1
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Máthé D, Szalay G, Cseri L, Kis Z, Pályi B, Földes G, Kovács N, Fülöp A, Szepesi Á, Hajdrik P, Csomos A, Zsembery Á, Kádár K, Katona G, Mucsi Z, Rózsa BJ, Kovács E. Monitoring correlates of SARS-CoV-2 infection in cell culture using a two-photon-active calcium-sensitive dye. Cell Mol Biol Lett 2024; 29:105. [PMID: 39030477 PMCID: PMC11264913 DOI: 10.1186/s11658-024-00619-0] [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: 04/23/2024] [Accepted: 06/26/2024] [Indexed: 07/21/2024] Open
Abstract
BACKGROUND The organism-wide effects of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) viral infection are well studied, but little is known about the dynamics of how the infection spreads in time among or within cells due to the scarcity of suitable high-resolution experimental systems. It has been reported that SARS-CoV-2 infection pathways converge at calcium influx and subcellular calcium distribution changes. Imaging combined with a proper staining technique is an effective tool for studying subcellular calcium-related infection and replication mechanisms at such resolutions. METHODS Using two-photon (2P) fluorescence imaging with our novel Ca-selective dye, automated image analysis and clustering analysis were applied to reveal titer and variant effects on SARS-CoV-2-infected Vero E6 cells. RESULTS The application of a new calcium sensor molecule is shown, combined with a high-end 2P technique for imaging and identifying the patterns associated with cellular infection damage within cells. Vero E6 cells infected with SARS-CoV-2 variants, D614G or B.1.1.7, exhibit elevated cytosolic calcium levels, allowing infection monitoring by tracking the cellular changes in calcium level by the internalized calcium sensor. The imaging provides valuable information on how the level and intracellular distribution of calcium are perturbed during the infection. Moreover, two-photon calcium sensing allowed the distinction of infections by two studied viral variants via cluster analysis of the image parameters. This approach will facilitate the study of cellular correlates of infection and their quantification depending on viral variants and viral load. CONCLUSIONS We propose a new two-photon microscopy-based method combined with a cell-internalized sensor to quantify the level of SARS-CoV-2 infection. We optimized the applied dye concentrations to not interfere with viral fusion and viral replication events. The presented method ensured the proper monitoring of viral infection, replication, and cell fate. It also enabled distinguishing intracellular details of cell damage, such as vacuole and apoptotic body formation. Using clustering analysis, 2P microscopy calcium fluorescence images were suitable to distinguish two different viral variants in cell cultures. Cellular harm levels read out by calcium imaging were quantitatively related to the initial viral multiplicity of infection numbers. Thus, 2P quantitative calcium imaging might be used as a correlate of infection or a correlate of activity in cellular antiviral studies.
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Affiliation(s)
- Domokos Máthé
- Department of Biophysics and Radiation Biology, Semmelweis University, Tűzoltó utca 37-47, 1094, Budapest, Hungary.
- In Vivo Imaging Advanced Core Facility, Hungarian Centre of Excellence for Molecular Medicine, Tűzoltó utca 37-47, 1094, Budapest, Hungary.
- HUN-REN Physical Virology Research Group, Semmelweis University, Tűzoltó utca 37-47, 1094, Budapest, Hungary.
| | - Gergely Szalay
- Laboratory of 3D Functional Network and Dendritic Imaging, HUN-REN Institute of Experimental Medicine, Szigony utca 43, 1083, Budapest, Hungary
- BrainVisionCenter, Liliom utca 43-45, 1094, Budapest, Hungary
| | - Levente Cseri
- BrainVisionCenter, Liliom utca 43-45, 1094, Budapest, Hungary
- Femtonics Ltd., Tűzoltó utca 59, 1094, Budapest, Hungary
| | - Zoltán Kis
- National Center for Public Health, Albert Flórián út 2-6, 1097, Budapest, Hungary
| | - Bernadett Pályi
- National Center for Public Health, Albert Flórián út 2-6, 1097, Budapest, Hungary
| | - Gábor Földes
- National Heart and Lung Institute, Imperial College London, Du Cane Road, London, W12 0NN, UK
- Heart and Vascular Center, Semmelweis University, Városmajor utca. 68, 1122, Budapest, Hungary
| | - Noémi Kovács
- In Vivo Imaging Advanced Core Facility, Hungarian Centre of Excellence for Molecular Medicine, Tűzoltó utca 37-47, 1094, Budapest, Hungary
| | - Anna Fülöp
- Femtonics Ltd., Tűzoltó utca 59, 1094, Budapest, Hungary
| | - Áron Szepesi
- Laboratory of 3D Functional Network and Dendritic Imaging, HUN-REN Institute of Experimental Medicine, Szigony utca 43, 1083, Budapest, Hungary
- BrainVisionCenter, Liliom utca 43-45, 1094, Budapest, Hungary
| | - Polett Hajdrik
- Department of Biophysics and Radiation Biology, Semmelweis University, Tűzoltó utca 37-47, 1094, Budapest, Hungary
| | - Attila Csomos
- Femtonics Ltd., Tűzoltó utca 59, 1094, Budapest, Hungary
- Hevesy György PhD School of Chemistry, Eötvös Loránd University, Pázmány Péter sétány 1/A, 1117, Budapest, Hungary
| | - Ákos Zsembery
- Department of Oral Biology, Faculty of Dentistry, Semmelweis University, Nagyvárad tér 4, 1089, Budapest, Hungary
| | - Kristóf Kádár
- Department of Oral Biology, Faculty of Dentistry, Semmelweis University, Nagyvárad tér 4, 1089, Budapest, Hungary
| | - Gergely Katona
- Two-Photon Measurement Technology Group, The Faculty of Information Technology, Pázmány Péter Catholic University, Szigony utca 50/A, 1083, Budapest, Hungary
| | - Zoltán Mucsi
- BrainVisionCenter, Liliom utca 43-45, 1094, Budapest, Hungary.
- Femtonics Ltd., Tűzoltó utca 59, 1094, Budapest, Hungary.
- Institute of Chemistry, Faculty of Materials Science and Engineering, University of Miskolc, Egyetem tér 1, 3515, Miskolc, Hungary.
| | - Balázs József Rózsa
- Laboratory of 3D Functional Network and Dendritic Imaging, HUN-REN Institute of Experimental Medicine, Szigony utca 43, 1083, Budapest, Hungary.
- BrainVisionCenter, Liliom utca 43-45, 1094, Budapest, Hungary.
- Two-Photon Measurement Technology Group, The Faculty of Information Technology, Pázmány Péter Catholic University, Szigony utca 50/A, 1083, Budapest, Hungary.
| | - Ervin Kovács
- Two-Photon Measurement Technology Group, The Faculty of Information Technology, Pázmány Péter Catholic University, Szigony utca 50/A, 1083, Budapest, Hungary.
- Institute of Materials and Environmental Chemistry, HUN-REN Research Centre for Natural Sciences, Magyar Tudósok körútja 2, 1117, Budapest, Hungary.
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2
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Yang Y, Cui J, Luo D, Murray J, Chen X, Hülck S, Tripp RA, Zhao Y. Rapid Detection of SARS-CoV-2 Variants Using an Angiotensin-Converting Enzyme 2-Based Surface-Enhanced Raman Spectroscopy Sensor Enhanced by CoVari Deep Learning Algorithms. ACS Sens 2024; 9:3158-3169. [PMID: 38843447 PMCID: PMC11217934 DOI: 10.1021/acssensors.4c00488] [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: 02/29/2024] [Revised: 05/11/2024] [Accepted: 05/20/2024] [Indexed: 06/29/2024]
Abstract
An integrated approach combining surface-enhanced Raman spectroscopy (SERS) with a specialized deep learning algorithm to rapidly and accurately detect and quantify SARS-CoV-2 variants is developed based on an angiotensin-converting enzyme 2 (ACE2)-functionalized AgNR@SiO2 array SERS sensor. SERS spectra with concentrations of different variants were collected using a portable Raman system. After appropriate spectral preprocessing, a deep learning algorithm, CoVari, is developed to predict both the viral variant species and concentrations. Using a 10-fold cross-validation strategy, the model achieves an average accuracy of 99.9% in discriminating between different virus variants and R2 values larger than 0.98 for quantifying viral concentrations of the three viruses, demonstrating the high quality of the detection. The limit of detection of the ACE2 SERS sensor is determined to be 10.472, 11.882, and 21.591 PFU/mL for SARS-CoV-2, SARS-CoV-2 B1, and CoV-NL63, respectively. The feature importance of virus classification and concentration regression in the CoVari algorithm are calculated based on a permutation algorithm, which showed a clear correlation to the biochemical origins of the spectra or spectral changes. In an unknown specimen test, classification accuracy can achieve >90% for concentrations larger than 781 PFU/mL, and the predicted concentrations consistently align with actual values, highlighting the robustness of the proposed algorithm. Based on the CoVari architecture and the output vector, this algorithm can be generalized to predict both viral variant species and concentrations simultaneously for a broader range of viruses. These results demonstrate that the SERS + CoVari strategy has the potential for rapid and quantitative detection of virus variants and potentially point-of-care diagnostic platforms.
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Affiliation(s)
- Yanjun Yang
- Department
of Physics and Astronomy, The University
of Georgia, Athens, Georgia 30602, United States
| | - Jiaheng Cui
- School
of Electrical and Computer Engineering, College of Engineering, The University of Georgia, Athens, Georgia 30602, United States
| | - Dan Luo
- Department
of Statistics, The University of Georgia, Athens, Georgia 30602, United States
| | - Jackelyn Murray
- Department
of Infectious Diseases, College of Veterinary Medicine, The University of Georgia, Athens, Georgia 30602, United States
| | - Xianyan Chen
- Department
of Epidemiology & Biostatistics, College of Public Health, The University of Georgia, Athens, Georgia 30602, United States
| | | | - Ralph A. Tripp
- Department
of Infectious Diseases, College of Veterinary Medicine, The University of Georgia, Athens, Georgia 30602, United States
| | - Yiping Zhao
- Department
of Physics and Astronomy, The University
of Georgia, Athens, Georgia 30602, United States
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3
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Coelho BFO, Nunes SLP, de França CA, Costa DDS, do Carmo RF, Prates RM, Filho EFS, Ramos RP. On the feasibility of Vis-NIR spectroscopy and machine learning for real time SARS-CoV-2 detection. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 308:123735. [PMID: 38064967 DOI: 10.1016/j.saa.2023.123735] [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: 05/19/2023] [Revised: 11/16/2023] [Accepted: 12/02/2023] [Indexed: 01/13/2024]
Abstract
The pandemic caused by Covid-19 is still present around the world. Despite advances in combating the disease, such as vaccine development, identifying infected individuals is still essential to optimize the control of human-to-human transmission of the virus. The main technique for detecting the virus is the RT-PCR method, which, despite its high relative cost, has a high accuracy in detecting the coronavirus. Given this, a method capable of performing the identification quickly, accurately, and inexpensively is necessary. Thus, this work aimed to analyze the feasibility of a new technique for identifying SARS-CoV-2 through the use of optical spectroscopy in the visible and near-infrared range (Vis-NIR) combined with machine learning algorithms. Spectral signals were obtained from nasopharyngeal swab samples previously analyzed using the RT-PCR method. The specimens were provided by the Molecular Diagnosis Laboratory of Covid-19 at Univasf. A total of 314 samples were analyzed, comprising 42 testing positive and 272 testing negative for Covid-19. Digital signal processing techniques, such as Savitzky-Golay filters and statistical methods were used to eliminate spurious elements from the original data and extract relevant features. Supervised machine learning algorithms such as SVM, Random Forest, and Naive Bayes classifiers were used to perform automatic sample identification. To evaluate the performance of the models, a 5-fold cross-validation technique was applied. With the proposed methodology, it was possible to achieve an accuracy of 75%, a sensitivity of 80%, and a specificity of 70%, in addition to an area under the ROC curve of 0.81, in the identification of nasopharyngeal swab samples from previously diagnosed individuals. From these results, it was possible to conclude that Vis-NIR spectroscopy is a promising, fast and relatively low cost technique to identify the SARS-CoV-2.
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Affiliation(s)
| | | | | | | | | | | | | | - Rodrigo Pereira Ramos
- Federal University of Sao Francisco Valley (Univasf), Petrolina, Pernambuco, Brazil.
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4
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Zhao J, Kang M, Wu H, Sun B, Baele G, He WT, Lu M, Suchard MA, Ji X, He N, Su S, Veit M. Risk assessment of SARS-CoV-2 replicating and evolving in animals. Trends Microbiol 2024; 32:79-92. [PMID: 37541811 DOI: 10.1016/j.tim.2023.07.002] [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: 03/16/2023] [Revised: 07/03/2023] [Accepted: 07/05/2023] [Indexed: 08/06/2023]
Abstract
The retransmissions of SARS-CoV-2 from several mammals - primarily mink and white-tailed deer - to humans have raised concerns for the emergence of a new animal-derived SARS-CoV-2 variant to worsen the pandemic. Here, we discuss animal species that are susceptible to natural or experimental infection with SARS-CoV-2 and can transmit the virus to mates or humans. We describe cutting-edge techniques to assess the impact of a mutation in the viral spike (S) protein on its receptor and on antibody binding. Our review of spike sequences of animal-derived viruses identified nine unique amino acid exchanges in the receptor-binding domain (RBD) that are not present in any variant of concern (VOC). These mutations are present in SARS-CoV-2 found in companion animals such as dogs and cats, and they exhibit a higher frequency in SARS-CoV-2 found in mink and white-tailed deer, suggesting that sustained transmissions may contribute to maintaining novel mutations. Four of these exchanges, such as Leu452Met, could undermine acquired immune protection in humans while maintaining high affinity for the human angiotensin-converting enzyme 2 (ACE2) receptor. Finally, we discuss important avenues of future research into animal-derived viruses with public health risks.
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Affiliation(s)
- Jin Zhao
- Shanghai Institute of Infectious Disease and Biosecurity, School of Public Health, Fudan University, Shanghai, China
| | - Mei Kang
- Shanghai Institute of Infectious Disease and Biosecurity, School of Public Health, Fudan University, Shanghai, China; Clinical Research Center, Shanghai General Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, China
| | - Hongyan Wu
- Shanghai Institute of Infectious Disease and Biosecurity, School of Public Health, Fudan University, Shanghai, China
| | - Bowen Sun
- Shanghai Institute of Infectious Disease and Biosecurity, School of Public Health, Fudan University, Shanghai, China
| | - Guy Baele
- Department of Microbiology, Immunology, and Transplantation, Rega Institute, KU Leuven, Leuven, Belgium
| | - Wan-Ting He
- School of Pharmacy, China Pharmaceutical University, Nanjing, China.
| | - Meng Lu
- Shanghai Institute of Infectious Disease and Biosecurity, School of Public Health, Fudan University, Shanghai, China
| | - Marc A Suchard
- Department of Biostatistics, Fielding School of Public Health, University of California Los Angeles, Los Angeles, CA, USA; Department of Biomathematics, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, CA, USA
| | - Xiang Ji
- Department of Mathematics, School of Science and Engineering, Tulane University, New Orleans, LA, USA
| | - Na He
- Shanghai Institute of Infectious Disease and Biosecurity, School of Public Health, Fudan University, Shanghai, China
| | - Shuo Su
- Shanghai Institute of Infectious Disease and Biosecurity, School of Public Health, Fudan University, Shanghai, China.
| | - Michael Veit
- Institute for Virology, Center for Infection Medicine, Veterinary Faculty, Free University Berlin, Berlin, Germany.
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5
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Yan D, Cui J, Li X, Zhang L, Li J, Lu W. Enhancement of wide-band trace terahertz absorption spectroscopy based on microstructures: a review. Phys Chem Chem Phys 2023; 25:31542-31553. [PMID: 37982714 DOI: 10.1039/d3cp04746f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2023]
Abstract
Research on the interaction between nanoscale materials and light holds significant scientific significance for the development of fields such as optoelectronic conversion and biosensing. The study of micro- and nano-optics has produced numerous outstanding research achievements by utilizing the dielectric optical coupling mechanism and plasmon effects to enhance the interaction between light and matter. These findings have demonstrated tremendous potential for applications in the field of molecular fingerprint sensing. This review focuses on a retrospective analysis of recent research studies in the enhancement of wide-band trace terahertz absorption spectroscopy. The physical mechanisms of using waveguide structures, dielectric metasurfaces/meta-gratings, and spoof surface plasmon polaritons (SSPs) to improve the interaction between light and trace-amount matters are introduced. The new approaches and methods for enhancing broad-band terahertz absorption spectroscopy of trace samples using microstructure designs are discussed. Additionally, we elucidate the scientific ideas and exploratory achievements in enhancing terahertz fingerprint spectroscopy detection. Finally, we provide an outlook on the research and development direction and potential practical applications of absorption spectroscopy enhancement detection.
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Affiliation(s)
- Dexian Yan
- Centre for THz Research, China Jiliang University, Hangzhou 310018, Zhejiang, China.
- Key Laboratory of Electromagnetic Wave Information Technology and Metrology of Zhejiang Province, College of Information Engineering, China Jiliang University, Hangzhou 310018, Zhejiang, China
| | - Jing Cui
- Centre for THz Research, China Jiliang University, Hangzhou 310018, Zhejiang, China.
- Key Laboratory of Electromagnetic Wave Information Technology and Metrology of Zhejiang Province, College of Information Engineering, China Jiliang University, Hangzhou 310018, Zhejiang, China
| | - Xiangjun Li
- Centre for THz Research, China Jiliang University, Hangzhou 310018, Zhejiang, China.
- Key Laboratory of Electromagnetic Wave Information Technology and Metrology of Zhejiang Province, College of Information Engineering, China Jiliang University, Hangzhou 310018, Zhejiang, China
| | - Le Zhang
- Centre for THz Research, China Jiliang University, Hangzhou 310018, Zhejiang, China.
- Key Laboratory of Electromagnetic Wave Information Technology and Metrology of Zhejiang Province, College of Information Engineering, China Jiliang University, Hangzhou 310018, Zhejiang, China
| | - Jining Li
- College of Precision Instrument and Optoelectronic Engineering, Tianjin University, Tianjin 300072, China
| | - Wenxin Lu
- College of Information and Communication, National University of Defense Technology, Wuhan, 430010, Hubei, China
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6
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Xia Q, Guo Z, Zong H, Seitz S, Yurdakul C, Ünlü MS, Wang L, Connor JH, Cheng JX. Single virus fingerprinting by widefield interferometric defocus-enhanced mid-infrared photothermal microscopy. Nat Commun 2023; 14:6655. [PMID: 37863905 PMCID: PMC10589364 DOI: 10.1038/s41467-023-42439-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2023] [Accepted: 10/11/2023] [Indexed: 10/22/2023] Open
Abstract
Clinical identification and fundamental study of viruses rely on the detection of viral proteins or viral nucleic acids. Yet, amplification-based and antigen-based methods are not able to provide precise compositional information of individual virions due to small particle size and low-abundance chemical contents (e.g., ~ 5000 proteins in a vesicular stomatitis virus). Here, we report a widefield interferometric defocus-enhanced mid-infrared photothermal (WIDE-MIP) microscope for high-throughput fingerprinting of single viruses. With the identification of feature absorption peaks, WIDE-MIP reveals the contents of viral proteins and nucleic acids in single DNA vaccinia viruses and RNA vesicular stomatitis viruses. Different nucleic acid signatures of thymine and uracil residue vibrations are obtained to differentiate DNA and RNA viruses. WIDE-MIP imaging further reveals an enriched β sheet components in DNA varicella-zoster virus proteins. Together, these advances open a new avenue for compositional analysis of viral vectors and elucidating protein function in an assembled virion.
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Affiliation(s)
- Qing Xia
- Department of Electrical and Computer Engineering, Boston University, Boston, MA, 02215, USA
| | - Zhongyue Guo
- Department of Biomedical Engineering, Boston University, Boston, MA, 02215, USA
| | - Haonan Zong
- Department of Electrical and Computer Engineering, Boston University, Boston, MA, 02215, USA
| | - Scott Seitz
- Department of Microbiology and National Infectious Diseases Laboratories, Boston University School of Medicine, Boston, MA, 02118, USA
| | - Celalettin Yurdakul
- Department of Electrical and Computer Engineering, Boston University, Boston, MA, 02215, USA
| | - M Selim Ünlü
- Department of Electrical and Computer Engineering, Boston University, Boston, MA, 02215, USA
| | - Le Wang
- Department of Electrical and Computer Engineering, Boston University, Boston, MA, 02215, USA
| | - John H Connor
- Department of Microbiology and National Infectious Diseases Laboratories, Boston University School of Medicine, Boston, MA, 02118, USA.
| | - Ji-Xin Cheng
- Department of Electrical and Computer Engineering, Boston University, Boston, MA, 02215, USA.
- Department of Biomedical Engineering, Boston University, Boston, MA, 02215, USA.
- Photonics Center, Boston University, Boston, MA, 02215, USA.
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7
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Rakhimbekova A, Kudaibergenov B, Seitkamal K, Bellone A, Dauletova A, Sypabekova M, Olivero M, Perrone G, Radaelli A, Zanotto C, De Giuli Morghen C, Vangelista L, Tosi D. Rapid detection of vaccinia virus using biofunctionalized fiber-optic ball-tip biosensors. Sci Rep 2023; 13:17470. [PMID: 37838808 PMCID: PMC10576743 DOI: 10.1038/s41598-023-44926-6] [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: 07/27/2023] [Accepted: 10/13/2023] [Indexed: 10/16/2023] Open
Abstract
In this work, we present the development and biofunctionalization of a fiber-optic ball-resonator biosensor for the real-time detection of vaccinia poxvirus. We fabricated several ball-tip resonators, functionalized through a silanization process to immobilize two bioreceptors: the monoclonal anti-L1R antibody targeting the L1R protein, and the polyclonal rabbit serum antibodies targeting the whole vaccinia virus (VV) pathogen. Experimental measurements were carried out to detect VV in concentrations from 103 to 108 plaque-forming units (PFU), with a limit of detection of around 1.7-4.3 × 103 PFU and a log-quadratic pattern, with a response up to 5 × 10-4 RIU (refractive index units). The specificity was assessed against herpes simplex virus, used as a non-specific control, with the best results obtained with anti-L1R monoclonal antibodies, and through the detection of vaccinia virus/herpes simplex-1 combination. The obtained results provide a real-time viral recognition with a label-free sensing platform, having rapid response and ease of manufacturing, and paving the road to the seamless detection of poxviruses affecting different human and animal species using optical fibers.
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Affiliation(s)
- Aida Rakhimbekova
- Department of Electrical and Computer Engineering, School of Engineering and Digital Sciences, Nazarbayev University, 010000, Astana, Kazakhstan
| | - Baizak Kudaibergenov
- Department of Electrical and Computer Engineering, School of Engineering and Digital Sciences, Nazarbayev University, 010000, Astana, Kazakhstan
| | - Kuanysh Seitkamal
- Department of Biomedical Sciences, School of Medicine, Nazarbayev University, 010000, Astana, Kazakhstan
| | - Aurora Bellone
- Department of Electronics and Telecommunications, Politecnico Di Torino, Turin, Italy
| | - Ayazhan Dauletova
- Department of Electrical and Computer Engineering, School of Engineering and Digital Sciences, Nazarbayev University, 010000, Astana, Kazakhstan
| | - Marzhan Sypabekova
- Department of Electrical & Computer Engineering, Baylor University, Waco, TX, USA
| | - Massimo Olivero
- Department of Electronics and Telecommunications, Politecnico Di Torino, Turin, Italy
| | - Guido Perrone
- Department of Electronics and Telecommunications, Politecnico Di Torino, Turin, Italy
| | - Antonia Radaelli
- Department of Medical Biotechnologies and Translational Medicine, Laboratory of Molecular Virology and Recombinant Vaccine Development, University of Milan, Via Vanvitelli 32, Milan, Italy
- Catholic University "Our Lady of Good Counsel", Rr. Dritan Hoxha, Tirana, Albania
| | - Carlo Zanotto
- Department of Medical Biotechnologies and Translational Medicine, Laboratory of Molecular Virology and Recombinant Vaccine Development, University of Milan, Via Vanvitelli 32, Milan, Italy
| | | | - Luca Vangelista
- Department of Biomedical Sciences, School of Medicine, Nazarbayev University, 010000, Astana, Kazakhstan
- Department of Molecular Medicine, University of Pavia, 27100, Pavia, Italy
| | - Daniele Tosi
- Department of Electrical and Computer Engineering, School of Engineering and Digital Sciences, Nazarbayev University, 010000, Astana, Kazakhstan.
- Laboratory of Biosensors and Bioinstruments, National Laboratory Astana, 010000, Astana, Kazakhstan.
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8
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Zhang H, Zhang C, Wang Z, Cao W, Yu M, Sun Y. Antibody- and aptamer-free SERS substrate for ultrasensitive and anti-interference detection of SARS-CoV-2 spike protein in untreated saliva. Biosens Bioelectron 2023; 237:115457. [PMID: 37321043 PMCID: PMC10247595 DOI: 10.1016/j.bios.2023.115457] [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: 03/17/2023] [Revised: 05/12/2023] [Accepted: 06/07/2023] [Indexed: 06/17/2023]
Abstract
Sensitive and anti-interference detection of targeted signal(s) in body fluids is one of the paramount tasks in biosensing. Overcoming the complication and high cost of antibody/aptamer-modification, surface-enhanced Raman spectroscopy (SERS) based on antibody/aptamer-free (AAF) substrates has shown great promise, yet with rather limited detection sensitivity. Herein, we report ultrasensitive and anti-interference detection of SARS-CoV-2 spike protein in untreated saliva by an AAF SERS substrate, applying the evanescent field induced by the high-order waveguide modes of well-defined nanorods for SERS for the first time. A detection limit of 3.6 × 10-17 M and 1.6 × 10-16 M are obtained in phosphate buffered saline and untreated saliva, respectively; the detection limits are three orders of magnitude improved than the best records from AAF substrates. This work unlocks an exciting path to design AAF SERS substrates for ultrasensitive biosensing, not limited to detection of viral antigens.
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Affiliation(s)
- Hong Zhang
- School of Instrumentation Science and Engineering, Harbin Institute of Technology, Harbin, 150001, Heilonɡjianɡ, PR China
| | - Chenggang Zhang
- School of Instrumentation Science and Engineering, Harbin Institute of Technology, Harbin, 150001, Heilonɡjianɡ, PR China
| | - Zhaotong Wang
- School of Instrumentation Science and Engineering, Harbin Institute of Technology, Harbin, 150001, Heilonɡjianɡ, PR China
| | - Wenwu Cao
- School of Instrumentation Science and Engineering, Harbin Institute of Technology, Harbin, 150001, Heilonɡjianɡ, PR China
| | - Miao Yu
- State Key Laboratory of Urban Water Resource and Environment, School of Chemistry and Chemical Engineering, Harbin Institute of Technology, Harbin, 150001, Heilonɡjianɡ, PR China.
| | - Ye Sun
- School of Instrumentation Science and Engineering, Harbin Institute of Technology, Harbin, 150001, Heilonɡjianɡ, PR China.
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9
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Hamd-Ghadareh S, Salimi A, Vaziry A. Ultrasensitive Ratiometric Fluorescence Bioassay for Accurate Detection of Covid-19-Specific Nucleocapsid Protein in Clinical Serum Samples Using Modified Cleavable Mesoporous SiO 2 Satellite-Enriched Carbon Dots. ACS Biomater Sci Eng 2023; 9:5279-5292. [PMID: 37606622 DOI: 10.1021/acsbiomaterials.3c00391] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/23/2023]
Abstract
Due to the presence of various autofluorescent compounds in biological samples like serum and the photobleaching of organic fluorophores, fluorescence sensing has limited practical applicability. This study describes the development of an improved ratiometric fluorescence assay to determine the nucleocapsid protein (N protein), one of the most conserved biomarkers of Covid-19 in spiked and serum samples using highly stable buffer-based near IR-dual emission carbon dots (CDs) encapsulated into the cavities of cleavable silica nanocapsule (SNCs) nanocomposite. The cavities of cleavable silica nanocapsules (SNCs) and the formed core-shell CDs@ SNCs were used as a superior reservoir of fluorescent markers produced by cohydrolyzing tetraethyl orthosilicate and diiminosilane linker, which held hundreds of CDs in silica shell frameworks. The SiO2 nanocomposite was modified with an N protein antibody that specifically paired to the receptor binding region of the Cov-19 spike protein subunit. CDs were taken out of SNCs by NaBH4 reduction, and the released CDs exhibited dual emission at 475 and 675 nm when excited at 400 nm. Ratiometric detection is completed over a binding-induced, concentration-dependent immuno-affinity of the N protein that drives the fluorescence quenching phenomenon between the CDs as fluorophore and the AuNPs as quencher. As the N protein concentration increased, the intensity of the red emission (675 nm) dropped, whereas the intensity of the green emission (475 nm) already remained constant, which is due to sandwich immunoassays of CDs around AuNPs. Using the exceptional fluorescent characteristics of CDs and the high selectivity of nanocomposite functionalized with N-protein antibody, the developed assay efficiently eliminates the autofluorescence background interference of serum samples. The fluorescence ratio (I475/I675) provides a limit of detection of 2 pg mL-1 over a linear range of 0.01 to 5 ng mL-1 and exhibits an amplified sensitivity of 54 times compared to conventional immunoassay using CDs as fluorescent labels. With one-step signal amplification and requiring small sample quantities (only 20 μL), this sensing platform can be effectively used for the accurate detection of N protein, and no cross-reactivity is detected in the presence of different interfering agents.
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Affiliation(s)
| | - Abdollah Salimi
- Department of Chemistry, University of Kurdistan, 66177-15175, Sanandaj-Iran
- Research Center for Nanotechnology, University of Kurdistan, 66177-15175 Sanandaj, Iran
| | - Asaad Vaziry
- Department of Animal Science, Faculty of Agriculture, University of Kurdistan, 66177-15175 Sanandaj, Iran
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Gomez-Gonzalez E, Muñoz O, Gomez-Martin JC, Aceituno-Castro J, Fernandez-Muñoz B, Navas-Garcia JM, Barriga-Rivera A, Fernandez-Lizaranzu I, Munoz-Gonzalez FJ, Parrilla-Giraldez R, Requena-Lancharro D, Gil-Gamboa P, Ramos JL, Rosell-Valle C, Gomez-Gonzalez C, Martin-Lopez M, Relimpio-Lopez MI, Perales-Esteve MA, Puppo-Moreno A, Garcia-Cozar FJ, Olvera-Collantes L, de Los Santos-Trigo S, Gomez E, Sanchez-Pernaute R, Padillo-Ruiz J, Marquez-Rivas J. Polarimetric imaging for the detection of synthetic models of SARS-CoV-2: A proof of concept. JOURNAL OF QUANTITATIVE SPECTROSCOPY & RADIATIVE TRANSFER 2023; 302:108567. [PMID: 36945203 PMCID: PMC9987604 DOI: 10.1016/j.jqsrt.2023.108567] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/11/2022] [Revised: 03/04/2023] [Accepted: 03/04/2023] [Indexed: 06/18/2023]
Abstract
OBJECTIVE To conduct a proof-of-concept study of the detection of two synthetic models of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) using polarimetric imaging. APPROACH Two SARS-CoV-2 models were prepared as engineered lentiviruses pseudotyped with the G protein of the vesicular stomatitis virus, and with the characteristic Spike protein of SARS-CoV-2. Samples were prepared in two biofluids (saline solution and artificial saliva), in four concentrations, and deposited as 5-µL droplets on a supporting plate. The angles of maximal degree of linear polarization (DLP) of light diffusely scattered from dry residues were determined using Mueller polarimetry from87 samples at 405 nm and 514 nm. A polarimetric camera was used for imaging several samples under 380-420 nm illumination at angles similar to those of maximal DLP. Per-pixel image analysis included quantification and combination of polarization feature descriptors in 475 samples. MAIN RESULTS The angles (from sample surface) of maximal DLP were 3° for 405 nm and 6° for 514 nm. Similar viral particles that differed only in the characteristic spike protein of the SARS-CoV-2, their corresponding negative controls, fluids, and the sample holder were discerned at 10-degree and 15-degree configurations. SIGNIFICANCE Polarimetric imaging in the visible spectrum may help improve fast, non-contact detection and identification of viral particles, and/or other microbes such as tuberculosis, in multiple dry fluid samples simultaneously, particularly when combined with other imaging modalities. Further analysis including realistic concentrations of real SARS-CoV-2 viral particles in relevant human fluids is required. Polarimetric imaging under visible light may contribute to a fast, cost-effective screening of SARS-CoV-2 and other pathogens when combined with other imaging modalities.
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Affiliation(s)
- Emilio Gomez-Gonzalez
- Group of Interdisciplinary Physics, Department of Applied Physics III at the ETSI Engineering School, Universidad de Sevilla, Seville 41092, Spain
- Institute of Biomedicine of Seville, Spain
| | - Olga Muñoz
- Cosmic Dust Laboratory, Instituto de Astrofísica de Andalucía, CSIC, Granada 18008, Spain
| | | | - Jesus Aceituno-Castro
- Cosmic Dust Laboratory, Instituto de Astrofísica de Andalucía, CSIC, Granada 18008, Spain
- Centro Astronomico Hispano Alemán, Almeria 04550, Spain
| | - Beatriz Fernandez-Muñoz
- Unidad de Producción y Reprogramación Celular, Red Andaluza de Diseño y Traslación de Terapias Avanzadas, Fundacion Publica Andaluza Progreso y Salud, Sevilla 41092, Spain
| | | | - Alejandro Barriga-Rivera
- Group of Interdisciplinary Physics, Department of Applied Physics III at the ETSI Engineering School, Universidad de Sevilla, Seville 41092, Spain
- School of Biomedical Engineering, The University of Sydney, NSW 2006, Australia
| | - Isabel Fernandez-Lizaranzu
- Group of Interdisciplinary Physics, Department of Applied Physics III at the ETSI Engineering School, Universidad de Sevilla, Seville 41092, Spain
- Institute of Biomedicine of Seville, Spain
| | - Francisco Javier Munoz-Gonzalez
- Group of Interdisciplinary Physics, Department of Applied Physics III at the ETSI Engineering School, Universidad de Sevilla, Seville 41092, Spain
| | | | - Desiree Requena-Lancharro
- Group of Interdisciplinary Physics, Department of Applied Physics III at the ETSI Engineering School, Universidad de Sevilla, Seville 41092, Spain
| | - Pedro Gil-Gamboa
- Group of Interdisciplinary Physics, Department of Applied Physics III at the ETSI Engineering School, Universidad de Sevilla, Seville 41092, Spain
| | - José Luis Ramos
- Cosmic Dust Laboratory, Instituto de Astrofísica de Andalucía, CSIC, Granada 18008, Spain
| | - Cristina Rosell-Valle
- Unidad de Producción y Reprogramación Celular, Red Andaluza de Diseño y Traslación de Terapias Avanzadas, Fundacion Publica Andaluza Progreso y Salud, Sevilla 41092, Spain
| | - Carmen Gomez-Gonzalez
- Service of Intensive Care, University Hospital 'Virgen del Rocio', Sevilla 41013, Spain
| | - Maria Martin-Lopez
- Unidad de Producción y Reprogramación Celular, Red Andaluza de Diseño y Traslación de Terapias Avanzadas, Fundacion Publica Andaluza Progreso y Salud, Sevilla 41092, Spain
| | - Maria Isabel Relimpio-Lopez
- Department of General Surgery, College of Medicine, Universidad de Sevilla, Seville 41009, Spain
- Department of Ophthalmology, University Hospital 'Virgen Macarena', Sevilla 41009, Spain
- OftaRed, Institute of Health 'Carlos III', Madrid 28029, Spain
| | - Manuel A Perales-Esteve
- Group of Interdisciplinary Physics, Department of Applied Physics III at the ETSI Engineering School, Universidad de Sevilla, Seville 41092, Spain
- Department of Electronic Engineering at the ETSI Engineering School, Universidad de Sevilla, Seville 41092, Spain
| | - Antonio Puppo-Moreno
- Institute of Biomedicine of Seville, Spain
- Service of Intensive Care, University Hospital 'Virgen del Rocio', Sevilla 41013, Spain
| | - Francisco Jose Garcia-Cozar
- Department of Biomedicine, Biotechnology and Public Health, University of Cadiz, Cadiz 11003, Spain
- Instituto de Investigación e Innovación Biomedica de Cádiz (INIBICA), Cadiz 11009, Spain
| | - Lucia Olvera-Collantes
- Department of Biomedicine, Biotechnology and Public Health, University of Cadiz, Cadiz 11003, Spain
- Instituto de Investigación e Innovación Biomedica de Cádiz (INIBICA), Cadiz 11009, Spain
| | | | - Emilia Gomez
- Joint Research Centre, European Commission, Sevilla 41092, Spain
| | - Rosario Sanchez-Pernaute
- Unidad de Producción y Reprogramación Celular, Red Andaluza de Diseño y Traslación de Terapias Avanzadas, Fundacion Publica Andaluza Progreso y Salud, Sevilla 41092, Spain
| | | | - Javier Marquez-Rivas
- Group of Interdisciplinary Physics, Department of Applied Physics III at the ETSI Engineering School, Universidad de Sevilla, Seville 41092, Spain
- Institute of Biomedicine of Seville, Spain
- Service of Neurosurgery, University Hospital 'Virgen del Rocío', Sevilla 41013, Spain
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11
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Pallavi P, Harini K, Elboughdiri N, Gowtham P, Girigoswami K, Girigoswami A. Infections associated with SARS-CoV-2 exploited via nanoformulated photodynamic therapy. ADMET AND DMPK 2023; 11:513-531. [PMID: 37937246 PMCID: PMC10626507 DOI: 10.5599/admet.1883] [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: 05/08/2023] [Revised: 06/30/2023] [Indexed: 11/09/2023] Open
Abstract
Background and purpose The pandemic of COVID-19 has highlighted the need for managing infectious diseases, which spreads by airborne transmission leading to serious health, social, and economic issues. SARS-CoV-2 is an enveloped virus with a 60-140 nm diameter and particle-like features, which majorly accounts for this disease. Expanding diagnostic capabilities, developing safe vaccinations with long-lasting immunity, and formulating effective medications are the strategies to be investigated. Experimental approach For the literature search, electronic databases such as Scopus, Google Scholar, MEDLINE, Embase, PubMed, and Web of Science were used as the source. Search terms like 'Nano-mediated PDT,' 'PDT for SARS-CoV-2', and 'Nanotechnology in treatment for SARS-CoV-2' were used. Out of 275 initially selected articles, 198 were chosen after the abstract screening. During the full-text screening, 80 papers were excluded, and 18 were eliminated during data extraction. Preference was given to articles published from 2018 onwards, but a few older references were cited for their valuable information. Key results Synthetic nanoparticles (NPs) have a close structural resemblance to viruses and interact greatly with their proteins due to their similarities in the configurations. NPs had previously been reported to be effective against a variety of viruses. In this way, with nanoparticles, photodynamic therapy (PDT) can be a viable alternative to antibiotics in fighting against microbial infections. The protocol of PDT includes the activation of photosensitizers using specific light to destroy microorganisms in the presence of oxygen, treating several respiratory diseases. Conclusion The use of PDT in treating COVID-19 requires intensive investigations, which has been reviewed in this manuscript, including a computational approach to formulating effective photosensitizers.
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Affiliation(s)
- Pragya Pallavi
- Medical Bionanotechnology, Faculty of Allied Health Sciences, Chettinad Hospital and Research Institute (CHRI), Chettinad Academy of Research and Education (CARE), Kelambakkam, Chennai, TN-603103, India
| | - Karthick Harini
- Medical Bionanotechnology, Faculty of Allied Health Sciences, Chettinad Hospital and Research Institute (CHRI), Chettinad Academy of Research and Education (CARE), Kelambakkam, Chennai, TN-603103, India
| | - Noureddine Elboughdiri
- Chemical Engineering Department, College of Engineering, University of Ha'il, P.O. Box 2440, Ha'il 81441, Saudi Arabia
- Chemical Engineering Process Department, National School of Engineers Gabes, University of Gabes, Gabes 6029, Tunisia
| | - Pemula Gowtham
- Medical Bionanotechnology, Faculty of Allied Health Sciences, Chettinad Hospital and Research Institute (CHRI), Chettinad Academy of Research and Education (CARE), Kelambakkam, Chennai, TN-603103, India
| | - Koyeli Girigoswami
- Medical Bionanotechnology, Faculty of Allied Health Sciences, Chettinad Hospital and Research Institute (CHRI), Chettinad Academy of Research and Education (CARE), Kelambakkam, Chennai, TN-603103, India
| | - Agnishwar Girigoswami
- Medical Bionanotechnology, Faculty of Allied Health Sciences, Chettinad Hospital and Research Institute (CHRI), Chettinad Academy of Research and Education (CARE), Kelambakkam, Chennai, TN-603103, India
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12
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Enaki NA, Munteanu I, Paslari T, Turcan M, Starodub E, Bazgan S, Podoleanu D, Ristoscu C, Anghel S, Badiceanu M, Mihailescu IN. Topological Avenue for Efficient Decontamination of Large Volumes of Fluids via UVC Irradiation of Packed Metamaterials. MATERIALS (BASEL, SWITZERLAND) 2023; 16:4559. [PMID: 37444873 DOI: 10.3390/ma16134559] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2023] [Revised: 06/12/2023] [Accepted: 06/16/2023] [Indexed: 07/15/2023]
Abstract
Nowadays, metamaterials application enjoys notoriety in fluid decontamination and pathogen annihilation, which are frequently present in polluted fluids (e.g., water, blood, blood plasma, air or other gases). The depollution effect is largely enhanced by UVC irradiation. The novelty of this contribution comes from the significant increase by packing of the total surface of metamaterials in contact with contaminated fluids. Packed metamaterial samples are subjected to UVC irradiation, with expected advantages for implant sterilization and long-term prevention of nosocomial infections over large clinical areas. The novel aspect of the investigation consists of a combination of big and small elements of the metamaterial to optimize the above effects connected with fluids and irradiation. The big elements allow the radiation to penetrate deep inside the fluid, and the small elements optimally disperse this radiation toward deeper regions of the metamaterial. A packing scheme of smaller, in-between large metamaterial spheres and fibres is proposed for promoting enhanced depollution against pathogen agents. It is demonstrated that the total surface of metamaterials in contact with contaminated fluids/surface is significantly increased as a result of packing. This opens, in our opinion, new auspicious perspectives in the construction of novel equipment with high sensibility in the detection and decontamination of microorganisms.
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Affiliation(s)
- Nicolae A Enaki
- Quantum Optics and Kinetic Processes Laboratory, Institute of Applied Physics, Moldova State University, 5 Academiei Str., MD2028 Chișinău, Moldova
| | - Ion Munteanu
- Quantum Optics and Kinetic Processes Laboratory, Institute of Applied Physics, Moldova State University, 5 Academiei Str., MD2028 Chișinău, Moldova
| | - Tatiana Paslari
- Quantum Optics and Kinetic Processes Laboratory, Institute of Applied Physics, Moldova State University, 5 Academiei Str., MD2028 Chișinău, Moldova
| | - Marina Turcan
- Quantum Optics and Kinetic Processes Laboratory, Institute of Applied Physics, Moldova State University, 5 Academiei Str., MD2028 Chișinău, Moldova
| | - Elena Starodub
- Quantum Optics and Kinetic Processes Laboratory, Institute of Applied Physics, Moldova State University, 5 Academiei Str., MD2028 Chișinău, Moldova
| | - Sergiu Bazgan
- Quantum Optics and Kinetic Processes Laboratory, Institute of Applied Physics, Moldova State University, 5 Academiei Str., MD2028 Chișinău, Moldova
| | - Diana Podoleanu
- Quantum Optics and Kinetic Processes Laboratory, Institute of Applied Physics, Moldova State University, 5 Academiei Str., MD2028 Chișinău, Moldova
| | - Carmen Ristoscu
- Laser-Surface-Plasma Interactions Laboratory, National Institute for Lasers, Plasma and Radiation Physics (INFLPR), Magurele, Ilfov, RO-077125 Bucharest, Romania
| | - Sinziana Anghel
- Laser-Surface-Plasma Interactions Laboratory, National Institute for Lasers, Plasma and Radiation Physics (INFLPR), Magurele, Ilfov, RO-077125 Bucharest, Romania
- Faculty of Physics, University of Bucharest, Magurele, Ilfov, RO-77125 Bucharest, Romania
| | - Maria Badiceanu
- Laser-Surface-Plasma Interactions Laboratory, National Institute for Lasers, Plasma and Radiation Physics (INFLPR), Magurele, Ilfov, RO-077125 Bucharest, Romania
- Faculty of Physics, University of Bucharest, Magurele, Ilfov, RO-77125 Bucharest, Romania
| | - Ion N Mihailescu
- Laser-Surface-Plasma Interactions Laboratory, National Institute for Lasers, Plasma and Radiation Physics (INFLPR), Magurele, Ilfov, RO-077125 Bucharest, Romania
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Pal D, Amyot M, Liang C, Ariya PA. Real-time 4D tracking of airborne virus-laden droplets and aerosols. COMMUNICATIONS ENGINEERING 2023; 2:41. [PMCID: PMC10955884 DOI: 10.1038/s44172-023-00088-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/07/2022] [Accepted: 06/06/2023] [Indexed: 06/26/2024]
Abstract
There is currently no real-time airborne virus tracking method, hindering the understanding of rapid virus changes and associated health impacts. Nano-digital in-line holographic microscopy (Nano-DIHM) is a lensless technology that can directly obtain the interference patterns of objects by recording the scattered light information originating from the objects. Here, we provide evidence for real-time physicochemical tracking of virus-laden droplets and aerosols in the air using desktop label-free Nano-DIHM. The virus interference patterns, as single and ensemble particles, were imaged by the Nano-DIHM with 32.5 ms resolution. The next-generation Stingray and Octopus software was used to automate object detection, characterization and classification from the recorded holograms. The detection system was demonstrated to detect active MS2 bacteriophages, inactivated SARS-CoV-2 and RNA fragments, and an MS2 mixture with metallic and organic compounds. This work demonstrates the feasibility of using Nano-DIHM to provide rapid virus detection to improve transmission management in real time. Devendra Pal and coworkers report an imaging system using Nano-Digital in-line Holographic Microscopy (NanoDIHM) to detect airborne viruses in droplets and aerosols in real time. This system is able to detect various viruses in air, water and heterogeneous matrices within one minute, enabling real-time tracking of pollutant particles for efficient epidemic management.
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Affiliation(s)
- Devendra Pal
- Department of Atmospheric and Oceanic Sciences, McGill University, 805 Sherbrooke Street West, Montreal, QC H3A 0B9 Canada
| | - Marc Amyot
- Department of Biological Sciences, Univerité de Montréal, Complexe des Sciences, 1375 Avenue Thérèse-Lavoie-Roux, Montréal, QC H2V 0B3 Canada
| | - Chen Liang
- Department of Medicine, Division of Experimental Medicine, McGill University and Jewish General Hospital, 3755 Cote Sainte Catherine Rd., Montreal, QC G3T 1 E2 Canada
| | - Parisa A. Ariya
- Department of Atmospheric and Oceanic Sciences, McGill University, 805 Sherbrooke Street West, Montreal, QC H3A 0B9 Canada
- Department of Chemistry, McGill University, 801 Sherbrooke Street West, Montréal, QC H3A 2K6 Canada
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14
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Karuppaiah G, Vashist A, Nair M, Veerapandian M, Manickam P. Emerging trends in point-of-care biosensing strategies for molecular architectures and antibodies of SARS-CoV-2. BIOSENSORS AND BIOELECTRONICS: X 2023; 13:100324. [PMID: 36844889 PMCID: PMC9941073 DOI: 10.1016/j.biosx.2023.100324] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/24/2022] [Revised: 02/01/2023] [Accepted: 02/18/2023] [Indexed: 02/23/2023]
Abstract
COVID-19, a highly contagious viral infection caused by the occurrence of severe acute respiratory syndrome coronavirus (SARS-CoV-2), has turned out to be a viral pandemic then ravaged many countries worldwide. In the recent years, point-of-care (POC) biosensors combined with state-of-the-art bioreceptors, and transducing systems enabled the development of novel diagnostic tools for rapid and reliable detection of biomarkers associated with SARS-CoV-2. The present review thoroughly summarises and discusses various biosensing strategies developed for probing SARS-CoV-2 molecular architectures (viral genome, S Protein, M protein, E protein, N protein and non-structural proteins) and antibodies as a potential diagnostic tool for COVID-19. This review discusses the various structural components of SARS-CoV-2, their binding regions and the bioreceptors used for recognizing the structural components. The various types of clinical specimens investigated for rapid and POC detection of SARS-CoV-2 is also highlighted. The importance of nanotechnology and artificial intelligence (AI) approaches in improving the biosensor performance for real-time and reagent-free monitoring the biomarkers of SARS-CoV-2 is also summarized. This review also encompasses existing practical challenges and prospects for developing new POC biosensors for clinical monitoring of COVID-19.
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Affiliation(s)
- Gopi Karuppaiah
- Electrodics and Electrocatalysis Division, CSIR-Central Electrochemical Research Institute (CECRI), Karaikudi, 630 003, Tamil Nadu, India
| | - Arti Vashist
- Center for Personalized Nanomedicine, Institute of NeuroImmune Pharmacology, Department of Immunology, Herbert Wertheim College of Medicine, Florida International University, Miami, FL, 33199, USA
| | - Madhavan Nair
- Center for Personalized Nanomedicine, Institute of NeuroImmune Pharmacology, Department of Immunology, Herbert Wertheim College of Medicine, Florida International University, Miami, FL, 33199, USA
| | - Murugan Veerapandian
- Electrodics and Electrocatalysis Division, CSIR-Central Electrochemical Research Institute (CECRI), Karaikudi, 630 003, Tamil Nadu, India
- Academy of Scientific and Innovative Research, Ghaziabad, 201 002, Uttar Pradesh, India
| | - Pandiaraj Manickam
- Electrodics and Electrocatalysis Division, CSIR-Central Electrochemical Research Institute (CECRI), Karaikudi, 630 003, Tamil Nadu, India
- Academy of Scientific and Innovative Research, Ghaziabad, 201 002, Uttar Pradesh, India
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15
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Gao S, Yang G, Zhang X, Shi R, Chen R, Zhang X, Peng Y, Yang H, Lu Y, Song C. β-Cyclodextrin Polymer-Based Fluorescence Enhancement Strategy via Host-Guest Interaction for Sensitive Assay of SARS-CoV-2. Int J Mol Sci 2023; 24:ijms24087174. [PMID: 37108336 PMCID: PMC10139410 DOI: 10.3390/ijms24087174] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2023] [Revised: 04/01/2023] [Accepted: 04/07/2023] [Indexed: 04/29/2023] Open
Abstract
Nucleocapsid protein (N protein) is an appropriate target for early determination of viral antigen-based severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). We have found that β-cyclodextrin polymer (β-CDP) has shown a significant fluorescence enhancement effect for fluorophore pyrene via host-guest interaction. Herein, we developed a sensitive and selective N protein-sensing method that combined the host-guest interaction fluorescence enhancement strategy with high recognition of aptamer. The DNA aptamer of N protein modified with pyrene at its 3' terminal was designed as the sensing probe. The added exonuclease I (Exo I) could digest the probe, and the obtained free pyrene as a guest could easily enter into the hydrophobic cavity of host β-CDP, thus inducing outstanding luminescent enhancement. While in the presence of N protein, the probe could combine with it to form a complex owing to the high affinity between the aptamer and the target, which prevented the digestion of Exo I. The steric hindrance of the complex prevented pyrene from entering the cavity of β-CDP, resulting in a tiny fluorescence change. N protein has been selectively analyzed with a low detection limit (11.27 nM) through the detection of the fluorescence intensity. Moreover, the sensing of spiked N protein from human serum and throat swabs samples of three volunteers has been achieved. These results indicated that our proposed method has broad application prospects for early diagnosis of coronavirus disease 2019.
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Affiliation(s)
- Shanshan Gao
- Department of Applied Chemistry, School of Science, Key Laboratory of Agricultural Sensors, Ministry of Agriculture and Rural Affairs, Anhui Agricultural University, Hefei 230036, China
- State Key Laboratory of Tea Plant Biology and Utilization, Hefei 230036, China
| | - Gege Yang
- Department of Applied Chemistry, School of Science, Key Laboratory of Agricultural Sensors, Ministry of Agriculture and Rural Affairs, Anhui Agricultural University, Hefei 230036, China
- State Key Laboratory of Tea Plant Biology and Utilization, Hefei 230036, China
| | - Xiaohui Zhang
- Department of Applied Chemistry, School of Science, Key Laboratory of Agricultural Sensors, Ministry of Agriculture and Rural Affairs, Anhui Agricultural University, Hefei 230036, China
| | - Rui Shi
- School of Life Science, Anhui Agricultural University, Hefei 230036, China
| | - Rongrong Chen
- School of Life Science, Anhui Agricultural University, Hefei 230036, China
| | - Xin Zhang
- Department of Applied Chemistry, School of Science, Key Laboratory of Agricultural Sensors, Ministry of Agriculture and Rural Affairs, Anhui Agricultural University, Hefei 230036, China
| | - Yuancheng Peng
- School of Life Science, Anhui Agricultural University, Hefei 230036, China
| | - Hua Yang
- Department of Applied Chemistry, School of Science, Key Laboratory of Agricultural Sensors, Ministry of Agriculture and Rural Affairs, Anhui Agricultural University, Hefei 230036, China
- State Key Laboratory of Tea Plant Biology and Utilization, Hefei 230036, China
| | - Ying Lu
- Department of Applied Chemistry, School of Science, Key Laboratory of Agricultural Sensors, Ministry of Agriculture and Rural Affairs, Anhui Agricultural University, Hefei 230036, China
| | - Chunxia Song
- Department of Applied Chemistry, School of Science, Key Laboratory of Agricultural Sensors, Ministry of Agriculture and Rural Affairs, Anhui Agricultural University, Hefei 230036, China
- State Key Laboratory of Tea Plant Biology and Utilization, Hefei 230036, China
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16
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Ceccon DM, Amaral PHR, Andrade LM, da Silva MIN, Andrade LAF, Moraes TFS, Bagno FF, Rocha RP, de Almeida Marques DP, Ferreira GM, Lourenço AA, Ribeiro ÁL, Coelho-dos-Reis JGA, da Fonseca FG, Gonzalez JC. New, fast, and precise method of COVID-19 detection in nasopharyngeal and tracheal aspirate samples combining optical spectroscopy and machine learning. Braz J Microbiol 2023:10.1007/s42770-023-00923-5. [PMID: 36854899 PMCID: PMC9974055 DOI: 10.1007/s42770-023-00923-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Accepted: 02/07/2023] [Indexed: 03/02/2023] Open
Abstract
Fast, precise, and low-cost diagnostic testing to identify persons infected with SARS-CoV-2 virus is pivotal to control the global pandemic of COVID-19 that began in late 2019. The gold standard method of diagnostic recommended is the RT-qPCR test. However, this method is not universally available, and is time-consuming and requires specialized personnel, as well as sophisticated laboratories. Currently, machine learning is a useful predictive tool for biomedical applications, being able to classify data from diverse nature. Relying on the artificial intelligence learning process, spectroscopic data from nasopharyngeal swab and tracheal aspirate samples can be used to leverage characteristic patterns and nuances in healthy and infected body fluids, which allows to identify infection regardless of symptoms or any other clinical or laboratorial tests. Hence, when new measurements are performed on samples of unknown status and the corresponding data is submitted to such an algorithm, it will be possible to predict whether the source individual is infected or not. This work presents a new methodology for rapid and precise label-free diagnosing of SARS-CoV-2 infection in clinical samples, which combines spectroscopic data acquisition and analysis via artificial intelligence algorithms. Our results show an accuracy of 85% for detection of SARS-CoV-2 in nasopharyngeal swab samples collected from asymptomatic patients or with mild symptoms, as well as an accuracy of 97% in tracheal aspirate samples collected from critically ill COVID-19 patients under mechanical ventilation. Moreover, the acquisition and processing of the information is fast, simple, and cheaper than traditional approaches, suggesting this methodology as a promising tool for biomedical diagnosis vis-à-vis the emerging and re-emerging viral SARS-CoV-2 variant threats in the future.
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Affiliation(s)
- Denny M. Ceccon
- Departamento de Física, Universidade Federal de Minas Gerais, Avenida Antônio Carlos, Campus Pampulha 31270-901, Belo Horizonte, Minas Gerais 6627 Brazil
| | - Paulo Henrique R. Amaral
- Departamento de Física, Universidade Federal de Minas Gerais, Avenida Antônio Carlos, Campus Pampulha 31270-901, Belo Horizonte, Minas Gerais 6627 Brazil
| | - Lídia M. Andrade
- Departamento de Física, Universidade Federal de Minas Gerais, Avenida Antônio Carlos, Campus Pampulha 31270-901, Belo Horizonte, Minas Gerais 6627 Brazil
| | - Maria I. N. da Silva
- Departamento de Física, Universidade Federal de Minas Gerais, Avenida Antônio Carlos, Campus Pampulha 31270-901, Belo Horizonte, Minas Gerais 6627 Brazil
| | - Luis A. F. Andrade
- Centro de Tecnologia Em Vacinas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Thais F. S. Moraes
- Laboratório de Virologia Básica E Aplicada, Departamento de Microbiologia, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Flavia F. Bagno
- Centro de Tecnologia Em Vacinas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Raissa P. Rocha
- Centro de Tecnologia Em Vacinas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | | | - Geovane Marques Ferreira
- Laboratório de Virologia Básica E Aplicada, Departamento de Microbiologia, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Alice Aparecida Lourenço
- Laboratório de Virologia Básica E Aplicada, Departamento de Microbiologia, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Ágata Lopes Ribeiro
- Laboratório de Virologia Básica E Aplicada, Departamento de Microbiologia, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Jordana G. A. Coelho-dos-Reis
- Laboratório de Virologia Básica E Aplicada, Departamento de Microbiologia, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Flavio G. da Fonseca
- Centro de Tecnologia Em Vacinas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil ,Laboratório de Virologia Básica E Aplicada, Departamento de Microbiologia, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - J. C. Gonzalez
- Departamento de Física, Universidade Federal de Minas Gerais, Avenida Antônio Carlos, Campus Pampulha 31270-901, Belo Horizonte, Minas Gerais 6627 Brazil
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17
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Wu Y, Liu Z, Mao S, Liu B, Tong Z. Identify the Virus-like Models for COVID-19 as Bio-Threats: Combining Phage Display, Spectral Detection and Algorithms Analysis. Int J Mol Sci 2023; 24:ijms24043209. [PMID: 36834622 PMCID: PMC9967019 DOI: 10.3390/ijms24043209] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2022] [Revised: 01/31/2023] [Accepted: 02/02/2023] [Indexed: 02/10/2023] Open
Abstract
The rapid identification and recognition of COVID-19 have been challenging since its outbreak. Multiple methods were developed to realize fast monitoring early to prevent and control the pandemic. In addition, it is difficult and unrealistic to apply the actual virus to study and research because of the highly infectious and pathogenic SARS-CoV-2. In this study, the virus-like models were designed and produced to replace the original virus as bio-threats. Three-dimensional excitation-emission matrix fluorescence and Raman spectroscopy were employed for differentiation and recognition among the produced bio-threats and other viruses, proteins, and bacteria. Combined with PCA and LDA analysis, the identification of the models for SARS-CoV-2 was achieved, reaching a correction of 88.9% and 96.3% after cross-validation, respectively. This idea might provide a possible pattern for detecting and controlling SARS-CoV-2 from the perspective of combining optics and algorithms, which could be applied in the early-warning system against COVID-19 or other bio-threats in the future.
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Affiliation(s)
- Yuting Wu
- State Key Laboratory of NBC Protection for Civilian, Beijing 102205, China
| | - Zhiwei Liu
- State Key Laboratory of NBC Protection for Civilian, Beijing 102205, China
| | - Sihan Mao
- School of Chemistry and Chemical Engineering, Nanjing University of Science and Technology, Nanjing 210094, China
| | - Bing Liu
- State Key Laboratory of NBC Protection for Civilian, Beijing 102205, China
| | - Zhaoyang Tong
- State Key Laboratory of NBC Protection for Civilian, Beijing 102205, China
- Correspondence:
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18
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Mantri D, Wymenga L, van Turnhout J, van Zeijl H, Zhang G. Manipulation, Sampling and Inactivation of the SARS-CoV-2 Virus Using Nonuniform Electric Fields on Micro-Fabricated Platforms: A Review. MICROMACHINES 2023; 14:345. [PMID: 36838044 PMCID: PMC9967285 DOI: 10.3390/mi14020345] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/22/2022] [Revised: 01/21/2023] [Accepted: 01/21/2023] [Indexed: 06/18/2023]
Abstract
Micro-devices that use electric fields to trap, analyze and inactivate micro-organisms vary in concept, design and application. The application of electric fields to manipulate and inactivate bacteria and single-celled organisms has been described extensively in the literature. By contrast, the effect of such fields on viruses is not well understood. This review explores the possibility of using existing methods for manipulating and inactivating larger viruses and bacteria, for smaller viruses, such as SARS-CoV-2. It also provides an overview of the theoretical background. The findings may be used to implement new ideas and frame experimental parameters that optimize the manipulation, sampling and inactivation of SARS-CoV-2 electrically.
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Affiliation(s)
- Devashish Mantri
- Department Biomedical Engineering, Delft University of Technology, 2628 CD Delft, The Netherlands
| | - Luutzen Wymenga
- Department Microelectronics, Delft University of Technology, 2628 CD Delft, The Netherlands
| | - Jan van Turnhout
- Department Material Science Engineering, Delft University of Technology, 2628 CD Delft, The Netherlands
| | - Henk van Zeijl
- Department Microelectronics, Delft University of Technology, 2628 CD Delft, The Netherlands
| | - Guoqi Zhang
- Department Microelectronics, Delft University of Technology, 2628 CD Delft, The Netherlands
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19
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Khalid A, Yi W, Yoo S, Abbas S, Si J, Hou X, Hou J. Single-chirality of single-walled carbon nanotubes (SWCNTs) through chromatography and its potential biological applications. NEW J CHEM 2023. [DOI: 10.1039/d2nj04056e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
Gel chromatography is used to separate single-chirality and selective-diameter SWCNTs. We also explore the use of photothermal therapy and biosensor applications based on single-chirality, selected-diameter, and unique geometric shape.
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Affiliation(s)
- Asif Khalid
- Key Laboratory for Information Photonic Technology of Shaanxi & Key Laboratory for Physical Electronics and Devices of the Ministry of Education, School of Electronics Science and Engineering, Faculty of Electronics and Information Engineering, Xi’an Jiaotong University, Xi’an, Shaanxi, 710049, China
| | - Wenhui Yi
- Key Laboratory for Information Photonic Technology of Shaanxi & Key Laboratory for Physical Electronics and Devices of the Ministry of Education, School of Electronics Science and Engineering, Faculty of Electronics and Information Engineering, Xi’an Jiaotong University, Xi’an, Shaanxi, 710049, China
| | - Sweejiang Yoo
- Key Laboratory for Information Photonic Technology of Shaanxi & Key Laboratory for Physical Electronics and Devices of the Ministry of Education, School of Electronics Science and Engineering, Faculty of Electronics and Information Engineering, Xi’an Jiaotong University, Xi’an, Shaanxi, 710049, China
| | - Shakeel Abbas
- Key Laboratory for Information Photonic Technology of Shaanxi & Key Laboratory for Physical Electronics and Devices of the Ministry of Education, School of Electronics Science and Engineering, Faculty of Electronics and Information Engineering, Xi’an Jiaotong University, Xi’an, Shaanxi, 710049, China
| | - Jinhai Si
- Key Laboratory for Information Photonic Technology of Shaanxi & Key Laboratory for Physical Electronics and Devices of the Ministry of Education, School of Electronics Science and Engineering, Faculty of Electronics and Information Engineering, Xi’an Jiaotong University, Xi’an, Shaanxi, 710049, China
| | - Xun Hou
- Key Laboratory for Information Photonic Technology of Shaanxi & Key Laboratory for Physical Electronics and Devices of the Ministry of Education, School of Electronics Science and Engineering, Faculty of Electronics and Information Engineering, Xi’an Jiaotong University, Xi’an, Shaanxi, 710049, China
| | - Jin Hou
- Department of Pharmacology, School of Basic Medical Science, Xi’an Medical University, Xi’an, Shaanxi, 710021, China
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20
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Cai G, Yang J, Wang L, Chen C, Cai C, Gong H. A point-to-point "cap" strategy to construct a highly selective dual-function molecularly-imprinted sensor for the simultaneous detection of HAV and HBV. Biosens Bioelectron 2023; 219:114794. [PMID: 36279822 DOI: 10.1016/j.bios.2022.114794] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2022] [Revised: 10/02/2022] [Accepted: 10/07/2022] [Indexed: 11/19/2022]
Abstract
As an artificial biomimetic receptor, molecularly-imprinted polymer (MIP) has been widely used for the separation, enrichment and detection of various substances. However, due to the complexity of virus structure, huge volume and the existence of highly similar viruses, MIP shows unsatisfactory selectivity in virus detection. To overcome these issues, two kinds of virus nanoMIPs, just like a "cap", were synthesized by a solid-phase imprinting nanogel technique. The "cap" had no inner core and was much smaller than that of a conventional MIP, which was more favorable for mass transfer. Moreover, each "cap" could only combine with one target virus, which avoided the interference between large-volume virus molecules effectively. The two synthesized "caps" were mixed to construct a bifunctional MIP virus sensor for the simultaneous detection of Hepatitis A virus (HAV) and Hepatitis B virus (HBV). As expected, the selectivity factor (SF) for HBV detection reached 13.7, which was much higher than the reported virus MIP sensors (SF: 3-6), which was comparable to that of small molecular imprinting sensors. In addition, the high sensitivity toward HBV was 34.3 fM, and that of HAV was 27.1 pM. This method provides an idea for preparing high-selectivity biomacro-MIPs, as well as a method for the simultaneous detection of similar viruses with high sensitivity and selectivity. The recovery experiment of spiked serum showed that this method also has great practical application prospects.
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Affiliation(s)
- Ganping Cai
- Key Laboratory for Green Organic Synthesis and Application of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry and Application of Ministry of Education, College of Chemistry, Xiangtan University, Xiangtan, 411105, China
| | - Junyu Yang
- Key Laboratory for Green Organic Synthesis and Application of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry and Application of Ministry of Education, College of Chemistry, Xiangtan University, Xiangtan, 411105, China
| | - Lingyun Wang
- Key Laboratory for Green Organic Synthesis and Application of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry and Application of Ministry of Education, College of Chemistry, Xiangtan University, Xiangtan, 411105, China; School of Materials Science and Engineering, Hunan Institute of Technology, Hengyang, 421002, China
| | - Chunyan Chen
- Key Laboratory for Green Organic Synthesis and Application of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry and Application of Ministry of Education, College of Chemistry, Xiangtan University, Xiangtan, 411105, China
| | - Changqun Cai
- Key Laboratory for Green Organic Synthesis and Application of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry and Application of Ministry of Education, College of Chemistry, Xiangtan University, Xiangtan, 411105, China.
| | - Hang Gong
- Key Laboratory for Green Organic Synthesis and Application of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry and Application of Ministry of Education, College of Chemistry, Xiangtan University, Xiangtan, 411105, China.
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21
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Adeel M, Asif K, Alshabouna F, Canzonieri V, Rahman MM, Ansari SA, Güder F, Rizzolio F, Daniele S. Label-free electrochemical aptasensor for the detection of SARS-CoV-2 spike protein based on carbon cloth sputtered gold nanoparticles. BIOSENSORS & BIOELECTRONICS: X 2022; 12:100256. [PMID: 36187906 PMCID: PMC9508700 DOI: 10.1016/j.biosx.2022.100256] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/16/2022] [Revised: 09/05/2022] [Accepted: 09/17/2022] [Indexed: 06/16/2023]
Abstract
The proliferation and transmission of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), or the (COVID-19) disease, has become a threat to worldwide biosecurity. Therefore, early diagnosis of COVID-19 is crucial to combat the ongoing infection spread. In this study we propose a flexible aptamer-based electrochemical sensor for the rapid, label-free detection of SARS-CoV-2 spike protein (SP). A platform made of a porous and flexible carbon cloth, coated with gold nanoparticles, to increase the conductivity and electrochemical performance of the material, was assembled with a thiol functionalized DNA aptamer via S-Au bonds, for the selective recognition of the SARS-CoV-2 SP. The various steps for the sensor preparation were followed by using scanning electron microscopy, cyclic voltammetry and differential pulse voltammetry (DPV). The proposed platform displayed good mechanical stability, revealing negligible changes on voltammetric responses to bending at various angles. Quantification of SARS-CoV-2 SP was performed by DPV and chronopotentiometry (CP), exploiting the changes of the electrical signals due the [Fe(CN)6]3-/4- redox probe, when SARS-CoV-2 SP binds to the aptamer immobilized on the electrode surface. Current density, in DPV, and square root of the transition time, in CP, varied linearly with the log[ SARS-CoV-2 SP], providing lower limits of detection (LOD) of 0.11 ng/mL and 37.8 ng/mL, respectively. The sensor displayed good selectivity, repeatability, and was tested in diluted human saliva, spiked with different SARS-CoV-2 SP concentrations, providing LODs of 0.167 ng/mL and 46.2 ng/mL for DPV and CP, respectively.
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Affiliation(s)
- Muhammad Adeel
- Department of Molecular Sciences and Nanosystems, Ca'Foscari University of Venice, 30123, Venezia, Italy
- Pathology Unit, Centro di Riferimento Oncologico di Aviano (CRO) IRCCS, 33081, Aviano, Italy
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK
| | - Kanwal Asif
- Department of Molecular Sciences and Nanosystems, Ca'Foscari University of Venice, 30123, Venezia, Italy
- Pathology Unit, Centro di Riferimento Oncologico di Aviano (CRO) IRCCS, 33081, Aviano, Italy
| | - Fahad Alshabouna
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK
- Center of Excellence for Advanced Materials and Manufacturing, King Abdulaziz City for Science and Technology, 11442, Riyadh, Saudi Arabia
| | - Vincenzo Canzonieri
- Pathology Unit, Centro di Riferimento Oncologico di Aviano (CRO) IRCCS, 33081, Aviano, Italy
- Department of Medical, Surgical and Health Sciences, University of Trieste, 34127, Trieste, Italy
| | - Md Mahbubur Rahman
- Department of Applied Chemistry, Konkuk University, Chungju, 27478, South Korea
| | - Sajid Ali Ansari
- Department of Physics, College of Science, King Faisal University, P. O. Box 400, Hofuf, Al-Ahsa, 31982, Saudi Arabia
| | - Firat Güder
- Department of Bioengineering, Imperial College London, London, SW7 2AZ, UK
| | - Flavio Rizzolio
- Department of Molecular Sciences and Nanosystems, Ca'Foscari University of Venice, 30123, Venezia, Italy
- Pathology Unit, Centro di Riferimento Oncologico di Aviano (CRO) IRCCS, 33081, Aviano, Italy
| | - Salvatore Daniele
- Department of Molecular Sciences and Nanosystems, Ca'Foscari University of Venice, 30123, Venezia, Italy
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22
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Contributions of vibrational spectroscopy to virology: A review. CLINICAL SPECTROSCOPY 2022; 4:100022. [PMCID: PMC9093054 DOI: 10.1016/j.clispe.2022.100022] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2022] [Revised: 04/30/2022] [Accepted: 05/04/2022] [Indexed: 06/17/2023]
Abstract
Vibrational spectroscopic techniques, both infrared absorption and Raman scattering, are high precision, label free analytical techniques which have found applications in fields as diverse as analytical chemistry, pharmacology, forensics and archeometrics and, in recent times, have attracted increasing attention for biomedical applications. As analytical techniques, they have been applied to the characterisation of viruses as early as the 1970 s, and, in the context of the coronavirus disease 2019 (COVID-19) pandemic, have been explored in response to the World Health Organisation as novel methodologies to aid in the global efforts to implement and improve rapid screening of viral infection. This review considers the history of the application of vibrational spectroscopic techniques to the characterisation of the morphology and chemical compositions of viruses, their attachment to, uptake by and replication in cells, and their potential for the detection of viruses in population screening, and in infection response monitoring applications. Particular consideration is devoted to recent efforts in the detection of severe acute respiratory syndrome coronavirus 2, and monitoring COVID-19.
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23
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Xu M, Li Y, Lin C, Peng Y, Zhao S, Yang X, Yang Y. Recent Advances of Representative Optical Biosensors for Rapid and Sensitive Diagnostics of SARS-CoV-2. BIOSENSORS 2022; 12:bios12100862. [PMID: 36291001 PMCID: PMC9599922 DOI: 10.3390/bios12100862] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2022] [Revised: 10/01/2022] [Accepted: 10/01/2022] [Indexed: 05/04/2023]
Abstract
The outbreak of Corona Virus Disease 2019 (COVID-19) has again emphasized the significance of developing rapid and highly sensitive testing tools for quickly identifying infected patients. Although the current reverse transcription polymerase chain reaction (RT-PCR) diagnostic techniques can satisfy the required sensitivity and specificity, the inherent disadvantages with time-consuming, sophisticated equipment and professional operators limit its application scopes. Compared with traditional detection techniques, optical biosensors based on nanomaterials/nanostructures have received much interest in the detection of SARS-CoV-2 due to the high sensitivity, high accuracy, and fast response. In this review, the research progress on optical biosensors in SARS-CoV-2 diagnosis, including fluorescence biosensors, colorimetric biosensors, Surface Enhancement Raman Scattering (SERS) biosensors, and Surface Plasmon Resonance (SPR) biosensors, was comprehensively summarized. Further, promising strategies to improve optical biosensors are also explained. Optical biosensors can not only realize the rapid detection of SARS-CoV-2 but also be applied to judge the infectiousness of the virus and guide the choice of SARS-CoV-2 vaccines, showing enormous potential to become point-of-care detection tools for the timely control of the pandemic.
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Affiliation(s)
- Meimei Xu
- State Key Laboratory of High-Performance Ceramics and Superfine Microstructures, Shanghai Institute of Ceramics, Chinese Academy of Sciences, 1295 Dingxi Road, Shanghai 200050, China
- Graduate School of the Chinese Academy of Sciences, No.19(A) Yuquan Road, Beijing 100049, China
- Center of Materials Science and Optoelectronics Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yanyan Li
- State Key Laboratory of High-Performance Ceramics and Superfine Microstructures, Shanghai Institute of Ceramics, Chinese Academy of Sciences, 1295 Dingxi Road, Shanghai 200050, China
- Graduate School of the Chinese Academy of Sciences, No.19(A) Yuquan Road, Beijing 100049, China
- Center of Materials Science and Optoelectronics Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Chenglong Lin
- State Key Laboratory of High-Performance Ceramics and Superfine Microstructures, Shanghai Institute of Ceramics, Chinese Academy of Sciences, 1295 Dingxi Road, Shanghai 200050, China
- Graduate School of the Chinese Academy of Sciences, No.19(A) Yuquan Road, Beijing 100049, China
- Center of Materials Science and Optoelectronics Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yusi Peng
- State Key Laboratory of High-Performance Ceramics and Superfine Microstructures, Shanghai Institute of Ceramics, Chinese Academy of Sciences, 1295 Dingxi Road, Shanghai 200050, China
- Center of Materials Science and Optoelectronics Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Shuai Zhao
- State Key Laboratory of High-Performance Ceramics and Superfine Microstructures, Shanghai Institute of Ceramics, Chinese Academy of Sciences, 1295 Dingxi Road, Shanghai 200050, China
- Graduate School of the Chinese Academy of Sciences, No.19(A) Yuquan Road, Beijing 100049, China
- Center of Materials Science and Optoelectronics Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xiao Yang
- State Key Laboratory of High-Performance Ceramics and Superfine Microstructures, Shanghai Institute of Ceramics, Chinese Academy of Sciences, 1295 Dingxi Road, Shanghai 200050, China
- Center of Materials Science and Optoelectronics Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Yong Yang
- State Key Laboratory of High-Performance Ceramics and Superfine Microstructures, Shanghai Institute of Ceramics, Chinese Academy of Sciences, 1295 Dingxi Road, Shanghai 200050, China
- Center of Materials Science and Optoelectronics Engineering, University of Chinese Academy of Sciences, Beijing 100049, China
- Correspondence:
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24
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Merchant SA, Nadkarni P, Shaikh MJS. Augmentation of literature review of COVID-19 radiology. World J Radiol 2022; 14:342-351. [PMID: 36186515 PMCID: PMC9521431 DOI: 10.4329/wjr.v14.i9.342] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 12/14/2021] [Revised: 03/26/2022] [Accepted: 08/21/2022] [Indexed: 02/08/2023] Open
Abstract
We suggest an augmentation of the excellent comprehensive review article titled “Comprehensive literature review on the radiographic findings, imaging modalities, and the role of radiology in the coronavirus disease 2019 (COVID-19) pandemic” under the following categories: (1) “Inclusion of additional radiological features, related to pulmonary infarcts and to COVID-19 pneumonia”; (2) “Amplified discussion of cardiovascular COVID-19 manifestations and the role of cardiac magnetic resonance imaging in monitoring and prognosis”; (3) “Imaging findings related to fluorodeoxyglucose positron emission tomography, optical, thermal and other imaging modalities/devices, including ‘intelligent edge’ and other remote monitoring devices”; (4) “Artificial intelligence in COVID-19 imaging”; (5) “Additional annotations to the radiological images in the manuscript to illustrate the additional signs discussed”; and (6) “A minor correction to a passage on pulmonary destruction”.
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Affiliation(s)
| | - Prakash Nadkarni
- College of Nursing, University of Iowa, Iowa City, IA 52242, United States
| | - Mohd Javed Saifullah Shaikh
- Department of Radiology, North Bengal Neuro Centre - Jupiter MRI & Diagnostic Centre, Siliguri 734003, West Bengal, India
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25
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Spectroscopic methods for COVID-19 detection and early diagnosis. Virol J 2022; 19:152. [PMID: 36138463 PMCID: PMC9502632 DOI: 10.1186/s12985-022-01867-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2022] [Accepted: 08/16/2022] [Indexed: 11/10/2022] Open
Abstract
The coronavirus pandemic is a worldwide hazard that poses a threat to millions of individuals throughout the world. This pandemic is caused by the severe acute respiratory syndrome-coronavirus 2 (SARS-CoV-2), which was initially identified in Wuhan, China's Hubei provincial capital, and has since spread throughout the world. According to the World Health Organization's Weekly Epidemiological Update, there were more than 250 million documented cases of coronavirus infections globally, with five million fatalities. Early detection of coronavirus does not only reduce the spread of the virus, but it also increases the chance of curing the infection. Spectroscopic techniques have been widely used in the early detection and diagnosis of COVID-19 using Raman, Infrared, mass spectrometry and fluorescence spectroscopy. In this review, the reported spectroscopic methods for COVID-19 detection were discussed with emphasis on the practical aspects, limitations and applications.
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26
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Vicentini FC, Silva LRG, Stefano JS, Lima ARF, Prakash J, Bonacin JA, Janegitz BC. Starch-Based Electrochemical Sensors and Biosensors: A Review. BIOMEDICAL MATERIALS & DEVICES 2022. [PMCID: PMC9510496 DOI: 10.1007/s44174-022-00012-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Abstract
Natural green compounds for sensor modification (binders) are challenging in electrochemistry. Starch is a carbohydrate biopolymer that has been used extensively in the development of biomaterials for the food industry due to its ability to impart textural characteristics and provide gelling or film formation. In particular, the excellent film-forming characteristics have been used for the development of new surface modifying architectures for electrodes. Here, we highlight a very comprehensive overview of the properties of interest of various types of starch in conjunction with (bio)materials in the chemical modification of sensors and biosensors. Throughout the review, we first give an introduction to the extraction, applications, and properties of starches followed by an overview of the prospects and their possible applications in electrochemical sensors and biosensors. In this context, we discuss some important characteristics of starches and different strategies of their film formation with an emphasis on their role in the development of electrochemical sensors and biosensors highlighting their main contributions to enhancing the performance of these devices and their applications in environmental and clinical samples.
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Affiliation(s)
- Fernando C. Vicentini
- Center of Nature Sciences, Federal University of São Carlos, Rod. Lauri Simões de Barros km 12, Buri, SP 18290-000 Brazil
| | - Luiz R. G. Silva
- Laboratory of Sensors, Nanomedicine, and Nanostructured Materials (LSNano), Federal University of São Carlos, Araras, São Paulo 13600-970 Brazil
| | - Jéssica S. Stefano
- Laboratory of Sensors, Nanomedicine, and Nanostructured Materials (LSNano), Federal University of São Carlos, Araras, São Paulo 13600-970 Brazil
| | - Alan R. F. Lima
- Center of Nature Sciences, Federal University of São Carlos, Rod. Lauri Simões de Barros km 12, Buri, SP 18290-000 Brazil
| | - Jai Prakash
- Department of Chemistry, National Institute of Technology Hamirpur, Hamirpur, Himachal Pradesh 177005 India
| | - Juliano A. Bonacin
- Institute of Chemistry, University of Campinas (UNICAMP), Campinas, São Paulo 13083-859 Brazil
| | - Bruno C. Janegitz
- Laboratory of Sensors, Nanomedicine, and Nanostructured Materials (LSNano), Federal University of São Carlos, Araras, São Paulo 13600-970 Brazil
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27
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Huang J, Liang Z, Liu Y, Zhou J, He F. Development of an MSPQC Nucleic Acid Sensor Based on CRISPR/Cas9 for the Detection of Mycobacterium tuberculosis. Anal Chem 2022; 94:11409-11415. [PMID: 35930710 DOI: 10.1021/acs.analchem.2c02538] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Accurate and rapid detection of nucleic acid plays a vital role in the clinical treatment of tuberculosis caused by Mycobacterium tuberculosis (M.TB). However, false-negative and false-positive results caused by base mismatches could affect the detection accuracy. Inspired by the unique property of CRISPR/Cas9, we proposed a new MSPQC M.TB sensor based on the CRISPR/Cas9 system, which can distinguish single-base mismatches in 10 bases from the protospacer adjacent motif (PAM) region. In the proposed sensor, single-stranded DNA on Au interdigital electrodes was used as a capture probe for the target and an initiator for hybridization chain reaction (HCR). HCR was used to generate long double-stranded DNA (dsDNA), which could span the Au interdigital electrodes. CRISPR/Cas9 was used as recognition components to recognize capture/target dsDNA. When the target existed, the capture probe hybridized with the target to form dsDNA, which could be recognized and cut by CRISPR/Cas9. Thus, the DNA connection between electrodes was cut off and resulted in the MSPQC response. When no target existed, the capture probe remained single-stranded and could not be recognized and cut by CRISPR/Cas9. Therefore, DNA connection between electrodes was reserved. Moreover, silver staining technology was utilized to improve the sensitivity of detection. M.TB was detected by the proposed sensor using specific sequence fragments of 16S rRNA of M.TB as the target. The detection time was down to 2.3 h. The limit of detection (LOD) was 30 CFU/mL.
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Affiliation(s)
- Ji Huang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China
| | - Zi Liang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China
| | - Yu Liu
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China
| | - Jiandang Zhou
- Department of Clinical Laboratory, The Third Xiangya Hospital, Xiangya Medical College of Central South University, Changsha 410208, P. R. China
| | - Fengjiao He
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China
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Madurani KA, Suprapto, Yudha Syahputra M, Puspita I, Furqoni AH, Puspasari L, Rosyidah H, Hatta AM, Juniastuti, Lusida MI, Tominaga M, Kurniawan F. Fluorescence spectrophotometry for COVID-19 determination in clinical swab samples. ARAB J CHEM 2022; 15:104020. [PMID: 35664893 PMCID: PMC9150911 DOI: 10.1016/j.arabjc.2022.104020] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2022] [Accepted: 05/25/2022] [Indexed: 11/29/2022] Open
Abstract
Considering the limitations of the assays currently available for the detection of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and its emerging variants, a simple and rapid method using fluorescence spectrophotometry was developed to detect coronavirus disease 2019 (COVID-19). Forty clinical swab samples were collected from the nasopharyngeal and oropharyngeal cavities of COVID-19-positive and -negative. Each sample was divided into two parts. The first part of the samples was analyzed using reverse transcription-polymerase chain reaction (RT-qPCR) as the control method to identify COVID-19-positive and -negative samples. The second part of the samples was analyzed using fluorescence spectrophotometry. Fluorescence measurements were performed at excitation and emission wavelengths ranging from 200 to 800 nm. Twenty COVID-19-positive samples and twenty COVID-19-negative samples were detected based on RT-qPCR results. The fluorescence spectrum data indicated that the COVID-19-positive and -negative samples had significantly different characteristics. All positive samples could be distinguished from negative samples by fluorescence spectrophotometry. Principal component analysis showed that COVID-19-positive samples were clustered separately from COVID-19-negative samples. The specificity and accuracy of this experiment reached 100%. Limit of detection (LOD) obtained 42.20 copies/ml (Ct value of 33.65 cycles) for E gene and 63.60 copies/ml (Ct value of 31.36 cycles) for ORF1ab gene. This identification process only required 4 min. Thus, this technique offers an efficient and accurate method to identify an individual with active SARS-CoV-2 infection and can be easily adapted for the early investigation of COVID-19, in general.
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Affiliation(s)
- Kartika A Madurani
- Laboratory of Instrumentation and Analytical Science, Chemistry Department, Faculty of Science and Data Analytics, Institut Teknologi Sepuluh Nopember, Surabaya 60111, Indonesia
| | - Suprapto
- Laboratory of Instrumentation and Analytical Science, Chemistry Department, Faculty of Science and Data Analytics, Institut Teknologi Sepuluh Nopember, Surabaya 60111, Indonesia
| | - Muhammad Yudha Syahputra
- Laboratory of Instrumentation and Analytical Science, Chemistry Department, Faculty of Science and Data Analytics, Institut Teknologi Sepuluh Nopember, Surabaya 60111, Indonesia
| | - Ika Puspita
- Photonics Engineering Laboratory, Department of Engineering Physics, Faculty of Industrial Technology and Systems Engineering, Institut Teknologi Sepuluh Nopember, Surabaya 60111, Indonesia
| | - Abdul Hadi Furqoni
- Human Genetic Laboratory, Institute of Tropical Disease, Airlangga University, Surabaya 60115, Indonesia
| | - Listya Puspasari
- Laboratory of Instrumentation and Analytical Science, Chemistry Department, Faculty of Science and Data Analytics, Institut Teknologi Sepuluh Nopember, Surabaya 60111, Indonesia
| | - Hafildatur Rosyidah
- Laboratory of Instrumentation and Analytical Science, Chemistry Department, Faculty of Science and Data Analytics, Institut Teknologi Sepuluh Nopember, Surabaya 60111, Indonesia
| | - Agus Muhamad Hatta
- Photonics Engineering Laboratory, Department of Engineering Physics, Faculty of Industrial Technology and Systems Engineering, Institut Teknologi Sepuluh Nopember, Surabaya 60111, Indonesia
| | - Juniastuti
- Faculty of Medicine, Airlangga University, Surabaya 60131, Indonesia.,Institute of Tropical Disease, Airlangga University, Surabaya 60115, Indonesia
| | - Maria Inge Lusida
- Faculty of Medicine, Airlangga University, Surabaya 60131, Indonesia.,Institute of Tropical Disease, Airlangga University, Surabaya 60115, Indonesia
| | - Masato Tominaga
- Department of Chemistry and Applied Chemistry, Graduate School of Science and Engineering, Saga University, Saga 840-8502, Japan
| | - Fredy Kurniawan
- Laboratory of Instrumentation and Analytical Science, Chemistry Department, Faculty of Science and Data Analytics, Institut Teknologi Sepuluh Nopember, Surabaya 60111, Indonesia
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Asghar R, Rasheed M, ul Hassan J, Rafique M, Khan M, Deng Y. Advancements in Testing Strategies for COVID-19. BIOSENSORS 2022; 12:410. [PMID: 35735558 PMCID: PMC9220779 DOI: 10.3390/bios12060410] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/08/2022] [Revised: 06/06/2022] [Accepted: 06/07/2022] [Indexed: 12/15/2022]
Abstract
The SARS-CoV-2 coronavirus, also known as the disease-causing agent for COVID-19, is a virulent pathogen that may infect people and certain animals. The global spread of COVID-19 and its emerging variation necessitates the development of rapid, reliable, simple, and low-cost diagnostic tools. Many methodologies and devices have been developed for the highly sensitive, selective, cost-effective, and rapid diagnosis of COVID-19. This review organizes the diagnosis platforms into four groups: imaging, molecular-based detection, serological testing, and biosensors. Each platform's principle, advancement, utilization, and challenges for monitoring SARS-CoV-2 are discussed in detail. In addition, an overview of the impact of variants on detection, commercially available kits, and readout signal analysis has been presented. This review will expand our understanding of developing advanced diagnostic approaches to evolve into susceptible, precise, and reproducible technologies to combat any future outbreak.
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Affiliation(s)
- Rabia Asghar
- Beijing Key Laboratory for Separation and Analysis in Biomedicine and Pharmaceuticals, School of Life Sciences, Beijing Institute of Technology, Beijing 100081, China;
| | - Madiha Rasheed
- Beijing Key Laboratory for Separation and Analysis in Biomedicine and Pharmaceuticals, School of Life Sciences, Beijing Institute of Technology, Beijing 100081, China;
| | - Jalees ul Hassan
- Department of Wildlife and Ecology, Faculty of Fisheries and Wildlife, University of Veterinary and Animal Sciences-UVAS, Lahore 54000, Pakistan;
| | - Mohsin Rafique
- Beijing Academy of Quantum Information Sciences, Beijing 100193, China;
| | - Mashooq Khan
- Shandong Analysis and Test Center, Qilu University of Technology (Shandong Academy of Sciences), Jinan 250014, China;
| | - Yulin Deng
- Beijing Key Laboratory for Separation and Analysis in Biomedicine and Pharmaceuticals, School of Life Sciences, Beijing Institute of Technology, Beijing 100081, China;
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30
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Raypah ME, Faris AN, Mohd Azlan M, Yusof NY, Suhailin FH, Shueb RH, Ismail I, Mustafa FH. Near-Infrared Spectroscopy as a Potential COVID-19 Early Detection Method: A Review and Future Perspective. SENSORS 2022; 22:s22124391. [PMID: 35746172 PMCID: PMC9229781 DOI: 10.3390/s22124391] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/24/2022] [Revised: 05/16/2022] [Accepted: 05/23/2022] [Indexed: 02/05/2023]
Abstract
The coronavirus disease 2019 (COVID-19) pandemic is a worldwide health anxiety. The rapid dispersion of the infection globally results in unparalleled economic, social, and health impacts. The pathogen that causes COVID-19 is known as a severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). A fast and low-cost diagnosis method for COVID-19 disease can play an important role in controlling its proliferation. Near-infrared spectroscopy (NIRS) is a quick, non-destructive, non-invasive, and inexpensive technique for profiling the chemical and physical structures of a wide range of samples. Furthermore, the NIRS has the advantage of incorporating the internet of things (IoT) application for the effective control and treatment of the disease. In recent years, a significant advancement in instrumentation and spectral analysis methods has resulted in a remarkable impact on the NIRS applications, especially in the medical discipline. To date, NIRS has been applied as a technique for detecting various viruses including zika (ZIKV), chikungunya (CHIKV), influenza, hepatitis C, dengue (DENV), and human immunodeficiency (HIV). This review aims to outline some historical and contemporary applications of NIRS in virology and its merit as a novel diagnostic technique for SARS-CoV-2.
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Affiliation(s)
- Muna E. Raypah
- School of Physics, Universiti Sains Malaysia, George Town 11800, Pulau Pinang, Malaysia;
| | - Asma Nadia Faris
- Institute for Research in Molecular Medicine (INFORMM), Universiti Sains Malaysia Health Campus, Kubang Kerian 16150, Kelantan, Malaysia; (A.N.F.); (M.M.A.); (N.Y.Y.); (R.H.S.)
| | - Mawaddah Mohd Azlan
- Institute for Research in Molecular Medicine (INFORMM), Universiti Sains Malaysia Health Campus, Kubang Kerian 16150, Kelantan, Malaysia; (A.N.F.); (M.M.A.); (N.Y.Y.); (R.H.S.)
| | - Nik Yusnoraini Yusof
- Institute for Research in Molecular Medicine (INFORMM), Universiti Sains Malaysia Health Campus, Kubang Kerian 16150, Kelantan, Malaysia; (A.N.F.); (M.M.A.); (N.Y.Y.); (R.H.S.)
| | - Fariza Hanim Suhailin
- Department of Physics, Faculty of Science, Universiti Teknologi Malaysia, Skudai 81310, Johor, Malaysia;
| | - Rafidah Hanim Shueb
- Institute for Research in Molecular Medicine (INFORMM), Universiti Sains Malaysia Health Campus, Kubang Kerian 16150, Kelantan, Malaysia; (A.N.F.); (M.M.A.); (N.Y.Y.); (R.H.S.)
- Department of Medical Microbiology and Parasitology, School of Medical Sciences, Universiti Sains Malaysia, Health Campus, Kubang Kerian 16150, Kelantan, Malaysia
| | - Irneza Ismail
- Advanced Devices & System (ADS) Research Group, Department of Electrical & Electronic Engineering, Faculty of Engineering and Built Environment, Universiti Sains Islam Malaysia, Bandar Baru Nilai, Nilai 71800, Negeri Sembilan, Malaysia
- Correspondence: (I.I.); (F.H.M.); Tel.: +60-7986569 (I.I.); +60-9-7672432 (F.H.M.)
| | - Fatin Hamimi Mustafa
- Institute for Research in Molecular Medicine (INFORMM), Universiti Sains Malaysia Health Campus, Kubang Kerian 16150, Kelantan, Malaysia; (A.N.F.); (M.M.A.); (N.Y.Y.); (R.H.S.)
- Correspondence: (I.I.); (F.H.M.); Tel.: +60-7986569 (I.I.); +60-9-7672432 (F.H.M.)
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31
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Saito Y, Kawai K. Initial experimental multi-wavelength EEM (Excitation Emission Matrix) fluorescence lidar detection and classification of atmospheric pollen with potential applications toward real-time bioaerosols monitoring. OPTICS EXPRESS 2022; 30:19922-19929. [PMID: 36221755 DOI: 10.1364/oe.459350] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2022] [Accepted: 05/09/2022] [Indexed: 06/16/2023]
Abstract
Fluorescence has the potential to identify the types of substances associated with aerosols. To demonstrate its usefulness in environmental studies, we investigated the use of Excitation-Emission-Matrix (EEM) fluorescence in lidar bioaerosol monitoring. First, the EEM fluorescence of cedar, ragweed, and apple pollens as typical bioaerosols found around our surroundings were measured using a commercial fluorescence spectrometer. We found that the patterns of fluorescence changed depending on the pollen type and excitation wavelength and it meant that studying these EEM fluorescence patterns was a good parameter for identifying pollen types. Then, we setup a simple EEM fluorescence lidar to confirm the usefulness in lidar bioaerosol monitoring. The lidar consisted of three laser diodes and one light emitting diode with output at 520 nm, 445 nm, 405 nm and 325 nm, respectively, an ultra violet camera lens as a receiver, and a fluorescence spectrum detection unit. Comparing the lidar simulation results with the EEM fluorescence dataset supported the possibility of performing bioaerosol monitoring using the EEM fluorescence lidar. Based on the results and the current technology, a feasible design of a bioaerosol detection EEM fluorescence lidar is proposed for future rel-time remote sensing and mapping of atmospheric bioaerosols.
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Adeel M, Asif K, Canzonieri V, Barai HR, Rahman MM, Daniele S, Rizzolio F. Controlled, partially exfoliated, self-supported functionalized flexible graphitic carbon foil for ultrasensitive detection of SARS-CoV-2 spike protein. SENSORS AND ACTUATORS. B, CHEMICAL 2022; 359:131591. [PMID: 35221530 PMCID: PMC8860393 DOI: 10.1016/j.snb.2022.131591] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2021] [Revised: 02/11/2022] [Accepted: 02/15/2022] [Indexed: 05/20/2023]
Abstract
This paper reports on an ultrasensitive and label-free electrochemical immunosensor for monitoring the SARS-CoV-2 spike protein (SARS-CoV-2 SP). A self-supported electrode, which can simultaneously serve as an antibody immobilization matrix and electron transport channel, was initially fabricated by a controlled partial exfoliation of a flexible graphitic carbon foil (GCF). Mild acidic treatment enabled the partial oxidation and exfoliation (down to a few layers) of the flexible GCF; this also provided a high percentage of oxygen functionality and an enhanced surface roughness. The substrate electrode was further functionalized with ethylenediamine (EDA) to provide a suitable platform with even a higher surface roughness, for the covalent immobilization of an anti-SARS-CoV-2 antibody. The change in the current response for the [Fe(CN)6]3-/4- redox couple, induced by the binding of SARS-CoV-2 SP to the antibody immobilized on the electrode surface, was used to determine the SARS-CoV-2 SP concentration. The immunosensor thus prepared could detect SARS-CoV-2 SP within 30 min with high reproducibility and specificity over a wide concentration range (0.2-100 ng/mL). Detection limits of 25 pg/mL and 27 pg/mL were found in a phosphate buffer solution (pH 7.4), and diluted blood plasma, respectively. The immunosensor was also employed to detect SARS-CoV-2 SP in artificial human saliva.
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Affiliation(s)
- Muhammad Adeel
- Department of Molecular Sciences and Nanosystems, Ca'Foscari University of Venice, 30123 Venezia, Italy
- Pathology Unit, Centro di Riferimento Oncologico di Aviano (CRO) IRCCS, 33081 Aviano, Italy
| | - Kanwal Asif
- Department of Molecular Sciences and Nanosystems, Ca'Foscari University of Venice, 30123 Venezia, Italy
- Pathology Unit, Centro di Riferimento Oncologico di Aviano (CRO) IRCCS, 33081 Aviano, Italy
| | - Vincenzo Canzonieri
- Pathology Unit, Centro di Riferimento Oncologico di Aviano (CRO) IRCCS, 33081 Aviano, Italy
- Department of Medical, Surgical and Health Sciences, University of Trieste, 34127 Trieste, Italy
| | - Hasi Rani Barai
- Department of Mechanical Engineering, Yeungnam University, Gyeongsan 38541, South Korea
| | - Md Mahbubur Rahman
- Department of Applied Chemistry, Konkuk University, Chungju 27478, South Korea
| | - Salvatore Daniele
- Department of Molecular Sciences and Nanosystems, Ca'Foscari University of Venice, 30123 Venezia, Italy
| | - Flavio Rizzolio
- Department of Molecular Sciences and Nanosystems, Ca'Foscari University of Venice, 30123 Venezia, Italy
- Pathology Unit, Centro di Riferimento Oncologico di Aviano (CRO) IRCCS, 33081 Aviano, Italy
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Grzesiak J, Fellner L, Grünewald K, Kölbl C, Walter A, Horlacher R, Duschek F. Fluorescence signatures of SARS-CoV-2 spike S1 proteins and a human ACE-2: excitation-emission maps and fluorescence lifetimes. JOURNAL OF BIOMEDICAL OPTICS 2022; 27:050501. [PMID: 35643871 PMCID: PMC9142794 DOI: 10.1117/1.jbo.27.5.050501] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/20/2021] [Accepted: 04/12/2022] [Indexed: 06/15/2023]
Abstract
SIGNIFICANCE Fast and reliable detection of infectious SARS-CoV-2 virus loads is an important issue. Fluorescence spectroscopy is a sensitive tool to do so in clean environments. This presumes a comprehensive knowledge of fluorescence data. AIM We aim at providing fully featured information on wavelength and time-dependent data of the fluorescence of the SARS-CoV-2 spike protein S1 subunit, its receptor-binding domain (RBD), and the human angiotensin-converting enzyme 2, especially with respect to possible optical detection schemes. APPROACH Spectrally resolved excitation-emission maps of the involved proteins and measurements of fluorescence lifetimes were recorded for excitations from 220 to 295 nm. The fluorescence decay times were extracted by using a biexponential kinetic approach. The binding process in the SARS-CoV-2 RBD was likewise examined for spectroscopic changes. RESULTS Distinct spectral features for each protein are pointed out in relevant spectra extracted from the excitation-emission maps. We also identify minor spectroscopic changes under the binding process. The decay times in the biexponential model are found to be ( 2.0 ± 0.1 ) ns and ( 8.6 ± 1.4 ) ns. CONCLUSIONS Specific material data serve as an important background information for the design of optical detection and testing methods for SARS-CoV-2 loaded media.
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Affiliation(s)
- Jonas Grzesiak
- German Aerospace Center (DLR), Institute of Technical Physics, Hardthausen, Germany
| | - Lea Fellner
- German Aerospace Center (DLR), Institute of Technical Physics, Hardthausen, Germany
| | - Karin Grünewald
- German Aerospace Center (DLR), Institute of Technical Physics, Hardthausen, Germany
| | - Christoph Kölbl
- German Aerospace Center (DLR), Institute of Technical Physics, Hardthausen, Germany
| | - Arne Walter
- German Aerospace Center (DLR), Institute of Technical Physics, Hardthausen, Germany
| | | | - Frank Duschek
- German Aerospace Center (DLR), Institute of Technical Physics, Hardthausen, Germany
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Taha BA, Al-Jubouri Q, Al Mashhadany Y, Zan MSDB, Bakar AAA, Fadhel MM, Arsad N. Photonics enabled intelligence system to identify SARS-CoV 2 mutations. Appl Microbiol Biotechnol 2022; 106:3321-3336. [PMID: 35484414 PMCID: PMC9050350 DOI: 10.1007/s00253-022-11930-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2022] [Revised: 04/10/2022] [Accepted: 04/12/2022] [Indexed: 12/13/2022]
Abstract
Abstract The COVID-19, MERS-CoV, and SARS-CoV are hazardous epidemics that have resulted in many deaths which caused a worldwide debate. Despite control efforts, SARS-CoV-2 continues to spread, and the fast spread of this highly infectious illness has posed a grave threat to global health. The effect of the SARS-CoV-2 mutation, on the other hand, has been characterized by worrying variations that modify viral characteristics in response to the changing resistance profile of the human population. The repeated transmission of virus mutation indicates that epidemics are likely to occur. Therefore, an early identification system of ongoing mutations of SARS-CoV-2 will provide essential insights for planning and avoiding future outbreaks. This article discussed the following highlights: First, comparing the omicron mutation with other variants; second, analysis and evaluation of the spread rate of the SARS-CoV 2 variations in the countries; third, identification of mutation areas in spike protein; and fourth, it discussed the photonics approaches enabled with artificial intelligence. Therefore, our goal is to identify the SARS-CoV 2 virus directly without the need for sample preparation or molecular amplification procedures. Furthermore, by connecting through the optical network, the COVID-19 test becomes a component of the Internet of healthcare things to improve precision, service efficiency, and flexibility and provide greater availability for the evaluation of the general population. Key points • A proposed framework of photonics based on AI for identifying and sorting SARS-CoV 2 mutations. • Comparative scatter rates Omicron variant and other SARS-CoV 2 variations per country. • Evaluating mutation areas in spike protein and AI enabled by photonic technologies for SARS-CoV 2 virus detection.
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Affiliation(s)
- Bakr Ahmed Taha
- UKM-Department of Electrical, Electronic and Systems Engineering, Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, UKM Bangi, Malaysia
| | - Qussay Al-Jubouri
- Department of Communication Engineering, University of Technology, Baghdad, 00964, Iraq
| | - Yousif Al Mashhadany
- Department of Electrical Engineering, College of Engineering, University of Anbar, Anbar, 00964, Iraq
| | - Mohd Saiful Dzulkefly Bin Zan
- UKM-Department of Electrical, Electronic and Systems Engineering, Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, UKM Bangi, Malaysia
| | - Ahmad Ashrif A Bakar
- UKM-Department of Electrical, Electronic and Systems Engineering, Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, UKM Bangi, Malaysia
| | - Mahmoud Muhanad Fadhel
- UKM-Department of Electrical, Electronic and Systems Engineering, Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, UKM Bangi, Malaysia
| | - Norhana Arsad
- UKM-Department of Electrical, Electronic and Systems Engineering, Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, UKM Bangi, Malaysia.
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35
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Kamrunnahar QM, Haider F, Aoni RA, Mou JR, Shifa S, Begum F, Abdul-Rashid HA, Ahmed R. Plasmonic Micro-Channel Assisted Photonic Crystal Fiber Based Highly Sensitive Sensor for Multi-Analyte Detection. NANOMATERIALS 2022; 12:nano12091444. [PMID: 35564153 PMCID: PMC9099450 DOI: 10.3390/nano12091444] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/27/2022] [Revised: 04/19/2022] [Accepted: 04/19/2022] [Indexed: 12/02/2022]
Abstract
A dual-channel propagation controlled photonic crystal fiber (PCF)-based plasmonic sensor was presented to detect multiple analytes simultaneously. Plasmonic micro-channels were placed on the outer surface of the PCF, which facilitates an easy sensing mechanism. The sensor was numerically investigated by the finite element method (FEM) with the perfectly matched layer (PML) boundary conditions. The proposed sensor performances were analyzed based on optimized sensor parameters, such as confinement loss, resonance coupling, resolution, sensitivity, and figure of merit (FOM). The proposed sensor showed a maximum wavelength sensitivity (WS) of 25,000 nm/refractive index unit (RIU) with a maximum sensor resolution (SR) of 4.0 × 10−6 RIU for channel 2 (Ch-2), and WS of 3000 nm/RIU with SR of 3.33 × 10−5 RIU for channel 1 (Ch-1). To the best of our knowledge, the proposed sensor exhibits the highest WS compared with the previously reported multi-analyte based PCF surface plasmon resonance (SPR) sensors. The proposed sensor could detect the unknown analytes within the refractive index (RI) range of 1.32 to 1.39 in the visible to near infrared region (550 to 1300 nm). In addition, the proposed sensor offers the maximum Figure of Merit (FOM) of 150 and 500 RIU−1 with the limit of detection (LOD) of 1.11 × 10−8 RIU2/nm and 1.6 × 10−10 RIU2/nm for Ch-1 and Ch-2, respectively. Due to its highly sensitive nature, the proposed multi-analyte PCF SPR sensor could be a prominent candidate in the field of biosensing to detect biomolecule interactions and chemical sensing.
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Affiliation(s)
- Q. M. Kamrunnahar
- Department of Electronics & Telecommunication Engineering, Rajshahi University of Engineering & Technology, Rajshahi 6204, Bangladesh; (Q.M.K.); (J.R.M.)
| | - Firoz Haider
- Faculty of Engineering, Multimedia University, Cyberjaya 63100, Selangor, Malaysia;
| | - Rifat Ahmmed Aoni
- Integrated Photonics and Applications Centre, School of Engineering, RMIT University, Melbourne, VIC 3001, Australia
- Correspondence: (R.A.A.); (H.A.A.-R.); (R.A.)
| | - Jannatul Robaiat Mou
- Department of Electronics & Telecommunication Engineering, Rajshahi University of Engineering & Technology, Rajshahi 6204, Bangladesh; (Q.M.K.); (J.R.M.)
| | - Shamsuttiyeba Shifa
- Department of Biochemistry and Molecular Biology, University of Dhaka, Dhaka 1000, Bangladesh;
| | - Feroza Begum
- Faculty of Integrated Technologies, Universiti Brunei Darussalam, Gadong BE1410, Brunei;
| | - Hairul Azhar Abdul-Rashid
- Faculty of Engineering, Multimedia University, Cyberjaya 63100, Selangor, Malaysia;
- Correspondence: (R.A.A.); (H.A.A.-R.); (R.A.)
| | - Rajib Ahmed
- School of Medicine, Stanford University, Palo Alto, CA 94304, USA
- Correspondence: (R.A.A.); (H.A.A.-R.); (R.A.)
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Deng Y, Peng Y, Wang L, Wang M, Zhou T, Xiang L, Li J, Yang J, Li G. Target-triggered cascade signal amplification for sensitive electrochemical detection of SARS-CoV-2 with clinical application. Anal Chim Acta 2022; 1208:339846. [PMID: 35525596 PMCID: PMC9020774 DOI: 10.1016/j.aca.2022.339846] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2022] [Revised: 04/14/2022] [Accepted: 04/16/2022] [Indexed: 12/26/2022]
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37
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Amara U, Rashid S, Mahmood K, Nawaz MH, Hayat A, Hassan M. Insight into prognostics, diagnostics, and management strategies for SARS CoV-2. RSC Adv 2022; 12:8059-8094. [PMID: 35424750 PMCID: PMC8982343 DOI: 10.1039/d1ra07988c] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2021] [Accepted: 02/04/2022] [Indexed: 01/08/2023] Open
Abstract
The foremost challenge in countering infectious diseases is the shortage of effective therapeutics. The emergence of coronavirus disease (COVID-19) outbreak has posed a great menace to the public health system globally, prompting unprecedented endeavors to contain the virus. Many countries have organized research programs for therapeutics and management development. However, the longstanding process has forced authorities to implement widespread infrastructures for detailed prognostic and diagnostics study of severe acute respiratory syndrome (SARS CoV-2). This review discussed nearly all the globally developed diagnostic methodologies reported for SARS CoV-2 detection. We have highlighted in detail the approaches for evaluating COVID-19 biomarkers along with the most employed nucleic acid- and protein-based detection methodologies and the causes of their severe downfall and rejection. As the variable variants of SARS CoV-2 came into the picture, we captured the breadth of newly integrated digital sensing prototypes comprised of plasmonic and field-effect transistor-based sensors along with commercially available food and drug administration (FDA) approved detection kits. However, more efforts are required to exploit the available resources to manufacture cheap and robust diagnostic methodologies. Likewise, the visualization and characterization tools along with the current challenges associated with waste-water surveillance, food security, contact tracing, and their role during this intense period of the pandemic have also been discussed. We expect that the integrated data will be supportive and aid in the evaluation of sensing technologies not only in current but also future pandemics.
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Affiliation(s)
- Umay Amara
- Institute of Chemical Sciences, Bahauddin Zakariya University Multan 608000 Pakistan
- Interdisciplinary Research Centre in Biomedical Materials (IRCBM), COMSATS University Islamabad Lahore Campus 54000 Pakistan
| | - Sidra Rashid
- Interdisciplinary Research Centre in Biomedical Materials (IRCBM), COMSATS University Islamabad Lahore Campus 54000 Pakistan
| | - Khalid Mahmood
- Institute of Chemical Sciences, Bahauddin Zakariya University Multan 608000 Pakistan
| | - Mian Hasnain Nawaz
- Interdisciplinary Research Centre in Biomedical Materials (IRCBM), COMSATS University Islamabad Lahore Campus 54000 Pakistan
| | - Akhtar Hayat
- Interdisciplinary Research Centre in Biomedical Materials (IRCBM), COMSATS University Islamabad Lahore Campus 54000 Pakistan
| | - Maria Hassan
- Institute of Chemical Sciences, Bahauddin Zakariya University Multan 608000 Pakistan
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38
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Gomez-Gonzalez E, Barriga-Rivera A, Fernandez-Muñoz B, Navas-Garcia JM, Fernandez-Lizaranzu I, Munoz-Gonzalez FJ, Parrilla-Giraldez R, Requena-Lancharro D, Gil-Gamboa P, Rosell-Valle C, Gomez-Gonzalez C, Mayorga-Buiza MJ, Martin-Lopez M, Muñoz O, Gomez-Martin JC, Relimpio-Lopez MI, Aceituno-Castro J, Perales-Esteve MA, Puppo-Moreno A, Garcia-Cozar FJ, Olvera-Collantes L, Gomez-Diaz R, de Los Santos-Trigo S, Huguet-Carrasco M, Rey M, Gomez E, Sanchez-Pernaute R, Padillo-Ruiz J, Marquez-Rivas J. Optical imaging spectroscopy for rapid, primary screening of SARS-CoV-2: a proof of concept. Sci Rep 2022; 12:2356. [PMID: 35181702 PMCID: PMC8857323 DOI: 10.1038/s41598-022-06393-3] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2021] [Accepted: 01/28/2022] [Indexed: 12/24/2022] Open
Abstract
Effective testing is essential to control the coronavirus disease 2019 (COVID-19) transmission. Here we report a-proof-of-concept study on hyperspectral image analysis in the visible and near-infrared range for primary screening at the point-of-care of SARS-CoV-2. We apply spectral feature descriptors, partial least square-discriminant analysis, and artificial intelligence to extract information from optical diffuse reflectance measurements from 5 µL fluid samples at pixel, droplet, and patient levels. We discern preparations of engineered lentiviral particles pseudotyped with the spike protein of the SARS-CoV-2 from those with the G protein of the vesicular stomatitis virus in saline solution and artificial saliva. We report a quantitative analysis of 72 samples of nasopharyngeal exudate in a range of SARS-CoV-2 viral loads, and a descriptive study of another 32 fresh human saliva samples. Sensitivity for classification of exudates was 100% with peak specificity of 87.5% for discernment from PCR-negative but symptomatic cases. Proposed technology is reagent-free, fast, and scalable, and could substantially reduce the number of molecular tests currently required for COVID-19 mass screening strategies even in resource-limited settings.
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Affiliation(s)
- Emilio Gomez-Gonzalez
- Department of Applied Physics III, ETSI School of Engineering, Universidad de Sevilla, Camino de los Descubrimientos s/n, 41092, Sevilla, Spain. .,Institute of Biomedicine of Seville (IBIS), 41013, Sevilla, Spain.
| | - Alejandro Barriga-Rivera
- Department of Applied Physics III, ETSI School of Engineering, Universidad de Sevilla, Camino de los Descubrimientos s/n, 41092, Sevilla, Spain.,School of Biomedical Engineering, The University of Sydney, Sydney, NSW, 2006, Australia
| | - Beatriz Fernandez-Muñoz
- Unidad de Producción y Reprogramación Celular (UPRC), Red Andaluza de Diseño y Traslación de Terapias Avanzadas, Consejería de Salud y Familias, Junta de Andalucía, 41092, Sevilla, Spain
| | | | - Isabel Fernandez-Lizaranzu
- Department of Applied Physics III, ETSI School of Engineering, Universidad de Sevilla, Camino de los Descubrimientos s/n, 41092, Sevilla, Spain.,Institute of Biomedicine of Seville (IBIS), 41013, Sevilla, Spain
| | - Francisco Javier Munoz-Gonzalez
- Department of Applied Physics III, ETSI School of Engineering, Universidad de Sevilla, Camino de los Descubrimientos s/n, 41092, Sevilla, Spain
| | | | - Desiree Requena-Lancharro
- Department of Applied Physics III, ETSI School of Engineering, Universidad de Sevilla, Camino de los Descubrimientos s/n, 41092, Sevilla, Spain
| | - Pedro Gil-Gamboa
- Department of Applied Physics III, ETSI School of Engineering, Universidad de Sevilla, Camino de los Descubrimientos s/n, 41092, Sevilla, Spain
| | - Cristina Rosell-Valle
- Institute of Biomedicine of Seville (IBIS), 41013, Sevilla, Spain.,Unidad de Producción y Reprogramación Celular (UPRC), Red Andaluza de Diseño y Traslación de Terapias Avanzadas, Consejería de Salud y Familias, Junta de Andalucía, 41092, Sevilla, Spain
| | - Carmen Gomez-Gonzalez
- Service of Intensive Care, University Hospital 'Virgen del Rocio', 41013, Sevilla, Spain.,Department of Medicine, College of Medicine, Universidad de Sevilla, 41009, Seville, Spain
| | - Maria Jose Mayorga-Buiza
- Institute of Biomedicine of Seville (IBIS), 41013, Sevilla, Spain.,Service of Anesthesiology, University Hospital 'Virgen del Rocio', 41013, Sevilla, Spain.,Department of Surgery, College of Medicine, Universidad de Sevilla, 41009, Seville, Spain
| | - Maria Martin-Lopez
- Institute of Biomedicine of Seville (IBIS), 41013, Sevilla, Spain.,Unidad de Producción y Reprogramación Celular (UPRC), Red Andaluza de Diseño y Traslación de Terapias Avanzadas, Consejería de Salud y Familias, Junta de Andalucía, 41092, Sevilla, Spain
| | - Olga Muñoz
- Instituto de Astrofísica de Andalucía, CSIC, 18008, Granada, Spain
| | | | - Maria Isabel Relimpio-Lopez
- Department of Surgery, College of Medicine, Universidad de Sevilla, 41009, Seville, Spain.,Department of Ophthalmology, University Hospital 'Virgen Macarena', 41009, Sevilla, Spain.,OftaRed, Institute of Health 'Carlos III', 28029, Madrid, Spain
| | - Jesus Aceituno-Castro
- Instituto de Astrofísica de Andalucía, CSIC, 18008, Granada, Spain.,Centro Astronomico Hispano Alemán, 04550, Almeria, Spain
| | - Manuel A Perales-Esteve
- Department of Electronic Engineering, ETSI School of Engineering, Universidad de Sevilla, 41092, Sevilla, Spain
| | - Antonio Puppo-Moreno
- Service of Intensive Care, University Hospital 'Virgen del Rocio', 41013, Sevilla, Spain.,Department of Medicine, College of Medicine, Universidad de Sevilla, 41009, Seville, Spain
| | | | - Lucia Olvera-Collantes
- Instituto de Investigación e Innovación Biomedica de Cádiz (INIBICA), 11009, Cadiz, Spain
| | | | | | | | | | - Emilia Gomez
- Joint Research Centre, European Commission, 41092, Sevilla, Spain
| | - Rosario Sanchez-Pernaute
- Unidad de Producción y Reprogramación Celular (UPRC), Red Andaluza de Diseño y Traslación de Terapias Avanzadas, Consejería de Salud y Familias, Junta de Andalucía, 41092, Sevilla, Spain
| | - Javier Padillo-Ruiz
- Institute of Biomedicine of Seville (IBIS), 41013, Sevilla, Spain.,Department of Surgery, College of Medicine, Universidad de Sevilla, 41009, Seville, Spain.,Department of General Surgery, University Hospital 'Virgen del Rocío', 41013, Sevilla, Spain
| | - Javier Marquez-Rivas
- Institute of Biomedicine of Seville (IBIS), 41013, Sevilla, Spain.,Department of Surgery, College of Medicine, Universidad de Sevilla, 41009, Seville, Spain.,Service of Neurosurgery, University Hospital 'Virgen del Rocío', 41013, Sevilla, Spain.,Centre for Advanced Neurology, 41013, Sevilla, Spain
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39
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Ramanathan S, Gopinath SCB, Ismail ZH, Md Arshad MK, Poopalan P. Aptasensing nucleocapsid protein on nanodiamond assembled gold interdigitated electrodes for impedimetric SARS-CoV-2 infectious disease assessment. Biosens Bioelectron 2022; 197:113735. [PMID: 34736114 PMCID: PMC8550887 DOI: 10.1016/j.bios.2021.113735] [Citation(s) in RCA: 42] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2021] [Accepted: 10/25/2021] [Indexed: 12/11/2022]
Abstract
In an aim of developing portable biosensor for SARS-CoV-2 pandemic, which facilitates the point-of-care aptasensing, a strategy using 10 μm gap-sized gold interdigitated electrode (AuIDE) is presented. The silane-modified AuIDE surface was deposited with ∼20 nm diamond and enhanced the detection of SARS-CoV-2 nucleocapsid protein (NCP). The characteristics of chemically modified diamond were evidenced by structural analyses, revealing the cubic crystalline nature at (220) and (111) planes as observed by XRD. XPS analysis denotes a strong interaction of carbon element, composed ∼95% as seen in EDS analysis. The C-C, CC, CO, CN functional groups were well-refuted from XPS spectra of carbon and oxygen elements in diamond. The interrelation between elements through FTIR analysis indicates major intrinsic bondings at 2687-2031 cm-1. The aptasensing was evaluated through electrochemical impedance spectroscopy measurements, using NCP spiked human serum. With a good selectivity the lower detection limit was evidenced as 0.389 fM, at a linear detection range from 1 fM to 100 pM. The stability, and reusability of the aptasensor were demonstrated, showing ∼30% and ∼33% loss of active state, respectively, after ∼11 days. The detection of NCP was evaluated by comparing anti-NCP aptamer and antibody as the bioprobes. The determination coefficients of R2 = 0.9759 and R2 = 0.9772 were obtained for aptamer- and antibody-based sensing, respectively. Moreover, the genuine interaction of NCP aptamer and protein was validated by enzyme linked apta-sorbent assay. The aptasensing strategy proposed with AuIDE/diamond enhanced sensing platform is highly recommended for early diagnosis of SARS-CoV-2 infection.
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Affiliation(s)
- Santheraleka Ramanathan
- Institute of Nano Electronic Engineering, Universiti Malaysia Perlis (UniMAP), 01000, Kangar, Perlis, Malaysia
| | - Subash C B Gopinath
- Institute of Nano Electronic Engineering, Universiti Malaysia Perlis (UniMAP), 01000, Kangar, Perlis, Malaysia; Faculty of Chemical Engineering Technology, Universiti Malaysia Perlis (UniMAP), 02600, Arau, Perlis, Malaysia.
| | - Zool Hilmi Ismail
- Centre for Artificial Intelligence and Robotics, Universiti Teknologi Malaysia, Jalan Sultan Yahya Petra, 54100, Kuala Lumpur, Malaysia.
| | - M K Md Arshad
- Institute of Nano Electronic Engineering, Universiti Malaysia Perlis (UniMAP), 01000, Kangar, Perlis, Malaysia; Faculty of Electronic Engineering Technology, Universiti Malaysia Perlis (UniMAP), 02600, Arau, Pauh Putra, Perlis, Malaysia
| | - Prabakaran Poopalan
- Faculty of Electronic Engineering Technology, Universiti Malaysia Perlis (UniMAP), 02600, Arau, Pauh Putra, Perlis, Malaysia
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40
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Jang AS, Praveen Kumar PP, Lim DK. Attomolar Sensitive Magnetic Microparticles and a Surface-Enhanced Raman Scattering-Based Assay for Detecting SARS-CoV-2 Nucleic Acid Targets. ACS APPLIED MATERIALS & INTERFACES 2022; 14:138-149. [PMID: 34914369 PMCID: PMC8691452 DOI: 10.1021/acsami.1c17028] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/04/2021] [Accepted: 12/05/2021] [Indexed: 05/09/2023]
Abstract
Highly sensitive, reliable assays with strong multiplexing capability for detecting nucleic acid targets are significantly important for diagnosing various diseases, particularly severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The nanomaterial-based assay platforms suffer from several critical issues such as non-specific binding and highly false-positive results. In this paper, to overcome such limitations, we reported sensitive and remarkably reproducible magnetic microparticles (MMPs) and a surface-enhanced Raman scattering (SERS)-based assay using stable silver nanoparticle clusters for detecting viral nucleic acids. The MMP-SERS-based assay exhibited a sensitivity of 1.0 fM, which is superior to the MMP-fluorescence-based assay. In addition, in the presence of anisotropic Ag nanostructures (nanostars and triangular nanoplates), the assay exhibited greatly enhanced sensitivity (10 aM) and excellent signal reproducibility. This assay platform intrinsically eliminated the non-specific binding that occurs in the target detection step, and the controlled formation of stable silver nanoparticle clusters in solution enabled the remarkable reproducibility of the results. These findings indicate that this assay can be employed for future practical bioanalytical applications.
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Affiliation(s)
- Ah Seong Jang
- KU-KIST Graduate School of Converging Science and
Technology, Korea University, 145 Anam-ro, Seongbuk-gu, Seoul
02841, Republic of Korea
| | | | - Dong-Kwon Lim
- KU-KIST Graduate School of Converging Science and
Technology, Korea University, 145 Anam-ro, Seongbuk-gu, Seoul
02841, Republic of Korea
- Department of Integrative Energy Engineering, College
of Engineering, Korea University, 145 Anam-ro, Seongbuk-gu,
Seoul 02841, Republic of Korea
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41
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Ramoji A, Pahlow S, Pistiki A, Rueger J, Shaik TA, Shen H, Wichmann C, Krafft C, Popp J. Understanding Viruses and Viral Infections by Biophotonic Methods. TRANSLATIONAL BIOPHOTONICS 2022. [DOI: 10.1002/tbio.202100008] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Affiliation(s)
- Anuradha Ramoji
- Institute of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University, Helmholtzweg 4 Jena Germany
- Leibniz Institute of Photonic Technology Jena (a member of Leibniz Health Technologies) , Albert‐Einstein Str. 9 Jena Germany
- Center for Sepsis Control and Care Jena University Hospital, Am Klinikum 1, 07747 Jena Germany
| | - Susanne Pahlow
- Institute of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University, Helmholtzweg 4 Jena Germany
- Leibniz Institute of Photonic Technology Jena (a member of Leibniz Health Technologies) , Albert‐Einstein Str. 9 Jena Germany
- InfectoGnostics Research Campus Jena, Philosophenweg 7, 07743 Jena Germany
| | - Aikaterini Pistiki
- Institute of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University, Helmholtzweg 4 Jena Germany
- Leibniz Institute of Photonic Technology Jena (a member of Leibniz Health Technologies) , Albert‐Einstein Str. 9 Jena Germany
| | - Jan Rueger
- Leibniz Institute of Photonic Technology Jena (a member of Leibniz Health Technologies) , Albert‐Einstein Str. 9 Jena Germany
| | - Tanveer Ahmed Shaik
- Leibniz Institute of Photonic Technology Jena (a member of Leibniz Health Technologies) , Albert‐Einstein Str. 9 Jena Germany
| | - Haodong Shen
- Institute of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University, Helmholtzweg 4 Jena Germany
- Leibniz Institute of Photonic Technology Jena (a member of Leibniz Health Technologies) , Albert‐Einstein Str. 9 Jena Germany
- InfectoGnostics Research Campus Jena, Philosophenweg 7, 07743 Jena Germany
| | - Christina Wichmann
- Institute of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University, Helmholtzweg 4 Jena Germany
- Leibniz Institute of Photonic Technology Jena (a member of Leibniz Health Technologies) , Albert‐Einstein Str. 9 Jena Germany
- InfectoGnostics Research Campus Jena, Philosophenweg 7, 07743 Jena Germany
| | - Christoph Krafft
- Leibniz Institute of Photonic Technology Jena (a member of Leibniz Health Technologies) , Albert‐Einstein Str. 9 Jena Germany
| | - Juergen Popp
- Institute of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University, Helmholtzweg 4 Jena Germany
- Leibniz Institute of Photonic Technology Jena (a member of Leibniz Health Technologies) , Albert‐Einstein Str. 9 Jena Germany
- Center for Sepsis Control and Care Jena University Hospital, Am Klinikum 1, 07747 Jena Germany
- InfectoGnostics Research Campus Jena, Philosophenweg 7, 07743 Jena Germany
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42
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Paulose AK, Huang C, Chen P, Tripathi A, Chen P, Huang Y, Wang Y. A Rapid Detection of COVID-19 Viral RNA in Human Saliva Using Electrical Double Layer-Gated Field-Effect Transistor-Based Biosensors. ADVANCED MATERIALS TECHNOLOGIES 2022; 7:2100842. [PMID: 34901383 PMCID: PMC8646907 DOI: 10.1002/admt.202100842] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/10/2021] [Revised: 08/11/2021] [Indexed: 05/15/2023]
Abstract
In light of the swift outspread and considerable mortality, coronavirus disease 2019 (COVID-19) necessitates a rapid screening tool and a precise diagnosis. Saliva is considered as an alternative specimen to detect the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) since the viral load is comparable to what are found in a throat and a nasal cavity. The electrical double layer (EDL)-gated field-effect transistor-based biosensor (BioFET) emerges as a promising candidate for salivary COVID-19 tests due to a high sensitivity, a portable configuration, a label-free operation, and a matrix insensitivity. In this work, the authors utilize EDL-gated BioFETs to detect complementary DNAs (cDNAs) and viral RNAs with various testing conditions such as switches of probes, temperature treatments, and matrices. The selectivity is confirmed with cDNA and noncomplementary DNA (ncDNA), exhibiting an eightfold difference in electrical signals. The matrix insensitivity is evaluated, and BioFETs successfully validate the detection of SARS-CoV-2 N-gene RNA down to 1 fm in diluted human saliva with a 95°C- and a 25°C-treatment, respectively. This proposed system has a high potential to be deployed for an on-site COVID-19 screening, improving the disease control and benefitting frontline healthcare system.
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Affiliation(s)
- Akhil K. Paulose
- Institute of Nanoengineering and MicrosystemsNational Tsing Hua UniversityHsinchu30013Taiwan
| | - Chih‐Cheng Huang
- Institute of Nanoengineering and MicrosystemsNational Tsing Hua UniversityHsinchu30013Taiwan
| | - Po‐Hsuan Chen
- Institute of Nanoengineering and MicrosystemsNational Tsing Hua UniversityHsinchu30013Taiwan
| | - Adarsh Tripathi
- Institute of Molecular MedicineNational Tsing Hua UniversityHsinchu30013Taiwan
| | - Pin‐Hsuan Chen
- Department of Power Mechanical EngineeringNational Tsing Hua UniversityHsinchu30013Taiwan
| | - Yu‐Shan Huang
- Institute of Nanoengineering and MicrosystemsNational Tsing Hua UniversityHsinchu30013Taiwan
| | - Yu‐Lin Wang
- Institute of Nanoengineering and MicrosystemsNational Tsing Hua UniversityHsinchu30013Taiwan
- Department of Power Mechanical EngineeringNational Tsing Hua UniversityHsinchu30013Taiwan
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43
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Kumar A, Kumar A, Srivastava SK. Silicon Nitride-BP-Based Surface Plasmon Resonance Highly Sensitive Biosensor for Virus SARS-CoV-2 Detection. PLASMONICS (NORWELL, MASS.) 2022; 17:1065-1077. [PMID: 35103050 PMCID: PMC8791766 DOI: 10.1007/s11468-021-01589-1] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/27/2021] [Accepted: 12/17/2021] [Indexed: 05/12/2023]
Abstract
In this study, we propose a surface plasmon resonance (SPR)-based biosensor using silicon nitride (Si3N4), black phosphorous (BP), and thiol-tethered DNA as a ligand for fast detection of the SARS-CoV-2 virus. In the proposed biosensor, we have deposited silver (Ag), Si3N4, and BP on the base of the BK-7 prism and investigated the performance parameters on the probe in different combinations of the mentioned materials. Herein, three (Ag, Si3N4, and BP) different configurations are introduced and compared for the detection of SARS-CoV-2. Furthermore, with the help of the transfer matrix method (TMM), all the three configurations have been analyzed. Notably, the combination of Ag, Si3N4, and BP shows better sensitivity (154°/RIU) when compared with other configurations for the detection of SARS-CoV-2. This work may facilitate a new sensing device to detect SARS-CoV-2, based on the hybrid materials.
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Affiliation(s)
- Awadhesh Kumar
- Department of Physics, Institute of Science, Banaras Hindu University, Varanasi, 221005 India
| | - Anil Kumar
- Department of Physics, Institute of Science, Banaras Hindu University, Varanasi, 221005 India
| | - S. K. Srivastava
- Department of Physics, Institute of Science, Banaras Hindu University, Varanasi, 221005 India
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44
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Advanced high-throughput biosensor-based diagnostic approaches for detection of severe acute respiratory syndrome-coronavirus-2. COMPUTATIONAL APPROACHES FOR NOVEL THERAPEUTIC AND DIAGNOSTIC DESIGNING TO MITIGATE SARS-COV-2 INFECTION 2022. [PMCID: PMC9300484 DOI: 10.1016/b978-0-323-91172-6.00014-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Given the global Coronavirus disease-2019 (COVID-19) pandemic, the transmission, and mortality rate increased drastically and affected the healthcare, financial sectors, and livelihood of the common man. The use of conventional diagnostic tools like reverse transcription-polymerase chain reaction enabled to screen and detecting the spread at a normal pace that had few limitations embedded into their operation, such as complex operation, slow response time, inaccurate results, single laboratory-based operation, and limited sample processing capacity. Consequently, the biosensors have merits that helped in point of care testing, rapid response, simple operation, and multiplex detection among others. Moreover, other advancements in diagnostic tools provided the ability of multiplexing and multioperation attributes for the detection of severe acute respiratory syndrome-Coronavirus-2 that enabled the high-throughput diagnosis of the viral infection in real samples with faster and accurate results. Further, modifications in their methodology, design and detection strategy facilitated their high-throughput property to help in the effective management of the COVID-19 pandemic.
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45
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Goulart ACC, Zângaro RA, Carvalho HC, Silveira L. Diagnosing COVID-19 in human sera with detected immunoglobulins IgM and IgG by means of Raman spectroscopy. JOURNAL OF RAMAN SPECTROSCOPY : JRS 2021; 52:2671-2682. [PMID: 34518728 PMCID: PMC8427108 DOI: 10.1002/jrs.6235] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2021] [Revised: 07/30/2021] [Accepted: 07/31/2021] [Indexed: 05/05/2023]
Abstract
The severe COVID-19 pandemic requires the development of novel, rapid, accurate, and label-free techniques that facilitate the detection and discrimination of SARS-CoV-2 infected subjects. Raman spectroscopy has been used to diagnose COVID-19 in serum samples of suspected patients without clinical symptoms of COVID-19 but presented positive immunoglobulins M and G (IgM and IgG) assays versus Control (negative IgM and IgG). A dispersive Raman spectrometer (830 nm, 350 mW) was employed, and triplicate spectra were obtained. A total of 278 spectra were used from 94 serum samples (54 Control and 40 COVID-19). The main spectral differences between the positive IgM and IgG versus Control, evaluated by principal component analysis (PCA), were features assigned to proteins including albumin (lower in the group COVID-19 and in the group IgM/IgG and IgG positive) and features assigned to lipids, phospholipids, and carotenoids (higher the group COVID-19 and in the group IgM/IgG positive). Features referred to nucleic acids, tryptophan, and immunoglobulins were also seen (higher the group COVID-19). A discriminant model based on partial least squares regression (PLS-DA) found sensitivity of 84.0%, specificity of 95.0%, and accuracy of 90.3% for discriminating positive Ig groups versus Control. When considering individual Ig group versus Control, it was found sensitivity of 77.3%, specificity of 97.5%, and accuracy of 88.8%. The higher classification error was found for the IgM group (no success classification). Raman spectroscopy may become a technique of choice for rapid serological evaluation aiming COVID-19 diagnosis, mainly detecting the presence of IgM/IgG and IgG after COVID-19 infection.
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Affiliation(s)
| | - Renato Amaro Zângaro
- Biomedical Engineering ProgramUniversidade Anhembi Morumbi – UAMSão PauloState of São PauloBrazil
- Laboratory of Vibrational SpectroscopyCenter for Innovation, Technology and Education – CITÉSão José dos CamposState of São PauloBrazil
| | - Henrique Cunha Carvalho
- Laboratory of Vibrational SpectroscopyCenter for Innovation, Technology and Education – CITÉSão José dos CamposState of São PauloBrazil
| | - Landulfo Silveira
- Biomedical Engineering ProgramUniversidade Anhembi Morumbi – UAMSão PauloState of São PauloBrazil
- Laboratory of Vibrational SpectroscopyCenter for Innovation, Technology and Education – CITÉSão José dos CamposState of São PauloBrazil
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46
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Harasim D, Kisała P, Yeraliyeva B, Mroczka J. Design and Manufacturing Optoelectronic Sensors for the Measurement of Refractive Index Changes under Unknown Polarization State. SENSORS (BASEL, SWITZERLAND) 2021; 21:7318. [PMID: 34770625 PMCID: PMC8586981 DOI: 10.3390/s21217318] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/24/2021] [Revised: 10/26/2021] [Accepted: 11/01/2021] [Indexed: 01/09/2023]
Abstract
This article proposes a new method for detecting slight refractive index changes under conditions of unknown polarization state. It is argued that an insignificant modification of the tilted fiber Bragg grating (TFBG) structure and selecting the appropriate spectral region allows us to accurately track changes in the refractive index. It has also been proven that the method can be easily made insensitive to temperature and that the sensitivity to changes in the polarization plane of the input light can be significantly reduced, which is crucial in later practical applications. Analytes in the form of an aqueous glucose solution were used to calibrate the sensor. The proposed method, based on perpendicular tilted fiber Bragg grating (P-TFBG), has a wide range of universality because its development and slight modification will enable the detection of glucose, pathogens, and viruses.
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Affiliation(s)
- Damian Harasim
- Department of Electronics and Information Technology, Lublin University of Technology, 20-618 Lublin, Poland;
| | - Piotr Kisała
- Department of Electronics and Information Technology, Lublin University of Technology, 20-618 Lublin, Poland;
| | - Bakhyt Yeraliyeva
- Department of Information Systems, M.Kh. Dulaty Taraz Regional University, Taraz 080000, Kazakhstan;
| | - Janusz Mroczka
- Department of Electronic and Photonic Metrology, Wroclaw University of Technology, 50-317 Wroclaw, Poland;
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47
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Scholtz A, Ramoji A, Silge A, Jansson JR, de Moura IG, Popp J, Sram JP, Armani AM. COVID-19 Diagnostics: Past, Present, and Future. ACS PHOTONICS 2021; 8:2827-2838. [PMID: 37556281 PMCID: PMC8482784 DOI: 10.1021/acsphotonics.1c01052] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/13/2021] [Revised: 09/02/2021] [Accepted: 09/02/2021] [Indexed: 05/25/2023]
Abstract
In winter of 2020, SARS-CoV-2 emerged as a global threat, impacting not only health but also financial and political stability. To address the societal need for monitoring the spread of SARS-CoV-2, many existing diagnostic technologies were quickly adapted to detect SARS-CoV-2 RNA and antigens as well as the immune response, and new testing strategies were developed to accelerate time-to-decision. In parallel, the infusion of research support accelerated the development of new spectroscopic methods. While these methods have significantly reduced the impact of SARS-CoV-2 on society when coupled with behavioral changes, they also lay the groundwork for a new generation of platform technologies. With several epidemics on the horizon, such as the rise of antibiotic-resistant bacteria, the ability to quickly pivot the target pathogen of this diagnostic toolset will continue to have an impact.
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Affiliation(s)
- Alexis Scholtz
- Department of Biomedical Engineering,
University of Southern California, Los Angeles, California
90089, United States of America
| | - Anuradha Ramoji
- Institute of Physical Chemistry (IPC) and
Abbe Center of Photonics, Helmholtzweg 4, 07743 Jena,
Germany
- Leibniz Institute of Photonic Technology
(IPHT) Jena, Member of the Leibniz Research Alliance - Leibniz Health
Technologies, Albert-Einstein-Straße 9, 07745 Jena, Germany
| | - Anja Silge
- Institute of Physical Chemistry (IPC) and
Abbe Center of Photonics, Helmholtzweg 4, 07743 Jena,
Germany
- Leibniz Institute of Photonic Technology
(IPHT) Jena, Member of the Leibniz Research Alliance - Leibniz Health
Technologies, Albert-Einstein-Straße 9, 07745 Jena, Germany
- InfectoGnostics Research Campus
Jena, Centre of Applied Research, Philosophenweg 7, D-07743 Jena,
Germany
| | - Jakob R. Jansson
- Fulgent Genetics, Temple
City, California 91780, United States of America
| | - Ian G. de Moura
- Fulgent Genetics, Temple
City, California 91780, United States of America
| | - Jürgen Popp
- Institute of Physical Chemistry (IPC) and
Abbe Center of Photonics, Helmholtzweg 4, 07743 Jena,
Germany
- Leibniz Institute of Photonic Technology
(IPHT) Jena, Member of the Leibniz Research Alliance - Leibniz Health
Technologies, Albert-Einstein-Straße 9, 07745 Jena, Germany
- InfectoGnostics Research Campus
Jena, Centre of Applied Research, Philosophenweg 7, D-07743 Jena,
Germany
| | - Jakub P. Sram
- Fulgent Genetics, Temple
City, California 91780, United States of America
| | - Andrea M. Armani
- Department of Biomedical Engineering,
University of Southern California, Los Angeles, California
90089, United States of America
- Mork Family Department of Chemical Engineering,
University of Southern California, Los Angeles, California
90089, United States of America
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48
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Lukose J, Barik A, Unnikrishnan VK, George SD, Kartha VB, Chidangil S. Development of a spectroscopic technique that enables the saliva based detection of COVID-19 at safe distances. RESULTS IN CHEMISTRY 2021; 3:100210. [PMID: 34642620 PMCID: PMC8500476 DOI: 10.1016/j.rechem.2021.100210] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2021] [Revised: 09/17/2021] [Accepted: 10/02/2021] [Indexed: 01/29/2023] Open
Abstract
Research activities are in full swing globally to translate the use of saliva as a non-invasive and highly potential specimen for clinical diagnostics, particularly for COVID-19 detection. Being comprised of a pool of biomarkers also enriched with ACE-2 receptors, saliva can provide vital information regarding the state of the human body. Advancements in biophotonics tools for saliva investigation may offer promise for developing rapid, highly objective, optical modalities for COVID- 19 detection. This article presents concept/design study, which propose the use of Raman/laser induced fluorescence spectroscopic device that have the potential for viral detection via saliva from a safer distance. Noticeable changes of biomarkers present in saliva in response to viral infection can reflect the pathological state, thus can altogether affect the Raman spectral pattern. Monitoring these spectral patterns of saliva, which are further enhanced by using cost effective and reproducible Surface Enhanced Raman Spectroscopy substrates can be a viable option for sensitive and non-invasive viral detection. The spectral information acquired from the optical device can be processed using various multivariate statistical analytical tools, which ultimately facilitate effective viral detection in few minutes. This method doesn't demand the necessity of qualified professionals and sample processing with reagents unlike in RT-PCR test. The proposed optical device can be further modified into a portable form, which can be easily transported for field applications. The stand-off observation, contactless and highly non-invasive technique can be of paramount importance in the current context, where the safer screening of a large population for viral infection by maintaining social distances is a necessity. The proposed stand-off spectroscopic technique can also address the major concern of nosocomial viral transmission amongst healthcare workers during sample collection in a pandemic scenario.
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Affiliation(s)
- Jijo Lukose
- Centre of Excellence for Biophotonics, Department of Atomic and Molecular Physics, Manipal Academy of Higher Education, Manipal, 576 104 India
| | - Ajayakumar Barik
- Centre of Excellence for Biophotonics, Department of Atomic and Molecular Physics, Manipal Academy of Higher Education, Manipal, 576 104 India
| | - V K Unnikrishnan
- Centre of Excellence for Biophotonics, Department of Atomic and Molecular Physics, Manipal Academy of Higher Education, Manipal, 576 104 India
| | - Sajan D George
- Centre for Applied Nanosciences, Department of Atomic and Molecular Physics, Manipal Academy of Higher Education, Manipal, 576 104 India
| | - V B Kartha
- Centre of Excellence for Biophotonics, Department of Atomic and Molecular Physics, Manipal Academy of Higher Education, Manipal, 576 104 India
| | - Santhosh Chidangil
- Centre of Excellence for Biophotonics, Department of Atomic and Molecular Physics, Manipal Academy of Higher Education, Manipal, 576 104 India
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49
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Martín J, Tena N, Asuero AG. Current state of diagnostic, screening and surveillance testing methods for COVID-19 from an analytical chemistry point of view. Microchem J 2021; 167:106305. [PMID: 33897053 PMCID: PMC8054532 DOI: 10.1016/j.microc.2021.106305] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2021] [Revised: 04/12/2021] [Accepted: 04/14/2021] [Indexed: 12/18/2022]
Abstract
Since December 2019, we have been in the battlefield with a new threat to the humanity known as severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). In this review, we describe the four main methods used for diagnosis, screening and/or surveillance of SARS-CoV-2: Real-time reverse transcription polymerase chain reaction (RT-PCR); chest computed tomography (CT); and different complementary alternatives developed in order to obtain rapid results, antigen and antibody detection. All of them compare the highlighting advantages and disadvantages from an analytical point of view. The gold standard method in terms of sensitivity and specificity is the RT-PCR. The different modifications propose to make it more rapid and applicable at point of care (POC) are also presented and discussed. CT images are limited to central hospitals. However, being combined with RT-PCR is the most robust and accurate way to confirm COVID-19 infection. Antibody tests, although unable to provide reliable results on the status of the infection, are suitable for carrying out maximum screening of the population in order to know the immune capacity. More recently, antigen tests, less sensitive than RT-PCR, have been authorized to determine in a quicker way whether the patient is infected at the time of analysis and without the need of specific instruments.
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Key Words
- 2019-nCoV, 2019 novel coronavirus
- ACE2, Angiotensin-Converting Enzyme 2
- AI, Artificial Intelligence
- ALP, Alkaline Phosphatase
- ASOs, Antisense Oligonucleotides
- Antigen and antibody tests
- AuNIs, Gold Nanoislands
- AuNPs, Gold Nanoparticles
- BSL, Biosecurity Level
- CAP, College of American Pathologists
- CCD, Charge-Coupled Device
- CG, Colloidal Gold
- CGIA, Colloidal Gold Immunochromatographic Assay
- CLIA, Chemiluminescence Enzyme Immunoassay
- CLIA, Clinical Laboratory Improvement Amendments
- COVID-19
- COVID-19, Coronavirus disease-19
- CRISPR, Clustered Regularly Interspaced Short Palindromic Repeats
- CT, Chest Computed Tomography
- Cas, CRISPR Associate Protein
- China CDC, Chinese Center for Disease Control and Prevention
- Ct, Cycle Threshold
- DETECTR, SARS-CoV-2 DNA Endonuclease-Targeted CRISPR Trans Reporter
- DNA, Dexosyrosyribonucleic Acid
- E, Envelope protein
- ELISA, Enzyme Linked Immunosorbent Assay
- EMA, European Medicines Agency
- EUA, Emergence Use Authorization
- FDA, Food and Drug Administration
- FET, Field-Effect Transistor
- GISAID, Global Initiative on Sharing All Influenza Data
- GeneBank, Genetic sequence data base of the National Institute of Health
- ICTV, International Committee on Taxonomy of Viruses
- IgA, Immunoglobulins A
- IgG, Immunoglobulins G
- IgM, Immunoglobulins M
- IoMT, Internet of Medical Things
- IoT, Internet of Things
- LFIA, Lateral Flow Immunochromatographic Assays
- LOC, Lab-on-a-Chip
- LOD, Limit of detection
- LSPR, Localized Surface Plasmon Resonance
- M, Membrane protein
- MERS-CoV, Middle East Respiratory Syndrome Coronavirus
- MNP, Magnetic Nanoparticle
- MS, Mass spectrometry
- N, Nucleocapsid protein
- NER, Naked Eye Readout
- NGM, Next Generation Molecular
- NGS, Next Generation Sequencing
- NIH, National Institute of Health
- NSPs, Nonstructural Proteins
- Net, Neural Network
- ORF, Open Reading Frame
- OSN, One Step Single-tube Nested
- PDMS, Polydimethylsiloxane
- POC, Point of Care
- PPT, Plasmonic Photothermal
- QD, Quantum Dot
- R0, Basic reproductive number
- RBD, Receptor-binding domain
- RNA, Ribonucleic Acid
- RNaseH, Ribonuclease H
- RT, Reverse Transcriptase
- RT-LAMP, Reverse Transcription Loop-Mediated Isothermal Amplification
- RT-PCR, Real-Time Reverse Transcription Polymerase Chain Reaction
- RT-PCR, chest computerized tomography
- RdRp, RNA-Dependent RNA Polymerase
- S, Spike protein
- SARS-CoV-2
- SARS-CoV-2, Severe Acute Respiratory Syndrome Coronavirus 2
- SERS, Surface Enhanced Raman Spectroscopy
- SHERLOCK, Specific High Sensitivity Enzymatic Reporter UnLOCKing
- STOPCovid, SHERLOCK Testing on One Pot
- SVM, Support Vector Machine
- SiO2@Ag, Complete silver nanoparticle shell coated on silica core
- US CDC, US Centers for Disease Control and Prevention
- VOC, Variant of Concern
- VTM, Viral Transport Medium
- WGS, Whole Genome Sequencing
- WHO, World Health Organization
- aM, Attomolar
- dNTPs, Nucleotides
- dPCR, Digital PCR
- ddPCR, Droplet digital PCR
- fM, Femtomolar
- m-RNA, Messenger Ribonucleic Acid
- nM, Nanomolar
- pM, Picomolar
- pfu, Plaque-forming unit
- rN, Recombinant nucleocapsid protein antigen
- rS, Recombinant Spike protein antigen
- ssRNA, Single-Stranded Positive-Sense RNA
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Affiliation(s)
- Julia Martín
- Departamento de Química Analítica, Escuela Politécnica Superior, Universidad de Sevilla, C/ Virgen de África 7, Sevilla E-41011, Spain
| | - Noelia Tena
- Departamento de Química Analítica, Facultad de Farmacia, Universidad de Sevilla, Prof. García González, 2, Sevilla 41012, Spain
| | - Agustin G Asuero
- Departamento de Química Analítica, Facultad de Farmacia, Universidad de Sevilla, Prof. García González, 2, Sevilla 41012, Spain
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50
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Singh B, Datta B, Ashish A, Dutta G. A comprehensive review on current COVID-19 detection methods: From lab care to point of care diagnosis. SENSORS INTERNATIONAL 2021; 2:100119. [PMID: 34766062 PMCID: PMC8302821 DOI: 10.1016/j.sintl.2021.100119] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/16/2021] [Revised: 07/13/2021] [Accepted: 07/14/2021] [Indexed: 12/19/2022] Open
Abstract
Without a doubt, the current global pandemic affects all walks of our life. It affected almost every age group all over the world with a disease named COVID-19, declared as a global pandemic by WHO in early 2020. Due to the high transmission and moderate mortality rate of this virus, it is also regarded as the panic-zone virus. This potentially deadly virus has pointed up the significance of COVID-19 research. Due to the rapid transmission of COVID-19, early detection is very crucial. Presently, there are different conventional techniques are available for coronavirus detection like CT-scan, PCR, Sequencing, CRISPR, ELISA, LFA, LAMP. The urgent need for rapid, accurate, and cost-effective detection and the requirement to cut off shortcomings of traditional detection methods, make scientists realize to advance new technologies. Biosensors are one of the reliable platforms for accurate, early diagnosis. In this article, we have pointed recent diagnosis approaches for COVID-19. The review includes basic virology of SARS-CoV-2 mainly clinical and pathological features. We have also briefly discussed different types of biosensors, their working principles, and current advancement for COVID-19 detection and prevention.
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Affiliation(s)
- Bishal Singh
- School of Medical Science and Technology (SMST), Indian Institute of Technology Kharagpur, Kharagpur, West Bengal, 721302, India
| | - Brateen Datta
- School of Medical Science and Technology (SMST), Indian Institute of Technology Kharagpur, Kharagpur, West Bengal, 721302, India
| | - Amlan Ashish
- School of Medical Science and Technology (SMST), Indian Institute of Technology Kharagpur, Kharagpur, West Bengal, 721302, India
| | - Gorachand Dutta
- School of Medical Science and Technology (SMST), Indian Institute of Technology Kharagpur, Kharagpur, West Bengal, 721302, India
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