Fast identification of foodborne pathogenic viruses using continuous-flow reverse transcription-PCR with fluorescence detection

Microfluidics and Nanofluidics

Volumn 10, Issue 2, 2011, Pages 367-380

  Li, Yuyuan ^a   Zhang, Chunsun ^a   Xing, Da ^a  

^a SOUTH CHINA NORMAL UNIVERSITY   (China)

Author keywords

Continuous flow; Foodborne pathogen; Microfluidics; On line fluorescence detection; Polymerase chain reaction; Reverse transcription

Indexed keywords

CONTINUOUS-FLOW; ETIOLOGICAL AGENT; EXPERIMENTAL DATA; FLUORESCENCE DETECTION; FOOD-BORNE PATHOGENS; HEATED CYLINDERS; INTEGRATED MICROFLUIDIC SYSTEMS; INTERCALATING DYE; LIMIT OF DETECTION; MICRO FLUIDIC SYSTEM; MICROELECTROMECHANICAL TECHNOLOGY; NOROVIRUSES; ON-LINE FLUORESCENCE DETECTION; PATHOGENIC VIRUS; REACTION ZONES; REVERSE TRANSCRIPTION; REVERSE TRANSCRIPTION-POLYMERASE CHAIN REACTION; RNA CONCENTRATION; ROTAVIRUSES; THERMAL PROTECTION;

AMPLIFICATION; COMPUTER VIRUSES; CYLINDERS (SHAPES); FLUIDIC DEVICES; FLUORESCENCE; FLUORESCENCE MICROSCOPY; MICROFLUIDICS; NUCLEIC ACIDS; POLYMERIZATION; POLYMERS; RADIATION EFFECTS; RADIATION PROTECTION; RNA; TRANSCRIPTION; VIRUSES;

POLYMERASE CHAIN REACTION;

EID: 79551489565     PISSN: 16134982     EISSN: 16134990     Source Type: Journal    
DOI: 10.1007/s10404-010-0675-3     Document Type: Article

References (50)

1. RL Atmar MK Estes 2001 Diagnosis of noncultivatable gastroenteritis viruses, the human caliciviruses Clin Microbiol Rev 14 15 37 10.1128/CMR.14.1.15-37.2001 (Pubitemid 32096205)
2. KM Becker CL Moe KL Southwick JN MacCormack 2000 Transmission of Norwalk virus during football game N Engl J Med 343 1223 1227 10.1056/ NEJM200010263431704
3. NR Beer BJ Hindson EK Wheeler SB Hall KA Rose IM Kennedy BW Colston 2007 On-chip, real-time, single-copy polymerase chain reaction in picoliter droplets Anal Chem 79 8471 8475 10.1021/ac701809w (Pubitemid 350171354)
4. NR Beer EK Wheeler L Lee-Houghton N Watkins S Nasarabadi N Hebert P Leung DW Arnold CG Bailey BW Colston 2008 On-chip single-copy real-time reverse-transcription PCR in isolated picoliter droplets Anal Chem 80 1854 1858 10.1021/ac800048k (Pubitemid 351458027)
5. P Belgrader CJ Elkin SB Brown SN Nasarabadi RG Langlois FP Milanovich BW Colsoton GD Marshall 2003 A reusable flow-through polymerase chain reaction instrument for the continuous monitoring of infectious biological agents Anal Chem 75 3446 3450 10.1021/ac034062u (Pubitemid 36871234)
6. M Chabert KD Dorfman P de Cremoux J Roeraade JL Viovy 2006 Automated microdroplet platform for sample manipulation and polymerase chain reaction Anal Chem 78 7722 7728 10.1021/ac061205e (Pubitemid 44788715)
7. M Curcio J Roeraade 2003 Continuous segmented-flow polymerase chain reaction for high-throughput miniaturized DNA amplification Anal Chem 75 1 7 10.1021/ac0204146 (Pubitemid 36090071)
8. KD Dorfman M Chabert JH Codarbox G Rousseau P de Cremoux JL Viovy 2005 Contamination-free continuous flow microfluidic polymerase chain reaction for quantitative and clinical applications Anal Chem 77 3700 3704 10.1021/ac050031i (Pubitemid 40799864)
9. J Felbel A Reichert M Kielpinski M Urban T Henkel N Häfner M Dürst J Weber 2008 Reverse transcription-polymerase chain reaction (RT-PCR) in flow-through micro-reactors: thermal and fluidic concepts Chem Eng J 135S S298 S302 10.1016/j.cej.2007.07.019
10. V Gouvea JR Allen RI Glass P Woods KC Taniguich HF Lark, et al. 1990 Polymerase chain reaction amplification and typing of RV nucleic acid from stool specimens J Clin Microbiol 28 276 282
11. R Hartung A Brösing G Sczcepankiewicz U Liebert N Häfner M Dürst J Felbel D Lassner JM Köhler 2009 Application of an asymmetric helical tube reactor for fast identification of gene transcripts of pathogenic viruses by micro flow-through PCR Biomed Microdevices 11 685 692 10.1007/s10544-008-9280-6
12. VN Hoang GV Kaigala A Atrazhev LM Pilarski CJ Backhouse 2008 Strategies for enhancing the speed and integration of microchip genetic amplification Electrophoresis 29 4684 4694 10.1002/elps.200800351
13. TM Hsieh CH Luo JH Wang JL Lin KY Lien GB Lee 2009 A two-dimensional, self-compensated, microthermal cycler for one-step reverse transcription polymerase chain reaction applications Microfluid Nanofluid 6 797 809 10.1007/s10404-008-0353-x
14. FC Huang CS Liao GB Lee 2006 An integrated microfluidic chip for DNA/RNA amplification, electrophoresis separation and on-line optical detection Electrophoresis 27 3297 3305 10.1002/elps.200600458 (Pubitemid 44336017)
15. GV Kaigala VN Hoang A Stickel J Lauzon D Manage LM Pilarski CJ Backhouse 2008 An inexpensive and portable microchip-based platform for integrated RT-PCR and capillary electrophoresis Analyst 133 331 338 10.1039/b714308g (Pubitemid 351322606)
16. MM Kiss L Ortoleva-Donnelly NR Beer J Warner CG Bailey BW Colston JM Rothberg DR Link JH Leamon 2008 High-throughput quantitative polymerase chain reaction in picoliter droplets Anal Chem 80 8975 8981 10.1021/ac801276c
17. M Koopmans E De Bruin H Vennema 2002 Rational optimization of generic primers used for Norwalk-like virus detection by transcription polymerase chain reaction J Clin Methods 25 233 236
18. MU Kopp AJ de Mello A Manz 1998 Chemical amplification: continuous-flow PCR on a chip Science 280 1046 1048 10.1126/science.280.5366.1046 (Pubitemid 28234939)
19. XX Kou QP Wu DP Wang JM Zhang 2008 Simultaneous detection of norovirus and rotavirus in oysters by multiplex RT-PCR Food Control 19 722 726 10.1016/j.foodcont.2007.07.001 (Pubitemid 351168661)
20. SH Lee SW Kim JY Kang CH Ahn 2008 A polymer lab-on-chip for reverse transcription (RT)-PCR based point-of-care clinical diagnostics Lab chip 8 2121 2127 10.1039/b811131f
21. YY Li D Xing CS Zhang 2009 Rapid detection of genetically modified organisms (GMOs) on a continuous-flow PCR microfluidics Anal Biochem 385 42 49 10.1016/j.ab.2008.10.028
22. CS Liao GB Lee HS Liu TM Hsieh CH Luo 2005 Miniature RT-PCR system for diagnosis of RNA-based viruses Nucleic Acids Res 33 e156 10.1093/nar/gni157 (Pubitemid 41742632)
23. KY Lien SH Lee TJ Tsai TY Chen GB Lee 2009 A microfluidic-based system using reverse transcription polymerase chain reactions for rapid detection of aquaculture diseases Microfluid Nanofluid 7 795 806 10.1007/s10404-009-0438-1
24. J Liu M Enzelberger S Quake 2002 A nanoliter rotary device for polymerase chain reaction Electrophoresis 23 1531 1536 10.1002/1522-2683(200205)23: 10<1531::AID-ELPS1531>3.0.CO;2-D (Pubitemid 34649584)
25. JS Marcus WF Anderson SR Quake 2006 Microfluidic single-cell mRNA isolation and analysis Anal Chem 78 3084 3089 10.1021/ac0519460 (Pubitemid 43726129)
26. JS Marcus WF Anderson SR Quake 2006 Parallel picoliter RT-PCR assays using microfluidics Anal Chem 78 956 958 10.1021/ac0513865 (Pubitemid 43228605)
27. AL Markey S Mohr PJR Day 2010 High-throughput droplet PCR Methods 50 277 281 10.1016/j.ymeth.2010.01.030
28. PJ Marks IB Vipond FM Regan K Wedgwood RE Fey EO Caul 2003 A school outbreak of Norwalk-like virus: evidence for airborne transmission Epidemiol Infect 131 727 736 10.1017/S0950268803008689 (Pubitemid 37062895)
29. MC Medici M Martinelli FM Ruggeri LA Abelli S Bosco MC Arcangeletti F Pinardi FD Conto A Calderaro C Chezzi G Dettori 2005 Broadly reactive nested reverse transcription-PCR using an internal RNA standard control for detection of noroviruses in stool samples J Clin Microbiol 43 3772 3778 10.1128/JCM.43.8.3772-3778.2005 (Pubitemid 41129659)
30. H Nakano K Matsuda M Yohda T Nagamune I Endo T Yamane 1994 High speed polymerase chain reaction in constant flow Biosci Biotech Biochem 58 349 352 10.1271/bbb.58.349
31. Northrup MA, Ching MT, White RM, Watson RT (1993) DNA amplification in a microfabricated reaction chamber. In: Proceeding of the 7th international conference on solid state sensors and actuators, Yokohama, Japan, pp 924-926
32. PJ Obeid TK Christopoulos 2003 Continuous-flow DNA and RNA amplification chip combined with laser-induced fluorescence detection Anal Chim Acta 494 1 9 10.1016/S0003-2670(03)00898-5 (Pubitemid 37186811)
33. PJ Obeid TK Christopoulos 2004 Microfabricated systems for nucleic acid analysis Crit Rev Clin Lab Sci 41 429 465 10.1080/10408360490497492 (Pubitemid 39488772)
34. PJ Obeid TK Christopoulos HJ Crabtree CJ Backhouse 2003 Microfabricated device for DNA and RNA amplification by continuous-flow polymerase chain reaction and reverse transcription-polymerase chain reaction with cycle number selection Anal Chem 75 288 295 10.1021/ac0260239 (Pubitemid 36119775)
35. EA Ottesen JW Hong SR Quake JR Leadbetter 2006 Microfluidic digital PCR enables multigene analysis of individual environmental bacteria Science 314 1464 1467 10.1126/science.1131370 (Pubitemid 44871954)
36. N Park S Kim JH Hahn 2003 Cylindrical compact thermal-cycling device for continuous-flow polymerase chain reaction Anal Chem 75 6029 6033 10.1021/ac0346959 (Pubitemid 37356488)
37. R Prakash KVIS Kaler 2007 An integrated genetic analysis microfluidic platform with valves and a PCR chip reusability method to avoid contamination Microfluid Nanofluid 3 177 187 10.1007/s10404-006-0114-7 (Pubitemid 46291416)
38. AR Prakash M Amrein KVIS Kaler 2008 Characteristics and impact of Taq enzyme adsorption on surfaces in microfluidic devices Microfluid Nanofluid 4 295 305 10.1007/s10404-007-0174-3 (Pubitemid 351285086)
39. AR Prakash C De la Rosa JD Fox KVIS Kaler 2008 Identification of respiratory pathogen Bordetella pertussis using integrated microfluidic chip technology Microfluid Nanofluid 4 451 456 10.1007/s10404-007-0195-y (Pubitemid 351454533)
40. RK Saiki F Scharf F Faloona KB Mullis GT Horn HA Erlich N Arnheim 1985 Enzymatic amplification of beta-globin genomic sequences and restriction site analysis for diagnosis of sickle cell anemia Science 230 1350 1354 10.1126/science.2999980
41. IA Trantakis M Fakis SS Tragoulias TK Christopoulos P Persephonis V Glannetas P Ioannou 2010 Ultrafast fluorescence dynamics of Sybr Green I/DNA complexes Chem Phys Lett 485 187 190 10.1016/j.cplett.2009.12.030
42. NC Tsai CY Sue 2006 SU-8 based continuous-flow RT-PCR bio-chips under high-precision temperature control Biosens Bioelectron 22 313 317 10.1016/j.bios.2005.12.023 (Pubitemid 44247611)
43. J VanDijken GV Kaigala J Lauzon A Atrazhev S Adamia BJ Taylor T Reiman AR Belch CJ Backhouse LM Pilarski 2007 Microfluidic chips for detecting the t(4; 14) translocation and monitoring disease during treatment using reverse transcriptase-polymerase chain reaction analysis of lgH-MMSET hybrid transcripts J Mol Diagn 9 358 367 10.2353/jmoldx.2007.060149 (Pubitemid 47307234)
44. HY Wang CS Zhang YY Li 2009 Rapid detection of tobacco mosaic virus from crude samples on an oscillatory-flow reverse transcription polymerase chain reaction microfluidics Chin J Anal Chem 37 1286 1290 10.1016/S1872-2040(08) 60127-9
45. Q Xiang B Xu D Li 2007 Miniature real time PCR on chip with multi-channel fiber optical fluorescence detection module Biomed Microdevices 9 443 449 10.1007/s10544-007-9048-4
46. CS Zhang D Xing 2007 Miniaturized PCR chips for nucleic acid amplification and analysis: latest advances and future trends Nucleic Acids Res 35 4223 4237 10.1093/nar/gkm389 (Pubitemid 47244579)
47. CS Zhang D Xing 2010 Decreasing microfluidic evaporation loss using the HMDL method: open systems for nucleic acid amplification and analysis Microfluid Nanofluid 9 17 30 10.1007/s10404-009-0508-4
48. CS Zhang D Xing 2010 Microfluidic gradient PCR (MG-PCR): a new method for microfluidic DNA amplification Biomed Microdevices 12 1 12 10.1007/s10544-009- 9352-2
49. CS Zhang JL Xu WL Zheng 2006 PCR microfluidic devices for DNA amplification Biotechnol Adv 24 243 284 10.1016/j.biotechadv.2005.10.002
50. CS Zhang D Xing YY Li 2007 Micropumps, microvalves, and micromixers within PCR microfluidic chips: advances and trends Biotechnol Adv 25 483 514 10.1016/j.biotechadv.2007.05.003 (Pubitemid 47049789)