DNA and the paired whole blood lysates from clinical samples. Remarkably, all the qPCR-positive purified genomic DNA samples were correctly identified by the genosensors indicating 100% sensitivity for each of the three malaria species. The specificities of the three genosensors ranged from 66.7% to 100.0% with a Therapeutic Turnaround Time (TTAT) within 30 min, which is comparable to the TTAT of current POC diagnostic tools for malaria. This work represents a significant step towards the development of accurate and rapid species-specific nucleic acid-based toolkits for the diagnosis of malaria at the POC.
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Affiliation(s)
- Felix Ansah
- West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
- Department of Biochemistry, Cell and Molecular Biology, College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
| | - Francis Krampa
- Department of Chemical Engineering and Biotechnology, University of Cambridge, Philippa Fawcett Drive, Cambridge,CB3 0AS, United Kingdom
| | - Jacob K. Donkor
- Department of Biochemistry, Cell and Molecular Biology, College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
| | - Caleb Owusu-Appiah
- West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
| | - Sarah Ashitei
- West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
| | - Victor E. Kornu
- Department of Biochemistry, Cell and Molecular Biology, College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
| | - Reinhard K. Danku
- West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
| | - Jersley D. Chirawurah
- West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
- Department of Biochemistry, Cell and Molecular Biology, College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
| | - Gordon A. Awandare
- West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
- Department of Biochemistry, Cell and Molecular Biology, College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
| | - Yaw Aniweh
- West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
| | - Prosper Kanyong
- West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Legon, Accra, Ghana
- Siemens Healthineers, Siemens Healthcare Diagnostics Products Ltd, Llanberis, Gwynedd LL55 4EL, United Kingdom
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22
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Atta S, Vo-Dinh T. Bimetallic Gold Nanostars Having High Aspect Ratio Spikes for Sensitive Surface-Enhanced Raman Scattering Sensing. ACS APPLIED NANO MATERIALS 2022; 5:12562-12570. [PMID: 36185168 PMCID: PMC9513749 DOI: 10.1021/acsanm.2c02234] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/23/2022] [Accepted: 08/17/2022] [Indexed: 05/09/2023]
Abstract
There has been increasing interest in evolution of plasmonic nanoplatforms based on noble metal nanoparticles to achieve ultrasensitive detection of trace analyte molecules through solution-based surface-enhanced Raman spectroscopy (SERS). This work presents a surfactant-free synthesis method of bimetallic gold nanostars coated with silver (BGNS-Ag) having sharp, high aspect-ratio spikes for achieving ultrahigh detection sensitivity and high reproducibility. Specifically, the unique BGNS-Ag platform combines both the strong SERS enhancement effects of gold nanostar sharp spikes and the high scattering feature of the silver-gold bimetallic structure. To achieve SERS reproducibility, this solution-based SERS measurement requires minimal sample preparation without addition of any external reagents, which can cause irregular aggregation of nanoparticles and reduce the reproducibility of SERS measurements. Moreover, we have streamlined our SERS sensing procedure by using standard well-plates and a portable Raman device for SERS measurements, which could be utilized for rapid on-site detection. This solution-based SERS performance was studied using methylene blue (MB) as a model analyte system. The detection limit of MB was as low as 42 pM, indicating high sensitivity of detection using BGNS-Ag. To illustrate the usefulness for environmental sensing, we showed that the SERS sensor can detect a pesticide, thiram, at a concentration as low as 0.8 nM. This study demonstrated that the BGNS-Ag system could serve as an effective and versatile plasmonic-active platform for reproducible, fast, and in-field detection of small organic analytes at trace levels.
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Affiliation(s)
- Supriya Atta
- Fitzpatrick
Institute for Photonics, Duke University, Durham, North Carolina 27708, United States
- Department
of Biomedical Engineering, Duke University, Durham, North Carolina 27708, United States
| | - Tuan Vo-Dinh
- Fitzpatrick
Institute for Photonics, Duke University, Durham, North Carolina 27708, United States
- Department
of Biomedical Engineering, Duke University, Durham, North Carolina 27708, United States
- Department
of Chemistry, Duke University, Durham, North Carolina 27708, United States
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23
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A Simple, Cost-Effective, and Extraction-Free Molecular Diagnostic Test for Sickle Cell Disease Using a Noninvasive Buccal Swab Specimen for a Limited-Resource Setting. Diagnostics (Basel) 2022; 12:diagnostics12071765. [PMID: 35885667 PMCID: PMC9318149 DOI: 10.3390/diagnostics12071765] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2022] [Revised: 07/11/2022] [Accepted: 07/12/2022] [Indexed: 11/16/2022] Open
Abstract
Sickle cell disease (SCD) is the most prevalent life-threatening blood monogenic disorder. Currently, there is no cure available, apart from bone marrow transplantation. Early and efficient diagnosis of SCD is key to disease management, which would make considerable strides in alleviating morbidity and reducing mortality. However, the cost and complexity of diagnostic procedures, such as the Sanger sequencing method, impede the early detection of SCD in a resource-limited setting. To address this, the current study demonstrates a simple and efficient proof-of-concept assay for the detection of patients and carriers using extraction-free non-invasive buccal swab samples by isothermal DNA Amplification coupled Restrictase-mediated cleavage (iDAR). This study is a first of its kind reporting the use of buccal swab specimens for iDA in molecular diagnosis of a genetic disease, all the while being cost effective and time saving, with the total assay time of around 150 min at a cost of USD 5. Further, iDAR demonstrates 91.5% sensitivity and 100% specificity for detecting all three alleles: SS, AS, and AA, having a 100% concordance with Sanger sequencing. The applicability of the iDAR assay is further demonstrated with its adaptation to a one-pot reaction format, which simplifies the assay system. Overall, iDAR is a simple, cost-effective, precise, and non-invasive assay for SCD screening, with the potential for use in a limited resource setting.
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24
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Atta S, Watcharawittayakul T, Vo-Dinh T. Ultra-high SERS detection of consumable coloring agents using plasmonic gold nanostars with high aspect-ratio spikes. Analyst 2022; 147:3340-3349. [PMID: 35762677 PMCID: PMC9725038 DOI: 10.1039/d2an00794k] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/13/2023]
Abstract
Solution-based SERS detection by using a portable Raman instrument has emerged as an important tool due to its simplicity, and flexibility for rapid and on-site screening of analyte molecules. However, this method has several shortcomings, including poor sensitivity especially for weak-affinity analyte molecules, where there is no close contact between the plasmonic metal surface and analyte molecule. Examples of weak-affinity molecules include pigment molecules that are commonly used as a consumable coloring agent, such as allura red (AR), and sunset yellow (SY). As high consumption of colorant agents has been shown to cause adverse effects on human health, there is a strong need to develop a simple and practical sensing system with high sensitivity for these agents. Here we present a novel, highly sensitive solution-based SERS detection method for AR, and SY by using CTAC capped gold nanostars (GNS) having different aspect ratios (GNS-2, GNS-4, and GNS-5) without utilizing any aggregating agents which can enhance SERS signal however it reduces batch to batch reproducibility. The influence of the aspect ratio of GNS on SERS properties was investigated. We have achieved a limit of detection (LOD) of AR and SY as low as 0.5 and 1 ppb, respectively by using GNS-5 with the advantages of minimal sample preparation by just mixing the analyte solution into a well plate containing GNS solution. In addition, excellent colloidal stability and reproducibility have further enhanced the applicability in real-world samples. Overall, our results evidence that the solution-based SERS detection platform using high aspect-ratio GNS can be applied for practical application to detect pigment molecules in real samples with satisfactory results.
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Affiliation(s)
- Supriya Atta
- Fitzpatrick Institute for Photonics, Durham, NC 27708, USA.
- Department of Biomedical Engineering, Durham, NC 27708, USA
| | - Tongchatra Watcharawittayakul
- Fitzpatrick Institute for Photonics, Durham, NC 27708, USA.
- Department of Biomedical Engineering, Durham, NC 27708, USA
| | - Tuan Vo-Dinh
- Fitzpatrick Institute for Photonics, Durham, NC 27708, USA.
- Department of Biomedical Engineering, Durham, NC 27708, USA
- Department of Chemistry, Duke University, Durham, NC 27708, USA
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25
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Geng P, Sun S, Wang X, Ma L, Guo C, Li J, Guan M. Rapid and sensitive detection of amphetamine by SERS-based competitive immunoassay coupled with magnetic separation. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2022; 14:2608-2615. [PMID: 35726804 DOI: 10.1039/d2ay00581f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Amphetamine (AMP), as a psychiatric drug acting on the central nervous system, and has become one of the most common drugs of abuse in the illegal market at present, which adversely affects social public safety. We developed a SERS magnetic immunoassay with high sensitivity, specificity, and rapid and quantitative detection of AMP. We synthesized a high SERS intensity substrate (Au-XP013@Ag) using the "hot spot" effect and combined it with antibodies to form SERS immunotags (Au-XP013@Ag-AMP-mAb). Subsequently, the carboxyl magnetic beads were linked to label antigens as functional magnetic beads (carboxyl magnetic beads-AMP-BSA). Using the principle of competitive immunoassay, the Raman response value of the immune complex formed with SERS tags and functional magnetic beads was detected to realize the quantitative detection of AMP. The detection limit of this method for AMP was 2.28 ng mL-1. More importantly, a portable Raman instrument was used in this study, which can meet the requirements of point-of-care testing (POCT). Therefore, this SERS-based magnetic immunoassay can provide a favorable scientific basis for the control of drug abuse, monitoring by law enforcement agencies, and determination of drug users.
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Affiliation(s)
- Pengfei Geng
- College of Chemistry and Chemical Engineering, Xinjiang Normal University, Urumqi 830054, China.
| | - Shijiao Sun
- College of Chemistry and Chemical Engineering, Xinjiang Normal University, Urumqi 830054, China.
| | - Xiaomei Wang
- College of Chemistry and Chemical Engineering, Xinjiang Normal University, Urumqi 830054, China.
| | - Li Ma
- College of Chemistry and Chemical Engineering, Xinjiang Normal University, Urumqi 830054, China.
| | - Chang Guo
- Shanghai Simp Bio-Science Co., Ltd, Shanghai 200000, China
| | - Jiutong Li
- Shanghai Simp Bio-Science Co., Ltd, Shanghai 200000, China
| | - Ming Guan
- College of Chemistry and Chemical Engineering, Xinjiang Normal University, Urumqi 830054, China.
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26
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Allakhverdiev ES, Khabatova VV, Kossalbayev BD, Zadneprovskaya EV, Rodnenkov OV, Martynyuk TV, Maksimov GV, Alwasel S, Tomo T, Allakhverdiev SI. Raman Spectroscopy and Its Modifications Applied to Biological and Medical Research. Cells 2022; 11:cells11030386. [PMID: 35159196 PMCID: PMC8834270 DOI: 10.3390/cells11030386] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2021] [Revised: 01/17/2022] [Accepted: 01/22/2022] [Indexed: 02/06/2023] Open
Abstract
Nowadays, there is an interest in biomedical and nanobiotechnological studies, such as studies on carotenoids as antioxidants and studies on molecular markers for cardiovascular, endocrine, and oncological diseases. Moreover, interest in industrial production of microalgal biomass for biofuels and bioproducts has stimulated studies on microalgal physiology and mechanisms of synthesis and accumulation of valuable biomolecules in algal cells. Biomolecules such as neutral lipids and carotenoids are being actively explored by the biotechnology community. Raman spectroscopy (RS) has become an important tool for researchers to understand biological processes at the cellular level in medicine and biotechnology. This review provides a brief analysis of existing studies on the application of RS for investigation of biological, medical, analytical, photosynthetic, and algal research, particularly to understand how the technique can be used for lipids, carotenoids, and cellular research. First, the review article shows the main applications of the modified Raman spectroscopy in medicine and biotechnology. Research works in the field of medicine and biotechnology are analysed in terms of showing the common connections of some studies as caretenoids and lipids. Second, this article summarises some of the recent advances in Raman microspectroscopy applications in areas related to microalgal detection. Strategies based on Raman spectroscopy provide potential for biochemical-composition analysis and imaging of living microalgal cells, in situ and in vivo. Finally, current approaches used in the papers presented show the advantages, perspectives, and other essential specifics of the method applied to plants and other species/objects.
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Affiliation(s)
- Elvin S. Allakhverdiev
- Russian National Medical Research Center of Cardiology, 3rd Cherepkovskaya St., 15A, 121552 Moscow, Russia; (E.S.A.); (O.V.R.); (T.V.M.)
- Biology Faculty, Lomonosov Moscow State University, Leninskie Gory 1/12, 119991 Moscow, Russia;
| | - Venera V. Khabatova
- K.A. Timiryazev Institute of Plant Physiology, RAS, Botanicheskaya str., 35, 127276 Moscow, Russia; (V.V.K.); (E.V.Z.)
| | - Bekzhan D. Kossalbayev
- Geology and Oil-gas Business Institute Named after K. Turyssov, Satbayev University, Satpaeva, 22, Almaty 050043, Kazakhstan;
- Department of Biotechnology, Faculty of Biology and Biotechnology, Al-Farabi Kazakh National University, Al-Farabi Avenue 71, Almaty 050038, Kazakhstan
| | - Elena V. Zadneprovskaya
- K.A. Timiryazev Institute of Plant Physiology, RAS, Botanicheskaya str., 35, 127276 Moscow, Russia; (V.V.K.); (E.V.Z.)
| | - Oleg V. Rodnenkov
- Russian National Medical Research Center of Cardiology, 3rd Cherepkovskaya St., 15A, 121552 Moscow, Russia; (E.S.A.); (O.V.R.); (T.V.M.)
| | - Tamila V. Martynyuk
- Russian National Medical Research Center of Cardiology, 3rd Cherepkovskaya St., 15A, 121552 Moscow, Russia; (E.S.A.); (O.V.R.); (T.V.M.)
| | - Georgy V. Maksimov
- Biology Faculty, Lomonosov Moscow State University, Leninskie Gory 1/12, 119991 Moscow, Russia;
- Department of Physical Materials Science, Technological University “MISiS”, Leninskiy Prospekt 4, Office 626, 119049 Moscow, Russia
| | - Saleh Alwasel
- Zoology Department, College of Science, King Saud University, Riyadh 12372, Saudi Arabia;
| | - Tatsuya Tomo
- Department of Biology, Faculty of Science, Tokyo University of Science, 1-3 Kagurazaka, Shinjuku-ku, Tokyo 162-8601, Japan;
| | - Suleyman I. Allakhverdiev
- K.A. Timiryazev Institute of Plant Physiology, RAS, Botanicheskaya str., 35, 127276 Moscow, Russia; (V.V.K.); (E.V.Z.)
- Zoology Department, College of Science, King Saud University, Riyadh 12372, Saudi Arabia;
- Institute of Basic Biological Problems, RAS, Pushchino, 142290 Moscow, Russia
- Correspondence:
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27
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Xie S, Tao D, Fu Y, Xu B, Tang Y, Steinaa L, Hemmink JD, Pan W, Huang X, Nie X, Zhao C, Ruan J, Zhang Y, Han J, Fu L, Ma Y, Li X, Liu X, Zhao S. Rapid Visual CRISPR Assay: A Naked-Eye Colorimetric Detection Method for Nucleic Acids Based on CRISPR/Cas12a and a Convolutional Neural Network. ACS Synth Biol 2022; 11:383-396. [PMID: 34937346 PMCID: PMC8713390 DOI: 10.1021/acssynbio.1c00474] [Citation(s) in RCA: 24] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2021] [Indexed: 12/26/2022]
Abstract
Rapid diagnosis based on naked-eye colorimetric detection remains challenging, but it could build new capacities for molecular point-of-care testing (POCT). In this study, we evaluated the performance of 16 types of single-stranded DNA-fluorophore-quencher (ssDNA-FQ) reporters for use with clusters of regularly spaced short palindrome repeats (CRISPR)/Cas12a-based visual colorimetric assays. Among them, nine ssDNA-FQ reporters were found to be suitable for direct visual colorimetric detection, with especially very strong performance using ROX-labeled reporters. We optimized the reaction concentrations of these ssDNA-FQ reporters for a naked-eye read-out of assay results (no transducing component required for visualization). In particular, we developed a convolutional neural network algorithm to standardize and automate the analytical colorimetric assessment of images and integrated this into the MagicEye mobile phone software. A field-deployable assay platform named RApid VIsual CRISPR (RAVI-CRISPR) based on a ROX-labeled reporter with isothermal amplification and CRISPR/Cas12a targeting was established. We deployed RAVI-CRISPR in a single tube toward an instrument-less colorimetric POCT format that required only a portable rechargeable hand warmer for incubation. The RAVI-CRISPR was successfully used for the high-sensitivity detection of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and African swine fever virus (ASFV). Our study demonstrates this RAVI-CRISPR/MagicEye system to be suitable for distinguishing different pathogenic nucleic acid targets with high specificity and sensitivity as the simplest-to-date platform for rapid pen- or bed-side testing.
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Affiliation(s)
- Shengsong Xie
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
- Animal and Human Health Program, Biosciences,
International Livestock Research Institute (ILRI), P.O. Box
30709, Nairobi 00100, Kenya
- The Cooperative Innovation Center for Sustainable Pig
Production, Huazhong Agricultural University, Wuhan 430070,
P. R. China
| | - Dagang Tao
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
| | - Yuhua Fu
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
| | - Bingrong Xu
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
| | - You Tang
- Electrical and Information Engineering College,
Jilin Agricultural Science and Technology University, Jilin
132101, P. R. China
| | - Lucilla Steinaa
- Animal and Human Health Program, Biosciences,
International Livestock Research Institute (ILRI), P.O. Box
30709, Nairobi 00100, Kenya
| | - Johanneke D. Hemmink
- Animal and Human Health Program, Biosciences,
International Livestock Research Institute (ILRI), P.O. Box
30709, Nairobi 00100, Kenya
| | - Wenya Pan
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
| | - Xin Huang
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
| | - Xiongwei Nie
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
| | - Changzhi Zhao
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
| | - Jinxue Ruan
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
| | - Yi Zhang
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
| | - Jianlin Han
- CAAS-ILRI Joint Laboratory on Livestock and Forage
Genetic Resources, Institute of Animal Science, Chinese Academy of
Agricultural Sciences (CAAS), Beijing 100193, P. R.
China
- LiveGene Program, Biosciences,
International Livestock Research Institute (ILRI), P.O. Box
30709, Nairobi 00100, Kenya
| | - Liangliang Fu
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
| | - Yunlong Ma
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
| | - Xinyun Li
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
- The Cooperative Innovation Center for Sustainable Pig
Production, Huazhong Agricultural University, Wuhan 430070,
P. R. China
- Hubei Hongshan Laboratory, Frontiers
Science Center for Animal Breeding and Sustainable Production, Wuhan
430070, P. R. China
| | - Xiaolei Liu
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
- The Cooperative Innovation Center for Sustainable Pig
Production, Huazhong Agricultural University, Wuhan 430070,
P. R. China
- Hubei Hongshan Laboratory, Frontiers
Science Center for Animal Breeding and Sustainable Production, Wuhan
430070, P. R. China
| | - Shuhong Zhao
- Key Laboratory of Agricultural Animal Genetics,
Breeding and Reproduction of Ministry of Education & Key Lab of Swine Genetics and
Breeding of Ministry of Agriculture and Rural Affairs, Huazhong Agricultural
University, Wuhan 430070, P. R. China
- The Cooperative Innovation Center for Sustainable Pig
Production, Huazhong Agricultural University, Wuhan 430070,
P. R. China
- Hubei Hongshan Laboratory, Frontiers
Science Center for Animal Breeding and Sustainable Production, Wuhan
430070, P. R. China
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28
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Saikia N. Probing the adsorption behavior and free energy landscape of single-stranded DNA oligonucleotides on single-layer MoS 2with molecular dynamics. NANOTECHNOLOGY 2021; 33:105602. [PMID: 34823233 DOI: 10.1088/1361-6528/ac3d61] [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: 08/13/2021] [Accepted: 11/25/2021] [Indexed: 06/13/2023]
Abstract
Interfacing single-stranded DNA (ssDNA) with 2D transition metal dichalcogenides are important for numerous technological advancements. However, the molecular mechanism of this process, including the nature of intermolecular association and conformational details of the self-assembled hybrids is still not well understood. Here, atomistic molecular dynamics simulation is employed to study the distinct adsorption behavior of ssDNA on a single-layer MoS2in aqueous environment. The ssDNA sequences [T10, G10, A10, C10, U10, (GT)5, and (AC)5] are chosen on the basis that short ssDNA segments can undergo a spontaneous conformational change upon adsorption and allow efficient sampling of the conformational landscape. Differences in hybridization is attributed to the inherent molecular recognition ability of the bases. While the binding appears to be primarily driven by energetically favorable van der Waalsπ-stacking interactions, equilibrium structures are modulated by the ssDNA conformational changes. The poly-purines demonstrate two concurrently competingπ-stacking interactions: nucleobase-nucleobase (intramolecular) and nucleobase-MoS2(intermolecular). The poly-pyrimidines, on the other hand, reveal enhancedπ-stacking interactions, thereby maximizing the number of contacts. The results provide new molecular-level understanding of ssDNA adsorption on the MoS2surface and facilitate future studies in design of functional DNA/MoS2structure-based platforms for DNA sequencing, biosensing (optical, electrochemical, and electronic), and drug delivery.
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Affiliation(s)
- Nabanita Saikia
- School of Science, Navajo Technical University, Chinle Site, AZ 86503, United States of America
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29
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Kozik A, Pavlova M, Petrov I, Bychkov V, Kim L, Dorozhko E, Cheng C, Rodriguez RD, Sheremet E. A review of surface-enhanced Raman spectroscopy in pathological processes. Anal Chim Acta 2021; 1187:338978. [PMID: 34753586 DOI: 10.1016/j.aca.2021.338978] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2021] [Revised: 08/18/2021] [Accepted: 08/20/2021] [Indexed: 12/17/2022]
Abstract
With the continuous growth of the human population and new challenges in the quality of life, it is more important than ever to diagnose diseases and pathologies with high accuracy, sensitivity and in different scenarios from medical implants to the operation room. Although conventional methods of diagnosis revolutionized healthcare, alternative analytical methods are making their way out of academic labs into clinics. In this regard, surface-enhanced Raman spectroscopy (SERS) developed immensely with its capability to achieve single-molecule sensitivity and high-specificity in the last two decades, and now it is well on its way to join the arsenal of physicians. This review discusses how SERS is becoming an essential tool for the clinical investigation of pathologies including inflammation, infections, necrosis/apoptosis, hypoxia, and tumors. We critically discuss the strategies reported so far in nanoparticle assembly, functionalization, non-metallic substrates, colloidal solutions and how these techniques improve SERS characteristics during pathology diagnoses like sensitivity, selectivity, and detection limit. Moreover, it is crucial to introduce the most recent developments and future perspectives of SERS as a biomedical analytical method. We finally discuss the challenges that remain as bottlenecks for a routine SERS implementation in the medical room from in vitro to in vivo applications. The review showcases the adaptability and versatility of SERS to resolve pathological processes by covering various experimental and analytical methods and the specific spectral features and analysis results achieved by these methods.
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Affiliation(s)
- Alexey Kozik
- Tomsk Polytechnic University, Lenin Ave, 30, Tomsk, 634050, Russia; Siberian Medical State University, Moskovskiy Trakt, 2, Tomsk, 634050, Russia
| | - Marina Pavlova
- Tomsk Polytechnic University, Lenin Ave, 30, Tomsk, 634050, Russia; Siberian Medical State University, Moskovskiy Trakt, 2, Tomsk, 634050, Russia
| | - Ilia Petrov
- Tomsk Polytechnic University, Lenin Ave, 30, Tomsk, 634050, Russia
| | - Vyacheslav Bychkov
- Tomsk National Research Medical Center of the Russian Academy of Sciences, Cancer Research Institute, 5 Kooperativny Street, Tomsk, 634009, Russia
| | - Larissa Kim
- Tomsk Polytechnic University, Lenin Ave, 30, Tomsk, 634050, Russia
| | - Elena Dorozhko
- Tomsk Polytechnic University, Lenin Ave, 30, Tomsk, 634050, Russia
| | - Chong Cheng
- College of Polymer Science and Engineering, State Key Laboratory of Polymer Materials Engineering, Sichuan University, Chengdu, 610065, China
| | - Raul D Rodriguez
- Tomsk Polytechnic University, Lenin Ave, 30, Tomsk, 634050, Russia.
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30
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Pisarev EK, Kapitanova OO, Vesolova IA, Zvereva MI. Amplification-Free Identification and Determination of Nucleic Acids by Surface Plasmon Resonance and Surface-Enhanced Raman Spectroscopy. MOSCOW UNIVERSITY CHEMISTRY BULLETIN 2021. [PMCID: PMC8647960 DOI: 10.3103/s0027131421060079] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 12/04/2022]
Abstract
This review discusses contemporary approaches to designing sensory systems for the identification and determination of nucleic acids (NAs) without amplifying target molecules. Here we summarize the data about methods based on surface plasmon resonance and surface-enhanced Raman spectroscopy, as well as their possibilities, limitations, and prospects for further development.
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Kang S, Kim I, Vikesland PJ. Discriminatory Detection of ssDNA by Surface-Enhanced Raman Spectroscopy (SERS) and Tree-Based Support Vector Machine (Tr-SVM). Anal Chem 2021; 93:9319-9328. [PMID: 34196541 DOI: 10.1021/acs.analchem.0c04576] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
We report label-free detection of 86-base single-stranded DNA (ssDNA) gene segments by surface-enhanced Raman spectroscopy (SERS). The use of a slippery liquid infused porous (SLIP) membrane induced aggregation of 43 nm gold nanoparticles and ssDNA upon pin-free droplet evaporation. The combined SLIPSERS approach generates significant numbers of SERS hot-spots and enabled detection at the 100 nM level of mecA and intI1 gene segments-two genes of interest in the context of antibiotic resistance. Tree-based multiclass support vector machine (Tr-SVM) classifiers were built to discriminate SERS spectra of 12 different gene sequences obtained by SLIPSERS: mecA, intI1, as well as analogues of mecA and intI1, respectively, with 2-10 base mismatches, and two random sequences. The trained predictive Tr-SVM classifiers correctly identified each gene sequence with a prediction accuracy of ∼90%. This study illustrates a novel means for discriminatory label-free SERS detection of ssDNA enabled by Tr-SVM.
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Affiliation(s)
- Seju Kang
- Department of Civil and Environmental Engineering, Virginia Tech, Blacksburg, Virginia 24061, United States.,Virginia Tech Institute of Critical Technology and Applied Science (ICTAS) Sustainable Nanotechnology Center (VTSuN), Blacksburg, Virginia 24061, United States
| | - Inyoung Kim
- Department of Statistics, Virginia Tech, Blacksburg, Virginia 24061, United States
| | - Peter J Vikesland
- Department of Civil and Environmental Engineering, Virginia Tech, Blacksburg, Virginia 24061, United States.,Virginia Tech Institute of Critical Technology and Applied Science (ICTAS) Sustainable Nanotechnology Center (VTSuN), Blacksburg, Virginia 24061, United States
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Automatic and sensitive detection of West Nile virus non-structural protein 1 with a portable SERS-LFIA detector. Mikrochim Acta 2021; 188:206. [PMID: 34046739 DOI: 10.1007/s00604-021-04857-3] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2021] [Accepted: 05/13/2021] [Indexed: 02/02/2023]
Abstract
A portable surface-enhanced Raman scattering (SERS)-lateral flow immunoassay (LFIA) detector has been developed for the automatic and highly sensitive detection of West Nile virus (WNV) non-structural protein 1 (NS1) and actual WNV samples. Au@Ag nanoparticles (Au@Ag NPs) labeled with double-layer Raman molecules were used as SERS tags to prepare WNV-specific SERS-LFIA strips. On this platform, the WNV-specific antigen NS1 protein was quantitatively and sensitively detected. The detection limit for the WNV NS1 protein was 0.1 ng/mL, which was 100-fold more sensitive than visual signals. The detection limit for inactivated WNV virions was 0.2 × 102 copies/μL. The sensitivity of the SERS-LFIA detector was comparable to that of the fluorescence quantitative reverse transcription-polymerase chain reaction assay. The prepared SERS-LFIA strips exhibited high sensitivity and good specificity for WNV. Thus, the strips developed herein have clinical application value. Moreover, the portable SERS-LFIA detector enabled automatic and rapid detection of the SERS-LFIA strips. The platform established herein is expected to make a substantial contribution to the diagnosis and control of outbreaks of emerging infectious diseases, including WNV.
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Huynh KH, Hahm E, Noh MS, Lee JH, Pham XH, Lee SH, Kim J, Rho WY, Chang H, Kim DM, Baek A, Kim DE, Jeong DH, Park SM, Jun BH. Recent Advances in Surface-Enhanced Raman Scattering Magnetic Plasmonic Particles for Bioapplications. NANOMATERIALS 2021; 11:nano11051215. [PMID: 34064407 PMCID: PMC8147842 DOI: 10.3390/nano11051215] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/30/2021] [Revised: 04/25/2021] [Accepted: 04/30/2021] [Indexed: 01/10/2023]
Abstract
The surface-enhanced Raman scattering (SERS) technique, that uses magnetic plasmonic particles (MPPs), is an advanced SERS detection platform owing to the synergetic effects of the particles’ magnetic and plasmonic properties. As well as being an ultrasensitive and reliable SERS material, MPPs perform various functions, such as aiding in separation, drug delivery, and acting as a therapeutic material. This literature discusses the structure and multifunctionality of MPPs, which has enabled the novel application of MPPs to various biological fields.
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Affiliation(s)
- Kim-Hung Huynh
- Department of Bioscience and Biotechnology, Konkuk University,120 Neungdong-ro, Gwangjin-Gu, Seoul 05029, Korea; (K.-H.H.); (E.H.); (X.-H.P.); (J.K.); (D.M.K.); (A.B.); (D.-E.K.)
| | - Eunil Hahm
- Department of Bioscience and Biotechnology, Konkuk University,120 Neungdong-ro, Gwangjin-Gu, Seoul 05029, Korea; (K.-H.H.); (E.H.); (X.-H.P.); (J.K.); (D.M.K.); (A.B.); (D.-E.K.)
| | - Mi Suk Noh
- Medical Device & Bio-research Team, Bio-medical & Environ-chemical Division, Korea Testing Certification, Gunpo, Gyeonggi-do 15809, Korea;
| | - Jong-Hwan Lee
- Center for Convergent Research of Emerging Virus Infection, Korea Research Institute of Chemical Technology, Daejeon 34114, Korea;
| | - Xuan-Hung Pham
- Department of Bioscience and Biotechnology, Konkuk University,120 Neungdong-ro, Gwangjin-Gu, Seoul 05029, Korea; (K.-H.H.); (E.H.); (X.-H.P.); (J.K.); (D.M.K.); (A.B.); (D.-E.K.)
| | - Sang Hun Lee
- Department of Chemical and Biological Engineering, Hanbat National University, 125 Dongseo-daero, Yuseong-gu, Daejeon 34158, Korea;
| | - Jaehi Kim
- Department of Bioscience and Biotechnology, Konkuk University,120 Neungdong-ro, Gwangjin-Gu, Seoul 05029, Korea; (K.-H.H.); (E.H.); (X.-H.P.); (J.K.); (D.M.K.); (A.B.); (D.-E.K.)
| | - Won-Yeop Rho
- School of International Engineering and Science, Jeonbuk National University, 567 Baekje-daero, Deokjin-gu, Jeonju-si, Jeollabuk-do 54896, Korea;
| | - Hyejin Chang
- Division of Science Education, Kangwon National University, 1 Gangwondaehakgil, Chuncheon-si, Gangwon-do 24341, Korea;
| | - Dong Min Kim
- Department of Bioscience and Biotechnology, Konkuk University,120 Neungdong-ro, Gwangjin-Gu, Seoul 05029, Korea; (K.-H.H.); (E.H.); (X.-H.P.); (J.K.); (D.M.K.); (A.B.); (D.-E.K.)
| | - Ahruem Baek
- Department of Bioscience and Biotechnology, Konkuk University,120 Neungdong-ro, Gwangjin-Gu, Seoul 05029, Korea; (K.-H.H.); (E.H.); (X.-H.P.); (J.K.); (D.M.K.); (A.B.); (D.-E.K.)
| | - Dong-Eun Kim
- Department of Bioscience and Biotechnology, Konkuk University,120 Neungdong-ro, Gwangjin-Gu, Seoul 05029, Korea; (K.-H.H.); (E.H.); (X.-H.P.); (J.K.); (D.M.K.); (A.B.); (D.-E.K.)
| | - Dae Hong Jeong
- Department of Chemistry Education, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 08826, Korea;
- Center for Educational Research, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 08826, Korea
| | - Seung-min Park
- Department of Urology, Department of Radiology, Molecular Imaging Program at Stanford, Stanford University School of Medicine, Stanford, CA 94305, USA
- Correspondence: (S.-m.P.); (B.-H.J.); Tel.: +82-2-450-0521 (B.-H.J.)
| | - Bong-Hyun Jun
- Department of Bioscience and Biotechnology, Konkuk University,120 Neungdong-ro, Gwangjin-Gu, Seoul 05029, Korea; (K.-H.H.); (E.H.); (X.-H.P.); (J.K.); (D.M.K.); (A.B.); (D.-E.K.)
- Correspondence: (S.-m.P.); (B.-H.J.); Tel.: +82-2-450-0521 (B.-H.J.)
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A review of aptamer-based SERS biosensors: Design strategies and applications. Talanta 2021; 227:122188. [PMID: 33714469 DOI: 10.1016/j.talanta.2021.122188] [Citation(s) in RCA: 39] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2020] [Revised: 01/27/2021] [Accepted: 01/30/2021] [Indexed: 02/07/2023]
Abstract
Surface-enhanced Raman spectroscopy, due to its high sensitivity, unique vibrational fingerprint identification of molecules and easy operation, has been extensively applied in different fields. Aptamers, being the unique single stranded DNA/RNA sequences that can specifically recognize and seize the target analytes, combined with Surface-enhanced Raman spectroscopy (SERS), can offer potent multiplex detection capacity with high specificity and sensitivity. In this review, we summarize and classify the general working strategies of different types of aptamer-based SERS biosensors with diversified protocols which either take aptamer conformational change as intrinsic reporter, or make use of various extrinsic Raman reporters in different sensor designs via on/off approach, sandwich-type and magnetic nanoparticles (NPs)-assisted approach, and catalytic reaction assisted approach with amplification of alternative Raman signals. The advantages, applications and perspectives of these aptamer-based SERS biosensors are also discussed.
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Ma J, Wang X, Feng J, Huang C, Fan Z. Individual Plasmonic Nanoprobes for Biosensing and Bioimaging: Recent Advances and Perspectives. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2021; 17:e2004287. [PMID: 33522074 DOI: 10.1002/smll.202004287] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2020] [Revised: 12/27/2020] [Indexed: 06/12/2023]
Abstract
With the advent of nanofabrication techniques, plasmonic nanoparticles (PNPs) have been widely applied in various research fields ranging from photocatalysis to chemical and bio-sensing. PNPs efficiently convert chemical or physical stimuli in their local environment into optical signals. PNPs also have excellent properties, including good biocompatibility, large surfaces for the attachment of biomolecules, tunable optical properties, strong and stable scattering light, and good conductivity. Thus, single optical biosensors with plasmonic properties enable a broad range of uses of optical imaging techniques in biological sensing and imaging with high spatial and temporal resolution. This work provides a comprehensive overview on the optical properties of single PNPs, the description of five types of commonly used optical imaging techniques, including surface plasmon resonance (SPR) microscopy, surface-enhanced Raman scattering (SERS) technique, differential interference contrast (DIC) microscopy, total internal reflection scattering (TIRS) microscopy, and dark-field microscopy (DFM) technique, with an emphasis on their single plasmonic nanoprobes and mechanisms for applications in biological imaging and sensing, as well as the challenges and future trends of these fields.
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Affiliation(s)
- Jun Ma
- Department of Vasculocardiology, The Affiliated Hospital of Southwest Medical University, Key Laboratory of Medical Electrophysiology, Ministry of Education, Southwest Medical University, Luzhou, Sichuan, 646000, China
| | - Xinyu Wang
- Key Laboratory of Medical Electrophysiology, Ministry of Education & Medical Electrophysiological Key Laboratory of Sichuan Province, Institute of Cardiovascular Research, Southwest Medical University, Luzhou, Sichuan, 646000, China
| | - Jian Feng
- Department of Vasculocardiology, The Affiliated Hospital of Southwest Medical University, Key Laboratory of Medical Electrophysiology, Ministry of Education, Southwest Medical University, Luzhou, Sichuan, 646000, China
| | - Chengzhi Huang
- Key Laboratory of Luminescent and Real-Time Analytical System (Southwest University), Chongqing Science and Technology Bureau, College of Pharmaceutical Sciences, Southwest University, Chongqing, 400715, China
| | - Zhongcai Fan
- Department of Vasculocardiology, The Affiliated Hospital of Southwest Medical University, Key Laboratory of Medical Electrophysiology, Ministry of Education, Southwest Medical University, Luzhou, Sichuan, 646000, China
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Tadesse LF, Safir F, Ho CS, Hasbach X, Khuri-Yakub BP, Jeffrey SS, Saleh AAE, Dionne J. Toward rapid infectious disease diagnosis with advances in surface-enhanced Raman spectroscopy. J Chem Phys 2021; 152:240902. [PMID: 32610995 DOI: 10.1063/1.5142767] [Citation(s) in RCA: 26] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022] Open
Abstract
In a pandemic era, rapid infectious disease diagnosis is essential. Surface-enhanced Raman spectroscopy (SERS) promises sensitive and specific diagnosis including rapid point-of-care detection and drug susceptibility testing. SERS utilizes inelastic light scattering arising from the interaction of incident photons with molecular vibrations, enhanced by orders of magnitude with resonant metallic or dielectric nanostructures. While SERS provides a spectral fingerprint of the sample, clinical translation is lagged due to challenges in consistency of spectral enhancement, complexity in spectral interpretation, insufficient specificity and sensitivity, and inefficient workflow from patient sample collection to spectral acquisition. Here, we highlight the recent, complementary advances that address these shortcomings, including (1) design of label-free SERS substrates and data processing algorithms that improve spectral signal and interpretability, essential for broad pathogen screening assays; (2) development of new capture and affinity agents, such as aptamers and polymers, critical for determining the presence or absence of particular pathogens; and (3) microfluidic and bioprinting platforms for efficient clinical sample processing. We also describe the development of low-cost, point-of-care, optical SERS hardware. Our paper focuses on SERS for viral and bacterial detection, in hopes of accelerating infectious disease diagnosis, monitoring, and vaccine development. With advances in SERS substrates, machine learning, and microfluidics and bioprinting, the specificity, sensitivity, and speed of SERS can be readily translated from laboratory bench to patient bedside, accelerating point-of-care diagnosis, personalized medicine, and precision health.
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Affiliation(s)
- Loza F Tadesse
- Department of Bioengineering, Stanford University School of Medicine and School of Engineering, Stanford, California 94305, USA
| | - Fareeha Safir
- Department of Mechanical Engineering, Stanford University School of Engineering, Stanford, California 94305, USA
| | - Chi-Sing Ho
- Department of Applied Physics, Stanford University School of Humanities and Sciences, Stanford, California 94305, USA
| | - Ximena Hasbach
- Department of Materials Science and Engineering, Stanford University School of Engineering, Stanford, California 94305, USA
| | - Butrus Pierre Khuri-Yakub
- Department of Electrical Engineering, Stanford University School of Engineering, Stanford, California 94305, USA
| | - Stefanie S Jeffrey
- Department of Surgery, Stanford University School of Medicine, Stanford, California 94305, USA
| | - Amr A E Saleh
- Department of Materials Science and Engineering, Stanford University School of Engineering, Stanford, California 94305, USA
| | - Jennifer Dionne
- Department of Materials Science and Engineering, Stanford University School of Engineering, Stanford, California 94305, USA
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Dukes PV, Strobbia P, Ngo HT, Odion RA, Rocke D, Lee WT, Vo-Dinh T. Plasmonic assay for amplification-free cancer biomarkers detection in clinical tissue samples. Anal Chim Acta 2020; 1139:111-118. [PMID: 33190693 DOI: 10.1016/j.aca.2020.09.003] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2020] [Revised: 07/29/2020] [Accepted: 09/02/2020] [Indexed: 11/30/2022]
Abstract
Developing countries have seen a rise in cancer incidence and are projected to harbor three-quarters of all cancer-related mortality by 2030. While disproportionally affected by the burden of cancer, these regions are ill-equipped to handle the diagnostic caseload. The low number of trained pathologists per capita results in delayed diagnosis and treatment, ultimately contributing to increased mortality rates. To address this issue, we developed a point-of-care (POC) plasmonic assay for direct detection of cancer as an alternative to pathological review. Whereas our assay has general applicability in many cancer diagnoses that involve tissue biopsies, we use head and neck cancer (HNC) as a model system because these tumors are increasingly prevalent in lower-income and underserved regions, due to risk factors such as smoking, drinking, and viral infection. Our method uses surface-enhanced Raman scattering (SERS) to detect unique RNA biomarkers from human biopsy samples without the need for complex target amplification machinery (e.g., PCR), making it time and resource-efficient. Unlike previous studies that required target amplification, this work represents a significant advance for HNC diagnosis directly in clinical samples, using only our SERS-based assay for RNA biomarkers. In this study, we tested our assay on 20 clinical samples, demonstrating the accuracy of the method in the diagnosis of head and neck squamous cell carcinoma. We reported sensitivity of 100% and specificity of 97%. Furthermore, we used a handheld Raman device to read the results in order to illustrate the applicability of our method for POC diagnosis of cancer in low-resource settings.
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Affiliation(s)
- Priya V Dukes
- Fitzpatrick Institute for Photonics, Duke University, Durham, NC, USA; Department of Head and Neck Surgery and Communication Sciences, Duke School of Medicine, Durham, NC, USA
| | - Pietro Strobbia
- Fitzpatrick Institute for Photonics, Duke University, Durham, NC, USA; Biomedical Engineering Department, Duke University, Durham, NC, USA
| | - Hoan T Ngo
- Fitzpatrick Institute for Photonics, Duke University, Durham, NC, USA; Biomedical Engineering Department, Duke University, Durham, NC, USA; Biomedical Engineering Department, International University, Vietnam National University - Ho Chi Minh City, Ho Chi Minh City, Viet Nam
| | - Ren A Odion
- Fitzpatrick Institute for Photonics, Duke University, Durham, NC, USA; Biomedical Engineering Department, Duke University, Durham, NC, USA
| | - Daniel Rocke
- Department of Head and Neck Surgery and Communication Sciences, Duke School of Medicine, Durham, NC, USA
| | - Walter T Lee
- Fitzpatrick Institute for Photonics, Duke University, Durham, NC, USA; Department of Head and Neck Surgery and Communication Sciences, Duke School of Medicine, Durham, NC, USA; Global Health Institute, Duke University, Durham, NC, USA
| | - Tuan Vo-Dinh
- Fitzpatrick Institute for Photonics, Duke University, Durham, NC, USA; Biomedical Engineering Department, Duke University, Durham, NC, USA; Chemistry Department, Duke University, Durham, NC, USA.
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Leong SS, Ahmad Z, Low SC, Camacho J, Faraudo J, Lim J. Unified View of Magnetic Nanoparticle Separation under Magnetophoresis. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2020; 36:8033-8055. [PMID: 32551702 DOI: 10.1021/acs.langmuir.0c00839] [Citation(s) in RCA: 39] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
The migration process of magnetic nanoparticles and colloids in solution under the influence of magnetic field gradients, which is also known as magnetophoresis, is an essential step in the separation technology used in various biomedical and engineering applications. Many works have demonstrated that in specific situations, separation can be performed easily with the weak magnetic field gradients created by permanent magnets, a process known as low-gradient magnetic separation (LGMS). Due to the level of complexity involved, it is not possible to understand the observed kinetics of LGMS within the classical view of magnetophoresis. Our experimental and theoretical investigations in the last years unravelled the existence of two novel physical effects that speed up the magnetophoresis kinetics and explain the observed feasibility of LGMS. Those two effects are (i) cooperative magnetophoresis (due to the cooperative motion of strongly interacting particles) and (ii) magnetophoresis-induced convection (fluid dynamics instability originating from inhomogeneous magnetic gradients). In this feature article, we present a unified view of magnetophoresis based on the extensive research done on these effects. We present the physical basis of each effect and also propose a classification of magnetophoresis into four distinct regimes. This classification is based on the range of values of two dimensionless quantities, namely, aggregation parameter N* and magnetic Grashof number Grm, which include all of the dependency of LGMS on various physical parameters (such as particle properties, thermodynamic parameters, fluid properties, and magnetic field properties). This analysis provides a holistic view of the classification of transport mechanisms in LGMS, which could be particularly useful in the design of magnetic separators for engineering applications.
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Affiliation(s)
- Sim Siong Leong
- Department of Petrochemical Engineering, Faculty of Engineering and Green Technology, Universiti Tunku Abdul Rahman, Kampar 31900, Perak, Malaysia
- School of Chemical Engineering, Universiti Sains Malaysia, Nibong Tebal 14300, Penang, Malaysia
| | - Zainal Ahmad
- School of Chemical Engineering, Universiti Sains Malaysia, Nibong Tebal 14300, Penang, Malaysia
| | - Siew Chun Low
- School of Chemical Engineering, Universiti Sains Malaysia, Nibong Tebal 14300, Penang, Malaysia
| | - Juan Camacho
- Departament de Física, Facultat de Ciències, Universitat Autònoma de Barcelona, E-08193 Bellaterra, Spain
| | - Jordi Faraudo
- Institut de Ciència de Materials de Barcelona (ICMAB-CSIC), C/dels Til.lers s/n, Campus UAB, E-08193 Bellaterra, Spain
| | - JitKang Lim
- School of Chemical Engineering, Universiti Sains Malaysia, Nibong Tebal 14300, Penang, Malaysia
- Department of Physics, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, United States
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Crawford BM, Wang HN, Stolarchuk C, von Furstenberg RJ, Strobbia P, Zhang D, Qin X, Owzar K, Garman KS, Vo-Dinh T. Plasmonic nanobiosensors for detection of microRNA cancer biomarkers in clinical samples. Analyst 2020; 145:4587-4594. [PMID: 32436503 PMCID: PMC9532004 DOI: 10.1039/d0an00193g] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/26/2023]
Abstract
MicroRNAs (miRNAs) play an important role in the regulation of biological processes and have demonstrated great potential as biomarkers for the early detection of various diseases, including esophageal adenocarcinoma (EAC) and Barrett's esophagus (BE), the premalignant metaplasia associated with EAC. Herein, we demonstrate the direct detection of the esophageal cancer biomarker, miR-21, in RNA extracted from 17 endoscopic tissue biopsies using the nanophotonics technology our group has developed, termed the inverse molecular sentinel (iMS) nanobiosensor, with surface-enhanced Raman scattering (SERS) detection. The potential of this label-free, homogeneous biosensor for cancer diagnosis without the need for target amplification was demonstrated by discriminating esophageal cancer and Barrett's esophagus from normal tissue with notable diagnostic accuracy. This work establishes the potential of the iMS nanobiosensor for cancer diagnostics via miRNA detection in clinical samples without the need for target amplification, validating the potential of this assay as part of a new diagnostic strategy. Combining miRNA diagnostics with the nanophotonics technology will result in a paradigm shift in achieving a general molecular analysis tool that has widespread applicability for cancer research as well as detection of cancer. We anticipate further development of this technique for future use in point-of-care testing as an alternative to histopathological diagnosis as our method provides a quick result following RNA isolation, allowing for timely treatment.
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Tang C, He Z, Liu H, Xu Y, Huang H, Yang G, Xiao Z, Li S, Liu H, Deng Y, Chen Z, Chen H, He N. Application of magnetic nanoparticles in nucleic acid detection. J Nanobiotechnology 2020; 18:62. [PMID: 32316985 PMCID: PMC7171821 DOI: 10.1186/s12951-020-00613-6] [Citation(s) in RCA: 92] [Impact Index Per Article: 23.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2019] [Accepted: 03/25/2020] [Indexed: 12/16/2022] Open
Abstract
Nucleic acid is the main material for storing, copying, and transmitting genetic information. Gene sequencing is of great significance in DNA damage research, gene therapy, mutation analysis, bacterial infection, drug development, and clinical diagnosis. Gene detection has a wide range of applications, such as environmental, biomedical, pharmaceutical, agriculture and forensic medicine to name a few. Compared with Sanger sequencing, high-throughput sequencing technology has the advantages of larger output, high resolution, and low cost which greatly promotes the application of sequencing technology in life science research. Magnetic nanoparticles, as an important part of nanomaterials, have been widely used in various applications because of their good dispersion, high surface area, low cost, easy separation in buffer systems and signal detection. Based on the above, the application of magnetic nanoparticles in nucleic acid detection was reviewed.
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Affiliation(s)
- Congli Tang
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou, 412007 China
| | - Ziyu He
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou, 412007 China
| | - Hongmei Liu
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou, 412007 China
| | - Yuyue Xu
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou, 412007 China
| | - Hao Huang
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou, 412007 China
| | - Gaojian Yang
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou, 412007 China
| | - Ziqi Xiao
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou, 412007 China
| | - Song Li
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou, 412007 China
| | - Hongna Liu
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou, 412007 China
| | - Yan Deng
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou, 412007 China
- State Key Laboratory of Bioelectronics, Southeast University, Nanjing, 210096 China
| | - Zhu Chen
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou, 412007 China
| | - Hui Chen
- Hunan Key Laboratory of Biomedical Nanomaterials and Devices, Hunan University of Technology, Zhuzhou, 412007 China
| | - Nongyue He
- State Key Laboratory of Bioelectronics, Southeast University, Nanjing, 210096 China
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Krampa FD, Aniweh Y, Kanyong P, Awandare GA. Recent Advances in the Development of Biosensors for Malaria Diagnosis. SENSORS (BASEL, SWITZERLAND) 2020; 20:E799. [PMID: 32024098 PMCID: PMC7038750 DOI: 10.3390/s20030799] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/07/2019] [Revised: 12/19/2019] [Accepted: 12/24/2019] [Indexed: 02/07/2023]
Abstract
The impact of malaria on global health has continually prompted the need to develop more effective diagnostic strategies that could overcome deficiencies in accurate and early detection. In this review, we examine the various biosensor-based methods for malaria diagnostic biomarkers, namely; Plasmodium falciparum histidine-rich protein 2 (PfHRP-2), parasite lactate dehydrogenase (pLDH), aldolase, glutamate dehydrogenase (GDH), and the biocrystal hemozoin. The models that demonstrate a potential for field application have been discussed, looking at the fabrication and analytical performance characteristics, including (but not exclusively limited to): response time, sensitivity, detection limit, linear range, and storage stability, which are first summarized in a tabular form and then described in detail. The conclusion summarizes the state-of-the-art technologies applied in the field, the current challenges and the emerging prospects for malaria biosensors.
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Affiliation(s)
- Francis D. Krampa
- West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), University of Ghana, P.O. Box LG 25, Legon, Accra, Ghana; (Y.A.); (P.K.); (G.A.A.)
- Department of Biochemistry, Cell & Molecular Biology, University of Ghana, P.O. Box LG 54, Legon, Accra, Ghana
| | - Yaw Aniweh
- West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), University of Ghana, P.O. Box LG 25, Legon, Accra, Ghana; (Y.A.); (P.K.); (G.A.A.)
| | - Prosper Kanyong
- West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), University of Ghana, P.O. Box LG 25, Legon, Accra, Ghana; (Y.A.); (P.K.); (G.A.A.)
- Department of Chemistry, University of Oxford, South Parks Road, Oxford OX1 3QZ, UK
| | - Gordon A. Awandare
- West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), University of Ghana, P.O. Box LG 25, Legon, Accra, Ghana; (Y.A.); (P.K.); (G.A.A.)
- Department of Biochemistry, Cell & Molecular Biology, University of Ghana, P.O. Box LG 54, Legon, Accra, Ghana
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Langer J, Jimenez de Aberasturi D, Aizpurua J, Alvarez-Puebla RA, Auguié B, Baumberg JJ, Bazan GC, Bell SEJ, Boisen A, Brolo AG, Choo J, Cialla-May D, Deckert V, Fabris L, Faulds K, García de Abajo FJ, Goodacre R, Graham D, Haes AJ, Haynes CL, Huck C, Itoh T, Käll M, Kneipp J, Kotov NA, Kuang H, Le Ru EC, Lee HK, Li JF, Ling XY, Maier SA, Mayerhöfer T, Moskovits M, Murakoshi K, Nam JM, Nie S, Ozaki Y, Pastoriza-Santos I, Perez-Juste J, Popp J, Pucci A, Reich S, Ren B, Schatz GC, Shegai T, Schlücker S, Tay LL, Thomas KG, Tian ZQ, Van Duyne RP, Vo-Dinh T, Wang Y, Willets KA, Xu C, Xu H, Xu Y, Yamamoto YS, Zhao B, Liz-Marzán LM. Present and Future of Surface-Enhanced Raman Scattering. ACS NANO 2020; 14:28-117. [PMID: 31478375 PMCID: PMC6990571 DOI: 10.1021/acsnano.9b04224] [Citation(s) in RCA: 1335] [Impact Index Per Article: 333.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2019] [Accepted: 09/03/2019] [Indexed: 04/14/2023]
Abstract
The discovery of the enhancement of Raman scattering by molecules adsorbed on nanostructured metal surfaces is a landmark in the history of spectroscopic and analytical techniques. Significant experimental and theoretical effort has been directed toward understanding the surface-enhanced Raman scattering (SERS) effect and demonstrating its potential in various types of ultrasensitive sensing applications in a wide variety of fields. In the 45 years since its discovery, SERS has blossomed into a rich area of research and technology, but additional efforts are still needed before it can be routinely used analytically and in commercial products. In this Review, prominent authors from around the world joined together to summarize the state of the art in understanding and using SERS and to predict what can be expected in the near future in terms of research, applications, and technological development. This Review is dedicated to SERS pioneer and our coauthor, the late Prof. Richard Van Duyne, whom we lost during the preparation of this article.
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Affiliation(s)
- Judith Langer
- CIC
biomaGUNE and CIBER-BBN, Paseo de Miramón 182, Donostia-San Sebastián 20014, Spain
| | | | - Javier Aizpurua
- Materials
Physics Center (CSIC-UPV/EHU), and Donostia
International Physics Center, Paseo Manuel de Lardizabal 5, Donostia-San
Sebastián 20018, Spain
| | - Ramon A. Alvarez-Puebla
- Departamento
de Química Física e Inorgánica and EMaS, Universitat Rovira i Virgili, Tarragona 43007, Spain
- ICREA-Institució
Catalana de Recerca i Estudis Avançats, Passeig Lluís Companys 23, Barcelona 08010, Spain
| | - Baptiste Auguié
- School
of Chemical and Physical Sciences, Victoria
University of Wellington, PO Box 600, Wellington 6140, New Zealand
- The
MacDiarmid
Institute for Advanced Materials and Nanotechnology, PO Box 600, Wellington 6140, New Zealand
- The Dodd-Walls
Centre for Quantum and Photonic Technologies, PO Box 56, Dunedin 9054, New Zealand
| | - Jeremy J. Baumberg
- NanoPhotonics
Centre, Cavendish Laboratory, University
of Cambridge, Cambridge CB3 0HE, United Kingdom
| | - Guillermo C. Bazan
- Department
of Materials and Chemistry and Biochemistry, University of California, Santa
Barbara, California 93106-9510, United States
| | - Steven E. J. Bell
- School
of Chemistry and Chemical Engineering, Queen’s
University of Belfast, Belfast BT9 5AG, United Kingdom
| | - Anja Boisen
- Department
of Micro- and Nanotechnology, The Danish National Research Foundation
and Villum Foundation’s Center for Intelligent Drug Delivery
and Sensing Using Microcontainers and Nanomechanics, Technical University of Denmark, Kongens Lyngby 2800, Denmark
| | - Alexandre G. Brolo
- Department
of Chemistry, University of Victoria, P.O. Box 3065, Victoria, BC V8W 3 V6, Canada
- Center
for Advanced Materials and Related Technologies, University of Victoria, Victoria, BC V8W 2Y2, Canada
| | - Jaebum Choo
- Department
of Chemistry, Chung-Ang University, Seoul 06974, South Korea
| | - Dana Cialla-May
- Leibniz
Institute of Photonic Technology Jena - Member of the research alliance “Leibniz Health Technologies”, Albert-Einstein-Str. 9, Jena 07745, Germany
- Institute
of Physical Chemistry and Abbe Center of Photonics, Friedrich-Schiller University Jena, Helmholtzweg 4, Jena 07745, Germany
| | - Volker Deckert
- Leibniz
Institute of Photonic Technology Jena - Member of the research alliance “Leibniz Health Technologies”, Albert-Einstein-Str. 9, Jena 07745, Germany
- Institute
of Physical Chemistry and Abbe Center of Photonics, Friedrich-Schiller University Jena, Helmholtzweg 4, Jena 07745, Germany
| | - Laura Fabris
- Department
of Materials Science and Engineering, Rutgers
University, 607 Taylor Road, Piscataway New Jersey 08854, United States
| | - Karen Faulds
- Department
of Pure and Applied Chemistry, University
of Strathclyde, Technology and Innovation Centre, 99 George Street, Glasgow G1 1RD, United Kingdom
| | - F. Javier García de Abajo
- ICREA-Institució
Catalana de Recerca i Estudis Avançats, Passeig Lluís Companys 23, Barcelona 08010, Spain
- The Barcelona
Institute of Science and Technology, Institut
de Ciencies Fotoniques, Castelldefels (Barcelona) 08860, Spain
| | - Royston Goodacre
- Department
of Biochemistry, Institute of Integrative Biology, University of Liverpool, Biosciences Building, Crown Street, Liverpool L69 7ZB, United Kingdom
| | - Duncan Graham
- Department
of Pure and Applied Chemistry, University
of Strathclyde, Technology and Innovation Centre, 99 George Street, Glasgow G1 1RD, United Kingdom
| | - Amanda J. Haes
- Department
of Chemistry, University of Iowa, Iowa City, Iowa 52242, United States
| | - Christy L. Haynes
- Department
of Chemistry, University of Minnesota, 207 Pleasant Street SE, Minneapolis, Minnesota 55455, United States
| | - Christian Huck
- Kirchhoff
Institute for Physics, University of Heidelberg, Im Neuenheimer Feld 227, Heidelberg 69120, Germany
| | - Tamitake Itoh
- Nano-Bioanalysis
Research Group, Health Research Institute, National Institute of Advanced Industrial Science and Technology, Takamatsu, Kagawa 761-0395, Japan
| | - Mikael Käll
- Department
of Physics, Chalmers University of Technology, Goteborg S412 96, Sweden
| | - Janina Kneipp
- Department
of Chemistry, Humboldt-Universität
zu Berlin, Brook-Taylor-Str. 2, Berlin-Adlershof 12489, Germany
| | - Nicholas A. Kotov
- Department
of Chemical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Hua Kuang
- Key Lab
of Synthetic and Biological Colloids, Ministry of Education, International
Joint Research Laboratory for Biointerface and Biodetection, Jiangnan University, Wuxi, Jiangsu 214122, China
- State Key
Laboratory of Food Science and Technology, Jiangnan University, JiangSu 214122, China
| | - Eric C. Le Ru
- School
of Chemical and Physical Sciences, Victoria
University of Wellington, PO Box 600, Wellington 6140, New Zealand
- The
MacDiarmid
Institute for Advanced Materials and Nanotechnology, PO Box 600, Wellington 6140, New Zealand
- The Dodd-Walls
Centre for Quantum and Photonic Technologies, PO Box 56, Dunedin 9054, New Zealand
| | - Hiang Kwee Lee
- Division
of Chemistry and Biological Chemistry, School of Physical and Mathematical
Sciences, Nanyang Technological University, 21 Nanyang Link, Singapore 637371, Singapore
- Department
of Materials Science and Engineering, Stanford
University, Stanford, California 94305, United States
| | - Jian-Feng Li
- State Key
Laboratory of Physical Chemistry of Solid Surfaces, Collaborative
Innovation Center of Chemistry for Energy Materials, MOE Key Laboratory
of Spectrochemical Analysis & Instrumentation, Department of Chemistry,
College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China
| | - Xing Yi Ling
- Division
of Chemistry and Biological Chemistry, School of Physical and Mathematical
Sciences, Nanyang Technological University, 21 Nanyang Link, Singapore 637371, Singapore
| | - Stefan A. Maier
- Chair in
Hybrid Nanosystems, Nanoinstitute Munich, Faculty of Physics, Ludwig-Maximilians-Universität München, Munich 80539, Germany
| | - Thomas Mayerhöfer
- Leibniz
Institute of Photonic Technology Jena - Member of the research alliance “Leibniz Health Technologies”, Albert-Einstein-Str. 9, Jena 07745, Germany
- Institute
of Physical Chemistry and Abbe Center of Photonics, Friedrich-Schiller University Jena, Helmholtzweg 4, Jena 07745, Germany
| | - Martin Moskovits
- Department
of Chemistry & Biochemistry, University
of California Santa Barbara, Santa Barbara, California 93106-9510, United States
| | - Kei Murakoshi
- Department
of Chemistry, Faculty of Science, Hokkaido
University, North 10 West 8, Kita-ku, Sapporo,
Hokkaido 060-0810, Japan
| | - Jwa-Min Nam
- Department
of Chemistry, Seoul National University, Seoul 08826, South Korea
| | - Shuming Nie
- Department of Bioengineering, University of Illinois at Urbana-Champaign, 1406 W. Green Street, Urbana, Illinois 61801, United States
| | - Yukihiro Ozaki
- Department
of Chemistry, School of Science and Technology, Kwansei Gakuin University, Sanda, Hyogo 669-1337, Japan
| | | | - Jorge Perez-Juste
- Departamento
de Química Física and CINBIO, University of Vigo, Vigo 36310, Spain
| | - Juergen Popp
- Leibniz
Institute of Photonic Technology Jena - Member of the research alliance “Leibniz Health Technologies”, Albert-Einstein-Str. 9, Jena 07745, Germany
- Institute
of Physical Chemistry and Abbe Center of Photonics, Friedrich-Schiller University Jena, Helmholtzweg 4, Jena 07745, Germany
| | - Annemarie Pucci
- Kirchhoff
Institute for Physics, University of Heidelberg, Im Neuenheimer Feld 227, Heidelberg 69120, Germany
| | - Stephanie Reich
- Department
of Physics, Freie Universität Berlin, Berlin 14195, Germany
| | - Bin Ren
- State Key
Laboratory of Physical Chemistry of Solid Surfaces, Collaborative
Innovation Center of Chemistry for Energy Materials, MOE Key Laboratory
of Spectrochemical Analysis & Instrumentation, Department of Chemistry,
College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China
| | - George C. Schatz
- Department
of Chemistry, Northwestern University, Evanston, Illinois 60208-3113, United States
| | - Timur Shegai
- Department
of Physics, Chalmers University of Technology, Goteborg S412 96, Sweden
| | - Sebastian Schlücker
- Physical
Chemistry I, Department of Chemistry and Center for Nanointegration
Duisburg-Essen, University of Duisburg-Essen, Essen 45141, Germany
| | - Li-Lin Tay
- National
Research Council Canada, Metrology Research
Centre, Ottawa K1A0R6, Canada
| | - K. George Thomas
- School
of Chemistry, Indian Institute of Science
Education and Research Thiruvananthapuram, Vithura Thiruvananthapuram 695551, India
| | - Zhong-Qun Tian
- State Key
Laboratory of Physical Chemistry of Solid Surfaces, Collaborative
Innovation Center of Chemistry for Energy Materials, MOE Key Laboratory
of Spectrochemical Analysis & Instrumentation, Department of Chemistry,
College of Chemistry and Chemical Engineering, Xiamen University, Xiamen 361005, China
| | - Richard P. Van Duyne
- Department
of Chemistry, Northwestern University, Evanston, Illinois 60208-3113, United States
| | - Tuan Vo-Dinh
- Fitzpatrick
Institute for Photonics, Department of Biomedical Engineering, and
Department of Chemistry, Duke University, 101 Science Drive, Box 90281, Durham, North Carolina 27708, United States
| | - Yue Wang
- Department
of Chemistry, College of Sciences, Northeastern
University, Shenyang 110819, China
| | - Katherine A. Willets
- Department
of Chemistry, Temple University, Philadelphia, Pennsylvania 19122, United States
| | - Chuanlai Xu
- Key Lab
of Synthetic and Biological Colloids, Ministry of Education, International
Joint Research Laboratory for Biointerface and Biodetection, Jiangnan University, Wuxi, Jiangsu 214122, China
- State Key
Laboratory of Food Science and Technology, Jiangnan University, JiangSu 214122, China
| | - Hongxing Xu
- School
of Physics and Technology and Institute for Advanced Studies, Wuhan University, Wuhan 430072, China
| | - Yikai Xu
- School
of Chemistry and Chemical Engineering, Queen’s
University of Belfast, Belfast BT9 5AG, United Kingdom
| | - Yuko S. Yamamoto
- School
of Materials Science, Japan Advanced Institute
of Science and Technology, Nomi, Ishikawa 923-1292, Japan
| | - Bing Zhao
- State Key
Laboratory of Supramolecular Structure and Materials, Jilin University, Changchun 130012, China
| | - Luis M. Liz-Marzán
- CIC
biomaGUNE and CIBER-BBN, Paseo de Miramón 182, Donostia-San Sebastián 20014, Spain
- Ikerbasque,
Basque Foundation for Science, Bilbao 48013, Spain
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Pyrak E, Krajczewski J, Kowalik A, Kudelski A, Jaworska A. Surface Enhanced Raman Spectroscopy for DNA Biosensors-How Far Are We? Molecules 2019; 24:E4423. [PMID: 31817059 PMCID: PMC6943648 DOI: 10.3390/molecules24244423] [Citation(s) in RCA: 40] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2019] [Revised: 11/28/2019] [Accepted: 11/29/2019] [Indexed: 12/20/2022] Open
Abstract
A sensitive and accurate identification of specific DNA fragments (usually containing a mutation) can influence clinical decisions. Standard methods routinely used for this type of detection are PCR (Polymerase Chain Reaction, and its modifications), and, less commonly, NGS (Next Generation Sequencing). However, these methods are quite complicated, requiring time-consuming, multi-stage sample preparation, and specially trained staff. Usually, it takes weeks for patients to obtain their results. Therefore, different DNA sensors are being intensively developed by many groups. One technique often used to obtain an analytical signal from DNA sensors is Raman spectroscopy. Its modification, surface-enhanced Raman spectroscopy (SERS), is especially useful for practical analytical applications due to its extra low limit of detection. SERS takes advantage of the strong increase in the efficiency of Raman signal generation caused by a local electric field enhancement near plasmonic (typically gold and silver) nanostructures. In this condensed review, we describe the most important types of SERS-based nanosensors for genetic studies and comment on their potential for becoming diagnostic tools.
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Affiliation(s)
- Edyta Pyrak
- Faculty of Chemistry, University of Warsaw, 1 Pasteur St., 02-093 Warsaw, Poland; (E.P.); (J.K.)
- Nencki Institute of Experimental Biology of Polish Academy of Sciences, 3 Pasteur St., 02-093 Warsaw, Poland
| | - Jan Krajczewski
- Faculty of Chemistry, University of Warsaw, 1 Pasteur St., 02-093 Warsaw, Poland; (E.P.); (J.K.)
| | - Artur Kowalik
- Holy Cross Cancer Center, 3 Stefana Artwińskiego St., 25-734 Kielce, Poland
| | - Andrzej Kudelski
- Faculty of Chemistry, University of Warsaw, 1 Pasteur St., 02-093 Warsaw, Poland; (E.P.); (J.K.)
| | - Aleksandra Jaworska
- Faculty of Chemistry, University of Warsaw, 1 Pasteur St., 02-093 Warsaw, Poland; (E.P.); (J.K.)
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44
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Liu HB, Chen CY, Zhang CN, Du XJ, Li P, Wang S. Functionalized Au MBA @Ag Nanoparticles as an Optical and SERS Dual Probe in a Lateral Flow Strip for the Quantitative Detection of Escherichia coli O157:H7. J Food Sci 2019; 84:2916-2924. [PMID: 31502678 DOI: 10.1111/1750-3841.14766] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2019] [Revised: 07/11/2019] [Accepted: 07/15/2019] [Indexed: 12/12/2022]
Abstract
A method combining surface-enhanced Raman scattering (SERS) with a lateral flow strip (LFS) was developed for the quantitative and sensitive analysis of Escherichia coli O157:H7. AuMBA @Ag nanoparticles were prepared as SERS probes, and 4-methylthiobenzoic acid (MBA) as a Raman reporter was inserted into the interior gap of the Au@Ag core-shell nanoparticles, which replaced the Au nanoparticles that serve as SERS nanotags in traditional LFS. Using this developed SERS-LFS, the presence of the target bacteria could be tested through the appearance of a red band on the test line. Furthermore, quantitative analysis of E. coli O157:H7 was achieved by measuring the specific Raman intensity of MBA on the test line. The sensitivity of this SERS-LFS biosensor is 5 × 104 CFU/mL of E. coli O157:H7, which is 10-fold higher than that of a naked eye-based colorimetric LFS. This quantitative detection of E. coli O157:H7 ( Y = 1993.86 X - 6812.17, R2 = 0.9947) was obtained with a wide linear range (5 × 104 to 5 × 108 ) due to the signal enhancement of the SERS nanotags. In addition, the SERS-LFS could differentiate E. coli O157:H7 from closely related bacterial species or nontarget contaminants, suggesting high specificity of this assay. The applicability of SERS-LFS to the analysis of E. coli O157:H7 in milk, chicken breast, and beef was also validated, indicating that the sensitivity was not disturbed by the food matrix. In summary, the SERS-LFS developed in this study could be a powerful tool for the quantitative and sensitive screening of E. coli O157:H7 in a food matrix. PRACTICAL APPLICATION: This study demonstrates that a surface-enhanced Raman scattering (SERS)-based lateral flow strip (LFS) could be used as a rapid and sensitive method for Escherichia coli O157:H7 detection. Furthermore, this SERS-based LFS could achieve quantitative detection of the target, eliminating the defect of the traditional colloidal gold LFS, which is not quantifiable.
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Affiliation(s)
- Hai-Bin Liu
- State Key Laboratory of Food Nutrition and Safety, Tianjin Univ. of Science and Technology, Tianjin, 300457, China.,School of Life Sciences, North China Univ. of Science and Technology, Tangshan, 063000, China
| | - Chun-Yang Chen
- State Key Laboratory of Food Nutrition and Safety, Tianjin Univ. of Science and Technology, Tianjin, 300457, China
| | - Chen-Ning Zhang
- State Key Laboratory of Food Nutrition and Safety, Tianjin Univ. of Science and Technology, Tianjin, 300457, China
| | - Xin-Jun Du
- State Key Laboratory of Food Nutrition and Safety, Tianjin Univ. of Science and Technology, Tianjin, 300457, China
| | - Ping Li
- State Key Laboratory of Food Nutrition and Safety, Tianjin Univ. of Science and Technology, Tianjin, 300457, China
| | - Shuo Wang
- State Key Laboratory of Food Nutrition and Safety, Tianjin Univ. of Science and Technology, Tianjin, 300457, China.,Beijing Advanced Innovation Center for Food Nutrition and Human Health, Beijing Technology and Business Univ. (BTBU), Beijing, 100048, China
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45
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Nanomaterials as efficient platforms for sensing DNA. Biomaterials 2019; 214:119215. [DOI: 10.1016/j.biomaterials.2019.05.026] [Citation(s) in RCA: 36] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2019] [Revised: 05/13/2019] [Accepted: 05/16/2019] [Indexed: 02/07/2023]
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Xiao M, Huang L, Dong X, Xie K, Shen H, Huang C, Xiao W, Jin M, Tang Y. Integration of a 3D-printed read-out platform with a quantum dot-based immunoassay for detection of the avian influenza A (H7N9) virus. Analyst 2019; 144:2594-2603. [PMID: 30830133 DOI: 10.1039/c8an02336k] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Outbreaks and potential epidemics of the highly pathogenic avian influenza virus pose serious threats to human health and the global economy. As such, its timely and accurate detection is critically important. In the present study, positive hybridoma cells (6B3) were obtained, which were used to secrete high-titer avian influenza virus (AIV) H7N9 monoclonal antibodies (H7N9 mAb). Based on these mAbs, quantum dot-based lateral flow immunochromatographic strips (QD-LFICS) were developed for AIV H7N9 detection. Under optimized conditions, results from a commercial fluorescent strip reader indicated that the limit of detection of QD-LFICS was 0.0268 HAU. To achieve rapid on-site testing, a mini 3D-printed read-out platform was fabricated to allow observation of QD-LFICS by the naked eye. More importantly, QD-LFICS were found to be practical and specific for the detection of actual samples compared with a real-time polymerase chain reaction.
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Affiliation(s)
- Meng Xiao
- Department of Bioengineering, Guangdong Province Engineering Research Center for antibody drug and immunoassay, Jinan University, Guangzhou 510632, PR China.
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Recent Advancement in the Surface-Enhanced Raman Spectroscopy-Based Biosensors for Infectious Disease Diagnosis. APPLIED SCIENCES-BASEL 2019. [DOI: 10.3390/app9071448] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
Diagnosis is the key component in disease elimination to improve global health. However, there is a tremendous need for diagnostic innovation for neglected tropical diseases that largely consist of mosquito-borne infections and bacterial infections. Early diagnosis of these infectious diseases is critical but challenging because the biomarkers are present at low concentrations, demanding bioanalytical techniques that can deliver high sensitivity with ensured specificity. Owing to the plasmonic nanomaterials-enabled high detection sensitivities, even up to single molecules, surface-enhanced Raman spectroscopy (SERS) has gained attention as an optical analytical tool for early disease biomarker detection. In this mini-review, we highlight the SERS-based assay development tailored to detect key types of biomarkers for mosquito-borne and bacterial infections. We discuss in detail the variations of SERS-based techniques that have developed to afford qualitative and quantitative disease biomarker detection in a more accurate, affordable, and field-transferable manner. Current and emerging challenges in the advancement of SERS-based technologies from the proof-of-concept phase to the point-of-care phase are also briefly discussed.
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48
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Ultrasensitive detection of avian influenza A (H7N9) virus using surface-enhanced Raman scattering-based lateral flow immunoassay strips. Anal Chim Acta 2019; 1053:139-147. [DOI: 10.1016/j.aca.2018.11.056] [Citation(s) in RCA: 48] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2018] [Revised: 11/01/2018] [Accepted: 11/28/2018] [Indexed: 12/17/2022]
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Chung CH, Kim JH. One-step isothermal detection of multiple KRAS mutations by forming SNP specific hairpins on a gold nanoshell. Analyst 2019; 143:3544-3548. [PMID: 29687792 DOI: 10.1039/c8an00525g] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
We developed a one-step isothermal method for typing multiple KRAS mutations using a designed set of primers to form a hairpin on a gold nanoshell upon being ligated by a SNP specific DNA ligase after binding of targets. As a result, we could detect as low as 20 attomoles of KRAS mutations within 1 h.
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Affiliation(s)
- Chan Ho Chung
- Medical Device Development Center, Daegu-Gyeongbuk Medical Innovation Foundation, Daegu, 41061, Republic of Korea.
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50
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Lapitan LDS, Xu Y, Guo Y, Zhou D. Combining magnetic nanoparticle capture and poly-enzyme nanobead amplification for ultrasensitive detection and discrimination of DNA single nucleotide polymorphisms. NANOSCALE 2019; 11:1195-1204. [PMID: 30601516 DOI: 10.1039/c8nr07641c] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
The development of ultrasensitive methods for detecting specific genes and discriminating single nucleotide polymorphisms (SNPs) is important for biomedical research and clinical disease diagnosis. Herein, we report an ultrasensitive approach for label-free detection and discrimination of a full-match target-DNA from its cancer related SNPs by combining magnetic nanoparticle (MNP) capture and poly-enzyme nanobead signal amplification. It uses a MNP linked capture-DNA and a biotinylated signal-DNA to sandwich the target followed by ligation to offer high SNP discrimination: only the perfect-match target-DNA yields a covalently linked biotinylated signal-DNA on the MNP surface for subsequent binding to a neutravidin-horseradish peroxidase conjugate (NAV-HRP) for signal amplification. The use of polymer nanobeads each tagged with thousands of copies of HRPs greatly improves the signal amplification power, allowing for direct, amplification-free quantification of low aM target-DNA over 6 orders of magnitude (0.001-1000 fM). Moreover, this sensor also offers excellent discrimination between the perfect-match gene and its cancer-related SNPs and can positively detect 1 fM perfect-match target-DNA in the presence of 100 fold excess of co-existing single-base mismatch targets. Furthermore, it works robustly in clinically relevant media (e.g. 10% human serum) and gives even higher SNP discrimination than that in clean buffers. This ultrasensitive DNA sensor appears to have excellent potential for rapid detection and diagnosis of genetic diseases.
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Affiliation(s)
- Lorico D S Lapitan
- School of Chemistry and Astbury Centre for Structural Molecular Biology, University of Leeds, Leeds LS2 9JT, UK.
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