Food microbe tracker: A web-based tool for storage and comparison of food-associated microbes

Journal of Food Protection

Volumn 76, Issue 2, 2013, Pages 283-294

  Vangay, Pajau ^a   Fugett, Eric B ^a   Sun, Qi ^a   Wiedmann, Martin ^a  

^a Department of Obstetrics Gynecology   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA;

ARTICLE; BACTERIUM IDENTIFICATION; COMPARATIVE STUDY; FACTUAL DATABASE; FOOD CONTAMINATION; FOOD CONTROL; GENETIC DATABASE; INTERNET; ISOLATION AND PURIFICATION; PUBLIC HEALTH;

BACTERIAL TYPING TECHNIQUES; DATABASES, FACTUAL; DATABASES, GENETIC; DNA, BACTERIAL; FOOD CONTAMINATION; FOOD MICROBIOLOGY; INTERNET; PUBLIC HEALTH;

BACILLUS (BACTERIUM); BACTERIA (MICROORGANISMS); LISTERIA MONOCYTOGENES; PAENIBACILLUS; PSEUDOMONAS; SALMONELLA; STREPTOCOCCUS;

EID: 84874089642     PISSN: 0362028X     EISSN: None     Source Type: Journal    
DOI: 10.4315/0362-028X.JFP-12-276     Document Type: Article

References (47)

1. Aanensen, D. M., and B. G. Spratt. 2005. The multilocus sequence typing network: Mlst.net. Nucleic Acids Res. 33:W728-W733.
2. Alcaine, S. D., Y. Soyer, L. D. Warnick, W. L. Su, S. Sukhnanand, J. Richards, E. D. Fortes, P. McDonough, T. P. Root, N. B. Dumas, Y. Grohn, and M. Wiedmann. 2006. Multilocus sequence typing supports the hypothesis that cow- and human-associated Salmonella isolates represent distinct and overlapping populations. Appl. Environ. Microbiol. 72:7575-7585.
3. Barrett, T. J., P. Gerner-Smidt, and B. Swaminathan. 2006. Interpretation of pulsed-field gel electrophoresis patterns in foodborne disease investigations and surveillance. Foodborne Pathog. Dis. 3:20-31.
4. Benson, D. A., I. Karsch-Mizrachi, K. Clark, D. J. Lipman, J. Ostell, and E. W. Sayers. 2012. GenBank. Nucleic Acids Res. 40:D48-D53.
5. Bisharat, N., D. I. Cohen, M. C. Maiden, D. W. Crook, T. Peto, and R. M. Harding. 2007. The evolution of genetic structure in the marine pathogen, Vibrio vulnificus. Infect. Genet. Evol. 7:685-693.
6. Bork, P., and A. Bairoch. 1996. Go hunting in sequence databases but watch out for the traps. Trends Genet. 12:425-427.
7. Borucki, M. K., J. Reynolds, C. C. Gay, K. L. McElwain, S. H. Kim, D. P. Knowles, and J. Hu. 2004. Dairy farm reservoir of Listeria monocytogenes sporadic and epidemic strains. J. Food Prot. 67:2496-2499.
8. Bruce, J. L. 1996. Automated system rapidly identifies and characterizes microorganisms in food. Food Technol. 50:77-81.
9. Brunak, S., J. Engelbrecht, and S. Knudsen. 1990. Cleaning up gene databases. Nature 343:123.
10. Centers for Disease Control and Prevention. 2011. PulseNet protocols. Available at: http://www.cdc.gov/pulsenet/protocols.htm. Accessed 6 June 2006.
11. Centers for Disease Control and Prevention. 2011. National Salmonella surveillance data. Available at: http://www.cdc.gov/ ncidod/dbmd/phlisdata/ salmonella.htm. Accessed 14 May 2012.
12. CODATA Task Group on Biological Macromolecules and Colleagues, Committee on Data for Science and Technology of the International Council of Scientific Unions. 2000. Quality control in databanks for molecular biology. Bioessays 22:1024-1034.
13. Cooper, K. L., C. K. Luey, M. Bird, J. Terajima, G. B. Nair, K. M. Kam, E. Arakawa, A. Safa, D. T. Cheung, C. P. Law, H. Watanabe, K. Kubota, B. Swaminathan, and E. M. Ribot. 2006. Development and validation of a PulseNet standardized pulsed-field gel electrophoresis protocol for subtyping of Vibrio cholerae. Foodborne Pathog. Dis. 3:51-58.
14. Dogan, B., and K. J. Boor. 2003. Genetic diversity and spoilage potentials among Pseudomonas spp. isolated from fluid milk products and dairy processing plants. Appl. Environ. Microbiol. 69:130-138.
15. Fisher, I. S. T., and E. J. Threlfall. 2005. The Enter-net and Salmgene databases of foodborne bacterial pathogens that cause human infections in Europe and beyond: an international collaboration in surveillance and the development of intervention strategies. Epidemiol. Infect. 133:1-7.
16. Fugett, E. B., D. Schoonmaker-Bopp, N. B. Dumas, J. Corby, and M. Wiedmann. 2007. Pulsed-field gel electrophoresis (PFGE) analysis of temporally matched Listeria monocytogenes isolates from human clinical cases, foods, ruminant farms, and urban and natural environments reveals source-associated as well as widely distributed PFGE types. J. Clin. Microbiol. 45:865-873.
17. Gagneux, S., K. DeRiemer, T. Van, M. Kato-Maeda, B. C. de Jong, S. Narayanan, M. Nicol, S. Niemann, K. Kremer, M. C. Gutierrez, M. Hilty, P. C. Hopewell, and P. M. Small. 2006. Variable host-pathogen compatibility in Mycobacterium tuberculosis. Proc. Natl. Acad. Sci. USA 103:2869-2873.
18. Gerner-Smidt, P., K. Hise, J. Kincaid, S. Hunter, S. Rolando, E. Hyytia-Trees, E. M. Ribot, B. Swaminathan, and PulseNet Taskforce. 2006. PulseNet USA: a five-year update. Foodborne Pathog. Dis. 3:9-19.
19. Graves, L. M., and B. Swaminathan. 2001. PulseNet standardized protocol for subtyping Listeria monocytogenes by macrorestriction and pulsed-field gel electrophoresis. Int. J. Food Microbiol. 65:55-62.
20. Gray, M. J., R. N. Zadoks, E. D. Fortes, B. Dogan, S. Cai, Y. Chen, V. N. Scott, D. E. Gombas, K. J. Boor, and M. Wiedmann. 2004. Listeria monocytogenes isolates from foods and humans form distinct but overlapping populations. Appl. Environ. Microbiol. 70:5833-5841.
21. Hedberg, C. W., and J. M. Besser. 2006. Commentary: cluster evaluation, PulseNet, and public health practice. Foodborne Pathog. Dis. 3:32-35.
22. Huck, J. R., N. H. Woodcock, R. D. Ralyea, and K. J. Boor. 2007. Molecular subtyping and characterization of psychrotolerant endospore- forming bacteria in two New York State fluid milk processing systems. J. Food Prot. 70:2354-2364.
23. Inglis, T. J., L. O'Reilly, N. Foster, A. Clair, and J. Sampson. 2002. Comparison of rapid, automated ribotyping and DNA macrorestriction analysis of Burkholderia pseudomallei. J. Clin. Microbiol. 40:3198-3203.
24. Isaacson, R. E., M. Torrence, and M. R. Buckley. 2005. Preharvest food safety and security. Available at: http://academy.asm.org/index.php/ colloquium-program/-food-microbiology/196-preharvest-food-safety-andsecurity. Accessed 18 July 2006.
25. Jeffers, G. T., J. L. Bruce, P. L. McDonough, J. Scarlett, K. J. Boor, and M. Wiedmann. 2001. Comparative genetic characterization of Listeria monocytogenes isolates from human and animal listeriosis cases. Microbiology 147:1095-1104.
26. Kathariou, S. 2002. Listeria monocytogenes virulence and pathogenicity, a food safety perspective. J. Food Prot. 64:1811-1829.
27. Lukinmaa, S., K. Aarnisalo, M. L. Suihko, and A. Siitonen. 2004. Diversity of Listeria monocytogenes isolates of human and food origin studied by serotyping, automated ribotyping and pulsed-field gel electrophoresis. Clin. Microbiol. Infect. 10:562-568.
28. Lyautey, E., A. Hartmann, F. Pagotto, K. Tyler, D. R. Lapen, G. Wilkes, P. Piveteau, A. Rieu, W. J. Robertson, D. T. Medeiros, T. A. Edge, V. Gannon, and E. Topp. 2007. Characteristics and frequency of detection of fecal Listeria monocytogenes shed by livestock, wildlife, and humans. Can. J. Microbiol. 53:1158-1167.
29. MacMullen, W. J., and S. O. Denn. 2005. Information problems in molecular biology and bioinformatics. J. Am. Soc. Inf. Sci. Technol. 56:447-456.
30. Madden, T. 2002. The NCBI handbook: the BLAST sequence analysis tool. Available at: http://www.ncbi.nlm.nih.gov/books/ NBK21097/. Accessed 6 June 2006.
31. Manfreda, G., A. De Cesare, S. Stella, M. Cozzi, and C. Cantoni. 2005. Occurrence and ribotypes of Listeria monocytogenes in Gorgonzola cheeses. Int. J. Food Microbiol. 102:287-293.
32. Martin, N. H., S. C. Murphy, R. D. Ralyea, M. Wiedmann, and K. J. Boor. 2011. When cheese gets the blues: Pseudomonas fluorescens as the causative agent of cheese spoilage. J. Dairy Sci. 94:3176-3183.
33. Maslanka, S. E., J. G. Kerr, G. Williams, J. M. Barbaree, L. A. Carson, J. M. Miller, and B. Swaminathan. 1999. Molecular subtyping of Clostridium perfringens by pulsed-field gel electrophoresis to facilitate food-borne-disease outbreak investigations. J. Clin. Microbiol. 37:2209-2214.
34. Mead, P. S., E. F. Dunne, L. Graves, M. Wiedmann, M. Patrick, S. Hunter, E. Salehi, F. Mostashari, A. Craig, P. Mshar, T. Bannerman, B. D. Sauders, P. Hayes, W. Dewitt, P. Sparling, P. Griffin, D. Morse, L. Slutsker, B. Swaminathan, and Listeria Outbreak Working Group. 2006. Nationwide outbreak of listeriosis due to contaminated meat. Epidemiol. Infect. 134:744-751.
35. Neves, E., A. Lourenco, A. C. Silva, R. Coutinho, and L. Brito. 2008. Pulsed-field gel electrophoresis (PFGE) analysis of Listeria monocytogenes isolates from different sources and geographical origins and representative of the twelve serovars. Syst. Appl. Microbiol. 31:387-392.
36. Nightingale, K. K., K. Windham, K. E. Martin, M. Yeung, and M. Wiedmann. 2005. Select Listeria monocytogenes subtypes commonly found in foods carry distinct nonsense mutations in inlA, leading to expression of truncated and secreted internalin A, and are associated with a reduced invasion phenotype for human intestinal epithelial cells. Appl. Environ. Microbiol. 71:8764-8772.
37. Olive, D. M., and P. Bean. 1999. Principles and applications of methods for DNA-based typing of microbial organisms. J. Clin. Microbiol. 37:1661-1669.
38. Ralyea, R. D., M. Wiedmann, and K. J. Boor. 1998. Bacterial tracking in a dairy production system using phenotypic and ribotyping methods. J. Food Prot. 61:1336-1340.
39. Sauders, B. D., K. Mangione, C. Vincent, J. Schermerhorn, C. M. Farchione, N. B. Dumas, D. Bopp, L. Kornstein, E. D. Fortes, K. Windham, and M. Wiedmann. 2004. Distribution of Listeria monocytogenes molecular subtypes among human and food isolates from New York State shows persistence of human disease-associated Listeria monocytogenes strains in retail environments. J. Food Prot. 67:1417-1428.
40. Sheng, H., M. A. Davis, H. J. Knecht, D. D. Hancock, J. Van Donkersgoed, and C. J. Hovde. 2005. Characterization of a Shiga toxin-, intimin-, and enterotoxin hemolysin-producing Escherichia coli ONT:H25 strain commonly isolated from healthy cattle. J. Clin. Microbiol. 43:3213-3220.
41. StatCounter. 2012. StatCounter global statistics. Available at: http:// gs.statcounter.com. Accessed 5 June 2012.
42. Swaminathan, B., T. J. Barrett, S. B. Hunter, R. V. Tauxe, and CDC PulseNet Task Force. 2001. PulseNet: the molecular subtyping network for foodborne bacterial disease surveillance, United States. Emerg. Infect. Dis. 7:382-389.
43. Swaminathan, B., P. Gerner-Smidt, L. K. Ng, S. Lukinmaa, K. M. Kam, S. Rolando, E. P. Gutierrez, and N. Binsztein. 2006. Building PulseNet International: an interconnected system of laboratory networks to facilitate timely public health recognition and response to foodborne disease outbreaks and emerging foodborne diseases. Foodborne Pathog. Dis. 3:36-50.
44. Tauxe, R. V. 2006. Molecular subtyping and the transformation of public health. Foodborne Pathog. Dis. 3:4-8.
45. Vela, A. I., J. F. Fernandez-Garayzabal, J. A. Vazquez, M. V. Latre, M. M. Blanco, M. A. Moreno, L. de La Fuente, J. Marco, C. Franco, A. Cepeda, A. A. Rodriguez Moure, G. Suarez, and L. Dominguez. 2001. Molecular typing by pulsed-field gel electrophoresis of Spanish animal and human Listeria monocytogenes isolates. Appl. Environ. Microbiol. 67:5840-5843.
46. White, D. G., P. Fedorka-Cray, and T. C. Miller. 2006. The national antimicrobial resistance monitoring systems (NARMS). Available at: http://www.nmconline.org/articles/NARMS.pdf. Accessed 6 June 2006.
47. Zhao, S., P. F. McDermott, S. Friedman, J. Abbott, S. Ayers, A. Glenn, E. Hall-Robinson, S. K. Hubert, H. Harbottle, R. D. Walker, T. M. Chiller, and D. G. White. 2006. Antimicrobial resistance and genetic relatedness among Salmonella from retail foods of animal origin: NARMS retail meat surveillance. Foodborne Pathog. Dis. 3:106-117.