Comparison of real-time PCR, reverse transcriptase real-time PCR, loop-mediated isothermal amplification, and the FDA conventional microbiological method for the detection of Salmonella spp. in produce

Applied and Environmental Microbiology

Volumn 77, Issue 18, 2011, Pages 6495-6501

  Zhang, Guodong ^a   Brown, Eric W ^a   González Escalona, Narjol ^a  

^a CENTER FOR DRUG EVALUATION AND RESEARCH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CONTROL SAMPLES; CONVENTIONAL CULTURE METHOD; CORIANDER LEAVES; CULTURE METHODS; DETECTION METHODS; FALSE NEGATIVES; FOOD POISONING; INTERNAL CONTROLS; MICROBIOLOGICAL METHODS; MOLECULAR METHODS; PUBLIC HEALTH; QUANTITATIVE REAL TIME PCR; REAL-TIME PCR; RELATIVE EFFICIENCY; REVERSE TRANSCRIPTASES; SALMONELLA SPP;

CELL CULTURE; HEALTH RISKS; POLYMERASE CHAIN REACTION; RNA;

SALMONELLA;

BACTERIUM; BIOASSAY; CELL ORGANELLE; COMPARATIVE STUDY; DETECTION METHOD; ENZYME ACTIVITY; FOOD; GENETIC ANALYSIS; INHIBITION; INOCULATION; ISOTHERM; MICROBIOLOGY; MOLECULAR ANALYSIS; POLLUTION EFFECT; POLYMERASE CHAIN REACTION; PUBLIC HEALTH; QUANTITATIVE ANALYSIS; VEGETABLE;

ARTICLE; CLASSIFICATION; COMPARATIVE STUDY; DIAGNOSTIC ERROR; EVALUATION; GENETICS; ISOLATION AND PURIFICATION; METHODOLOGY; MICROBIOLOGICAL EXAMINATION; MICROBIOLOGY; NUCLEIC ACID AMPLIFICATION; SALMONELLA; SENSITIVITY AND SPECIFICITY; VEGETABLE;

BACTERIOLOGICAL TECHNIQUES; DIAGNOSTIC ERRORS; NUCLEIC ACID AMPLIFICATION TECHNIQUES; SALMONELLA; SENSITIVITY AND SPECIFICITY; VEGETABLES;

CORIANDRUM SATIVUM; LACTUCA; LYCOPERSICON ESCULENTUM; PETROSELINUM CRISPUM; SALMONELLA; SPINACIA OLERACEA;

EID: 80052801581     PISSN: 00992240     EISSN: 10985336     Source Type: Journal    
DOI: 10.1128/AEM.00520-11     Document Type: Article

References (47)

1. Altekruse, S. F., M. L. Cohen, and D. L. Swerdlow. 1997. Emerging foodborne diseases. Emerg. Infect. Dis. 3:285-293.
2. Andrews, W. A., and T. S. Hammack. December 2007, posting date. Salmonella. In G. J. Jackson et al. (ed.), Bacteriological analytical manual online. Center for Food Safety and Applied Nutrition, U.S. Food and Drug Administration, Gaithersburg, MD. http://www.cfsan.fda.gov/~ebam/bam-5.html.
3. Anonymous. 2010. State-specific trends in fruit and vegetable consumption among adults - United States, 2000-2009. MMWR Morb. Mortal. Wkly. Rep. 59:1125-1130.
4. Bohaychuk, V. M., G. E. Gensler, M. E. McFall, R. K. King, and D. G. Renter. 2007. A real-time PCR assay for the detection of Salmonella in a wide variety of food and food-animal matrices. J. Food Prot. 70:1080-1087.
5. Bureau of the Census, U.S. Department of Commerce. 1996. Per capita utilization of selected commercially produced fresh fruits and vegetables: 1970 to 1994, p. 148. Statistical Abstract of the United States. U.S. Government Printing Office, Washington, DC.
6. Bustin, S. A., et al. 2010. MIQE precis: practical implementation of minimum standard guidelines for fluorescence-based quantitative real-time PCR experiments. BMC Mol. Biol. 11:74.
7. Bustin, S. A., et al. 2009. The MIQE guidelines: minimum information for publication of quantitative real-time PCR experiments. Clin. Chem. 55:611-622.
8. Deer, D. M., K. A. Lampel, and N. Gonzalez-Escalona. 2010. A versatile internal control for use as DNA in real-time PCR and as RNA in real-time reverse transcription PCR assays. Lett. Appl. Microbiol. 50:366-372.
9. Drahovska, H., et al. 2001. Detection of Salmonella by PCR targeted to fimC gene. Biologia 56:611-616.
10. Feder, I., et al. 2001. Comparison of cultivation and PCR-hybridization for detection of Salmonella in porcine fecal and water samples. J. Clin. Microbiol. 39:2477-2484.
11. Fey, A., et al. 2004. Establishment of a real-time PCR-based approach for accurate quantification of bacterial RNA targets in water, using Salmonella as a model organism. Appl. Environ. Microbiol. 70:3618-3623.
12. Frahm, E., and U. Obst. 2003. Application of the fluorogenic probe technique (TaqMan PCR) to the detection of Enterococcus spp. and Escherichia coli in water samples. J. Microbiol. Methods 52:123-131.
13. Gonzalez-Escalona, N., et al. 2009. Detection of live Salmonella sp. cells in produce by a TaqMan-based quantitative reverse transcriptase real-time PCR targeting invA mRNA. Appl. Environ. Microbiol. 75:3714-3720.
14. Hammack, T. S., I. E. Valentin-Bon, A. P. Jacobson, and W. H. Andrews. 2004. Relative effectiveness of the Bacteriological Analytical Manual method for the recovery of Salmonella from whole cantaloupes and cantaloupe rinses with selected preenrichment media and rapid methods. J. Food. Prot. 67:870-877.
15. Hara-Kudo, Y., M. Yoshino, T. Kojima, and M. Ikedo. 2005. Loop-mediated isothermal amplification for the rapid detection of Salmonella. FEMS Microbiol. Lett. 253:155-161.
16. Hartman, L. J., S. R. Coyne, and D. A. Norwood. 2005. Development of a novel internal positive control for Taqman based assays. Mol. Cell. Probes 19:51-59.
17. Hoorfar, J., et al. 2004. Diagnostic PCR: making internal amplification control mandatory. Lett. Appl. Microbiol. 38:79-80.
18. Jacobsen, C. S., and W. E. Holben. 2007. Quantification of mRNA in Salmonella sp seeded soil and chicken manure using magnetic capture hybridization RT-PCR. J. Microbiol. Methods 69:315-321.
19. Jalal, H., et al. 2006. Development and validation of a rotor-gene real-time PCR assay for detection, identification, and quantification of Chlamydia trachomatis in a single reaction. J. Clin. Microbiol. 44:206-213.
20. Jones, T. F., and D. E. Gerber. 2001. Perceived etiology of foodborne illness among public health personnel. Emerg. Infect. Dis. 7:904-905.
21. Klontz, K. C., J. C. Klontz, R. K. Mody, and R. M. Hoekstra. 2010. Analysis of tomato and jalapeno and Serrano pepper imports into the United States from Mexico before and during a national outbreak of Salmonella serotype Saintpaul infections in 2008. J. Food Prot. 73:1967-1974.
22. Krascsenicsova, K., L. Piknova, E. Kaclikova, and T. Kuchta. 2008. Detection of Salmonella enterica in food using two-step enrichment and real-time PCR. Lett. Appl. Microbiol. 46:483-487.
23. Li, J., et al. 1995. Relationship between evolutionary rate and cellular location among the Inv/Spa invasion proteins of Salmonella enterica. Proc. Natl. Acad. Sci. U. S. A. 92:7252-7256.
24. Li, X., et al. 2009. A loop-mediated isothermal amplification method targets the phoP gene for the detection of Salmonella in food samples. Int. J. Food Microbiol. 133:252-258.
25. Longo, M. C., M. S. Berninger, and J. L. Hartley. 1990. Use of uracil DNA glycosylase to control carry-over contamination in PCRs. Gene 93:125-128.
26. Lu, Y. X., et al. 2009. Specific detection of viable Salmonella cells by an ethidium monoazide-loop mediated isothermal amplification (EMA-LAMP) method. J. Health Sci. 55:820-824.
27. Malorny, B., C. Bunge, and R. Helmuth. 2007. A real-time PCR for the detection of Salmonella Enteritidis in poultry meat and consumption eggs. J. Microbiol. Methods 70:245-251.
28. Malorny, B., et al. 2004. Diagnostic real-time PCR for detection of Salmonella in food. Appl. Environ. Microbiol. 70:7046-7052.
29. Mody, R. K., et al. 2011. National outbreak of Salmonella serotype saintpaul infections: importance of Texas restaurant investigations in implicating jalapeno peppers. PLoS One 6:e16579.
30. Mori, Y., K. Nagamine, N. Tomita, and T. Notomi. 2001. Detection of loop-mediated isothermal amplification reaction by turbidity derived from magnesium pyrophosphate formation. Biochem. Biophys. Res. Commun. 289:150-154.
31. Nde, C. W., M. K. Fakhr, C. Doetkott, and C. M. Logue. 2008. An evaluation of conventional culture, invA PCR, and the real-time PCR iQ-Check kit as detection tools for Salmonella in naturally contaminated premarket and retail turkey. J. Food Prot. 71:386-391.
32. Notomi, T., et al. 2000. Loop-mediated isothermal amplification of DNA. Nucleic Acids Res. 28:E63.
33. Novinscak, A., C. Surette, and M. Filion. 2007. Quantification of Salmonella spp. in composted biosolids using a TaqMan qPCR assay. J. Microbiol. Methods 70:119-126.
34. Ohtsuka, K., K. Yanagawa, K. Takatori, and Y. Hara-Kudo. 2005. Detection of Salmonella enterica in naturally contaminated liquid eggs by loop-mediated isothermal amplification, and characterization of Salmonella isolates. Appl. Environ. Microbiol. 71:6730-6735.
35. Okamura, M., et al. 2008. Loop-mediated isothermal amplification for the rapid, sensitive, and specific detection of the O9 group of Salmonella in chickens. Vet. Microbiol. 132:197-204.
36. Okamura, M., et al. 2009. Rapid, sensitive, and specific detection of the O4 group of Salmonella enterica by loop-mediated isothermal amplification. Avian Dis. 53:216-221.
37. Rodriguez-Lazaro, D., M. Hernandez, T. Esteve, J. Hoorfar, and M. Pla. 2003. A rapid and direct real time PCR-based method for identification of Salmonella spp. J. Microbiol. Methods 54:381-390.
38. Rump, L. V., B. Asamoah, and N. Gonzalez-Escalona. 2010. Comparison of commercial RNA extraction kits for preparation of DNA-free total RNA from Salmonella cells. BMC Res. Notes 3:211.
39. Scallan, E., et al. 2011. Foodborne illness acquired in the United States-major pathogens. Emerg. Infect. Dis. 17:7-15.
40. Techathuvanan, C., F. A. Draughon, and D. H. D'Souza. 2010. Loop-mediated isothermal amplification (LAMP) for the rapid and sensitive detection of Salmonella Typhimurium from pork. J. Food Sci. 75:M165-M172.
41. Techathuvanan, C., F. A. Draughon, and D. H. D'Souza. 2010. Real-time reverse transcriptase PCR for the rapid and sensitive detection of Salmonella typhimurium from pork. J. Food Prot. 73:507-514.
42. Tirado, C., and K. Schmidt. 2001. WHO surveillance programme for control of foodborne infections and intoxications: preliminary results and trends across greater Europe. J. Infect. 43:80-84.
43. Valasek, M. A., and J. J. Repa. 2005. The power of real-time PCR. Adv. Physiol. Educ. 29:151-159.
44. Wang, L., L. Shi, M. J. Alam, Y. Geng, and L. Li. 2008. Specific and rapid detection of foodborne Salmonella by loop-mediated isothermal amplification method. Food Res. Int. 41:69-74.
45. Way, J. S., et al. 1993. Specific detection of Salmonella spp. by multiplex PCR. Appl. Environ. Microbiol. 59:1473-1479.
46. Wolffs, P. F., K. Glencross, R. Thibaudeau, and M. W. Griffiths. 2006. Direct quantitation and detection of salmonellae in biological samples without enrichment, using two-step filtration and real-time PCR. Appl. Environ. Microbiol. 72:3896-3900.
47. Yang, J. L., et al. 2010. Simple and rapid detection of Salmonella serovar Enteritidis under field conditions by loop-mediated isothermal amplification. J. Appl. Microbiol. 109:1715-1723.