Centrifugal LabTube platform for fully automated DNA purification and LAMP amplification based on an integrated, low-cost heating system

Biomedical Microdevices

Volumn 16, Issue 3, 2014, Pages 375-385

  Hoehl, Melanie M ^a,b,c   Weißert, Michael ^c,d   Dannenberg, Arne ^c   Nesch, Thomas ^e   Paust, Nils ^f   Von Stetten, Felix ^f   Zengerle, Roland ^f   Slocum, Alexander H ^a,b   Steigert, Juergen ^c  

^a MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

^b Massachusetts Institute of Technology Cambridge   (United States)

^c ROBERT BOSCH GMBH   (Germany)

^d UNIVERSITY OF STUTTGART   (Germany)

^e Nesch Engineering UG Haftungsbeschränkt   (Germany)

^f HSG IMIT   (Germany)

Author keywords

Automated DNA extraction; Battery; DNA amplification; Heater; LAMP

Indexed keywords

AUTOMATION; CENTRIFUGES; DNA; ELECTRIC LAMPS; ESCHERICHIA COLI; FRUIT JUICES; PURIFICATION; THICK FILMS;

BATTERY; DNA AMPLIFICATION; DNA EXTRACTION; ELECTRICAL APPLICATIONS; HEATER; MICROCONTROLLER-BASED; TEMPERATURE SENSING; THICK FILM RESISTORS;

HEATING EQUIPMENT;

APPLE JUICE; ARTICLE; CENTRIFUGE; CONTROLLED STUDY; DNA EXTRACTION; DNA PURIFICATION; FILM; GENE AMPLIFICATION; HEAT TRANSFER; HEATING; LABTUBE; LOOP MEDIATED ISOTHERMAL AMPLIFICATION; MILK; NONHUMAN; POWER SUPPLY; PRIORITY JOURNAL; SHIGA TOXIN PRODUCING ESCHERICHIA COLI; VISION; AUTOMATION; CENTRIFUGATION; CYTOLOGY; DEVICES; DISPOSABLE EQUIPMENT; ECONOMICS; FOOD ANALYSIS; GENETICS; ISOLATION AND PURIFICATION; POLYMERASE CHAIN REACTION; SYSTEM ANALYSIS;

ESCHERICHIA COLI; MALUS X DOMESTICA;

DNA;

AUTOMATION; CENTRIFUGATION; DISPOSABLE EQUIPMENT; DNA; ELECTRIC POWER SUPPLIES; FOOD ANALYSIS; HEATING; POLYMERASE CHAIN REACTION; SHIGA-TOXIGENIC ESCHERICHIA COLI; SYSTEMS INTEGRATION;

EID: 84904205125     PISSN: 13872176     EISSN: 15728781     Source Type: Journal    
DOI: 10.1007/s10544-014-9841-9     Document Type: Article

References (54)

1. P.J. Asiello, A.J. Baeumner, Miniaturized isothermal nucleic acid amplification, a review. Lab Chip 11(8), 1420-1430 (2011)
2. A.J. Baeumner, Biosensors for environmental pollutants and food contaminants. Anal. Bioanal. Chem. 377(3), 434-445 (2003)
3. A.J. Baeumner, R.N. Cohen, V. Miksic, J. Min, RNA biosensor for the rapid detection of viable Escherichia coli in drinking water. Biosens. Bioelectron. 18(4), 405-413 (2003)
4. C. Beecher, 19 Ill with E. Coli in Oregon Raw Milk Outbreak. Food Safety News, www.foodsafetynews.com/2012/04/post-5/. Accessed 4 May 2013
5. D. Chen, M. Mauk, X. Qiu, C. Liu, J. Kim, S. Ramprasad et al., An integrated, self-contained microfluidic cassette for isolation, amplification, and detection of nucleic acids. Biomed. Microdevices 12(4), 705-719 (2010)
6. C.-H. Chiou, D. Jin Shin, Y. Zhang, T.-H. Wang, Topography-assisted electromagnetic platform for blood-to-PCR in a droplet. Biosens. Bioelectr. 50, 91-99 (2013)
7. Y.-K. Cho, J.-G. Lee, J.-M. Park, B.-S. Lee, Y. Lee, C. Ko, One-step pathogen specific DNA extraction from whole blood on a centrifugal microfluidic device. Lab Chip 7(5), 565-573 (2007)
8. G.R. Duarte, C.W. Price, B.H. Augustine, E. Carrilho, J.P. Landers, Dynamic solid phase DNA extraction and PCR amplification in polyester-toner based microchip. Anal. Chem. 83(13), 5182-5189 (2011)
9. Europäische Kommission, Verordnung der europäischen Kommission über mikrobiologische Kriterien für Lebensmittel, Milchverordnung (EU, Brussels, 2004), 6(3.3)
10. European Commission of Health and Consumer Protection, Opinion of the scientific committee on veterinary measures relating to public health on verotoxigenic E. coli (VTEC) in food stuffs (ECHCP, 2013), 1
11. P. Francois, M. Tangomo, J. Hibbs, E.J. Bonetti, C.C. Boehme, T. Notomi, M.D. Perkins, J. Schrenzel, Robustness of a loop-mediated isothermal amplification reaction for diagnostic applications. FEMS Immunol. Med. Microbiol. 62(1), 41-48 (2011)
12. E. Fu, B. Lutz, P. Kauffman, P. Yager, Controlled reagent transport in disposable 2D paper networks. Lab Chip 10(7), 918-920 (2010)
13. L. Gervais, E. Delamarche, Toward one-step point-of-care immunodiagnostics using capillary-driven microfluidics and PDMS substrates. Lab Chip 9(23), 3330-3337 (2009)
14. P. Gill, A. Ghaemi, Nucleic acid isothermal amplification technologies - a review. Nucleos Nucleot Nucl. 27(3), 224-243 (2008)
15. Y. Hara-Kudo, J. Nemoto, K. Ohtsuka, Y. Segawa, K. Takatori, T. Kojima, M. Ikedo, Sensitive and rapid detection of Vero toxin-producing Escherichia coli using loop-mediated isothermal amplification. J. Med. Microbiol. 56(3), 398-406 (2007)
16. J. Hill, S. Beriwal, I. Chandra, V.K. Paul, A. Kapil, T. Singh et al., Loop-mediated isothermal amplification assay for rapid detection of common strains of Escherichia coli. J. Clin. Microbiol. 46(8), 2800-2804 (2008)
17. M.M. Hoehl, P.J. Lu, P.A. Sims, A.H. Slocum, Rapid and robust detection methods for poison and microbial contamination. J. Agric. Food. Chem. 60(25), 6349-6358 (2012)
18. H. Karch, P.I. Tarr, M. Bielaszewska, Enterohaemorrhagic Escherichia coli in human medicine. Int. J. Med. Microbiol. 295(6), 405-418 (2005)
19. M. Karle, J. Miwa, G. Czilwik, V. Auwärter, G. Roth, R. Zengerle, F. Von Stetten, Continuous microfluidic DNA extraction using phase-transfer magnetophoresis. Lab Chip 10(23), 3284-3290 (2010)
20. J.M. Karlsson, T. Haraldsson, S. Laakso, A. Virtanen, M. Maki, G. Ronan, W. Van Der Wijngaart, PCR on a PDMS-based microchip with integrated bubble removal. in Solid-State Sensors, Actuators and Microsystems Conference (TRANSDUCERS), 2011 16th International. (ed.), vol. (IEEE, 2011), pp. 2215-2218
21. M.A. Karmali, V. Gannon, J.M. Sargeant, Verocytotoxinproducing Escherichia coli (VTEC). Vet. Microbiol. 140(3), 360-370 (2010)
22. A. Kloke, A. R. Fiebach, L. Drechsel, S. Zhang, S. Niekrawietz, M. Hoehl, R. Kneusel, K. Panthel, J. Steigert, F. von Stetten, R. Zengerle, N. Paust, Lab Chip, doi:10.1039/C3LC51261D, (2014)
23. G.J. Kost, Newdemics, public health, small-world networks, and point-of-care testing. Point Care 5(4), 138-144 (2006)
24. O. Lazcka, F. Campo, F.X. Munoz, Pathogen detection: a perspective of traditional methods and biosensors. Biosens. Bioelectron. 22(7), 1205-1217 (2007)
25. J.-H. Lee, Y. Park, J.R. Choi, E.K. Lee, H.-S. Kim, Comparisons of three automated systems for genomic DNA extraction in a clinical diagnostic laboratory. Yonsei Med. J. 51(1), 104-110 (2010)
26. L.A. Legendre, J.M. Bienvenue, M.G. Roper, J.P. Ferrance, J.P. Landers, A simple, valveless microfluidic sample preparation device for extraction and amplification of DNA from nanoliter-volume samples. Anal. Chem. 78(5), 1444-1451 (2006)
27. P. Leonard, S. Hearty, J. Brennan, L. Dunne, J. Quinn, T. Chakraborty, R. O'kennedy, Advances in biosensors for detection of pathogens in food and water. Enzyme Microb. Technol. 32(1), 3-13 (2003)
28. K.J. Liu, M.V. Brock, I.-M. Shih, T.-H. Wang, Decoding circulating nucleic acids in human serum using microfluidic single molecule spectroscopy. J. Am. Chem. Soc. 132(16), 5793-5798 (2010)
29. C. Liu, M.G. Mauk, R. Hart, X. Qiu, H.H. Bau, A self-heating cartridge for molecular diagnostics. Lab Chip 11(16), 2686-2692 (2011)
30. J.A. Lounsbury, A. Karlsson, D.C. Miranian, S.M. Cronk, D.A. Nelson, J. Li et al., From sample to PCR product in under 45 minutes: a polymeric integrated microdevice for clinical and forensic DNA analysis. Lab Chip 13(7), 1384-1393 (2013)
31. N.W. Lucchi, A. Demas, J. Narayanan, D. Sumari, A. Kabanywanyi, S.P. Kachur, J.W. Barnwell, V. Udhayakumar, Real-time fluorescence loop mediated isothermal amplification for the diagnosis of malaria. PLoS One 5(10), e13733 (2010)
32. S. Lutz, P. Weber, M. Focke, B. Faltin, J. Hoffmann, C. Müller et al., Microfluidic lab-on-a-foil for nucleic acid analysis based on isothermal recombinase polymerase amplification (RPA). Lab Chip 10(7), 887-893 (2010)
33. A.W. Martinez, S.T. Phillips, G.M. Whitesides, E. Carrilho, Diagnostics for the developing world: microfluidic paper-based analytical devices. Anal. Chem. 82(1), 3-10 (2009)
34. L. Matlock-Colangelo, A.J. Baeumner, Recent progress in the design of nanofiber-based biosensing devices. Lab Chip 12(15), 2612-2620 (2012)
35. P. Merel, Perspectives on molecular diagnostics automation. J. Assoc. Lab. Autom. 10(5), 342-350 (2005)
36. J. Min, A.J. Baeumner, Highly sensitive and specific detection of viable Escherichia coli in drinking water. Anal. Biochem. 303(2), 186-193 (2002)
37. R. Mohan, A. Mukherjee, S.E. Sevgen, C. Sanpitakseree, J. Lee, C.M. Schroeder, P.J. Kenis, A multiplexed microfluidic platform for rapid antibiotic susceptibility testing. Biosens. Bioelectron. 49, 118-125(2013)
38. S.R. Nugen, A. Baeumner, Trends and opportunities in food pathogen detection. Anal. Bioanal. Chem. 391(2), 451-454 (2008)
39. S. Park, Y. Zhang, S. Lin, T.-H. Wang, S. Yang, Advances in microfluidic PCR for point-of-care infectious disease diagnostics. Biotechnol. Adv. 29(6), 830-839 (2011)
40. K. Phillips, N. Mccallum, L. Welch, A comparison of methods for forensic DNA extraction: Chelex-100® and the QIAGEN DNA Investigator Kit (manual and automated). Forensic Sci. Int. Genet. 6(2), 282-285 (2012)
41. Ralf Hottmeyer Gmbh, Vergleichslisten und Informationen für Knopfzellen und Batterien. Würselen, 2012
42. B.R. Schudel, M. Tanyeri, A. Mukherjee, C.M. Schroeder, P.J. Kenis, Multiplexed detection of nucleic acids in a combinatorial screening chip. Lab Chip 11(11), 1916-1923 (2011)
43. T. Schuurman, A. Roovers, W.K. Van Der Zwaluw, A.A. Van Zwet, L.J. Sabbe, A.M.D. Kooistra-Smid, Y.T. Van Duynhoven, Evaluation of 5′-nuclease and hybridization probe assays for the detection of shiga toxinproducing Escherichia coli in human stools. J. Microbiol. Meth. 70(3), 406-415 (2007)
44. S. Takayama, J.C. Mcdonald, E. Ostuni, M.N. Liang, P.J. Kenis, R.F. Ismagilov, G.M. Whitesides, Patterning cells and their environments using multiple laminar fluid flows in capillary networks. Proc. Natl. Acad. Sci. U. S. A. 96(10), 5545-5548 (1999)
45. V. Velusamy, K. Arshak, O. Korostynska, K. Oliwa, C. Adley, An overview of foodborne pathogen detection: in the perspective of biosensors. Biotechnol. Adv. 28(2), 232-254 (2010)
46. J.R. Waters, J.C. Sharp, V.J. Dev, Infection caused by Escherichia coli O157: H7 in Alberta, Canada, and in Scotland: a five-year review, 1987-1991. Clin. Inf. Dis. 19(5), 834-843 (1994)
47. B. Weigl, G. Domingo, P. Labarre, Towards nonand minimally instrumented, microfluidics-based diagnostic devices. J. Gerlach, Lab Chip 8(12), 1999-2014 (2008a)
48. B.H. Weigl, G. Domingo, J. Gerlach, D. Tang, D. Harvey, N. Talwar et al., Noninstrumented nucleic acid amplification assay. MOEMSMEMS 2008 (2008b)
49. J. Wen, L.A. Legendre, J.M. Bienvenue, J.P. Landers, Purification of nucleic acids in microfluidic devices. Anal. Chem. 80(17), 6472-6479 (2008)
50. P. Yager, G.J. Domingo, J. Gerdes, Point-of-care diagnostics for global health. Annu. Rev. Biomed. Eng. 10, 107-144 (2008)
51. D.J. You, K.J. Geshell, J.-Y. Yoon, Direct and sensitive detection of foodborne pathogens within fresh produce samples using a field-deployable handheld device. Biosens. Bioelectron. 28(1), 399-406 (2011)
52. C.-Y. Zhang, H.-C. Yeh, M.T. Kuroki, T.-H. Wang, Single-quantum-dot-based DNA nanosensor. Nature Mat. 4(11), 826-831 (2005)
53. Y. Zhang, S. Park, K. Liu, J. Tsuan, S. Yang, T.-H. Wang, A surface topography assisted droplet manipulation platform for biomarker detection and pathogen identification. Lab Chip 11(3), 398-406 (2011)
54. P. Zuo, X. Li, D.C. Dominguez, B.-C. Ye, A PDMS/paper/glass hybrid microfluidic biochip integrated with aptamer-functionalized graphene oxide nano-biosensors for onestep multiplexed pathogen detection. Lab Chip 13(19), 3921-3928 (2013)