A self-contained microfluidic in-gel loop-mediated isothermal amplification for multiplexed pathogen detection

Sensors and Actuators, B: Chemical

Volumn 239, Issue , 2017, Pages 1-8

  Chen, Chen ^a   Liu, Pian ^b   Zhao, Xing ^a   Du, Wei ^a   Feng, Xiaojun ^a   Liu, Bi Feng ^a  

^a HUAZHONG UNIVERSITY OF SCIENCE AND TECHNOLOGY   (China)

^b HUAZHONG UNIVERSITY OF SCIENCE AND TECHNOLOGY   (China)

Author keywords

Agarose; In gel loop mediated isothermal amplification; Microfluidic chip; Pathogen detection

Indexed keywords

AMPLIFICATION; CHEMICAL REACTIONS; DNA; ESCHERICHIA COLI; ISOTHERMS; MICROFLUIDICS; MICROPROCESSOR CHIPS;

AGAROSE; FLUORESCENCE INDICATORS; LOOP MEDIATED ISOTHERMAL AMPLIFICATIONS; MICROFLUIDIC CHIP; OPTIMIZED CONDITIONS; PATHOGEN DETECTION; SIMULTANEOUS DETECTION; VIBRIO PARAHAEMOLYTICUS;

PATHOGENS;

EID: 84979978261     PISSN: 09254005     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.snb.2016.07.164     Document Type: Article

References (42)

1. [1] Jokerst, J.C., Adkins, J.A., Bisha, B., Mentele, M.M., Goodridge, L.D., Henry, C.S., Development of a paper-based analytical device for colorimetric detection of select foodborne pathogens. Anal. Chem. 84 (2012), 2900–2907.
2. [2] Oliver, S.P., Jayarao, B.M., Almeida, R.A., Foodborne pathogens in milk and the dairy farm environment: food safety and public health implications. Foodborne Pathog. Dis. 2 (2005), 115–129.
3. [3] Leoni, E., Legnani, P.P., Comparison of selective procedures for isolation and enumeration of Legionella species from hot water systems. J. Appl. Microbiol. 90 (2001), 27–33.
4. [4] do Nascimento, C., de Albuquerque, R.F., Issa, J.P.M., Ito, I.Y., da Silva, C.H.L., Paranhos, H.D.O., et al. Use of the DNA Checkerboard hybridization method for detection and quantitation of Candida species in oral microbiota. Can. J. Microbiol. 55 (2009), 622–626.
5. [5] Pjescic, I., Crews, N., Genotyping from saliva with a one-step microdevice. Lab Chip, 12, 2012, 2514.
6. [6] Bej, A.K., Mahbubani, M.H., Atlas, R.M., Amplification of nucleic acids by polymerase chain reaction (PCR) and other methods and their applications. Crit. Rev. Biochem. Mol. Biol. 26 (1991), 301–334.
7. [7] Einsele, H., Hebart, H., Roller, G., Loffler, J., Rothenhofer, I., Muller, C.A., et al. Detection and identification of fungal pathogens in blood by using molecular probes. J. Clin. Microbiol. 35 (1997), 1353–1360.
8. [8] Li, C.X., Qiu, X.Y., Hou, Z.H., Deng, K.Q., A dumbell probe-mediated rolling circle amplification strategy for highly sensitive transcription factor detection. Biosens. Bioelectron. 64 (2015), 505–510.
9. [9] Xing, H., Tang, L., Yang, X.J., Hwang, K., Wang, W.D., Yin, Q., et al. Selective delivery of an anticancer drug with aptamer-functionalized liposomes to breast cancer cells in vitro and in vivo. J. Mater. Chem. B 1 (2013), 5288–5297.
10. [10] Torres-Calzada, C., Tapia-Tussell, R., Quijano-Ramayo, A., Martin-Mex, R., Rojas-Herrera, R., Higuera-Ciapara, I., et al. A species-specific polymerase chain reaction assay for rapid and sensitive detection of Colletotrichum capsici. Mol. Biotechnol. 49 (2011), 48–55.
11. [11] Compton, J., Nucleic acid sequence-based amplification. Nature 350 (1991), 91–92.
12. [12] Gulliksen, A., Solli, L., Karlsen, F., Rogne, H., Hovig, E., Nordstrom, T., et al. Real-time nucleic acid sequence-based amplification in nanoliter volumes. Anal. Chem. 76 (2004), 9–14.
13. [13] del Rio, J.S., Yehia Adly, N., Acero-Sanchez, J.L., Henry, O.Y., O'Sullivan, C.K., Electrochemical detection of Francisella tularensis genomic DNA using solid-phase recombinase polymerase amplification. Biosens. Bioelectron. 54 (2014), 674–678.
14. [14] Rohrman, B.A., Richards-Kortum, R.R., A paper and plastic device for performing recombinase polymerase amplification of HIV DNA. Lab Chip 12 (2012), 3082–3088.
15. [15] Notomi, T., Okayama, H., Masubuchi, H., Yonekawa, T., Watanabe, K., Amino, N., et al. Loop-mediated isothermal amplification of DNA. Nucleic Acids Res., 28, 2000, E63.
16. [16] Sayad, A.A., Ibrahim, F., Uddin, S.M., Pei, K.X., Mohktar, M.S., Madou, M., et al. A microfluidic lab-on-a-disc integrated loop mediated isothermal amplification for foodborne pathogen detection. Sens. Actuators B 227 (2016), 600–609.
17. [17] Mori, Y., Nagamine, K., Tomita, N., Notomi, T., Detection of loop-mediated isothermal amplification reaction by turbidity derived from magnesium pyrophosphate formation. Biochem. Biophys. Res. Commun. 289 (2001), 150–154.
18. [18] Wang, C.H., Lien, K.Y., Wang, T.Y., Chen, T.Y., Lee, G.B., An integrated microfluidic loop-mediated-isothermal-amplification system for rapid sample pre-treatment and detection of viruses. Biosens. Bioelectron. 26 (2011), 2045–2052.
19. [19] Hill, J., Beriwal, S., Chandra, I., Paul, V.K., Kapil, A., Singh, T., et al. Loop-mediated isothermal amplification assay for rapid detection of common strains of Escherichia coli. J. Clin. Microbiol. 46 (2008), 2800–2804.
20. [20] Tomita, N., Mori, Y., Kanda, H., Notomi, T., Loop-mediated isothermal amplification (LAMP) of gene sequences and simple visual detection of products. Nat. Protoc. 3 (2008), 877–882.
21. [21] Xia, Y., Liu, Z., Yan, S., Yin, F., Feng, X., Liu, B.-F., Identifying multiple bacterial pathogens by loop-mediated isothermal amplification on a rotate & react slipchip. Sens. Actuators B 228 (2016), 491–499.
22. [22] Al-Soud, W.A., Radstrom, P., Purification and characterization of PCR-inhibitory components in blood cells. J. Clin. Microbiol. 39 (2001), 485–493.
23. [23] Ihira, M., Akimoto, S., Miyake, F., Fujita, A., Sugata, K., Suga, S., et al. Direct detection of human herpesvirus 6 DNA in serum by the loop-mediated isothermal amplification method. J. Clin. Virol. 39 (2007), 22–26.
24. [24] Wang, F., Jiang, L., Ge, B., Loop-mediated isothermal amplification assays for detecting shiga toxin-producing Escherichia coli in ground beef and human stools. J. Clin. Microbiol. 50 (2012), 91–97.
25. [25] Lucchi, N.W., Demas, A., Narayanan, J., Sumari, D., Kabanywanyi, A., Kachur, S.P., et al. Real-time fluorescence loop mediated isothermal amplification for the diagnosis of malaria. PLoS One, 5, 2010, e13733.
26. [26] Kim, H.J., Kim, Y.J., Yong, D.E., Lee, K., Park, J.H., Lee, J.M., et al. Loop-mediated isothermal amplification of vanA gene enables a rapid and naked-eye detection of vancomycin-resistant enterococci infection. J. Microbiol. Methods 103 (2014), 61–66.
27. [27] Luo, J., Vogel, R.F., Niessen, L., Rapid detection of aflatoxin producing fungi in food by real-time quantitative loop-mediated isothermal amplification. Food Microbiol. 44 (2014), 142–148.
28. [28] Wang, C.H., Lien, K.Y., Wu, J.J., Lee, G.B., A magnetic bead-based assay for the rapid detection of methicillin-resistant Staphylococcus aureus by using a microfluidic system with integrated loop-mediated isothermal amplification. Lab Chip 11 (2011), 1521–1531.
29. [29] Hsieh, K., Patterson, A.S., Ferguson, B.S., Plaxco, K.W., Soh, H.T., Rapid, sensitive, and quantitative detection of pathogenic DNA at the point of care through microfluidic electrochemical quantitative loop-mediated isothermal amplification. Angew. Chem. Int. Ed. Engl. 51 (2012), 4896–4900.
30. [30] Liu, D.Y., Liang, G.T., Zhang, Q., Chen, B., Detection of mycobacterium tuberculosis using a capillary-array microsystem with integrated DNA extraction, loop-mediated isothermal amplification, and fluorescence detection. Anal. Chem. 85 (2013), 4698–4704.
31. [31] Beer, N.R., Hindson, B.J., Wheeler, E.K., Hall, S.B., Rose, K.A., Kennedy, I.M., et al. On-chip, real-time, single-copy polymerase chain reaction in picoliter droplets. Anal. Chem. 79 (2007), 8471–8475.
32. [32] Connelly, J.T., Rolland, J.P., Whitesides, G.M., Paper machine for molecular diagnosticsl. Anal. Chem. 87 (2015), 7595–7601.
33. [33] Zhu, Q., Gao, Y., Yu, B., Ren, H., Qiu, L., Han, S., et al. Self-priming compartmentalization digital LAMP for point-of-care. Lab Chip 12 (2012), 4755–4763.
34. [34] Hoffmann, J., Trotter, M., von Stetten, F., Zengerle, R., Roth, G., Solid-phase PCR in a picowell array for immobilizing and arraying 100,000 PCR products to a microscope slide. Lab Chip 12 (2012), 3049–3054.
35. [35] Fang, X., Chen, H., Yu, S., Jiang, X., Kong, J., Anal. Chem. 83 (2011), 690–695.
36. [36] Zhang, Y., Zhang, L., Sun, J., Liu, Y., Ma, X., Cui, S., et al. Point-of-care multiplexed assays of nucleic acids using microcapillary-based loop-mediated isothermal amplification. Anal. Chem. 86 (2014), 7057–7062.
37. [37] Manage, D.P., Lauzon, J., Atrazev, A., Chavali, R., Samuel, R.A., Chan, B., et al. An enclosed in-gel PCR amplification cassette with multi-target, multi-sample detection for platform molecular diagnostics. Lab Chip 13 (2013), 2576–2584.
38. [38] Zhu, Z., Zhang, W.H., Leng, X.F., Zhang, M.X., Guan, Z.C., Lu, J.Q., et al. Highly sensitive and quantitative detection of rare pathogens through agarose droplet microfluidic emulsion PCR at the single-cell level. Lab Chip 12 (2012), 3907–3913.
39. [39] Yamazaki, W., Kumeda, Y., Uemura, R., Misawa, N., Evaluation of a loop-mediated isothermal amplification assay for rapid and simple detection of Vibrio parahaemolyticus in naturally contaminated seafood samples. Food Microbiol. 28 (2011), 1238–1241.
40. [40] Hara-Kudo, Y., Yoshino, M., Kojima, T., Ikedo, M., Loop-mediated isothermal amplification for the rapid detection of Salmonella. FEMS Microbiol. Lett. 253 (2005), 155–161.
41. [41] Hill, J., Beriwal, S., Chandra, I., Paul, V.K., Kapil, A., Singh, T., et al. Loop-mediated isothermal amplification assay for rapid detection of common strains of Escherichia coli. J. Clin. Microbiol. 46 (2008), 2800–2804.
42. [42] Duffy, D.C., McDonald, J.C., Schueller, O.J., Whitesides, G.M., Rapid prototyping of microfluidic systems in poly(dimethylsiloxane). Anal. Chem. 70 (1998), 4974–4984.