Challenges to developing nucleic acid sequence based amplification technology for the detection of microbial pathogens in food

Revue de Medecine Veterinaire

Volumn 159, Issue 10, 2008, Pages 514-527

  Sergentet Thevenot, D ^a   Montet, M P ^a   Vernozy Rozand, C ^a  

^a VETAGRO SUP   (France)

Author keywords

NASBA detection microbial pathogens food

Indexed keywords

BACILLUS (BACTERIUM); BACTERIA (MICROORGANISMS); CAMPYLOBACTER JEJUNI; ESCHERICHIA COLI; LISTERIA MONOCYTOGENES; SALMONELLA ENTERICA;

EID: 55949121597     PISSN: 00351555     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (84)

1. ABDULMAWJOOD A., ROTH S., BULTE M.: Two methods construction of internal amplification controls for the detection of Escherichia coli 0157 by polymerase chain reaction. Mol. Cell. probes 2002, 16, 335-339.
2. ANONYMOUS: Preliminary foodnet data on the incidence of food-borne illnesses-selected sites, United states, 2000. Morb. Mortal. Wkly Rep. 2001, 50, 241-246.
3. AQUINO M.H.C., CARVALBO J.C., TIBANA A., FRANCO R.M.: Camplylobacter jejuni/coli: methodology of isolation and possible interfering factors in primary culture. J. Food Prot. 1996, 59, 429-432.
4. BAEUMNER A.J., COHEN R.N., MIKSIC V., MIN J.: RNA biosensor for the rapid detection of viable Escherichia coli in drinking water. Biosensors Bioelectronics 2003, 18, 405-413.
5. BEJ A.K., MAHBUBANI M.H.: Detection of foodborne microbial pathogens. In: PCR Tecnology: Current Inovations pp. 1994, 341-345. Boca Raton, FL: CRC Press.
6. BLACKBURN C.W., MCCARTHY J.D.: Modifications to methods for the enumeration and detection of injured Escherichia coli 0157:H7 in foods. Int. J. Food Microbiol. 2000, 55, 285-290.
7. BLAIS B.W., TURNER G., SOOKNANAN R., MALEK L.T.: A nucleic acid sequence based amplification system for detection of Listeria monocytogenes hlyA sequences. Appl. Enviro.l Microbiol. 1997, 63, 310-313.
8. BOOM R., SOL C.J.A., SALIMANS M.M.M., JANSEN C.L., WERTHEIM-VAN DILLEN P.M.E., VAN DER NOORDA J.: Rapid and simple method for purification of nucleic acids. J. Clin. Microbiol. 1990, 28, 495-503.
9. CHAN A.B., FOX J.D.: NASBA and other transcription-based amplification methods for research and diagnostic microbiology. Rev. Med. Microbiol. 1999, 10, 185-196.
10. COOK N., ELLISON J., KURDZIEL A.S., SIMPKINS S., HAYS J.P.: A NASBA-based method to detect Salmonella enterica serotype Enteritidis strain PT4 in liquid whole egg. J. Food Microbiol. 2002, 65, 1177-1178.
11. D'SOUZA D.H., JAYKUS L.A.: Nucleic acid sequence based amplification for the rapid and sensitive detection of Salmonella enterica from foods. J. Appl. Micobiol. 2003, 95, 1343-1350.
12. DIEMAN B., VAN AARLE P., SILLEKINS P.: Characteristics and applications of nucleic acid sequence-based amplification (NASBA). Mol. Biotech. 2002, 20, 163-179.
13. DZIEZAK J.D.: Rapid method for microbial analysis of foods. Food Technol. 1987, 3, 41-56.
14. ESCH M.B., BAEUMNER A.J., DURST R.A.: Detection of Cryptosporidium parvum using oligonucleotide-tagged liposomes in a competitive assay format. Anal. Chem. 2001, 73, 3162-3167.
15. FANG X., LI J.J., PERLETTE J., TAN W., WANG K.: Molecular beacons: novel fluorescent probes. Anal. Chem. 2000, 72, 747A-753A.
16. FOX J.D., HAN S., SAMUELSON S., ZHANG Y., NEALE M.L., WESTMORELAND D.: Development and evaluation of nucleic acid sequence based amplification (NASBA) for diagnosis of enterovirus infections using Nuclisens basic kit. J. Clin. Virol. 2002, 24, 117-130.
17. GORE H.M., WAKEMAN C.A., HULL R.M., MCKILLIP J.L.: Bioch. Bioph. Res. Com. 2003, 311, 386-390.
18. GREENE S.R., MOE C.L., JAUKUS L.A., CRONIN M., GROSSO L., AARLE P.: Evaluation of the Nuclisens Basic Kit assay for detection of Norwak virus RNA in stool specimens. J. Virol. Methods. 2003, 108, 123-131.
19. GRIFFITHS P.L.: Morphological changes of Campylobacter jejuni growing in liquid culture. Let. Appl. Microbiol. 1993, 17, 152-155.
20. GUATELLI J.C., WHITFIELD K.M., KWOH D.Y., BARRINGER K.J., RICHMAN D.D., GINGERAS T.R.: Isothermal, in vitro amplification of nucleic acids by a multienzyme reaction modelled after retroviralreplication. P. Natl. Acad. Sci. USA 1990, 87, 1874-1878.
21. HERMAN L., DE RIDDER H.: Cheese components reduce the sensitivity of detection of Listeria monocytogenes by the polymerase chain reaction. Neth. Milk Dairy J. 1993, 47, 23-29.
22. HOOFAR J., MALORNY B., ABDULMAWJOOD A., COOK N., WAGNER M., FACH P.: Practical considerations in design of internal amplification control for diagnostic PCR assays. J. Clin. Microbiol. 2004, 42, 1863-1868.
23. JAYKUS L.A.: Challenges to developing real-time methods to detect pathogens in foods. ASM News 2003, 69, 341-347.
24. JEAN J., BLAIS B., DARVEAU A., FLISS I.: Detection of hepatitis A virus by the nucleic acid sequence based amplification technique and comparison with reverse transcription PCR. Appl. Environ. Microbiol. 2001, 67, 5593-5600.
25. JEAN J., BLAIS B., DARVEAU A., FLISS I.: Rapid detection of human rotavirus using colorimetric nucleic acid sequence based amplification (NASBA)-enzyme-linked immunosorbent assay in sewage treatment effluent. FEMS Microbiol. Lett. 2002, 210, 143-147.
26. JEAN J., D'SOUZA D.H., JAYKUS L.A.: Multiplex nucleic acid sequence based amplification for simultaneous detection of several enteric viruses in model ready to eat foods. Appl. Environ. Microbiol. 2004, 70, 6603-6610.
27. JONES R.N., NEALE M.L., BEATIE B., WESTMORELAND D., FOX J.D.: Development and application of a PCR-based methods including an internal amplification control for diagnosis of congenital cytomegalovirus infection. J. Clin. Microbiol. 2000, 38, 1-6.
28. KAPPERUD G., VARDUND T., SKJERVE E., HORNES E., MICHAELSON T.E.: Detection of pathogenic Yersinia enterolitica in foods and water by immunomagnetic separation, nested polymerase chain reactions and colorimetric detection of amplified DNA. Appl. Environ. Microbiol. 1993, 59, 2938-2944.
29. KEER J.T., BIRCH L.: Molecular methods for the assessment of bacterial viability. J. Microbiol. Methods 2003, 53, 175-183.
30. KIEVITS T., VAN GEMEN E., VAN STRIJP D., SCHUKKINK R., DIRCKS M., ADRIAANSE H., MALEK L., SOOKNANAN R., LENS P.: NASBA isothermal enzymatic in vitro nucleic acid amplification optimized for the diagnosis of HIV-1 infection. J. Virol. Methods 1991, 35, 273-286.
31. KLEIN P.O., JUNEJA V.K.: Sensitive detection of viable Listeria monocytogenes by reverse transcriptase. Appl. Environ. Microbiol. 1997, 63, 4441-4448.
32. LEONE G., SCHIJNDEL H.V., VAN GEMEN B., KRAMER F.R., SCHOEN C.D.: Molecular beacon probes combined with amplification by NASBA enable homogeneous, real-time detection of RNA. Nucleic Acids Res. 1998, 26, 2150-2155.
33. LUKASIK J., BRADLEY M.L., SCOTT T.M., HSU W.Y., FARRAH S.R., TAMPLIN M.L.: Elution, detection, and quantification of Polio I, bacteriophages, Salmonella Montevideo, and Escherichia coli O157:H7 from seeded strawberries and tomatoes. J. Food Prot. 2001, 64, 292-297.
34. LUNEL F., CRESTA P., VITOUR D., PAYAN C., DUMONT B., FRANGEUL L., REBOUL D., BRAULT C., PIETTE J.C., HURAUX J.M.: Comparative evaluation of hepatic C virus RNA quantification by branched DNA, NASBA, and monitor assays. Hepatholngy 1999, 29, 528-535.
35. MALEK L., SOOKNANAN R., COMPTON J.: Protocols for Nucleic Acid Analysis by Nonradioactive Probes. In: Issac, P.G. pp. 253-261, Hamana Press, Totowa, NJ.
36. MALORNY B., TASSIOS P.T., RADSTROM P., COOK N., WAGNER M., HOORFAR J.: Standardization of diagnostic PCR for the detection of foodborne pathogens. Int. J. Food Microbiol. 2003, 83, 39-48.
37. MCKILLIP J.L., JAYKUS L.A., DRAKE M.: rRNA stability in heat-killed and UV-irradiated enterotoxigenic Staphylococcus aureus and Escherichia coli O157:H7. Appl. Environ. Microbiol. 1998, 64, 4264-4268 (Nov).
38. MCKILLIP J.L., JAYKUS L.A., DRAKE M.: Nucleic acid persistence in heat-killed Escherichia coli O157:H7 from contaminated skim milk. J. Food Prot. 1999, 62, 839-844.
39. MCKILLIP J.L.: Prevalence and expression of enterotoxins in Bacillus cereus and other Bacillus spp. a literature review. Antonie Van Leeuwenhoek 2000, 77, 393-399.
40. MAYLHEUC T., GIOVANNACCI L., BRIANDET R., BELLON-FONTAINE M.N.: Comparison of the cell surface properties and growth characteristics of Listeria monocytogenes and Listeria innocua. J. Food Prot. 2002, 65, 786-793.
41. MIN J., BAEUMNER A.J.: Highly sensitive and specific detection of viable Escherichia coli in drinking water. Anal. Biochem. 2002, 303, 186-193.
42. NORTON D.M., BATT C.A.: Detection of viable Listeria monocytogenes with 5' nuclease PCR assay. Appl. Environ. Microbiol. 1999, 65, 2122-2127.
43. NOTERMANS S., HOOGENBOOM-VERDEGAALA.: Existing and emerging foodborne diseases. Int. J. Foodmicrobial. 1992, 15, 197-205.
44. OLSEN G.J., LANE D.J., GIOVANNONI S.J., PLACE N.R., STAHL D.A.: Microbial ecology and evolution: a ribosomal RNA approach. An. rev. Microbiol. 1986, 40, 337-365.
45. OLSVIK O., POPOVIC T., SKJERVE E., CUDJOE K.S., HORNES E., UGELSTAD J., UHLEN M.: Magnetic separation technique in diagnostic microbiology. Clin. Microbiol. Rev. 1994, 7, 43-54.
46. PATTERSON S.S., CASPER E.T., GARCIA-RUBIO L., SMITH M.C., PAUL III J.H.: Increased precision of microbial RNA quantification using NASBA with an internal control. J. Microbiol. Methods 2005, 60, 343-352.
47. POLSTRA A.M., GOUDSMIT J., CORNELISSEN M.: Development of real time NASBA assays with molecular beacon detection to quantify mRNA coding for HHV-8 lytic and latent genes. Infect. Dis. 2002, 4, 2-18
48. RODRlGUES-SZULC U.M., VENTOURA G., MACKEY B.M., PAYNE M.J.: Rapid physiochemical detachment, separation and concentration of bacteria from beef surfaces. J. Appl. Bacterial. 1996, 80, 673-681.
49. RODRIGUEZ-LAZARO D., LLOYD J., IKONOMOPOULOS J., PLA M., COOK N.: Unexpected detection of DNA by nucleic acid sequence based amplification technique. Mol. Cell. Probes 2004, 18, 251-253.
50. RODRIGUEZ-LAZARO D., LLOYD J., HERREWEGH A., IKONOMOPOULOS J., D'AGOSTINO M., PLA M., COOK N.: A molecular beacon based real-time NASBA assay for detection of Mycobacterium avium subsp. paratuberculosis in water and milk. FEMS Microbiol. Lets 2004, 237, 119-126.
51. ROLLINS D.M., COLWELL R.R.: Viable but nonculturable stage of Camplylobacter jejuni and its role in survival in the natural aquatic environment. Appl. Environ. Microbiol. 1986, 52, 531-538.
52. ROSSEN L., HOLMSTROM K., OLSEN J.E., RASMUSEN O.F.: A rapid polymerase chain reaction (PCR)-based assay for the identification of Listeria monocytogenes in food samples. Int. J. Food Microbiol. 1991, 14, 145-152.
53. ROSSEN L., NORSKOV P., HOLMSTROM K., RASMUSSEN O.: Inhibition of PCR by components of food samples, microbial diagnostic assays and DNA-extraction solutions. Int. J. Food Microbiol. 1992, 17, 37-45.
54. RUDY K., MOEN B., DROMTORP S.M., HOLCK A.L.: Use of ethidium monoazide and PCR in combination for quantification of viable and dead cells in complex samples. Appl. Environ. Microbiol. 2005, 71, 1018-1024.
55. SAMUELSON A., WESTMORELAND D., ECCLES R., FOX J.D.: Development and application of a new method for amplification and detection of human rhinovirus RNA. J. Virol. Methods 1998, 71, 197-209.
56. SCHEU M.P., BERGHOF K., STAHL U.: Detection of pathogenic and spoilage micro-organisms in food with the polymerase chain reaction. Food Microbiol. 1998, 15, 13-31.
57. SHERIDAN G.E., MASTERS C.I., SHALLCROSS J.A., MACKEY B.M.: Detection of mRNA by reverse transcription PCR as an indicator of viability in Escherichia colt cells. Appl. Environ. Microbiol. 1998, 64, 1313-1318.
58. SHERIDAN G.E.C., SZABO E.A., MACKEY B.M.: Effect of posttreatment holding conditions on detection of tufA mRNA in ethanol-treated Escherichia coli: implications for RT-PCR-based indirect viability cells. Let. Appl. Microbiol. 1999, 29, 375-379.
59. SIMPKINS S.A., CHAN A.B., HAYS J., POPPING B., COOK N.: An RNA transcription-based amplification technique (BASBA) for the detection of viable Salmonella enterica. Let. Appl. Microbiol. 2000, 30, 75-79.
60. STEVENS K.A., JAYKUS L.A.: Direct detection of bacterial pathogens in representative dairy products using a combined concentration PCR approach. J. Appl. Microbiol. 2004, 97, 1115-1122.
61. SZABO E.A., MACKEY B.M.: detection of Salmonella enteritidis by reverse transcription-polymerase chain reaction (PCR). Int. J. Food Microbiol. 1999, 51, 113-122.
62. TYAGI S., KRAMER F.R.: Molecular beacons: probes that fluoresce upon hybridization. Nat. Biotechnol. 1996, 14, 303-308.
63. TYAGI S., BRATU D.P., KRAMER F.R.: Multicolor molecular beacons for allele discrimination. Nat. Biotechnol. 1998, 16, 49-53.
64. TOLKER-NIELSEN T., LARSEN M.H., KYED H., MOLIN S.: Effects of stress treatments on the detection of Salmonella typhimurium by in situ hybridization. Int. J. Food Microbiol. 1997, 33, 251-258.
65. UYTTENDAELE M., SCHUKKINK R., VAN GEMEN B., DEBE VER J.: Detection of Campylobacter jejuni added to foods by using a combined selective enrichment and nucleic acid sequence based amplification (NASBA). Appl. Environ. Microbiol. 1995, 61, 1341-1347.
66. UYTTENDAELE M., SCHUKKINK R., VAN GEMEN B., DEBEVERE J.: Development of NASBA, a nucleic acid amplification system, for identification of Listeria monocytogenes and comparison to ELISA and a modified FDA method. Int. J. Food Microbiol. 1995, 27, 77-89.
67. UYTTENDAELE M., SCHUKKINK R., VAN GEMEN B., DEBEVERE J.: Comparison of the nucleic acid amplification system NASBA and agar isolation for detection pathogenic campylobacters in naturally contaminated poultry. J. Food Prot. 1996, 59, 683-687.
68. UYTTENDAELE M., BASTIAANSEN A., DEBEVERE J.: Evaluation of the NASBA nucleic acid amplification system for assessment of the viability of Camplylobacter jejuni. Int. J. Food Microbiol. 1997, 37, 13-20.
69. UYTTENDAELE M., DEBEVERE J., LINDQVIST R.: Evaluation of buoyant density centrifugation as a sample preparation method for NASBA-ELGA detection of Campylobacter jejuni in foods. Food Microbiol. 1999, 16, 575-582.
70. UYTTENDAELE M., VAN HOORDE I., DEBEVERE J.: The use of immuno-magnetic separation (IMS) as a tool in a sample preparation method for direct detection of Listeria monocytogenes in cheese. Int. J. Food Microbiol. 2000, 54, 205-212.
71. VAITILINGOM M., GENDRE R, BRIGNON P.: Direct detection of viable bacteria, molds, and yeasts by reverse transcriptase PCR in contaminated milk samples after heat treatment. Appl. Environ. Microbiol. 1998, 64, 1157-1160.
72. VAN DER VLIET G.M.E., SCHUKKINK R.A.F., VAN GEMEN B., SCHEPERS P., KLATSER P.R.: Nucleic acide sequence-based amplification (NASBA) for the identification of mycobacteria. J. Gen. Virol. 1993, 139, 2423-2429.
73. VAN GERMEN B., VAN BEUMINGEN R., NABBE A., VAN STRIJP D., JURRIAANS S., LENS P., KIEVITS T.: A one-tube quantitative HIV-1 RNA NASBA nucleic acid amplification assay using electrochemiluminescent (ECL) labelled probes. J. Virol. Methods 1994, 49, 157-168.
74. VILLARNO A., BOUVET O.M., REGNAULT B., MARTIN-DELAUTRE S., GRIMONT P.D.A.: Exploring the frontier between life and death in Escherichia coli: evaluation of different viability markers in live and heat- or UV-killed cells. Res. Microbiol. 2000, 151, 755-768.
75. VOISSET C., MANDRAND B., PARANHOS-BACCALA G.: RNA amplification technique, NASBA, also amplifies homologous plasmid DNA in non-denaturing conditions. BioTechniques. 2000, 3, 236-240.
76. WALLACE D.J., VAN GILDER T., SHALLOW S., FIORENTINO T., SEGLER S.D., SMITH K.E., SHIFERAW B., ETZEL R., GARTHRIGHT W.E., ANGULO F.J.: Incidence of foodborne illnesses reported by the foodborne diseases active surveillance network (Food-Net)-1997. FoodNet Working Group. J. Food Prot. 2000, 63, 807-809.
77. WANG R.F., CAO W.W., JOHNSON M.G.: 16s rRNA-based probes and polymerase chain reaction method to detect Listeria monocytogenes cells added to foods. Appl. Environ. Microbiol. 1992, 58, 2827-2831.
78. WARD D.M., WELLER R., BATESON M.M.: 16S rRNA sequences reveal numerous uncultured microorganisms in a natural community. Nature 1990, 345, 63-65.
79. WEUSTEN J.J., WOUTERS P.A., VAN ZUIJLEN M.C., VAN DE WIEL P.A.: Stochastic processes defining sensitivity and variability of internally calibrated quantitative NASBA based viral load assays. Nucleic Acids Res. 2002, 30, e137.
80. WEUSTEN J.J., CARPAY W.M., OOSTERLAKEN T.A., VAN ZUIJLEN M.C., VAN DE WIEL P.A.: Principles of quantification of viral loads using nucleic acid sequenced based amplification in combination with homogeneous detection using molecular beacon. Nucleic Acids Res. 2002, 30, e26.
81. WING E.J., GREGORY S.H.: An updated model of cell-mediated immunity listeriosis: clinical and research aspects. Allergy Asthma Proc. 2000, 21, 209-214.
82. WOLCOTT M.J.: Advances in nucleic acid based detection methods. Clin. Microbiol. Rev. 1992, 5, 370-386.
83. YOUNG F.E.: DNA probes: fruits of the new biotechnology. J. Am. Med. Assoc. 1987, 229, 2404-2406.
84. ZARATE G., MORATA DE AMBROSINI V.I., CHAI A.P., GONZAEZ S.N.: Adhesion of dairy Propionibacteria to intestinal epithelial tissue in vitro and in vivo. J. Food Prot. 2002, 65, 534-539.