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Liu J, Zeng Z, Li F, Jiang B, Nie Y, Zhang G, Pang B, Sun L, Hao R. Portable and simultaneous detection of four respiratory pathogens through a microfluidic LAMP and real-time fluorescence assay. Analyst 2024. [PMID: 39229701 DOI: 10.1039/d4an00748d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/05/2024]
Abstract
Respiratory pathogen infections are seasonally prevalent and are likely to cause co-infections or serial infections during peak periods of infection. Since they often cause similar symptoms, simultaneous and on-site detection of respiratory pathogens is essential for accurate diagnosis and efficient treatment of these infectious diseases. However, molecular diagnostic techniques for multiple pathogens in this field are lacking. Herein, we developed a microfluidic LAMP and real-time fluorescence assay for rapid detection of multiple respiratory pathogens using a ten-channel microfluidic chip with pathogen primers pre-embedded in the chip reaction well. The microfluidic chip provided a closed reaction environment, effectively preventing aerosol contamination and improving the accuracy of the detection results. Its corresponding detection instrument could automatically collect and display the fluorescence curve in real time, which was more conducive to the interpretation of results. The results showed that the developed method could specifically recognize the nucleic acid of influenza A(H1N1), Mycoplasma pneumoniae, respiratory syncytial virus type A, and SARS-CoV-2 with low detection limits of 104 copies per mL or 103 copies per mL. The test results on clinical samples demonstrated that the developed method has high sensitivity (92.00%) and high specificity (100.00%) and even has the capability to differentiate mixed-infection samples. With simple operation and high detection efficiency, the present portable and simultaneous detection assay could significantly improve the efficiency of on-site detection of respiratory infectious diseases and promote the accurate treatment, efficient prevention and control of the diseases.
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Affiliation(s)
- Junwen Liu
- School of Public Health, Capital Medical University, Beijing 100069, China.
| | - Zhi Zeng
- School of Pharmacy, China Medical University, Shenyang 110122, China
| | - Feina Li
- Beijing Key Laboratory of Pediatric Respiratory Infection Diseases, Key Laboratory of Major Diseases in Children, Ministry of Education, National Clinical Research Center for Respiratory Diseases, Laboratory of Respiratory Diseases, Beijing Pediatric Research Institute, Beijing Children's Hospital, Capital Medical University, National Center for Children's Health, Beijing 100045, China.
| | - Bo Jiang
- School of Public Health, Capital Medical University, Beijing 100069, China.
| | - You Nie
- School of Public Health, Capital Medical University, Beijing 100069, China.
| | - Guohao Zhang
- Beijing Baicare Biotechnology Co., Ltd, Beijing 102206, China
| | - Biao Pang
- Beijing Baicare Biotechnology Co., Ltd, Beijing 102206, China
| | - Lin Sun
- Beijing Key Laboratory of Pediatric Respiratory Infection Diseases, Key Laboratory of Major Diseases in Children, Ministry of Education, National Clinical Research Center for Respiratory Diseases, Laboratory of Respiratory Diseases, Beijing Pediatric Research Institute, Beijing Children's Hospital, Capital Medical University, National Center for Children's Health, Beijing 100045, China.
| | - Rongzhang Hao
- School of Public Health, Capital Medical University, Beijing 100069, China.
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Pourakbari R, Gholami M, Shakerimoghaddam A, Khiavi FM, Mohammadimehr M, Khomartash MS. Comparison of RT-LAMP and RT-qPCR assays for detecting SARS-CoV-2 in the extracted RNA and direct swab samples. J Virol Methods 2024; 324:114871. [PMID: 38103738 DOI: 10.1016/j.jviromet.2023.114871] [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: 10/07/2023] [Revised: 12/10/2023] [Accepted: 12/13/2023] [Indexed: 12/19/2023]
Abstract
Rapid detection of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) in infected patients is critical for infection control. Loop-mediated isothermal amplification (LAMP) has been demonstrated to be a rapid, simple, reliable, cost-effective and sensitive method to detect SARS-CoV-2 in a variety of samples in considerably less time than Real-Time PCR. In this study, we developed and optimized a rapid detection method for SARS-CoV-2 based on RT-LAMP method utilizing a specific primer set targeting the ORF1a gene and then examined its sensitivity and efficiency using a serially diluted viral RNA sample with a known concentration. Furthermore, the sensitivity of the RT-LAMP to detect SARS-CoV-2 in direct swab samples with varying Ct values were compared to a commercial molecular RT-qPCR based detection kit. According to our findings the optimal incubation time for RT-LAMP assay was 45 min. There was a complete agreement between RT-LAMP and RT-qPCR in diagnosing the viral genome in the diluted extracted RNA sample. However, it had a lower sensitivity (71%) to detect the viral genome in direct swab samples compared to RT-qPCR. In conclusion, due to its simplicity, rapidness, sensitivity, and specificity, RT-LAMP has tremendous potential as a point-of-care tool; nevertheless, more research is needed to utilize it for detecting SARS-CoV-2, particularly in direct swab samples.
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Affiliation(s)
- Ramin Pourakbari
- Infectious Diseases Research Center, Aja University of Medical Sciences, Tehran, Iran.; Medical Biotechnology Research Center, Aja University of Medical Sciences, Tehran, Iran
| | - Mohammad Gholami
- Infectious Diseases Research Center, Aja University of Medical Sciences, Tehran, Iran
| | - Ali Shakerimoghaddam
- Infectious Diseases Research Center, Aja University of Medical Sciences, Tehran, Iran.; Medical Biotechnology Research Center, Aja University of Medical Sciences, Tehran, Iran
| | - Farhad Motavalli Khiavi
- Infectious Diseases Research Center, Aja University of Medical Sciences, Tehran, Iran.; Medical Biotechnology Research Center, Aja University of Medical Sciences, Tehran, Iran
| | - Mojgan Mohammadimehr
- Infectious Diseases Research Center, Aja University of Medical Sciences, Tehran, Iran
| | - Mehdi Shakouri Khomartash
- Infectious Diseases Research Center, Aja University of Medical Sciences, Tehran, Iran.; Medical Biotechnology Research Center, Aja University of Medical Sciences, Tehran, Iran..
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3
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Jee H, Park S, Lee J, Lim CS, Jang WS. Comparative Clinical Evaluation of a Novel FluA/FluB/SARS-CoV-2 Multiplex LAMP and Commercial FluA/FluB/SARS-CoV-2/RSV RT-qPCR Assays. Diagnostics (Basel) 2023; 13:diagnostics13081432. [PMID: 37189533 DOI: 10.3390/diagnostics13081432] [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: 03/15/2023] [Revised: 04/04/2023] [Accepted: 04/15/2023] [Indexed: 05/17/2023] Open
Abstract
Influenza and coronaviruses cause highly contagious respiratory diseases that cause millions of deaths worldwide. Public health measures implemented during the current coronavirus disease (COVID-19) pandemic have gradually reduced influenza circulation worldwide. As COVID-19 measures have relaxed, it is necessary to monitor and control seasonal influenza during this COVID-19 pandemic. In particular, the development of rapid and accurate diagnostic methods for influenza and COVID-19 is of paramount importance because both diseases have significant public health and economic impacts. To address this, we developed a multi-loop-mediated isothermal amplification (LAMP) kit capable of simultaneously detecting influenza A/B and SARS-CoV-2. The kit was optimized by testing various ratios of primer sets for influenza A/B (FluA/FluB) and SARS-CoV-2 and internal control (IC). The FluA/FluB/SARS-CoV-2 multiplex LAMP assay showed 100% specificity for uninfected clinical samples and sensitivities of 90.6%, 86.89%, and 98.96% for LAMP kits against influenza A, influenza B, and SARS-CoV-2 clinical samples, respectively. Finally, the attribute agreement analysis for clinical tests indicated substantial agreement between the multiplex FluA/FluB/SARS-CoV-2/IC LAMP and commercial AllplexTM SARS-CoV-2/FluA/FluB/RSV assays.
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Affiliation(s)
- Hyunseul Jee
- BK21 Graduate Program, Department of Biomedical Sciences, College of Medicine, Korea University, Seoul 02841, Republic of Korea
| | - Seoyeon Park
- Department of Laboratory Medicine, College of Medicine, Korea University Guro Hospital, Seoul 08308, Republic of Korea
| | - Junmin Lee
- Department of Laboratory Medicine, College of Medicine, Korea University Guro Hospital, Seoul 08308, Republic of Korea
| | - Chae Seung Lim
- Department of Laboratory Medicine, College of Medicine, Korea University Guro Hospital, Seoul 08308, Republic of Korea
| | - Woong Sik Jang
- Emergency Medicine, College of Medicine, Korea University Guro Hospital, Seoul 08308, Republic of Korea
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Raddatz BW, Rabello FJ, Benedetti R, Steil GJ, Imamura LM, Kim EYS, Santiago EB, Hartmann LF, Predebon JV, Delfino BM, Nogueira MB, Dos Santos JS, da Silva BG, Nicollete DRP, Almeida BMMD, Rogal SR, Figueredo MVM. Clinical Validation of a Colorimetric Loop-Mediated Isothermal Amplification Using a Portable Device for the Rapid Detection of SARS-CoV-2. Diagnostics (Basel) 2023; 13:diagnostics13071355. [PMID: 37046573 PMCID: PMC10093461 DOI: 10.3390/diagnostics13071355] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2023] [Revised: 03/28/2023] [Accepted: 04/01/2023] [Indexed: 04/14/2023] Open
Abstract
Quick and reliable mass testing of infected people is an effective tool for the contingency of SARS-CoV-2. During the COVID-19 pandemic, Point-of-Care (POC) tests using Loop-Mediated Isothermal Amplification (LAMP) arose as a useful diagnostic tool. LAMP tests are a robust and fast alternative to Polymerase Chain Reaction (PCR), and their isothermal property allows easy incorporation into POC platforms. The main drawback of using colorimetric LAMP is the reported short-term stability of the pre-mixed reagents, as well as the relatively high rate of false-positive results. Also, low-magnitude amplification can produce a subtle color change, making it difficult to discern a positive reaction. This paper presents Hilab Molecular, a portable device that uses the Internet of Things and Artificial Intelligence to pre-analyze colorimetric data. In addition, we established manufacturing procedures to increase the stability of colorimetric RT-LAMP tests. We show that ready-to-use reactions can be stored for up to 120 days at -20 °C. Furthermore, we validated both the Hilab Molecular device and the Hilab RT-LAMP test for SARS-CoV-2 using 581 patient samples without any purification steps. We achieved a sensitivity of 92.93% and specificity of 99.42% (samples with CT ≤ 30) when compared to RT-qPCR.
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Affiliation(s)
- Bruna W Raddatz
- Hilab, Rua José Altair Possebom, 800-CIC, Curitiba 81270-185, PR, Brazil
| | - Felipe J Rabello
- Hilab, Rua José Altair Possebom, 800-CIC, Curitiba 81270-185, PR, Brazil
| | - Rafael Benedetti
- Hilab, Rua José Altair Possebom, 800-CIC, Curitiba 81270-185, PR, Brazil
| | - Gisleine J Steil
- Hilab, Rua José Altair Possebom, 800-CIC, Curitiba 81270-185, PR, Brazil
| | - Louise M Imamura
- Hilab, Rua José Altair Possebom, 800-CIC, Curitiba 81270-185, PR, Brazil
| | - Edson Y S Kim
- Hilab, Rua José Altair Possebom, 800-CIC, Curitiba 81270-185, PR, Brazil
| | - Erika B Santiago
- Hilab, Rua José Altair Possebom, 800-CIC, Curitiba 81270-185, PR, Brazil
| | - Luís F Hartmann
- Hilab, Rua José Altair Possebom, 800-CIC, Curitiba 81270-185, PR, Brazil
| | - João V Predebon
- Hilab, Rua José Altair Possebom, 800-CIC, Curitiba 81270-185, PR, Brazil
| | - Bruna M Delfino
- Hilab, Rua José Altair Possebom, 800-CIC, Curitiba 81270-185, PR, Brazil
| | - Meri B Nogueira
- Virology Laboratory, Universidade Federal do Paraná (Hospital de Clínicas), Rua General Carneiro, 181-Alto da Glória, Curitiba 80060-900, PR, Brazil
| | - Jucélia S Dos Santos
- Virology Laboratory, Universidade Federal do Paraná (Hospital de Clínicas), Rua General Carneiro, 181-Alto da Glória, Curitiba 80060-900, PR, Brazil
| | - Breno G da Silva
- Virology Laboratory, Universidade Federal do Paraná (Hospital de Clínicas), Rua General Carneiro, 181-Alto da Glória, Curitiba 80060-900, PR, Brazil
| | | | | | - Sergio R Rogal
- Hilab, Rua José Altair Possebom, 800-CIC, Curitiba 81270-185, PR, Brazil
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Qin N, Liu Z, Zhao L, Bao M, Mei X, Li D. Promising instrument-free detections of various analytes using smartphones with Spotxel ® Reader. ANAL SCI 2022; 39:139-148. [PMID: 36460855 PMCID: PMC9718457 DOI: 10.1007/s44211-022-00216-1] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2022] [Accepted: 11/08/2022] [Indexed: 12/05/2022]
Abstract
In consideration of the problems related to food safety, environmental pollution, and the spread of infected diseases nowadays, we urgently need testing methods that can be easily performed by common people. Smartphone-based detections are promising for general applications. However, some of these analytical strategies require a combination of accessories and instruments, such as portable electrochemical workstations, mini multi-mode microplate readers, and complex temperature control devices, etc., which are small but still expensive. Herein, we comprehensively introduce a free app (Spotxel® Reader) that can provide accurate data analysis for microplate or parallel-format test sensors without an instrument. By simulating the optical signal of the test samples through a smartphone, the sensing results can be obtained for free. We discuss the detection strategies involved in the reported smartphone-based analyses using Spotxel® Reader. Prospects for the development of this free app for future detection applications are presented. This review aims to popularize free analysis software, so that ordinary people may realize convenient tests.
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Affiliation(s)
- Ningyi Qin
- Department of Pharmacy, Jinzhou Medical University, Jinzhou, 121000 China
| | - Zirui Liu
- Liaoning Provincial Key Laboratory of Medical Testing, Jinzhou Medical University, Jinzhou, 121001 China
| | - Lanbin Zhao
- The Third Affiliated Hospital, Jinzhou Medical University, Jinzhou, People’s Republic of China
| | - Mengfan Bao
- Department of Pharmacy, Jinzhou Medical University, Jinzhou, 121000 China
| | - Xifan Mei
- Liaoning Provincial Key Laboratory of Medical Testing, Jinzhou Medical University, Jinzhou, 121001 China ,The Third Affiliated Hospital, Jinzhou Medical University, Jinzhou, People’s Republic of China
| | - Dan Li
- Department of Pharmacy, Jinzhou Medical University, Jinzhou, 121000 China
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Aldossary AM, Tawfik EA, Altammami MA, Alquait AA, Booq RY, Sendy BK, Alarawi MS, Gojobori T, Altamimi AM, Alaifan TA, Albarrag AM, Alyamani EJ. Development and Validation of Reverse Transcriptase Loop-Mediated Isothermal Amplification (RT-LAMP) as a Simple and Rapid Diagnostic Tool for SARS-CoV-2 Detection. Diagnostics (Basel) 2022; 12:diagnostics12092232. [PMID: 36140632 PMCID: PMC9498013 DOI: 10.3390/diagnostics12092232] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2022] [Revised: 08/30/2022] [Accepted: 09/13/2022] [Indexed: 12/23/2022] Open
Abstract
Since the COVID-19 pandemic outbreak in the world, many countries have searched for quick diagnostic tools to detect the virus. There are many ways to design diagnostic assays; however, each may have its limitations. A quick, sensitive, specific, and simple approach is essential for highly rapidly transmitted infections, such as SARS-CoV-2. This study aimed to develop a rapid and cost-effective diagnostic tool using a one-step Reverse Transcriptase Loop-Mediated Isothermal Amplification (RT-LAMP) approach. The results were observed using the naked eye within 30–60 min using turbidity or colorimetric analysis. The sensitivity, specificity, and lowest limit of detection (LoD) for SARS-CoV-2 RNA against the RT-LAMP assay were assessed. This assay was also verified and validated against commercial quantitative RT-PCR used by health authorities in Saudi Arabia. Furthermore, a quick and direct sampling from the saliva, or buccal cavity, was applied after simple modification, using proteinase K and heating at 98 °C for 5 min to avoid routine RNA extraction. This rapid single-tube diagnostic tool detected COVID-19 with an accuracy rate of 95% for both genes (ORF1a and N) and an LoD for the ORF1a and N genes as 39 and 25 copies/reaction, respectively. It can be potentially used as a high-throughput national screening for different respiratory-based infections within the Middle East region, such as the MERS virus or major zoonotic pathogens such as Mycobacterium paratuberculosis and Brucella spp., particularly in remote and rural areas where lab equipment is limited.
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Affiliation(s)
- Ahmad M. Aldossary
- National Center of Biotechnology, King Abdulaziz City for Science and Technology (KACST), Riyadh 12354, Saudi Arabia
| | - Essam A. Tawfik
- National Center of Biotechnology, King Abdulaziz City for Science and Technology (KACST), Riyadh 12354, Saudi Arabia
| | - Musaad A. Altammami
- National Center of Biotechnology, King Abdulaziz City for Science and Technology (KACST), Riyadh 12354, Saudi Arabia
| | - Azzam A. Alquait
- National Center of Biotechnology, King Abdulaziz City for Science and Technology (KACST), Riyadh 12354, Saudi Arabia
| | - Rayan Y. Booq
- National Center of Biotechnology, King Abdulaziz City for Science and Technology (KACST), Riyadh 12354, Saudi Arabia
| | - Bandar K. Sendy
- National Center of Biotechnology, King Abdulaziz City for Science and Technology (KACST), Riyadh 12354, Saudi Arabia
| | - Mohammed S. Alarawi
- Computational Bioscience Research Center, King Abdullah University of Science and Technology (KAUST), Thuwal 23955, Saudi Arabia
| | - Takashi Gojobori
- Computational Bioscience Research Center, King Abdullah University of Science and Technology (KAUST), Thuwal 23955, Saudi Arabia
| | - Asmaa M. Altamimi
- Public Health Laboratory, Public Health Authority, Riyadh 13354, Saudi Arabia
| | - Taghreed A. Alaifan
- Public Health Laboratory, Public Health Authority, Riyadh 13354, Saudi Arabia
| | - Ahmed M. Albarrag
- Public Health Laboratory, Public Health Authority, Riyadh 13354, Saudi Arabia
| | - Essam J. Alyamani
- National Center of Biotechnology, King Abdulaziz City for Science and Technology (KACST), Riyadh 12354, Saudi Arabia
- Correspondence:
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