Multilocus Variable-Number Tandem Repeat Analysis Distinguishes Outbreak and Sporadic Escherichia coli O157:H7 Isolates

Journal of Clinical Microbiology

Volumn 41, Issue 12, 2003, Pages 5389-5397

  Noller, Anna C ^a   McEllistrem, M Catherine ^a   Pacheco, Antonio G F ^a,b   Boxrud, David J ^c   Harrison, Lee H ^a  

^a UNIVERSITY OF PITTSBURGH GRADUATE SCHOOL OF PUBLIC HEALTH   (United States)

^b INSTITUTO OSWALDO CRUZ   (Brazil)

^c MINNESOTA DEPARTMENT OF HEALTH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALLELE; ARTICLE; BACTERIAL GENOME; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATE; EPIDEMIC; ESCHERICHIA COLI; FOOD CONTAMINATION; GENE LOCUS; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PULSED FIELD GEL ELECTROPHORESIS; STRAIN IDENTIFICATION; UNITED STATES; VARIABLE NUMBER OF TANDEM REPEAT;

BASE SEQUENCE; DISEASE OUTBREAKS; DNA PRIMERS; ESCHERICHIA COLI INFECTIONS; ESCHERICHIA COLI O157; FOOD MICROBIOLOGY; HUMANS; PENNSYLVANIA; PHYLOGENY; UNITED STATES;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; NEGIBACTERIA;

EID: 0348110225     PISSN: 00951137     EISSN: None     Source Type: Journal    
DOI: 10.1128/JCM.41.12.5389-5397.2003     Document Type: Article

References (25)

1. Bell, B. P., M. Goldoft, P. M. Griffin, M. A. Davis, D. C. Gordon, P. I. Tarr, C. A. Bartleson, J. H. Lewis, T. J. Barrett, J. G. Wells, et al. 1994. A multistate outbreak of Escherichia coli Ol57:H7-associated bloody diarrhea and hemolytic uremic syndrome from hamburgers. The Washington experience. JAMA 272:1349-1353.
2. Bender, J. B., C. W. Hedberg, J. M. Besser, D. J. Boxrud, K. L. MacDonald, and M. T. Osterholm. 1997. Surveillance by molecular subtype for Escherichia coli O157:H7 infections in Minnesota by molecular subtyping. N. Engl. J. Med. 337:388-394.
3. Benson, G. 1999. Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res. 27:573-580.
4. Besser, R. E., P. M. Griffin, and L. Slutsker. 1999. Escherichia coli O157:H7 gastroenteritis and the hemolytic uremic syndrome: an emerging infectious disease. Annu. Rev. Med. 50:355-367.
5. Breuer, T., D. H. Benkel, R. L. Shapiro, W. N. Hall, M. M. Winnett, M. J. Linn, J. Neimann, T. J. Barrett, S. Dietrich, F. P. Downes, D. M. Toney, J. L. Pearson, H. Rolka, L. Slutsker, and P. M. Gritfin. 2001. A multistate outbreak of Escherichia coli O157:H7 infections linked to alfalfa sprouts grown from contaminated seeds. Emerg. Infect. Dis. 7:977-982.
6. Centers for Disease Control and Prevention. 2002. Multistate outbreak of Escherichia coli O157:H7 infections associated with eating ground beef - United States, June-July 2002. Morb. Mortal. Wkly. Rep. 51:637-639.
7. Ewing, B., and P. Green. 1998. Base-calling of automated sequencer traces using Phred. II. Error probabilities. Genome Res. 8:186-194.
8. Ewing, B., L. Hillier, M. C. Wendl, and P. Green. 1998. Base-calling of automated sequencer traces using Phred. 1. Accuracy assessment. Genome Res. 8:175-185.
9. Feil, E. J., J. M. Smith, M. C. Enright, and B. G. Spratt. 2000. Estimating recombinational parameters in Streptococcus pneumoniae from multilocus sequence typing data. Genetics 154:1439-1450.
10. Frothingham, R., and W. A. Meeker-O'Connell. 1998. Genetic diversity in the Mycobacterium tuberculosis complex based on variable numbers of tandem DNA repeats. Microbiology 144(Pt 5):1189-1196.
11. Hayashi, T., K. Makino, M. Ohnishi, K. Kurokawa, K. Ishii, K. Yokoyama, C. G. Han, E. Ohtsubo, K. Nakayama, T. Murata, M. Tanaka, T. Tobe, T. Iida, H. Takami, T. Honda, C. Sasakawa, N. Ogasawara, T. Yasunaga, S. Kuhara, T. Shiba, M. Hattori, and H. Shinagawa. 2001. Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12. DNA Res. 8:11-22.
12. Ihaka, R., and R. Gentleman. 1996. R: a language for data analysis and graphics. J. Comput. Graph. Stat. 5:299-314.
13. Jeanmougin, F., J. D. Thompson, M. Gouy, D. G. Higgins, and T. J. Gibson. 1998. Multiple sequence alignment with Clustal X. Trends Biochem. Sci. 23:403-405.
14. Keim, P., L. B. Price, A. M. Klevytska, K. L. Smith, J. M. Schupp, R. Okinaka, P. J. Jackson, and M. E. Hugh-Jones. 2000. Multiple-locus variable-number tandem repeat analysis reveals genetic relationships within Bacillus anthracis. J. Bacteriol. 182:2928-2936.
15. Klevytska, A. M., L. B. Price, J. M. Schupp, P. L. Worsham, J. Wong, and P. Keim. 2001. Identification and characterization of variable-number tandem repeats in the Yersinia pestis genome. J. Clin. Microbiol. 39:3179-3185.
16. Kotetishvili, M., O. C. Stine, A. Kreger, J. G. Morris, Jr., and A. Sulakvelidze. 2002. Multilocus sequence typing for characterization of clinical and environmental Salmonella strains. J. Clin. Microbiol. 40:1626-1635.
17. Mead, P. S., L. Slutsker, V. Dietz, L. F. McCaig, J. S. Bresee, C. Shapiro, P. M. Griffin, and R. V. Tauxe. 1999. Food-related illness and death in the United States. Emerg. Infect. Dis. 5:607-625.
18. Nicolas, P., G. Raphenon, M. Guibourdenche, L. Decousset, R. Stor, and A. B. Gaye. 2000. The 1998 Senegal epidemic of meningitis was due to the clonal expansion of A:4:PI.9, clone III-1, sequence type 5 Neisseria meningitidis strains. J. Clin. Microbiol. 38:198-200.
19. Noller, A. C., M. C. McEllistrem, O. C. Stine, J. G, Morris, Jr., D. J. Boxrud, B. Dixon, and L. H. Harrison. 2003. Multilocus sequence typing reveals a lack of diversity among Escherichia coli O157:H7 isolates that are distinct by pulsed-field gel electrophoresis. J. Clin. Microbiol. 41:675-679.
20. Perna, N. T., G. Plunkett III, V. Burland, B. Mau, J. D. Glasner, D. J. Rose, G. F. Mayhew, P. S. Evans, J. Gregor, H. A. Kirkpatrick, G. Posfai, J. Hackett, S. Klink, A. Boutin, Y. Shao, L. Miller, E. J. Grotbeck, N. W. Davis, A. Lim, E. T. Dimalanta, K. D. Potamousis, J. Apodaca, T. S. Anantharaman, J. Lin, G. Yen, D. C. Schwartz, R. A. Welch, and F. R. Blattner. 2001. Genome sequence of enterohaemorrhagic Escherichia coli O157:H7. Nature 409:529-533.
21. Samadpour, M., J. Stewart, K. Steingart, C. Addy, J. Louderback, M. McGinn, J. Ellington, and T. Newman. 2002. Laboratory investigation of an E. coli O157:H7 outbreak associated with swimming in Battle Ground Lake, Vancouver, Washington. J. Environ. Health 64:16-20, 25, 26.
22. Swaminathan, B., T. J. Barrett, S. B. Hunter, and R. V. Tauxe. 2001. PulseNet: the molecular subtyping network for foodborne bacterial disease surveillance, United States. Emerg. Infect. Dis. 7:382-389.
23. Tenover, F. C., R. D. Arbeit, R. V. Goering, P. A. Mickelsen, B. E. Murray, D. H. Persing, and B. Swaminathan. 1995. Interpreting chromosomal DNA restriction patterns produced by pulsed-field gel electrophoresis: criteria for bacterial strain typing. J. Clin. Microbiol. 33:2233-2239.
24. van Belkum, A., S. Scherer, L. van Alphen, and H. Verbrugh. 1998. Short-sequence DNA repeats in prokaryotic genomes. Microbiol. Mol. Biol. Rev. 62:275-293.
25. Zhou, J., M. C. Enright, and B. G. Spratt. 2000. Identification of the major Spanish clones of penicillin-resistant pneumococci via the Internet using multilocus sequence typing. J. Clin. Microbiol. 38:977-986.