Sample preparation: The forgotten beginning

Journal of Food Protection

Volumn 72, Issue 8, 2009, Pages 1774-1789

  Byron, Brehm Stecher ^a   Charles, Young ^b   Lee Ann, Jaykus ^c   Tortorello, Mary Lou ^d  

^a IOWA STATE UNIVERSITY   (United States)

^b JOHNS HOPKINS UNIVERSITY APPLIED PHYSICS LABORATORY   (United States)

^c NORTH CAROLINA STATE UNIVERSITY   (United States)

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

Author keywords

[No Author keywords available]

Indexed keywords

EID: 68849090345     PISSN: 0362028X     EISSN: None     Source Type: Journal    
DOI: 10.4315/0362-028x-72.8.1774     Document Type: Review

References (98)

1. Amagliani, G., E. Omiccioli, A. del Campo, I. J. Bruce, G. Brandi, and M. Magnani. 2006. Development of a magnetic capture hybrid- ization-PCR assay for Listeria monocytogenes direct detection in milk samples. J. Appl. Microbiol. 100:375-383.
2. Arcidiacono, S., P. Pivarnik, C. M. Mello, and A. Senecal. 2008. Cy5 labeled antimicrobial peptides for enhanced detection of Escherichia coli 0157:H7. Biosens. Bioelectron. 23:1721-1727.
3. Armstrong, D. W., G. Schulte, J. M. Shneiderheinze, and D. J. Wes- tenberg. 1999. Separating microbes in the manner of molecules. 1. Capillary electrokinetic approaches. Anal. Chem. 71:5465-5469.
4. Arora, K., S. Chand, and B. D. Malhotra. 2006. Recent developments in biomolecular electronics techniques for food pathogens. Anal. Chim. Acta 568:259-274.
5. Baylor, E. R., V. Peters, and M. B. Baylor. 1977. Water-to-air transfer of virus. Science 197:763-764.
6. Bennett, A. R., F. G. Davids, S. Vlahodimou, J. G. Banks, and R. P Betts. 1997. The use of bacteriophage-based systems for the separation and concentration of Salmonella. J. Appl. Microbiol. 83:259-265.
7. Benoit, P. W., and D. W. Donahue. 2003. Methods for rapid separation and concentration of bacteria in food that bypass time-consuming cultural enrichment. J. Food Prot. 66:1935-1948.
8. Berry, E. D., and G. R. Siragusa. 1997. Hydroxyapatite adherence as a means to concentrate bacteria. Appl. Environ. Microbiol. 63: 4069-4074.
9. Bisha, B., and B. F. Brehm-Stecher. 2009. Simple adhesive-tape- based sampling of tomato surfaces combined with rapid fluorescence in situ hybridization for Salmonella detection. Appl. Environ. Microbiol. 75:1450-1455.
10. Blanchard, D. C. 1989. The ejection of drops from the sea and their enrichment with bacteria and other materials: a review. Estuaries 3: 127-137.
11. Blanchard, D. C., and L. D. Syzdek. 1982. Water-to-air transfer and enrichment of bacteria in drops from bursting bubbles. Appl. Environ. Microbiol. 43:1001-1005.
12. Blanchard, D. C, L. D. Syzdek, and M. E. Weber. 1981. Bubble scavenging of bacteria in freshwater quickly produces bacterial enrichment in airborne jet drops. Limnol. Oceanogr. 26:961-964.
13. Bosilevac, J. M., and M. Koohmaraie. 2008. Effects of using reduced volumes of nonselective enrichment medium in methods for the detection of Escherichia coli 0157:H7 from raw beef. J. Food Prot. 71:1768-1773.
14. Brehm-Stecher, B. E, and E. A. Johnson. 2004. Single-cell microbiology: tools, technology and applications. Microbiol. Mol. Biol. Rev. 68:538-559.
15. Brehm-Stecher, B. E, and E. A. Johnson. 2007. Rapid methods for detection of Listeria, p. 268. In E. Marth and E. Ryser (ed.), Listeria, listeriosis and food safety, 3rd ed. Marcel Dekker, New York.
16. Burger, S. R., and J. W. Bennett. 1985. Droplet enrichment factors of pigmented and non-pigmented Serratia marcescens: possible selective function for prodigiosin. Appl. Environ. Microbiol. 50:487-490.
17. Cannon, J. L., and J. Vinje. 2008. Histo-blood group antigen assay for detecting noroviruses in water. Appl. Environ. Microbiol. 74: 6818-6819.
18. Carlucci, A. E, and P. M. Williams. 1965. Concentration of bacteria from sea water by bubble scavenging. J. Cons. Int. Explor. Mer 30: 28-33.
19. Cuny, C, M. Lesbats, and S. Dukan. 2007. Induction of a global stress response during the first step of Escherichia coli plate growth. Appl. Environ. Microbiol. 73:885-889.
20. De Martinis, E. C. P., R. E. Duvall, and A. D. Hitchins. 2007. Realtime PCR detection of 16S rRNA genes speeds most-probable-number enumeration of foodborne Listeria monocytogenes. J. Food Prot. 70:1650-1655.
21. Fernandez, L. A. 2004. Prokaryotic expression of antibodies and affibodies. Curr. Opin. Biotechnol. 15:364-373.
22. Frey, C. A. 1930. A method for detecting acid-fast bacteria in the soil. Science 71:366.
23. Fukushima, H., K. Katsube, Y. Hata, R. Kishi, and S. Fujiwara. 2007. Rapid separation and concentration of food-borne pathogens in food samples prior to quantification by viable-cell counting and real-time PCR. Appl. Environ. Microbiol. 73:92-100.
24. Fung, D. Y. C, L. K. Thompson, B. A. Crozier-Dodson, and C. L. Kastner. 2000. Hands-free, "pop-up," adhesive tape method for microbial sampling of meat surfaces. J. Rapid Methods Autom. Microbiol. 8:209-217.
25. Gavrish, E., A. Bollmann, S. Epstein, and K. Lewis. 2008. A trap for in situ cultivation of filamentous actinobacteria. J. Microbiol. Methods 72:257-262.
26. Guerini, M. N., T. M. Arthur, S. D. Schackelford, and M. Kooh- maraie. 2006. Evaluation of Escherichia coli 0157:H7 growth media for use in test-and-hold procedures for ground beef processing. J. Food Prot. 69:1007-1011.
27. Gunasekera, T. S., P. V. Attfield, and D. A. Veal. 2000. A flow cytometry method for rapid detection and enumeration of total bacteria in milk. Appl. Environ. Microbiol. 66:1228-1232.
28. Harrington, P. R, J. Vinje, C. L. Moe, and R. S. Baric. 2004. No- rovirus capture with histo-blood group antigens reveals novel virus- ligand interactions. J. Virol. 78:3035-3045.
29. International Commission on Microbiological Specifications for Foods. 1986. Microorganisms in foods 2. Sampling for microbiological analysis: principles and specific applications, 2nd ed. University of Toronto Press, Toronto.
30. International Commission on Microbiological Specifications for Foods. 2002. Microorganisms in foods 7. Microbiological testing in food safety management. Kluwer Academic/Plenum Publishers, New York.
31. 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.
32. Johnston, L. M., D. Elhanafi, M. Drake, and L.-A. Jaykus. 2005. A simple method for the direct detection of Salmonella and Escherichia coli 0157:H7 from raw alfalfa sprouts and irrigation water using PCR. J. Food Prot. 68:2256-2263.
33. Kacena M.,P. Todd 1997 Growth characteristics of E. coli and B. subtilis cultured on an agar substrate in microgravity Micrograv- ity Sci. Technol 10:58-62.
34. Kacena, M., and P. Todd. 1997. Growth characteristics of E. coli and B. subtilis cultured on an agar substrate in microgravity. Micrograv- ity Sci. Technol. 10:58-62. 34. Kaeberlein, T, K. Lewis, and S. S. Epstein. 2002. Isolating "uncul- tivable" microorganisms in pure culture in a simulated natural environment. Science 296:1127-1129.
35. Kearns, E. A., S. Magana, and D. V. Lim. 2008. Automated concentration and recovery of micro-organisms from drinking water using dead-end ultrafiltration. J. Appl. Microbiol. 105:432-442.
36. Klaus, D., S. Simske, P. Todd, and L. Stodieck. 1997. Investigation of space flight effects on Escherichia coli and a proposed model of the underlying physical mechanisms. Microbiology 143:449-455.
37. Knabel, S. J. 2002. Optimized, one-step recovery-enrichment for enhanced detection of Listeria monocytogenes in pasteurized milk and hot dogs. J. AOAC Int. 85:501-504.
38. Kolmar, H. 2008. Alternative binding proteins: biological activity and therapeutic potential of cystine-knot miniproteins. FEBS J. 275: 2684-2690.
39. Kostal, V., and E. A. Arriaga. 2008. Recent advances in the analysis of biological particles by capillary electrophoresis. Electrophoresis 29:2578-2586.
40. Lambertini, E., S. K. Spencer, P. D. Bertz, F. J. Loge, B. A. Kieke, and M. A. Borchardt. 2008. Concentration of enteroviruses, adenoviruses, and noroviruses from drinking water by use of glass wool filters. Appl. Environ. Microbiol. 74:2990-2996.
41. Lang, Q., I. F. Cheng, C. M. Wai, A. Paszczynski, R. L. Crawford, B. Barnes, T. J. Anderson, R. Wells, G. Corti, L. Allenbach, D. P. Erwin, T. Assefi, and M. Mojarradi. 2002. Supercritical fluid extraction and high-performance liquid chromatography-diode array-electrochemical detection of signature redox compounds from sand and soil samples. Anal. Biochem. 301:225-234.
42. Lantz, A. W, B. F. Brehm-Stecher, and D. W. Armstrong. 2008. Combined capillary electrophoresis and DNA-F1SH for rapid molecular identification of Salmonella Typhimurium in mixed culture. Electrophoresis 29:2477-2484.
43. Lazcka, 0., F. J. Del Camp and F. X. Munoz. 2007. Pathogen detection: a perspective of traditional methods and biosensors. Biosens. Bioelectron. 22:1205-1217.
44. Lindquist, H. D. A., S. Harris, S. Lucas, M. Hartzel, D. Riner, P. Rochele, and R. DeLeon. 2007. Using ultrafiltration to concentrate and detect Bacillus anthracis, Bacillus atrophaeus subspecies globigii, and Cryptosporidium parvum in 100-liter water samples. J. Microbiol. Methods 70:484-492.
45. Lucore, L. A., M. A. Cullison, and L.-A. Jaykus. 2000. Immobilization with metal hydroxides as a means to concentrate food-borne bacteria for detection by cultural and molecular methods. Appl. Environ. Microbiol. 66:1769-1776.
46. Marks, T, and R. Sharp. 2000. Bacteriophages and biotechnology: a review. J. Chem. Techno!. Biotechnol. 75:6-17.
47. Massengale, A. R. D., R. A. Ollar, S. J. Giordano, M. S. Felder, and S. C. Aronoff. 1999. Use of the paraffin wax baiting system for identification of Pseudomonas aeruginosa clinical isolates. Diagn. Microbiol. Infect. Dis. 35:177-183.
48. Mishra, S. K., and H. S. Randhawa. 1969. Application of paraffin bait technique to the isolation of Nocardia asteroides from clinical specimens. Appl. Microbiol. 18:686-687.
49. Monnet, C, V. Ulve, A.-S. Sarthou, and F. lrlinger. 2008. Extraction of RNA from cheese without prior separation of microbial cells. Appl. Environ. Microbiol. 74:5724-5730.
50. Morris, J. J., R. Kirkegaard, M. J. Szul, Z. I. Johnson, and E. R. Zinser. 2008. Facilitation of robust growth of Prochlorococcus colonies and dilute liquid cultures by "helper" heterotrophic bacteria. Appl. Environ. Microbiol. 74:4530-4534.
51. Mottram, T., A. Rudnitskaya, A. Legin, J. L. Fitzpatrick, and P. D. Eckersall. 2007. Evaluation of a novel chemical sensor system to detect clinical mastitis in bovine milk. Biosens. Bioelectron. 22: 2689-2693.
52. Nakamura-Tsuruta, S., Y. Kishimoto, T. Nishimura, and Y. Suda. 2008. One-step purification of lectins from banana pulp using sugar- immobilized gold nano-particles. J. Biochem. 143:833-839.
53. Neeley, E. T., T. G. Phister, and D. A. Mills. 2005. Differential realtime PCR assay for enumeration of lactic acid bacteria in wine. Appl. Environ. Microbiol. 71:8954-8957.
54. Ngundi, M. M., N. V. Kulagina, G. P. Anderson, and C. R. Taitt. 2006. Nonantibody-based recognition: alternative molecules for detection of pathogens. Expert Rev. Proteomics 3:511-524.
55. Nichols, D., K. Lewis, J. Orjala, S. Mo, R. Ortenberg, P. O'Connor, C. Zhao, R Vouros, T. Kaeberlein, and S. S. Epstein. 2008. Short peptide induces an "uncultivable" microorganism to grow in vitro. Appl. Environ. Microbiol. 74:4889-4897.
56. Nickerson, C. A., C. M. Ott, J. W. Wilson, R. Ramamurthy, and D. L. Pierson. 2004. Microbial responses to microgravity and other low- shear environments. Microbiol. Mol. Biol. Rev. 68:345-361.
57. Nitsche, A., A. Kurth, A. Dunkhorst, O. Panke, H. Sielaff, W. Junge, D. Muth, F. Scheller, W. Stocklein, C. Dahmen, G. Pauli, and A. Kage. 2007. One-step selection of Vaccinia virus-binding DNA ap- tamers by MonoLEX. BMC Biotechnol. 7:48.
58. Nocker, A., C. Y. Cheung, and A. K. Camper. 2006. Comparison of propidium monoazide with ethidium monoazide for differentiation of live versus dead bacteria by selective removal of DNA from dead cells. J. Microbiol. Methods 67:310-320.
59. Nogva, H. K., S. M. Dromtorp, H. Nissen, and K. Rudi. 2003. Ethidium monoazide for DNA-based differentiation of viable and dead bacteria by 5'-nuclease PCR. Biotechniques 34:804.
60. Nonomura, H., and S. Takagi. 1977. Distribution of actinoplanetes in soils of Japan. J. Ferment. Technol. 55:423-428.
61. Nygren, P.-A. 2008. Alternative binding proteins: affibody binding proteins developed from a small three-helix bundle scaffold. FEBS J. 275:2668-2676.
62. Oscar, T. P. 2004. Predictive simulation model for enumeration of Salmonella on chicken as a function of polymerase chain reaction detection time score and sample size. J. Food Prot. 67:1201-1208.
63. Oyarzabal, O. A., S. Backert, M. Nagaraj, R. S. Miller, S. K. Hussain, and E. A. Oyarzabal. 2007. Efficacy of supplemented buffered peptone water for the isolation of Campylobacter jejuni and C. coli from broiler retail products. J. Microbiol. Methods 69:129-136.
64. Palchetti, 1., and M. Mascini. 2008. Electroanalytical biosensors and their potential for food pathogen and toxin detection. Anal. Bioanal. Chem. 391:455-471.
65. Pan, Q., X.-L. Zhang, H.-Y. Wu, P-W. He, F. Wang, M.-S. Zhang, J.-M. Hu, B. Xia, and J. Wu. 2005. Aptamers that preferentially bind type IVB pili and inhibit human monocytic-cell invasion by Sal- monella enterica serovar Typhi. Antimicrob. Agents Chemother. 49: 4052-4060.
66. Pasparakis, G., and C. Alexander. 2007. Synthetic polymers for capture and detection of microorganisms. Analyst 132:1075-1082.
67. Purevdorj-Gage, B., K. B. Sheehan, and L. E. Hyman. 2006. Effects of low-shear modeled microgravity on cell function, gene expression, and phenotype in Saccharomyces cerevisiae. Appl. Environ. Microbiol. 72:4569-4575.
68. Rossmanith, P., B. SüB, M. Wagner, and I. Hein. 2007. Development of matrix lysis for concentration of gram positive bacteria from food and blood. J. Microbiol. Methods 69:504-511.
69. Rubin, A. J., E. A. Cassel, O. Henderson, J. D. Johnson, and J. C. Lamb 111. 1966. Micro floatation: new low gas-flow rate foam separation technique for bacteria and algae. Biotechnol. Bioeng. 8:135-151.
70. Rudi, K., K. Naterstad, S. M. Dr0mtorp, and H. Holo. 2005. Detection of viable and dead Listeria monocytogenes on gouda-like cheeses by real-time PCR. Lett. Appl. Microbiol. 40:301-306.
71. Russ, C. 1909. The electrical reactions of certain bacteria, and an application in the detection of tubercle bacilli in urine by means of an electric current. Proc. R. Soc. Land. Ser. B Biol. Sci. 81:314-322.
72. Schindler, B. D., and L. A. Shelef. 2006. Immobilization and detection of Listeria monocytogenes. Appl. Environ. Microbiol. 72:4426-4428.
73. Seo, K.-H., P. S. Holt, H. D. Stone, and R. K. Gast. 2003. Simple and rapid methods for detecting Salmonella enteritidis in raw eggs. Int. J. Food Microbiol. 87:139-144.
74. Sharpe, A. N. 2003. Separation and concentration of samples, p. 52- 68. In T. A. McMeekin (ed.). Detecting pathogens in food, 1st ed. CRC Press, Boca Raton, FL.
75. Skerra, A. 2008. Alternative binding proteins: anticalins-harnessing the structural plasticity of the lipocalin ligand pocket to engineer novel binding activities. FEES J. 275:2677-2683.
76. Skjerve, E., L. M. Rorvik, and O. Olsvik. 1990. Detection of Listeria monocytogenes in foods by immunomagnetic separation. Appl. Environ. Microbiol. 56:3478-3481.
77. Snyder, J. C, B. Wiedenheft, M. Lavin, F. F. Roberto, J. Spuhler, A. C. Ortmann, T. Douglas, and M. Young. 2007. Virus movement maintains local virus population diversity. Proc. Natl. Acad. Sci. USA 48:19102-19107.
78. Soderstrom, C, H. Boren, F. Winquist, and C. Krantz-Rulcker. 2003. Use of an electronic tongue to analyze mold growth in liquid media. Int. J. Food Microbiol. 83:253-261.
79. Stephens, R J., P. Druggan, and G. N. Caron. 2000. Stressed Sal- monella are exposed to reactive oxygen species from two independent sources during recovery in conventional culture media. Int. J. Food Microbiol. 60:269-685.
80. Stevens, K. A., and L. Jaykus. 2004. Bacterial separation and concentration from complex sample matrices: a review. Crit. Rev. Microbiol. 30:7-24.
81. Stevens, K. A., and L.-A. Jaykus. 2004. Direct detection of bacterial pathogens in representative dairy products using a combined bacteria concentration-PCR approach. J. Appl. Microbiol. 97:1115-1122.
82. Suzuki, Y, N. Hanagasaka, T. Furukawa, and X Yoshida. 2008. Removal of bacteria from coastal seawater by foam separation using dispersed bubbles and surface-active substances. J. Biosci. Bioeng. 105:383-388.
83. Tian, P., A. Engelbrektson, and R. Mandrell. 2008. Two-log increase in sensitivity for detection of norovirus in complex samples by concentration with porcine gastric mucin conjugated to magnetic beads. Appl. Environ. Microbiol. 74:4271-4276.
84. Verreault, D., S. Moineau, and C. Duchaine. 2008. Methods for sampling of airborne viruses. Microbiol. Mol. Biol. Rev. 72:413-444.
85. Viehweg, H., and K. Schiigerl. 1983. Cell recovery by continuous flotation. Appl. Microbiol. Biotechnol. 17:96-102.
86. Vorst, K. L., E. C. D. Todd, and E. T. Ryser. 2004. Improved quantitative recovery of Listeria monocytogenes from stainless steel surfaces using a one-ply composite tissue. J. Food Prot. 67:2212-2217.
87. Wang, L. K. 2006. Adsorptive bubble separation and dispersed air flotation, p. 81-122. In L. K. Wang, Y.-T. Hung, and N. K. Shammas (ed.), Handbook of environmental engineering, vol.4. Advanced physicochemical treatment processes, 1 st ed. Humana Press, Totowa, NJ.
88. Wang, S., and R. E. Levin. 2006. Discrimination of viable Vibrio vulnificus cells from dead cells in real-time PCR. J. Microbiol. Methods 64:1-8. (Pubitemid 41790482)
89. Weber, M. E., D. C. Blanchard, and L. D. Syzdek. 1983. Mechanism of scavenging of waterborne bacteria by a rising bubble. Limnol. Oceanogr. 28:101-105.
90. Weichart. D. H., and D. B. Kell. 2001. Characterization of an au- tostimulatory substance produced by Escherichia coli. Microbiology 147:1875-1885.
91. White, D. C, C. A. Lytle, Y.-D. M. Gan, Y. M. Piceno, M. H. Wimpee, A. D. Peacock, and C. A. Smith. 2002. Flash detection/ identification of pathogens, bacterial spores and bioterrorism agent biomarkers from clinical and environmental matrices. J. Microbiol. Methods 48:139-147.
92. Willson, H. S. 1905. The isolation of B. Typhosus from infected water, with notes on a new process. J. Hyg. (Land.) 5:429-443.
93. Wolffs. P. F. G., 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.
94. Wong, D., and G. Robertson. 2004. Applying combinatorial chemistry and biology to food research. J. Agric. Food Chem. 52:7187-7198.
95. Yang. L.. F. Portugal, and W. E. Bentley. 2006. Conditioned medium from Listeria innocua stimulates emergence from a resting state: not a response to E. coli quorum sensing autoinducer AI-2. Biotechnol. Prog. 22:387-393.
96. Yitzhaki, S., E. Zahvy, C. Oron, M. Fisher, and A. Keysary. 2006. Concentration of Bacillus spores by using silica magnetic particles. Anal Chem. 78:6670-6673.
97. Zhang, L., Z. Yan, and E. T. Ryser. 2007. Impact of dilution ratios on Listeria monocytogenes growth during University of Vermont Medium enrichment of deli meats. J. Food Prot. 70:2656-2660.
98. Zougagh, M., and A. Ríos. 2008. Supercritical fluid extraction of macrocyclic lactone mycotoxins in maize flour samples for rapid amperometric screening and alternative liquid chromatographic method of confirmation. J. Chromatogr. A 1177:50-57