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Pan CY, Kijamnajsuk P, Chen JJ. Portable loop-mediated isothermal amplification device with spectrometric detection for rapid pathogen identification. Anal Biochem 2024; 694:115615. [PMID: 39002745 DOI: 10.1016/j.ab.2024.115615] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2024] [Revised: 07/09/2024] [Accepted: 07/10/2024] [Indexed: 07/15/2024]
Abstract
With the rise in extreme weather due to global warming, coupled with globalization facilitating the spread of infectious diseases, there's a pressing need for portable testing platforms offering simplicity, low cost, and remote transmission, particularly beneficial in resource-limited and non-urban areas. We have developed a portable device using loop-mediated isothermal amplification (LAMP) with spectrometric detection to identify Salmonella Typhimurium DNA. The device utilizes the LinkIt 7697 microcontroller and a microspectrometer to capture and transmit spectral signals in real-time, allowing for improved monitoring and analysis of the reaction progress. We built a hand-held box containing a microspectrometer, thermoelectric cooler, ultraviolet LED, disposable reaction tube, and homemade thermal module, all powered by rechargeable batteries. Additionally, we conducted thorough experiments to ensure temperature accuracy within 1 °C under thermal control, developed a heating module with a LinkIt 7697 IoT development board to heat the DNA mixture to the reaction temperature within 3 min, and integrated foam insulation and a 3D-printed frame to enhance the device's thermal stability. We successfully demonstrated the amplification of Salmonella Typhimurium DNA with an impressive sensitivity of 2.83 × 10-4 ng/μL. A remote webpage interface allows for monitoring the temperature and fluorescence during the LAMP process, improving usability. This portable LAMP device with real-time detection offers a cost-effective solution for detecting Salmonella Typhimurium in food products. Its unique design and capabilities make it a promising tool for ensuring food safety.
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Affiliation(s)
- Chun Yu Pan
- Department of Biomechatronics Engineering, National Pingtung University of Science and Technology, 1, Shuefu Road, Neipu, Pingtung, 91201, Taiwan.
| | - Puchong Kijamnajsuk
- Department of Physics, Kasetsart University, 50 Ngamwongwan Rd, Lat Yao, Chatuchak, Bangkok, 10900, Thailand.
| | - Jyh Jian Chen
- Department of Biomechatronics Engineering, National Pingtung University of Science and Technology, 1, Shuefu Road, Neipu, Pingtung, 91201, Taiwan.
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2
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Wu R, Meng B, Corredig M, Griffiths MW. Rapid Detection of Hepatitis A Virus in Foods Using a Bioluminescent Assay in Real-Time (BART) and Reverse Transcription Loop-Mediated Isothermal Amplification (RT-LAMP) Technology. FOOD AND ENVIRONMENTAL VIROLOGY 2023; 15:144-157. [PMID: 36640204 PMCID: PMC9839959 DOI: 10.1007/s12560-022-09548-7] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/31/2022] [Accepted: 12/30/2022] [Indexed: 06/13/2023]
Abstract
Foodborne hepatitis A infections have been considered as a major threat for public health worldwide. Increased incidences of hepatitis A virus (HAV) infection has been associated with growing global trade of food products. Rapid and sensitive detection of HAV in foods is very essential for investigating the outbreaks. Real-time RT-PCR has been most widely used for the detection of HAV by far. However, the technology relies on fluorescence determination of the amplicon and requires sophisticated, high-cost instruments and trained personnel, limiting its use in low resource settings. In this study, a robust, affordable, and simple assay, reverse transcription loop-mediated isothermal amplification (RT-LAMP) assay in combination with a bioluminescence-based determination of amplification in real-time (BART), was developed for the detection of HAV in different food matrices, including green onion, strawberry, mussel, and milk. The efficiencies of a one-step RT-LAMP-BART and a two-step RT-LAMP-BART were investigated for the detection of HAV in different food matrices and was compared with that of real-time RT-PCR. The sensitivity of the RT-LAMP-BART assay was significantly affected by Mg2+ concentration (P < 0.05), in addition to primer quality. The optimal Mg2+ concentration was 2 mM for one-step RT-LAMP-BART and 4 mM for two-step RT-LAMP-BART. Compared with cartridge-purified primers, HPLC-purified primers could greatly improve the sensitivity of the RT-LAMP-BART assay (P < 0.05). For detecting HAV in different food matrices, the performance of two-step RT-LAMP-BART was comparable with that of real-time RT-PCR and was better than that of one-step RT-LAMP-BART. The detection limit of the two-step RT-LAMP-BART for HAV in green onion, strawberry, mussel, and milk was 8.3 × 100 PFU/15 g, 8.3 × 101 PFU/50 g, 8.3 × 100 PFU/5 g, and 8.3 × 100 PFU/40 mL, respectively. The developed RT-LAMP-BART was an effective, simple, sensitive, and robust method for foodborne HAV detection.
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Affiliation(s)
- Ruiqin Wu
- Department of Food Science, University of Guelph, 50 Stone Road East, Guelph, ON, N1G 2W1, Canada.
- Canadian Research Institute for Food Safety, 43 McGilvray Street, Guelph, ON, N1G 2W1, Canada.
| | - Baozhong Meng
- Department of Molecular and Cellular Biology, University of Guelph, 50 Stone Road East, Guelph, ON, N1G 2W1, Canada
| | - Milena Corredig
- Department of Food Science, University of Guelph, 50 Stone Road East, Guelph, ON, N1G 2W1, Canada
| | - Mansel W Griffiths
- Department of Food Science, University of Guelph, 50 Stone Road East, Guelph, ON, N1G 2W1, Canada
- Canadian Research Institute for Food Safety, 43 McGilvray Street, Guelph, ON, N1G 2W1, Canada
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3
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Jawla J, Kumar RR, Mendiratta SK, Agarwal RK, Singh P, Saxena V, Kumari S, Kumar D. A novel paper based loop mediated isothermal amplification and lateral flow assay (LAMP‐LFA) for point‐of‐care detection of buffalo tissue origin in diverse foods. J Food Saf 2023. [DOI: 10.1111/jfs.13038] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Affiliation(s)
- Jyoti Jawla
- Division of Livestock Products Technology ICAR—Indian Veterinary Research Institute, Izatnagar Bareilly India
| | - Rajiv Ranjan Kumar
- Division of Livestock Products Technology ICAR—Indian Veterinary Research Institute, Izatnagar Bareilly India
| | - Sanjod Kumar Mendiratta
- Division of Livestock Products Technology ICAR—Indian Veterinary Research Institute, Izatnagar Bareilly India
| | - Ravi Kant Agarwal
- Division of Livestock Products Technology ICAR—Indian Veterinary Research Institute, Izatnagar Bareilly India
| | - Praveen Singh
- Division of Veterinary Biotechnology ICAR—Indian Veterinary Research Institute, Izatnagar Bareilly India
| | - Vikas Saxena
- Center for Vascular & Inflammatory Diseases, School of Medicine University of Maryland Baltimore Maryland USA
| | - Sarita Kumari
- Division of Livestock Products Technology ICAR—Indian Veterinary Research Institute, Izatnagar Bareilly India
| | - Dhananjay Kumar
- Division of Livestock Products Technology ICAR—Indian Veterinary Research Institute, Izatnagar Bareilly India
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4
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Carvalho J, Ipatov A, Rodriguez-Lorenzo L, Garrido-Maestu A, Azinheiro S, Espiña B, Barros-Velázquez J, Prado M. Towards on-site detection of gluten-containing cereals with a portable and miniaturized prototype combining isothermal DNA amplification and naked eye detection. Microchem J 2022. [DOI: 10.1016/j.microc.2022.108115] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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5
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Xie M, Chen T, Xin X, Cai Z, Dong C, Lei B. Multiplex detection of foodborne pathogens by real-time loop-mediated isothermal amplification on a digital microfluidic chip. Food Control 2022. [DOI: 10.1016/j.foodcont.2022.108824] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
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6
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Portable Molecular Diagnostics Device for Identification of Asini Corii Colla by Loop-Mediated Isothermal Amplification. INVENTIONS 2021. [DOI: 10.3390/inventions6030051] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Asini Corii Colla (ACC; donkey-hide glue) is one of the most valuable tonic traditional Chinese medicines. Because of the large demand for gelatinous Chinese medicines, bovine or swine skin was sometimes used to make adulterated gelatine in recent decades. Food chemicals can greatly harm people’s health, and detecting chemicals in foods is extremely important. A loop-mediated isothermal amplification (LAMP) device with smartphone detection is demonstrated in this study for detecting the DNA of Asini Corii Colla. The complete system is composed of a hand-held box equipped with a smartphone, a cartridge heater, an ultraviolet LED, a disposable reaction tube, and a homemade thermal module. All the processes are powered by a set of rechargeable batteries. Comprehensive experiments of measuring temperature profiles are presented, which showed the accuracy of temperature under thermal control is less than 0.5 °C. By implementing one heating module with an ATmega328p-au microcontroller in the device, the DNA mixture is heated directly up to the reaction temperature within 5 min. Next, a DNA segment of Asini Corii Colla is utilized to evaluate the sensitivity of the DNA amplification in the portable device. A limit of detection to a concentration of 10−4 ng/μL is achieved. Real-time detection of Asini Corii Colla by a smartphone camera can be achieved using this portable device. The unique architecture utilized in this device is ideal for a low-cost DNA analysis system.
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Uddin SM, Sayad A, Chan J, Huynh DH, Skafidas E, Kwan P. Heater Integrated Lab-on-a-Chip Device for Rapid HLA Alleles Amplification towards Prevention of Drug Hypersensitivity. SENSORS (BASEL, SWITZERLAND) 2021; 21:3413. [PMID: 34068416 PMCID: PMC8153606 DOI: 10.3390/s21103413] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/24/2021] [Revised: 05/10/2021] [Accepted: 05/10/2021] [Indexed: 12/16/2022]
Abstract
HLA-B*15:02 screening before administering carbamazepine is recommended to prevent life-threatening hypersensitivity. However, the unavailability of a point-of-care device impedes this screening process. Our research group previously developed a two-step HLA-B*15:02 detection technique utilizing loop-mediated isothermal amplification (LAMP) on the tube, which requires two-stage device development to translate into a portable platform. Here, we report a heater-integrated lab-on-a-chip device for the LAMP amplification, which can rapidly detect HLA-B alleles colorimetrically. A gold-patterned micro-sized heater was integrated into a 3D-printed chip, allowing microfluidic pumping, valving, and incubation. The performance of the chip was tested with color dye. Then LAMP assay was conducted with human genomic DNA samples of known HLA-B genotypes in the LAMP-chip parallel with the tube assay. The LAMP-on-chip results showed a complete match with the LAMP-on-tube assay, demonstrating the detection system's concurrence.
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Affiliation(s)
- Shah Mukim Uddin
- Department of Medicine, The University of Melbourne, Royal Melbourne Hospital, Melbourne, VIC 3050, Australia; (S.M.U.); (J.C.); (D.H.H.); (E.S.)
| | - Abkar Sayad
- Department of Neuroscience, Central Clinical School, Monash University, Melbourne, VIC 3004, Australia;
| | - Jianxiong Chan
- Department of Medicine, The University of Melbourne, Royal Melbourne Hospital, Melbourne, VIC 3050, Australia; (S.M.U.); (J.C.); (D.H.H.); (E.S.)
- Department of Neuroscience, Central Clinical School, Monash University, Melbourne, VIC 3004, Australia;
| | - Duc Hau Huynh
- Department of Medicine, The University of Melbourne, Royal Melbourne Hospital, Melbourne, VIC 3050, Australia; (S.M.U.); (J.C.); (D.H.H.); (E.S.)
| | - Efstratios Skafidas
- Department of Medicine, The University of Melbourne, Royal Melbourne Hospital, Melbourne, VIC 3050, Australia; (S.M.U.); (J.C.); (D.H.H.); (E.S.)
- Department of Electrical and Electronic Engineering, Melbourne School of Engineering, The University of Melbourne, Melbourne, VIC 3010, Australia
| | - Patrick Kwan
- Department of Medicine, The University of Melbourne, Royal Melbourne Hospital, Melbourne, VIC 3050, Australia; (S.M.U.); (J.C.); (D.H.H.); (E.S.)
- Department of Neuroscience, Central Clinical School, Monash University, Melbourne, VIC 3004, Australia;
- Department of Electrical and Electronic Engineering, Melbourne School of Engineering, The University of Melbourne, Melbourne, VIC 3010, Australia
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8
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Ganguli A, Mostafa A, Saavedra C, Kim Y, Le P, Faramarzi V, Feathers RW, Berger J, Ramos-Cruz KP, Adeniba O, Diaz GJP, Drnevich J, Wright CL, Hernandez AG, Lin W, Smith AM, Kosari F, Vasmatzis G, Anastasiadis PZ, Bashir R. Three-dimensional microscale hanging drop arrays with geometric control for drug screening and live tissue imaging. SCIENCE ADVANCES 2021; 7:7/17/eabc1323. [PMID: 33893093 PMCID: PMC8064630 DOI: 10.1126/sciadv.abc1323] [Citation(s) in RCA: 32] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2020] [Accepted: 03/05/2021] [Indexed: 05/09/2023]
Abstract
Existing three-dimensional (3D) culture techniques are limited by trade-offs between throughput, capacity for high-resolution imaging in living state, and geometric control. Here, we introduce a modular microscale hanging drop culture where simple design elements allow high replicates for drug screening, direct on-chip real-time or high-resolution confocal microscopy, and geometric control in 3D. Thousands of spheroids can be formed on our microchip in a single step and without any selective pressure from specific matrices. Microchip cultures from human LN229 glioblastoma and patient-derived mouse xenograft cells retained genomic alterations of originating tumors based on mate pair sequencing. We measured response to drugs over time with real-time microscopy on-chip. Last, by engineering droplets to form predetermined geometric shapes, we were able to manipulate the geometry of cultured cell masses. These outcomes can enable broad applications in advancing personalized medicine for cancer and drug discovery, tissue engineering, and stem cell research.
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Affiliation(s)
- A Ganguli
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Nick Holonyak Jr. Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - A Mostafa
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Nick Holonyak Jr. Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - C Saavedra
- Nick Holonyak Jr. Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Y Kim
- Nick Holonyak Jr. Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - P Le
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Nick Holonyak Jr. Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - V Faramarzi
- Nick Holonyak Jr. Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - R W Feathers
- Mayo-Illinois Alliance for Technology-Based Healthcare, Urbana, IL, USA
- Department of Cancer Biology, Mayo Clinic, Jacksonville, FL 32224, USA
| | - J Berger
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Nick Holonyak Jr. Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - K P Ramos-Cruz
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Nick Holonyak Jr. Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - O Adeniba
- Nick Holonyak Jr. Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - G J Pagan Diaz
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Nick Holonyak Jr. Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - J Drnevich
- High-Performance Biological Computing, Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - C L Wright
- DNA Services Lab, Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - A G Hernandez
- DNA Services Lab, Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - W Lin
- Mayo-Illinois Alliance for Technology-Based Healthcare, Urbana, IL, USA
- Department of Cancer Biology, Mayo Clinic, Jacksonville, FL 32224, USA
| | - A M Smith
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Nick Holonyak Jr. Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Biomedical and Translational Sciences, Carle Illinois College of Medicine, Urbana, IL 61820, USA
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Cancer Center at Illinois, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - F Kosari
- Mayo-Illinois Alliance for Technology-Based Healthcare, Urbana, IL, USA
- Department of Molecular Medicine, Mayo Clinic, Rochester, MN 55905, USA
| | - G Vasmatzis
- Mayo-Illinois Alliance for Technology-Based Healthcare, Urbana, IL, USA
- Department of Molecular Medicine, Mayo Clinic, Rochester, MN 55905, USA
| | - P Z Anastasiadis
- Mayo-Illinois Alliance for Technology-Based Healthcare, Urbana, IL, USA.
- Department of Cancer Biology, Mayo Clinic, Jacksonville, FL 32224, USA
| | - R Bashir
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.
- Nick Holonyak Jr. Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Mayo-Illinois Alliance for Technology-Based Healthcare, Urbana, IL, USA
- Department of Biomedical and Translational Sciences, Carle Illinois College of Medicine, Urbana, IL 61820, USA
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9
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Nguyen T, Chidambara VA, Andreasen SZ, Golabi M, Huynh VN, Linh QT, Bang DD, Wolff A. Point-of-care devices for pathogen detections: The three most important factors to realise towards commercialization. Trends Analyt Chem 2020. [DOI: 10.1016/j.trac.2020.116004] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
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10
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Moehling TJ, Lee DH, Henderson ME, McDonald MK, Tsang PH, Kaakeh S, Kim ES, Wereley ST, Kinzer-Ursem TL, Clayton KN, Linnes JC. A smartphone-based particle diffusometry platform for sub-attomolar detection of Vibrio cholerae in environmental water. Biosens Bioelectron 2020; 167:112497. [PMID: 32836088 DOI: 10.1016/j.bios.2020.112497] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2020] [Revised: 07/28/2020] [Accepted: 08/02/2020] [Indexed: 11/30/2022]
Abstract
Each year, 3.4 million people die from waterborne diseases worldwide. Development of a rapid and portable platform for detecting and monitoring waterborne pathogens would significantly aid in reducing the incidence and spread of infectious diseases. By combining optical methods and smartphone technology with molecular assays, the sensitivity required to detect exceedingly low concentrations of waterborne pathogens can readily be achieved. Here, we implement smartphone-based particle diffusometry (PD) detection of loop-mediated isothermal amplification (LAMP) targeting the waterborne pathogen Vibrio cholerae (V. cholerae). By measuring the diffusion of 400 nm streptavidin-coated fluorescent nanoparticles imaged at 68X magnification on a smartphone, we can detect as few as 6 V. cholerae cells per reaction (0.66 aM) in just 35 minutes. In a double-blinded study with 132 pond water samples, we establish a 91.8% sensitivity, 95.2% specificity, and 94.3% accuracy of the smartphone-based PD platform for detection of V. cholerae. Together, these results demonstrate the utility of this smartphone-based PD platform for rapid and sensitive detection of V. cholerae at the point of use.
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Affiliation(s)
- Taylor J Moehling
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN, 47907, USA
| | - Dong Hoon Lee
- School of Mechanical Engineering, Purdue University, West Lafayette, IN, 47907, USA
| | - Meghan E Henderson
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN, 47907, USA
| | - Mariah K McDonald
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN, 47907, USA
| | - Preston H Tsang
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN, 47907, USA
| | - Seba Kaakeh
- Department of Biochemistry, Purdue University, West Lafayette, IN, 47907, USA
| | - Eugene S Kim
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN, 47907, USA
| | - Steven T Wereley
- School of Mechanical Engineering, Purdue University, West Lafayette, IN, 47907, USA
| | - Tamara L Kinzer-Ursem
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN, 47907, USA
| | - Katherine N Clayton
- School of Mechanical Engineering, Purdue University, West Lafayette, IN, 47907, USA; OmniVis LLC, Indianapolis, IN, 46201, USA.
| | - Jacqueline C Linnes
- Weldon School of Biomedical Engineering, Purdue University, West Lafayette, IN, 47907, USA.
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Zhong R, Liu S, Wang X, Zhang G, Gong N, Wang M, Sun Y. A real-time isothermal amplification based portable microfluidic system for simple and reliable detection of Vibrio splendidus. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2020; 12:2985-2994. [PMID: 32930158 DOI: 10.1039/d0ay00566e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
The spread of infectious diseases among aquaculture species has a serious impact on the aquaculture industry. Simple, specific and low-cost detection methods are urgently needed for early diagnosis and timely treatment, particularly for on-site identifying and tracking of pathogens. Vibrio splendidus (V. splendidus) is regarded as one of the main pathogenic bacteria causing skin ulcerative syndrome in cultured sea cucumbers, leading to massive mortality and severe economic losses. We herein present a microfluidic-based real-time fluorogenic loop-mediated isothermal amplification (LAMP) system for simple and reliable detection of V. splendidus. A LAMP primer set with six primers (arsB1) specifically targeting the arsB gene of V. splendidus was successfully designed and tested on the portable microfluidic system for the first time. Only a single step of sample loading using a pipette is required to fill an array of reaction wells (with 10 or 18 wells) in a disposable chip for multiplex detection. A dedicated plastic shell is then utilized to tightly seal the openings of the chip by buckling to prevent contamination and evaporation. Up to four chips (one sample per chip) can be held in the stand-alone and inexpensive microdevice simultaneously, enabling on-demand detection of multiple samples in a single run. Reproducible (relatively low intra- and inter-chip variability) and sensitive (as few as ∼20 CFU, Colony-Forming Units, per reaction well) on-chip arsB1-LAMP assay was demonstrated by using diluted lysate of V. splendidus. A linear standard curve (R2 > 0.98) was attained over the template concentration range of 5 × 103 to 5 × 106 CFU mL-1. V. splendidus can be detected in samples containing different bacteria, indicating the feasibility of the portable microfluidic LAMP system for parallel detection of multiple bacterial pathogens. The proposed on-chip LAMP assay is simple to operate, reliable for amplification, flexible in detection and cost-effective in instrumentation and testing, holding great potential for on-site rapid detection and routine monitoring of aquaculture pathogens.
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Affiliation(s)
- Runtao Zhong
- Institute of Environmental Systems Biology, Dalian Maritime University, 1 Linghai Road, Dalian 116026, China.
| | - Shilin Liu
- Institute of Environmental Systems Biology, Dalian Maritime University, 1 Linghai Road, Dalian 116026, China.
| | - Xiaohui Wang
- Dalian University, Dalian Economic & Technical Development Zone, Dalian 116622, China
| | - Guohao Zhang
- Beijing Baicare Biotechnology Co., Ltd., Zhongguancun Life Science Park, Beijing 102206, China
| | - Ning Gong
- Institute of Environmental Systems Biology, Dalian Maritime University, 1 Linghai Road, Dalian 116026, China.
| | - Mengyu Wang
- Institute of Environmental Systems Biology, Dalian Maritime University, 1 Linghai Road, Dalian 116026, China.
| | - Yeqing Sun
- Institute of Environmental Systems Biology, Dalian Maritime University, 1 Linghai Road, Dalian 116026, China.
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12
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Zhong R, Liu S, Zhang G, Wang M, Sun Y. iso-μmGene: an isothermal amplification-based portable microfluidic system for simple, reliable and flexibly multiplexed genetic identification and quantification. Analyst 2020; 145:4627-4636. [DOI: 10.1039/d0an00560f] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We present a portable microfluidic LAMP system (iso-μmGene) with features of multi-well chips for convenient filling and reliable sealing, flexible detection throughput, and stand-alone and well-performing point of care device for genetic testing.
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Affiliation(s)
- Runtao Zhong
- Institute of Environmental Systems Biology
- Dalian Maritime University
- Dalian 116026
- China
| | - Shilin Liu
- Institute of Environmental Systems Biology
- Dalian Maritime University
- Dalian 116026
- China
| | - Guohao Zhang
- Beijing Baicare Biotechnology Co
- Ltd
- Beijing 102206
- China
| | - Mengyu Wang
- Institute of Environmental Systems Biology
- Dalian Maritime University
- Dalian 116026
- China
| | - Yeqing Sun
- Institute of Environmental Systems Biology
- Dalian Maritime University
- Dalian 116026
- China
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13
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Shang Y, Sun J, Ye Y, Zhang J, Zhang Y, Sun X. Loop-mediated isothermal amplification-based microfluidic chip for pathogen detection. Crit Rev Food Sci Nutr 2018; 60:201-224. [DOI: 10.1080/10408398.2018.1518897] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Yuting Shang
- State Key Laboratory of Food Science and Technology School of Food Science National Engineering Research Center for Functional Foods, Synergetic Innovation Center of Food Safety, Joint International Research Laboratory on Food Safety, Jiangnan University, Wuxi, Jiangsu, China
| | - Jiadi Sun
- State Key Laboratory of Food Science and Technology School of Food Science National Engineering Research Center for Functional Foods, Synergetic Innovation Center of Food Safety, Joint International Research Laboratory on Food Safety, Jiangnan University, Wuxi, Jiangsu, China
| | - Yongli Ye
- State Key Laboratory of Food Science and Technology School of Food Science National Engineering Research Center for Functional Foods, Synergetic Innovation Center of Food Safety, Joint International Research Laboratory on Food Safety, Jiangnan University, Wuxi, Jiangsu, China
| | - Jumei Zhang
- Guangdong Institute of Microbiology, State Key Laboratory of Applied Microbiology Southern China Guangdong Provincial Key Laboratory of Microbiology Culture Collection and Application Guangdong Open Laboratory of Applied Microbiology, Guangzhou, China
| | - Yinzhi Zhang
- State Key Laboratory of Food Science and Technology School of Food Science National Engineering Research Center for Functional Foods, Synergetic Innovation Center of Food Safety, Joint International Research Laboratory on Food Safety, Jiangnan University, Wuxi, Jiangsu, China
| | - Xiulan Sun
- State Key Laboratory of Food Science and Technology School of Food Science National Engineering Research Center for Functional Foods, Synergetic Innovation Center of Food Safety, Joint International Research Laboratory on Food Safety, Jiangnan University, Wuxi, Jiangsu, China
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14
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Yang Q, Domesle KJ, Ge B. Loop-Mediated Isothermal Amplification for Salmonella Detection in Food and Feed: Current Applications and Future Directions. Foodborne Pathog Dis 2018; 15:309-331. [PMID: 29902082 PMCID: PMC6004089 DOI: 10.1089/fpd.2018.2445] [Citation(s) in RCA: 56] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
Loop-mediated isothermal amplification (LAMP) has become a powerful alternative to polymerase chain reaction (PCR) for pathogen detection in clinical specimens and food matrices. Nontyphoidal Salmonella is a zoonotic pathogen of significant food and feed safety concern worldwide. The first study employing LAMP for the rapid detection of Salmonella was reported in 2005, 5 years after the invention of the LAMP technology in Japan. This review provides an overview of international efforts in the past decade on the development and application of Salmonella LAMP assays in a wide array of food and feed matrices. Recent progress in assay design, platform development, commercial application, and method validation is reviewed. Future perspectives toward more practical and wider applications of Salmonella LAMP assays in food and feed testing are discussed.
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Affiliation(s)
- Qianru Yang
- Division of Animal and Food Microbiology, Office of Research, Center for Veterinary Medicine , U.S. Food and Drug Administration, Laurel, Maryland
| | - Kelly J Domesle
- Division of Animal and Food Microbiology, Office of Research, Center for Veterinary Medicine , U.S. Food and Drug Administration, Laurel, Maryland
| | - Beilei Ge
- Division of Animal and Food Microbiology, Office of Research, Center for Veterinary Medicine , U.S. Food and Drug Administration, Laurel, Maryland
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15
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Satoh T, Kouroki S, Ogawa K, Tanaka Y, Matsumura K, Iwase S. Development of mRNA-based body fluid identification using reverse transcription loop-mediated isothermal amplification. Anal Bioanal Chem 2018; 410:4371-4378. [PMID: 29696299 DOI: 10.1007/s00216-018-1088-5] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2018] [Revised: 04/10/2018] [Accepted: 04/13/2018] [Indexed: 11/24/2022]
Abstract
Identifying body fluids from forensic samples can provide valuable evidence for criminal investigations. Messenger RNA (mRNA)-based body fluid identification was recently developed, and highly sensitive parallel identification using reverse transcription polymerase chain reaction (RT-PCR) has been described. In this study, we developed reverse transcription loop-mediated isothermal amplification (RT-LAMP) as a simple, rapid assay for identifying three common forensic body fluids, namely blood, semen, and saliva, and evaluated its specificity and sensitivity. Hemoglobin beta (HBB), transglutaminase 4 (TGM4), and statherin (STATH) were selected as marker genes for blood, semen, and saliva, respectively. RT-LAMP could be performed in a single step including both reverse transcription and DNA amplification under an isothermal condition within 60 min, and detection could be conveniently performed via visual fluorescence. Marker-specific amplification was performed in each assay, and no cross-reaction was observed among five representative forensically relevant body fluids. The detection limits of the assays were 0.3 nL, 30 nL, and 0.3 μL for blood, semen, and saliva, respectively, and their sensitivities were comparable with those of RT-PCR. Furthermore, RT-LAMP assays were applicable to forensic casework samples. It is considered that RT-LAMP is useful for body fluid identification.
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Affiliation(s)
- Tetsuya Satoh
- Forensic Science Laboratory, Kumamoto Prefectural Police Headquarters, 6-18-1 Suizenji, Chuo-ku Kumamoto-shi, Kumamoto, 862-8610, Japan.
| | - Seiya Kouroki
- Forensic Science Laboratory, Kumamoto Prefectural Police Headquarters, 6-18-1 Suizenji, Chuo-ku Kumamoto-shi, Kumamoto, 862-8610, Japan
| | - Keita Ogawa
- Forensic Science Laboratory, Kumamoto Prefectural Police Headquarters, 6-18-1 Suizenji, Chuo-ku Kumamoto-shi, Kumamoto, 862-8610, Japan
| | - Yorika Tanaka
- Forensic Science Laboratory, Kumamoto Prefectural Police Headquarters, 6-18-1 Suizenji, Chuo-ku Kumamoto-shi, Kumamoto, 862-8610, Japan
| | - Kazutoshi Matsumura
- Forensic Science Laboratory, Kumamoto Prefectural Police Headquarters, 6-18-1 Suizenji, Chuo-ku Kumamoto-shi, Kumamoto, 862-8610, Japan
| | - Susumu Iwase
- Forensic Science Laboratory, Kumamoto Prefectural Police Headquarters, 6-18-1 Suizenji, Chuo-ku Kumamoto-shi, Kumamoto, 862-8610, Japan
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16
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Abstract
Rapid detection of foodborne pathogens at an early stage is imperative for preventing the outbreak of foodborne diseases, known as serious threats to human health. Conventional bacterial culturing methods for foodborne pathogen detection are time consuming, laborious, and with poor pathogen diagnosis competences. This has prompted researchers to call the current status of detection approaches into question and leverage new technologies for superior pathogen sensing outcomes. Novel strategies mainly rely on incorporating all the steps from sample preparation to detection in miniaturized devices for online monitoring of pathogens with high accuracy and sensitivity in a time-saving and cost effective manner. Lab on chip is a blooming area in diagnosis, which exploits different mechanical and biological techniques to detect very low concentrations of pathogens in food samples. This is achieved through streamlining the sample handling and concentrating procedures, which will subsequently reduce human errors and enhance the accuracy of the sensing methods. Integration of sample preparation techniques into these devices can effectively minimize the impact of complex food matrix on pathogen diagnosis and improve the limit of detections. Integration of pathogen capturing bio-receptors on microfluidic devices is a crucial step, which can facilitate recognition abilities in harsh chemical and physical conditions, offering a great commercial benefit to the food-manufacturing sector. This article reviews recent advances in current state-of-the-art of sample preparation and concentration from food matrices with focus on bacterial capturing methods and sensing technologies, along with their advantages and limitations when integrated into microfluidic devices for online rapid detection of pathogens in foods and food production line.
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17
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Trinh KTL, Lee NY. Glass-polytetrafluoroethylene-glass based sandwich microdevice for continuous-flow polymerase chain reaction and its application for fast identification of foodborne pathogens. Talanta 2018; 176:544-550. [DOI: 10.1016/j.talanta.2017.07.085] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2017] [Revised: 07/26/2017] [Accepted: 07/27/2017] [Indexed: 10/19/2022]
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18
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See GG, Gao A, Xu L, Nuzzo R, Gong S, Cunningham BT. Quantum dot emission modulation using piezoelectric photonic crystal MEMS resonators. OPTICS EXPRESS 2017; 25:25831-25841. [PMID: 29041246 DOI: 10.1364/oe.25.025831] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/09/2017] [Accepted: 10/02/2017] [Indexed: 06/07/2023]
Abstract
Quantum dots (QDs) integration into photonic devices requires varied approaches to control and modulate their emission. We demonstrate voltage-tunable PC structures with integrated QDs over suspended piezoelectric aluminum nitride thin film resonators that modulate PC enhancement at MHz frequencies. When the piezoelectric device is actuated at its resonant mechanical frequency, the extracted QD emission direction is likewise modulated via the optical resonant frequency of the PC. Modulation uses nanometer-scale mechanical displacements, offering the potential for greater switching speed and improved mechanical robustness that is not subject to the effects of stiction with a scalable fabrication approach.
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19
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Chen W, Yu H, Sun F, Ornob A, Brisbin R, Ganguli A, Vemuri V, Strzebonski P, Cui G, Allen KJ, Desai SA, Lin W, Nash DM, Hirschberg DL, Brooks I, Bashir R, Cunningham BT. Mobile Platform for Multiplexed Detection and Differentiation of Disease-Specific Nucleic Acid Sequences, Using Microfluidic Loop-Mediated Isothermal Amplification and Smartphone Detection. Anal Chem 2017; 89:11219-11226. [PMID: 28819973 DOI: 10.1021/acs.analchem.7b02478] [Citation(s) in RCA: 55] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
New tools are needed to enable rapid detection, identification, and reporting of infectious viral and microbial pathogens in a wide variety of point-of-care applications that impact human and animal health. We report the design, construction, and characterization of a platform for multiplexed analysis of disease-specific DNA sequences that utilizes a smartphone camera as the sensor in conjunction with a hand-held "cradle" that interfaces the phone with a silicon-based microfluidic chip embedded within a credit-card-sized cartridge. Utilizing specific nucleic acid sequences for four equine respiratory pathogens as representative examples, we demonstrated the ability of the system to utilize a single 15 μL droplet of test sample to perform selective positive/negative determination of target sequences, including integrated experimental controls, in approximately 30 min. Our approach utilizes loop-mediated isothermal amplification (LAMP) reagents predeposited into distinct lanes of the microfluidic chip, which when exposed to target nucleic acid sequences from the test sample, generates fluorescent products that when excited by appropriately selected light emitting diodes (LEDs), are visualized and automatically analyzed by a software application running on the smartphone microprocessor. The system achieves detection limits comparable to those obtained by laboratory-based methods and instruments. Assay information is combined with the information from the cartridge and the patient to populate a cloud-based database for epidemiological reporting of test results.
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Affiliation(s)
- Weili Chen
- Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Hojeong Yu
- Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Fu Sun
- Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Akid Ornob
- Department of Bioengineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Ryan Brisbin
- Center for Urban Waters & The School of Interdisciplinary Arts and Sciences, University of Washington Tacoma , Tacoma, Washington 98402, United States
| | - Anurup Ganguli
- Department of Bioengineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Vinay Vemuri
- Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Piotr Strzebonski
- Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Guangzhe Cui
- Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Karen J Allen
- School of Information Sciences, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Smit A Desai
- School of Information Sciences, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Weiran Lin
- Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - David M Nash
- Private veterinary practice , Lexington, Kentucky 40509, United States
| | - David L Hirschberg
- Center for Urban Waters & The School of Interdisciplinary Arts and Sciences, University of Washington Tacoma , Tacoma, Washington 98402, United States.,Readiness Acceleration and Innovation Network , Tacoma, Washington 98402, United States
| | - Ian Brooks
- School of Information Sciences, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Rashid Bashir
- Department of Bioengineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
| | - Brian T Cunningham
- Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States.,Department of Bioengineering, University of Illinois at Urbana-Champaign , Urbana, Illinois 61801, United States
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20
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Ganguli A, Ornob A, Yu H, Damhorst GL, Chen W, Sun F, Bhuiya A, Cunningham BT, Bashir R. Hands-free smartphone-based diagnostics for simultaneous detection of Zika, Chikungunya, and Dengue at point-of-care. Biomed Microdevices 2017; 19:73. [PMID: 28831630 DOI: 10.1007/s10544-017-0209-9] [Citation(s) in RCA: 98] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
Infectious diseases remain the world's top contributors to death and disability, and, with recent outbreaks of Zika virus infections there has been an urgency for simple, sensitive and easily translatable point-of-care tests. Here we demonstrate a novel point-of-care platform to diagnose infectious diseases from whole blood samples. A microfluidic platform performs minimal sample processing in a user-friendly diagnostics card followed by real-time reverse-transcription loop-mediated isothermal amplification (RT-LAMP) on the same card with pre-dried primers specific to viral targets. Our point-of-care platform uses a commercial smartphone to acquire real-time images of the amplification reaction and displays a visual read-out of the assay. We apply this system to detect closely related Zika, Dengue (types 1 and 3) and Chikungunya virus infections from whole blood on the same pre-printed chip with high specificity and clinically relevant sensitivity. Limit of detection of 1.56e5 PFU/mL of Zika virus from whole blood was achieved through our platform. With the ability to quantitate the target nucleic acid, this platform can also perform point-of-care patient surveillance for pathogen load or select biomarkers in whole blood.
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Affiliation(s)
- A Ganguli
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Champaign, IL, USA.,Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Champaign, IL, USA
| | - A Ornob
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Champaign, IL, USA.,Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Champaign, IL, USA
| | - H Yu
- Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Champaign, IL, USA.,Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign, Champaign, IL, USA
| | - G L Damhorst
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Champaign, IL, USA.,Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Champaign, IL, USA.,College of Medicine at Urbana-Champaign, University of Illinois, Champaign, IL, USA
| | - W Chen
- Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Champaign, IL, USA.,Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign, Champaign, IL, USA
| | - F Sun
- Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Champaign, IL, USA.,Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign, Champaign, IL, USA
| | - A Bhuiya
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Champaign, IL, USA.,Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Champaign, IL, USA
| | - B T Cunningham
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Champaign, IL, USA. .,Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Champaign, IL, USA. .,Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign, Champaign, IL, USA.
| | - R Bashir
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Champaign, IL, USA. .,Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Champaign, IL, USA. .,Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign, Champaign, IL, USA. .,Carle Illinois College of Medicine, Urbana, IL, USA.
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21
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Dou M, Sanjay ST, Dominguez DC, Liu P, Xu F, Li X. Multiplexed instrument-free meningitis diagnosis on a polymer/paper hybrid microfluidic biochip. Biosens Bioelectron 2017; 87:865-873. [PMID: 27657849 PMCID: PMC5125860 DOI: 10.1016/j.bios.2016.09.033] [Citation(s) in RCA: 89] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2016] [Revised: 08/30/2016] [Accepted: 09/10/2016] [Indexed: 11/18/2022]
Abstract
Neisseria meningitidis (N. meningitidis), Streptococcus pneumoniae (S. pneumoniae), and Haemophilus influenzae type b (Hib) are three most common pathogens accounting for most bacterial meningitis, a serious global infectious disease with high fatality, especially in developing nations. Because the treatment and antibiotics differ among each type, the identification of the exact bacteria causing the disease is vital. Herein, we report a polymer/paper hybrid microfluidic biochip integrated with loop-mediated isothermal amplification (LAMP) for multiplexed instrument-free diagnosis of these three major types of bacterial meningitis, with high sensitivity and specificity. Results can be visually observed by the naked eye or imaged by a smartphone camera under a portable UV light source. Without using any specialized laboratory instrument, the limits of detection of a few DNA copies per LAMP zone for N. meningitidis, S. pneumoniae and Hib were achieved within 1h. In addition, these three types of microorganisms spiked in artificial cerebrospinal fluid (ACSF) were directly detected simultaneously, avoiding cumbersome sample preparation procedures in conventional methods. Compared with the paper-free non-hybrid microfluidic biochip over a period of three months, the hybrid microfluidic biochip was found to have a much longer shelf life. Hence, this rapid, instrument-free and highly sensitive microfluidic approach has great potential for point-of-care (POC) diagnosis of multiple infectious diseases simultaneously, especially in resource-limited settings.
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Affiliation(s)
- Maowei Dou
- Department of Chemistry, University of Texas at El Paso, 500 West University Ave, El Paso, TX 79968, USA
| | - Sharma T Sanjay
- Department of Chemistry, University of Texas at El Paso, 500 West University Ave, El Paso, TX 79968, USA
| | - Delfina C Dominguez
- College of Health Sciences, University of Texas at El Paso, 500 West University Ave, El Paso, TX 79968, USA
| | - Peng Liu
- Department of Biomedical Engineering, School of Medicine, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Tsinghua University, Beijing, 100084, China
| | - Feng Xu
- Bioinspired Engineering and Biomechanics Center (BEBC), Xi'an Jiaotong University, Xi'an 710049, PR China
| | - XiuJun Li
- Department of Chemistry, University of Texas at El Paso, 500 West University Ave, El Paso, TX 79968, USA; Biomedical Engineering, University of Texas at El Paso, 500 West University Ave, El Paso, TX 79968, USA; Border Biomedical Research Center, University of Texas at El Paso, 500 West University Ave, El Paso, TX 79968, USA; Environmental Science and Engineering, University of Texas at El Paso, 500 West University Ave, El Paso, TX 79968, USA.
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22
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Microfluidic Devices for Forensic DNA Analysis: A Review. BIOSENSORS-BASEL 2016; 6:bios6030041. [PMID: 27527231 PMCID: PMC5039660 DOI: 10.3390/bios6030041] [Citation(s) in RCA: 75] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/08/2016] [Revised: 07/07/2016] [Accepted: 07/25/2016] [Indexed: 12/16/2022]
Abstract
Microfluidic devices may offer various advantages for forensic DNA analysis, such as reduced risk of contamination, shorter analysis time and direct application at the crime scene. Microfluidic chip technology has already proven to be functional and effective within medical applications, such as for point-of-care use. In the forensic field, one may expect microfluidic technology to become particularly relevant for the analysis of biological traces containing human DNA. This would require a number of consecutive steps, including sample work up, DNA amplification and detection, as well as secure storage of the sample. This article provides an extensive overview of microfluidic devices for cell lysis, DNA extraction and purification, DNA amplification and detection and analysis techniques for DNA. Topics to be discussed are polymerase chain reaction (PCR) on-chip, digital PCR (dPCR), isothermal amplification on-chip, chip materials, integrated devices and commercially available techniques. A critical overview of the opportunities and challenges of the use of chips is discussed, and developments made in forensic DNA analysis over the past 10–20 years with microfluidic systems are described. Areas in which further research is needed are indicated in a future outlook.
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23
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Duarte-Guevara C, Swaminathan V, Reddy B, Huang JC, Liu YS, Bashir R. On-chip electrical detection of parallel loop-mediated isothermal amplification with DG-BioFETs for the detection of foodborne bacterial pathogens. RSC Adv 2016. [DOI: 10.1039/c6ra19685c] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023] Open
Abstract
Over one million DG-BioFETs are used for the parallel electrical detection of LAMP reactions identifying the presence of bacterial pathogens, demonstrating a miniaturized DNA-based screening platform.
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Affiliation(s)
- Carlos Duarte-Guevara
- Department of Electrical and Computer Engineering
- University of Illinois at Urbana-Champaign
- Urbana
- USA
- Micro and Nanotechnology Laboratory
| | | | - Bobby Reddy
- Micro and Nanotechnology Laboratory
- University of Illinois at Urbana-Champaign
- Urbana
- USA
| | - Jui-Cheng Huang
- Design and Technology Platform
- Taiwan Semiconductor Manufacturing Company
- Hsinchu
- Taiwan
| | - Yi-Shao Liu
- Research and Ecosystem
- Delta Electronics Inc
- 417939 Singapore
| | - Rashid Bashir
- Department of Bioengineering
- University of Illinois at Urbana-Champaign
- Urbana
- USA
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24
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Xu W, Wang C, Zhu P, Guo T, Xu Y, Huang K, Luo Y. Real-time quantitative nicking endonuclease-mediated isothermal amplification with small molecular beacons. Analyst 2016; 141:2542-52. [DOI: 10.1039/c6an00145a] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
This nicking endonuclease-mediated isothermal amplification with small molecular beacons (SMB-NEMA) method allows the simple, specific and sensitive assessment of isothermal DNA quantification.
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Affiliation(s)
- Wentao Xu
- Beijing Advanced Innovation Center for Food Nutrition and Human Health
- College of Food Science & Nutritional Engineering
- China Agricultural University
- Beijing 100083
- China
| | - Chenguang Wang
- Beijing Advanced Innovation Center for Food Nutrition and Human Health
- College of Food Science & Nutritional Engineering
- China Agricultural University
- Beijing 100083
- China
| | - Pengyu Zhu
- Beijing Advanced Innovation Center for Food Nutrition and Human Health
- College of Food Science & Nutritional Engineering
- China Agricultural University
- Beijing 100083
- China
| | - Tianxiao Guo
- Beijing Advanced Innovation Center for Food Nutrition and Human Health
- College of Food Science & Nutritional Engineering
- China Agricultural University
- Beijing 100083
- China
| | - Yuancong Xu
- Beijing Advanced Innovation Center for Food Nutrition and Human Health
- College of Food Science & Nutritional Engineering
- China Agricultural University
- Beijing 100083
- China
| | - Kunlun Huang
- Beijing Advanced Innovation Center for Food Nutrition and Human Health
- College of Food Science & Nutritional Engineering
- China Agricultural University
- Beijing 100083
- China
| | - Yunbo Luo
- Beijing Advanced Innovation Center for Food Nutrition and Human Health
- College of Food Science & Nutritional Engineering
- China Agricultural University
- Beijing 100083
- China
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25
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Strachan BC, Sloane HS, Houpt E, Lee JC, Miranian DC, Li J, Nelson DA, Landers JP. A simple integrated microfluidic device for the multiplexed fluorescence-free detection of Salmonella enterica. Analyst 2015; 141:947-55. [PMID: 26658961 DOI: 10.1039/c5an01969a] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Rapid, inexpensive and simplistic nucleic acid testing (NAT) is pivotal in delivering biotechnology solutions at the point-of-care (POC). We present a poly(methylmethacrylate) (PMMA) microdevice where on-board infrared-mediated PCR amplification is seamlessly integrated with a particle-based, visual DNA detection for specific detection of bacterial targets in less than 35 minutes. Fluidic control is achieved using a capillary burst valve laser-ablated in a novel manner to confine the PCR reagents to a chamber during thermal cycling, and a manual torque-actuated pressure system to mobilize the fluid from the PCR chamber to the detection reservoir containing oligonucleotide-adducted magnetic particles. Interaction of amplified products specific to the target organism with the beads in a rotating magnetic field allows for near instantaneous (<30 s) detection based on hybridization-induced aggregation (HIA) of the particles and simple optical analysis. The integration of PCR with this rapid, sequence-specific DNA detection method on a single microdevice presents the possibility of creating POC NAT systems that are low cost, easy-to-use, and involve minimal external hardware.
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Affiliation(s)
- Briony C Strachan
- Dept of Chemistry, McCormick Road, University of Virginia, Charlottesville, VA 22904, USA.
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26
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Stedtfeld RD, Liu YC, Stedtfeld TM, Kostic T, Kronlein M, Srivannavit O, Khalife WT, Tiedje JM, Gulari E, Hughes M, Etchebarne B, Hashsham SA. Static self-directed sample dispensing into a series of reaction wells on a microfluidic card for parallel genetic detection of microbial pathogens. Biomed Microdevices 2015; 17:89. [PMID: 26260693 PMCID: PMC4531140 DOI: 10.1007/s10544-015-9994-1] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
A microfluidic card is described for simultaneous and rapid genetic detection of multiple microbial pathogens. The hydrophobic surface of native acrylic and a novel microfluidic mechanism termed "airlock" were used to dispense sample into a series of 64 reaction wells without the use of valves, external pumping peripherals, multiple layers, or vacuum assistance. This airlock mechanism was tested with dilutions of whole human blood, saliva, and urine, along with mock samples of varying viscosities and surface tensions. Samples spiked with genomic DNA (gDNA) or crude lysates from clinical bacterial isolates were tested with loop mediated isothermal amplification assays (LAMP) designed to target virulence and antibiotic resistance genes. Reactions were monitored in real time using the Gene-Z, which is a portable smartphone-driven system. Samples loaded correctly into the microfluidic card in 99.3% of instances. Amplification results confirmed no carryover of pre-dispensed primer between wells during sample loading, and no observable diffusion between adjacent wells during the 60 to 90 min isothermal reaction. Sensitivity was comparable between LAMP reactions tested within the microfluidic card and in conventional vials. Tests demonstrate that the airlock card works with various sample types, manufacturing techniques, and can potentially be used in many point-of-care diagnostics applications.
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Affiliation(s)
- Robert D. Stedtfeld
- />Civil and Environmental Engineering, Michigan State University, East Lansing, MI 48824 USA
| | - Yen-Cheng Liu
- />Civil and Environmental Engineering, Michigan State University, East Lansing, MI 48824 USA
| | - Tiffany M. Stedtfeld
- />Civil and Environmental Engineering, Michigan State University, East Lansing, MI 48824 USA
| | - Tanja Kostic
- />Civil and Environmental Engineering, Michigan State University, East Lansing, MI 48824 USA
- />Bioresources Unit, AIT Austrian Institute of Technology GmbH, Konrad Lorenz Strasse 24, A-3430 Tulln, Austria
| | - Maggie Kronlein
- />Civil and Environmental Engineering, Michigan State University, East Lansing, MI 48824 USA
| | - Onnop Srivannavit
- />Department of Chemical Engineering, University of Michigan, Ann Arbor, MI 48109 USA
| | - Walid T. Khalife
- />Department of Microbiology, Sparrow Laboratories, Sparrow Health System, Lansing, MI 48912 USA
| | - James M. Tiedje
- />The Center for Microbial Ecology, Michigan State University, East Lansing, MI 48824 USA
- />Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI 48824 USA
| | - Erdogan Gulari
- />Department of Chemical Engineering, University of Michigan, Ann Arbor, MI 48109 USA
| | - Mary Hughes
- />Department of Osteopathic Medical Specialties, Section of Emergency Medicine, College of Osteopathic Medicine, Michigan State University, East Lansing, MI 48824 USA
| | - Brett Etchebarne
- />Department of Osteopathic Medical Specialties, Section of Emergency Medicine, College of Osteopathic Medicine, Michigan State University, East Lansing, MI 48824 USA
| | - Syed A. Hashsham
- />Civil and Environmental Engineering, Michigan State University, East Lansing, MI 48824 USA
- />The Center for Microbial Ecology, Michigan State University, East Lansing, MI 48824 USA
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Damhorst GL, Duarte-Guevara C, Chen W, Ghonge T, Cunningham BT, Bashir R. Smartphone-Imaged HIV-1 Reverse-Transcription Loop-Mediated Isothermal Amplification (RT-LAMP) on a Chip from Whole Blood. ENGINEERING (BEIJING, CHINA) 2015; 1:324-335. [PMID: 26705482 PMCID: PMC4687746 DOI: 10.15302/j-eng-2015072] [Citation(s) in RCA: 66] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
Viral load measurements are an essential tool for the long-term clinical care of hum an immunodeficiency virus (HIV)-positive individuals. The gold standards in viral load instrumentation, however, are still too limited by their size, cost, and sophisticated operation for these measurements to be ubiquitous in remote settings with poor healthcare infrastructure, including parts of the world that are disproportionately affected by HIV infection. The challenge of developing a point-of-care platform capable of making viral load more accessible has been frequently approached but no solution has yet emerged that meets the practical requirements of low cost, portability, and ease-of-use. In this paper, we perform reverse-transcription loop-mediated isothermal amplification (RT-LAMP) on minimally processed HIV-spiked whole blood samples with a microfluidic and silicon microchip platform, and perform fluorescence measurements with a consumer smartphone. Our integrated assay shows amplification from as few as three viruses in a ~ 60 nL RT-LAMP droplet, corresponding to a whole blood concentration of 670 viruses per µL of whole blood. The technology contains greater power in a digital RT-LAMP approach that could be scaled up for the determination of viral load from a finger prick of blood in the clinical care of HIV-positive individuals. We demonstrate that all aspects of this viral load approach, from a drop of blood to imaging the RT-LAMP reaction, are compatible with lab-on-a-chip components and mobile instrumentation.
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Affiliation(s)
- Gregory L. Damhorst
- Department of Bioengineering, The University of Illinois at
Urbana-Champaign, Urbana, IL 61801, USA
- Micro and Nanotechnology Laboratory, The University of
Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Carlos Duarte-Guevara
- Micro and Nanotechnology Laboratory, The University of
Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Electrical and Computer Engineering, The
University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Weili Chen
- Micro and Nanotechnology Laboratory, The University of
Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Electrical and Computer Engineering, The
University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Tanmay Ghonge
- Department of Bioengineering, The University of Illinois at
Urbana-Champaign, Urbana, IL 61801, USA
- Micro and Nanotechnology Laboratory, The University of
Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Brian T. Cunningham
- Department of Bioengineering, The University of Illinois at
Urbana-Champaign, Urbana, IL 61801, USA
- Micro and Nanotechnology Laboratory, The University of
Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Electrical and Computer Engineering, The
University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Rashid Bashir
- Department of Bioengineering, The University of Illinois at
Urbana-Champaign, Urbana, IL 61801, USA
- Micro and Nanotechnology Laboratory, The University of
Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Electrical and Computer Engineering, The
University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Correspondence author.
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29
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Mauk MG, Liu C, Sadik M, Bau HH. Microfluidic devices for nucleic acid (NA) isolation, isothermal NA amplification, and real-time detection. Methods Mol Biol 2015; 1256:15-40. [PMID: 25626529 PMCID: PMC6540113 DOI: 10.1007/978-1-4939-2172-0_2] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
Molecular (nucleic acid)-based diagnostics tests have many advantages over immunoassays, particularly with regard to sensitivity and specificity. Most on-site diagnostic tests, however, are immunoassay-based because conventional nucleic acid-based tests (NATs) require extensive sample processing, trained operators, and specialized equipment. To make NATs more convenient, especially for point-of-care diagnostics and on-site testing, a simple plastic microfluidic cassette ("chip") has been developed for nucleic acid-based testing of blood, other clinical specimens, food, water, and environmental samples. The chip combines nucleic acid isolation by solid-phase extraction; isothermal enzymatic amplification such as LAMP (Loop-mediated AMPlification), NASBA (Nucleic Acid Sequence Based Amplification), and RPA (Recombinase Polymerase Amplification); and real-time optical detection of DNA or RNA analytes. The microfluidic cassette incorporates an embedded nucleic acid binding membrane in the amplification reaction chamber. Target nucleic acids extracted from a lysate are captured on the membrane and amplified at a constant incubation temperature. The amplification product, labeled with a fluorophore reporter, is excited with a LED light source and monitored in situ in real time with a photodiode or a CCD detector (such as available in a smartphone). For blood analysis, a companion filtration device that separates plasma from whole blood to provide cell-free samples for virus and bacterial lysis and nucleic acid testing in the microfluidic chip has also been developed. For HIV virus detection in blood, the microfluidic NAT chip achieves a sensitivity and specificity that are nearly comparable to conventional benchtop protocols using spin columns and thermal cyclers.
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Affiliation(s)
- Michael G Mauk
- Department of Mechanical Engineering and Applied Mechanics, School of Engineering and Applied Science, University of Pennsylvania, 220 South 33rd Street, 107 towne building, Philadelphia, PA, 19104-6315, USA
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30
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Zhang X, Lowe SB, Gooding JJ. Brief review of monitoring methods for loop-mediated isothermal amplification (LAMP). Biosens Bioelectron 2014; 61:491-9. [DOI: 10.1016/j.bios.2014.05.039] [Citation(s) in RCA: 194] [Impact Index Per Article: 19.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2014] [Revised: 05/14/2014] [Accepted: 05/15/2014] [Indexed: 01/20/2023]
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31
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Mortari A, Lorenzelli L. Recent sensing technologies for pathogen detection in milk: A review. Biosens Bioelectron 2014; 60:8-21. [DOI: 10.1016/j.bios.2014.03.063] [Citation(s) in RCA: 65] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2013] [Revised: 03/07/2014] [Accepted: 03/26/2014] [Indexed: 01/30/2023]
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32
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Duarte-Guevara C, Lai FL, Cheng CW, Reddy B, Salm E, Swaminathan V, Tsui YK, Tuan HC, Kalnitsky A, Liu YS, Bashir R. Enhanced Biosensing Resolution with Foundry Fabricated Individually Addressable Dual-Gated ISFETs. Anal Chem 2014; 86:8359-67. [DOI: 10.1021/ac501912x] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Carlos Duarte-Guevara
- Department
of Electrical and Computer Engineering, University of Illinois at Urbana−Champaign, William L. Everitt Laboratory, 1406 West
Green Street, Urbana, Illinois 61801, United States
- Micro
and Nanotechnology Lab, University of Illinois at Urbana−Champaign, 208 North Wright Street, Urbana, Illinois 61801, United States
| | - Fei-Lung Lai
- Taiwan Semiconductor
Manufacturing Company, 9 Creation Rd,
Hsinchu Science Park, Hsinchu, Taiwan 300-77, R.O.C
| | - Chun-Wen Cheng
- Taiwan Semiconductor
Manufacturing Company, 9 Creation Rd,
Hsinchu Science Park, Hsinchu, Taiwan 300-77, R.O.C
| | - Bobby Reddy
- Department
of Electrical and Computer Engineering, University of Illinois at Urbana−Champaign, William L. Everitt Laboratory, 1406 West
Green Street, Urbana, Illinois 61801, United States
- Micro
and Nanotechnology Lab, University of Illinois at Urbana−Champaign, 208 North Wright Street, Urbana, Illinois 61801, United States
| | - Eric Salm
- Department
of Bioengineering, University of Illinois at Urbana−Champaign, 1270 Digital Computer Laboratory, 1304 West Springfield Avenue, Urbana, Illinois 61801, United States
- Micro
and Nanotechnology Lab, University of Illinois at Urbana−Champaign, 208 North Wright Street, Urbana, Illinois 61801, United States
| | - Vikhram Swaminathan
- Department
of Mechanical Science and Engineering, University of Illinois at Urbana−Champaign, 1206 West Green Street, Urbana, 61801 Illinois, United States
- Micro
and Nanotechnology Lab, University of Illinois at Urbana−Champaign, 208 North Wright Street, Urbana, Illinois 61801, United States
| | - Ying-Kit Tsui
- Taiwan Semiconductor
Manufacturing Company, 9 Creation Rd,
Hsinchu Science Park, Hsinchu, Taiwan 300-77, R.O.C
| | - Hsiao Chin Tuan
- Taiwan Semiconductor
Manufacturing Company, 9 Creation Rd,
Hsinchu Science Park, Hsinchu, Taiwan 300-77, R.O.C
| | - Alex Kalnitsky
- Taiwan Semiconductor
Manufacturing Company, 9 Creation Rd,
Hsinchu Science Park, Hsinchu, Taiwan 300-77, R.O.C
| | - Yi-Shao Liu
- Taiwan Semiconductor
Manufacturing Company, 9 Creation Rd,
Hsinchu Science Park, Hsinchu, Taiwan 300-77, R.O.C
| | - Rashid Bashir
- Department
of Bioengineering, University of Illinois at Urbana−Champaign, 1270 Digital Computer Laboratory, 1304 West Springfield Avenue, Urbana, Illinois 61801, United States
- Micro
and Nanotechnology Lab, University of Illinois at Urbana−Champaign, 208 North Wright Street, Urbana, Illinois 61801, United States
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33
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Zhou QJ, Wang L, Chen J, Wang RN, Shi YH, Li CH, Zhang DM, Yan XJ, Zhang YJ. Development and evaluation of a real-time fluorogenic loop-mediated isothermal amplification assay integrated on a microfluidic disc chip (on-chip LAMP) for rapid and simultaneous detection of ten pathogenic bacteria in aquatic animals. J Microbiol Methods 2014; 104:26-35. [PMID: 24954661 DOI: 10.1016/j.mimet.2014.06.008] [Citation(s) in RCA: 61] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2014] [Revised: 06/09/2014] [Accepted: 06/11/2014] [Indexed: 01/26/2023]
Abstract
Rapid, low-cost, and user-friendly strategies are urgently needed for early disease diagnosis and timely treatment, particularly for on-site screening of pathogens in aquaculture. In this study, we successfully developed a real-time fluorogenic loop-mediated isothermal amplification assay integrated on a microfluidic disc chip (on-chip LAMP), which was capable of simultaneously detecting 10 pathogenic bacteria in aquatic animals, i.e., Nocardia seriolae, Pseudomonas putida, Streptococcus iniae, Vibrio alginolyticus, Vibrio anguillarum, Vibrio fluvialis, Vibrio harveyi, Vibrio parahaemolyticus, Vibrio rotiferianus, and Vibrio vulnificus. The assay provided a nearly-automated approach, with only a single pipetting step per chip for sample dispensing. This technique could achieve limits of detection (LOD) ranging from 0.40 to 6.42pg per 1.414μL reaction in less than 30 min. The robust reproducibility was demonstrated by a little variation among duplications for each bacterium with the coefficient of variation (CV) for time to positive (Tp) value less than 0.10. The clinical sensitivity and specificity of this on-chip LAMP assay in detecting field samples were 96.2% and 93.8% by comparison with conventional microbiological methods. Compared with other well-known techniques, on-chip LAMP assay provides low sample and reagent consumption, ease-of-use, accelerated analysis, multiple bacteria and on-site detection, and high reproducibility, indicating that such a technique would be applicable for on-site detection and routine monitoring of multiple pathogens in aquaculture.
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Affiliation(s)
- Qian-Jin Zhou
- Laboratory of Biochemistry and Molecular Biology, School of Marine Sciences, Ningbo University, Ningbo 315211, PR China; Ningbo Branch of National Engineering Research Center for Beijing Biochip Technology, Ningbo University, Ningbo 315211, PR China
| | - Lei Wang
- CapitalBio Corporation, 18 Life Science Parkway, Changping District, Beijing 102206, PR China
| | - Jiong Chen
- Laboratory of Biochemistry and Molecular Biology, School of Marine Sciences, Ningbo University, Ningbo 315211, PR China; Ningbo Branch of National Engineering Research Center for Beijing Biochip Technology, Ningbo University, Ningbo 315211, PR China.
| | - Rui-Na Wang
- Laboratory of Biochemistry and Molecular Biology, School of Marine Sciences, Ningbo University, Ningbo 315211, PR China
| | - Yu-Hong Shi
- Laboratory of Biochemistry and Molecular Biology, School of Marine Sciences, Ningbo University, Ningbo 315211, PR China; Ningbo Branch of National Engineering Research Center for Beijing Biochip Technology, Ningbo University, Ningbo 315211, PR China
| | - Chang-Hong Li
- Laboratory of Biochemistry and Molecular Biology, School of Marine Sciences, Ningbo University, Ningbo 315211, PR China; Ningbo Branch of National Engineering Research Center for Beijing Biochip Technology, Ningbo University, Ningbo 315211, PR China
| | - De-Min Zhang
- Ningbo Branch of National Engineering Research Center for Beijing Biochip Technology, Ningbo University, Ningbo 315211, PR China
| | - Xiao-Jun Yan
- Ningbo Branch of National Engineering Research Center for Beijing Biochip Technology, Ningbo University, Ningbo 315211, PR China
| | - Yan-Jun Zhang
- Center for Disease Control and Prevention of Zhejiang Province, Hangzhou 310051, PR China
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34
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Zhi X, Deng M, Yang H, Gao G, Wang K, Fu H, Zhang Y, Chen D, Cui D. A novel HBV genotypes detecting system combined with microfluidic chip, loop-mediated isothermal amplification and GMR sensors. Biosens Bioelectron 2013; 54:372-7. [PMID: 24292142 DOI: 10.1016/j.bios.2013.11.025] [Citation(s) in RCA: 51] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2013] [Revised: 10/28/2013] [Accepted: 11/06/2013] [Indexed: 02/08/2023]
Abstract
Genotyping of hepatitis B virus (HBV) can be used for clinical effective therapeutic drug-selection. A novel microfluidic biochip for HBV genotyping has been fabricated, for the first time, integrating loop-mediated isothermal amplification (LAMP), line probes assay (LiPA) and giant magnetoresistive (GMR) sensors. Coupling LAMP with LiPA in microfluidic chip shortened reaction time substantially, and combining LAMP with GMR sensor enabled limit of detection to attain 10 copies mL(-1) target HBV DNA molecules in 1 h. Furthermore, the independent designed GMR sensors and microfluidic chip can decrease manufacturing cost and patient's test-cost, and facilitate GMR detector repeating use for signal detection. In addition, the detection system has a lower background signal owing to application of superparamagnetic nanoclusters. And it can be expected to use for multiple target molecules synchronous detection in microfluidic chip based on a characteristic of stationary reaction temperature of LAMP. In conclusion, the neoteric detecting system is well suitable for quick genotyping diagnosis of clinical HBV and other homothetic biomolecule detection in biological and medical fields.
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Affiliation(s)
- Xiao Zhi
- (a)National Key Laboratory of Nano/Micro Fabrication Technology, Key Laboratory for Thin Film and Microfabrication of Ministry of Education, Institute of Micro/Nano Science and Technology, Shanghai Jiao Tong University, 800 Dong Chuan Road, Shanghai 200240, People's Republic of China
| | - Min Deng
- (a)National Key Laboratory of Nano/Micro Fabrication Technology, Key Laboratory for Thin Film and Microfabrication of Ministry of Education, Institute of Micro/Nano Science and Technology, Shanghai Jiao Tong University, 800 Dong Chuan Road, Shanghai 200240, People's Republic of China
| | - Hao Yang
- (b)Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, No. 20 Dongda Street, Fengtai, Beijing 100071, P.R. China
| | - Guo Gao
- (b)Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, No. 20 Dongda Street, Fengtai, Beijing 100071, P.R. China
| | - Kan Wang
- (a)National Key Laboratory of Nano/Micro Fabrication Technology, Key Laboratory for Thin Film and Microfabrication of Ministry of Education, Institute of Micro/Nano Science and Technology, Shanghai Jiao Tong University, 800 Dong Chuan Road, Shanghai 200240, People's Republic of China
| | - Hualin Fu
- (a)National Key Laboratory of Nano/Micro Fabrication Technology, Key Laboratory for Thin Film and Microfabrication of Ministry of Education, Institute of Micro/Nano Science and Technology, Shanghai Jiao Tong University, 800 Dong Chuan Road, Shanghai 200240, People's Republic of China
| | - Yixia Zhang
- (a)National Key Laboratory of Nano/Micro Fabrication Technology, Key Laboratory for Thin Film and Microfabrication of Ministry of Education, Institute of Micro/Nano Science and Technology, Shanghai Jiao Tong University, 800 Dong Chuan Road, Shanghai 200240, People's Republic of China
| | - Di Chen
- (a)National Key Laboratory of Nano/Micro Fabrication Technology, Key Laboratory for Thin Film and Microfabrication of Ministry of Education, Institute of Micro/Nano Science and Technology, Shanghai Jiao Tong University, 800 Dong Chuan Road, Shanghai 200240, People's Republic of China
| | - Daxiang Cui
- (a)National Key Laboratory of Nano/Micro Fabrication Technology, Key Laboratory for Thin Film and Microfabrication of Ministry of Education, Institute of Micro/Nano Science and Technology, Shanghai Jiao Tong University, 800 Dong Chuan Road, Shanghai 200240, People's Republic of China.
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