Escherichia, Shigella, and Salmonella

Manual of Clinical Microbiology: Tenth Edition

Volumn 1-2, Issue , 2022, Pages 603-626

  Nataro, James P ^a   Bopp, Cheryl A ^b   Fields, Patricia I ^b   Kaper, James B ^c   Strockbine, Nancy A ^b  

^a UNIVERSITY OF VIRGINIA   (United States)

^b NATIONAL CENTER FOR EMERGING AND ZOONOTIC INFECTIOUS DISEASES   (United States)

^c UNIVERSITY OF MARYLAND SCHOOL OF MEDICINE   (United States)

Author keywords

Antimicrobial susceptibilities; E. coli; Salmonella; Shigella; Virulence gene

Indexed keywords

EID: 85188871521     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1128/9781555816728.ch35     Document Type: Chapter

References (215)

1. Abbott, S. L., J. O'Connor, T. Robin, B. L. Zimmer, and J. M. Janda. 2003. Biochemical properties of a newly described Escherichia species, Escherichia alberai. J. Clin. Microbiol.. 41:4852-4854.
2. Abu-Ali, G. S., D. W. Lacher, L. M. Wick, W. Qi, and T. S. Whittam. 2009. Genomic diversity of pathogenic Escherichia coli of the EHEC 2 clonal complex. BMC Genomics 10:296.
3. Acheson, D. W. K., and G. T. Keusch. 1995. Shigella and entero- invasive Escherichia coli, p. 763-784. In M. J. Blaser, P. D. Smith, J. I. Ravdin, H. B. Greenberg, and R. L. Guerrant (ed.), Infections of the Gastrointestinal Tract. Raven Press, New York, NY.
4. Adkins, H. J., and L. T. Santiago. 1987. Increased recovery of enteric pathogens by use of both stool and rectal swab specimens. J. Clin. Microbiol. 25:158-159.
5. Albert, M. J., S. M. Faruque, A. S. Faruque, K. A. Bettelheim, P. K. Neogi, N. A. Bhuiyan, and J. B. Kaper. 1996. Controlled study of cytolethal distending toxin-producing Escherichia coli infections in Bangladeshi children. J. Clin. Microbiol. 34: 717-719.
6. Albert, M. J., F. Qadri, A. Haque, and N. A. Bhuiyan. 1993. Bacterial clump formation at the surface of liquid culture as a rapid test for identification of enteroaggregative Escherichia coli. J. Clin. Microbiol. 31:1397-1399.
7. Anderson, K. F., D. R. Lonsway, J. K. Rasheed, J. Biddle, B. Jensen, L. K. McDougal, R. B. Carey, A. Thompson, S. Stocker, B. Limbago, and J. B. Patel. 2007. Evaluation of methods to identify the Klebsiella pneumoniae carbapenemase in Enterobacteriaceae. J. Clin. Microbiol. 45:2723-2725.
8. Ansaruzzamann, M., A. K. M. G. Kibriya, A. Rahman, P. K. B. Neogi, A. S. G. Faruque, B. Rowe, and M. J. Albert. 1995. Detection of provisional serovars of Shigella dysenteriae and designation as S. dysenteriae serotypes 14 and 15. J. Clin. Microbiol. 33:1423-1425.
9. Arvelo, W., C. J. Hinkle, T. A. Nguyen, T. Weiser, N. Steinmuller, F. Khan, S. Gladbach, M. Parsons, D. Jennings, B. P. Zhu, E. Mintz, and A. Bowen. 2009. Transmission risk factors and treatment of pediatric shigellosis during a large daycare center-associated outbreak of multidrug resistant Shigella sonnei: implications for the management of shigellosis outbreaks among children. Pediatr. Infect. Dis. J. 28:976-980.
10. Reference deleted.
11. Asadulghani, M., Y. Ogura, T. Ooka, T. Itoh, A. Sawaguchi, A. Iguchi, K. Nakayama, and T. Hayashi. 2009. The defective prophage pool of Escherichia coli O157: prophage-prophage interactions potentiate horizontal transfer of virulence determinants. PLoS Pathog. 5:e1000408.
12. Aspevall, O., B. Osterman, R. Dittmer, L. Sten, E. Lindback, and U. Forsum. 2002. Performance of four chromogenic urine culture media after one or two days of incubation compared with reference media. J. Clin. Microbiol,. 40:1500-1503.
13. Awsare, S. V., and M. Lillo. 1991. A case report of Escherichia vulneris urosepsis. Rev. Infect. Dis. 13:1247-1248.
14. Baker, S., and G. Dougan. 2007. The genome of Salmonella enterica serovar Typhi. Clin. Infect. Dis. 45(Suppl. 1):S29-S33.
15. Bangert, R. L., A. C. Ward, E. H. Stauber, B. R. Cho, and P. R. Widders. 1988. A survey of the aerobic bacteria in the feces of captive raptors. Avian Dis. 32:53-62.
16. Baudry, B., S. J. Savarino, P. Vial, J. B. Kaper, and M. M. Levine. 1990. A sensitive and specific DNA probe to identify enteroaggregative Escherichia coli, a recently discovered diarrheal pathogen. J. Infect. Dis. 161:1249-1251.
17. Berge, A. C., J. M. Adaska, and W. M. Sischo. 2004. Use of antibiotic susceptibility patterns and pulsed-field gel electrophoresis to compare historic and contemporary isolates of multi-drug-resistant Salmonella enterica subsp. enterica serovar Newport. Appl. Environ. Microbiol. 70:318-323.
18. Bettelheim, K. A. 1992. The genus Escherichia, p. 2696-2736. In A. Balows, H. G. Truper, M. Dworkin, W. Harder, and K.-H. Schleifer (ed.), The Prokaryotes, 2nd ed. Springer-Verlag KG, Berlin, Germany.
19. Bettelheim, K. A. 2005. Reliability of O157:H7 ID agar (O157 H7 ID-F) for the detection and isolation of verocy- totoxigenic strains of Escherichia coli belonging to serogroup O157. J. Appl. Microbiol. 99:408-410.
20. Beutin, L., M. A. Montenegro, I. Orskov, F. Orskov, J. Prada, S. Zimmermann, and R. Stephan. 1989. Close association of verotoxin (Shiga-like toxin) production with enterohemolysin production in strains of Escherichia coli. J. Clin. Microbiol. 27:2559-2564.
21. Beutin, L., S. Zimmermann, and K. Gleier. 2002. Evaluation of the VTEC-Screen "Seiken" test for detection of different types of Shiga toxin (verotoxin)-producing Escherichia coli (STEC) in human stool samples. Diagn. Microbiol. Infect. Dis. 42:1-8.
22. Bielaszewska, M., R. Kock, A. W. Friedrich, C. von Eiff, L. B. Zimmerhackl, H. Karch, and A. Mellmann. 2007. Shiga toxin-mediated hemolytic uremic syndrome: time to change the diagnostic paradigm? PLoS One 2:e1024.
23. Bielaszewska, M., B. Middendorf, R. Kock, A. W. Friedrich, A. Fruth, H. Karch, M. A. Schmidt, and A. Mellmann. 2008. Shiga toxin-negative attaching and effacing Escherichia coli: distinct clinical associations with bacterial phylogeny and virulence traits and inferred in-host pathogen evolution. Clin. Infect. Dis. 47:208-217.
24. Bitzan, M., K. Ludwig, M. Klemt, H. Konig, J. Buren, and D. E. Muller-Wiefel. 1993. The role of Escherichia coli O157 infections in the classical (enteropathic) haemolytic uraemic syndrome: results of a Central European, multicentre study. Epidemiol. Infect. 110:183-196.
25. Blanco, J. E., J. Blanco, M. Blanco, M. P. Alonso, and W. H. Jansen. 1994. Serotypes of CNF1-producing Escherichia coli strains that cause extraintestinal infections in humans. Eur. J. Epidemiol. 10:707-711.
26. Blattner, F. R., G. Plunkett III, C. A. Bloch, N. T. Perna, V. Burland, M. Riley, J. Collado-Vides, J. D. Glasner, C. K. Rode, G. F. Mayhew, J. Gregor, N. W. Davis, H. A. Kirkpatrick, M. A. Goeden, D. J. Rose, B. Mau, and Y. Shao. 1997. The complete genome sequence of Escherichia coli K-12. Science 277:1453-1462.
27. Borczyk, A. A., N. Harnett, M. Lombos, and H. Lior. 1990. False-positive identification of Escherichia coli O157 by commercial latex agglutination tests. Lancet 336:946-947.
28. Bouvet, P. J., and S. Jeanjean. 1992. Evaluation of two colored latex kits, the Wellcolex Colour Salmonella test and the Wellcolex Colour Shigella test, for serological grouping of Salmonella and Shigella species. J. Clin. Microbiol. 30:2184-2186.
29. Brenner, D. J. 1992. Introduction to the family Enterobacte- riaceae, p. 2673-2695. In A. Balows, H. G. Truper, M. Dworkin, W. Harder, and K.-H. Schleifer (ed.), The Prokaryotes, 2nd ed. Springer-Verlag KG, Berlin, Germany.
30. Brenner, D. J., G. R. Fanning, G. V. Miklos, and A. G. Steigerwalt. 1973. Polynucleotide sequence relatedness among Shigella species. Int. J. Syst. Bacteriol. 23:1-7.
31. Brenner, D. J., G. R. Fanning, F. J. Skerman, and S. Falkow. 1972. Polynucleotide sequence divergence among strains of Escherichia coli and closely related organisms. J. Bacteriol. 109:953-965.
32. Brenner, D. J., and J. J. I. Farmer. 2005. Order XIII. "Enterobac- teriales," p. 587-607. In G. M. Garrity, D. J. Brenner, N. R. Krieg, and J. T. Staley (ed.), Bergey's Manual of Systematic Bacteriology, 2nd ed., vol. 2. The Proteobacteria. Part B. The Gammaproteobac- teria. Springer Science1Business Media, Inc., New York, NY.
33. Brenner, D. J., A. C. McWhorter, J. K. Knutson, and A. G. Steigerwalt. 1982. Escherichia vulneris: a new species of Enter- obacteriaceae associated with human wounds. J. Clin. Microbiol. 15:1133-1140.
34. Brenner, F. W., and A. C. McWhorter-Murlin. 1998. Identification and Serotyping of Salmonella. Centers for Disease Control and Prevention, Atlanta, GA.
35. Brooks, J. T., J. B. Ochieng, L. Kumar, G. Okoth, R. L. Shapiro, J. G. Wells, M. Bird, C. Bopp, W. Chege, M. E. Beatty, T. Chiller, J. M. Vulule, E. Mintz, and L. Slutsker. 2006. Surveillance for bacterial diarrhea and antimicrobial resistance in rural western Kenya, 1997-2003. Clin. Infect. Dis. 43:393-401.
36. Brooks, J. T., E. G. Sowers, J. G. Wells, K. D. Greene, P. M. Griffin, R. M. Hoekstra, and N. A. Strockbine. 2005. Non-O157 Shiga toxin-producing Escherichia coli infections in the United States, 1983-2002. J. Infect. Dis. 192:1422-1429.
37. Reference deleted.
38. Caprioli, A., V. Falbo, L. G. Roda, F. M. Ruggeri, and C. Zona. 1983. Partial purification and characterization of an Escherichia coli toxic factor that induces morphological cell alterations. Infect. Immun. 39:1300-1306.
39. Castellani, A., and A. J. Chalmers. 1919. Manual of Tropical Medicine, 3rd ed. William Wood and Company, New York, NY.
40. CDC. 2004. Day care-related outbreaks of rhamnose-negative Shigella sonnei-six states, June 2001. MMWR Morb. Mortal. Wkly. Rep. 53:60-63.
41. CDC. 2006. FoodNet Surveillance Report for 2004 (Final Report). CDC, Atlanta, GA.
42. CDC. 2004. National Antimicrobial Resistance Monitoring System for Enteric Bacteria (NARMS) 2002 Human Isolates Final Report. U.S. Department of Health and Human Services, CDC, Atlanta, GA.
43. CDC. 2006. Outbreaks of multidrug-resistant Shigella sonnei gastroenteritis associated with day care centers-Kansas, Kentucky, and Missouri, 2005. MMWR Morb. Mortal. Wkly. Rep. 55:1068-1071.
44. CDC. 2009. Preliminary FoodNet data on the incidence of infection with pathogens transmitted commonly through food-10 states, 2008. MMWR Morb. Mortal. Wkly. Rep. 58:333-337.
45. CDC. 2001. Shigella sonnei outbreak among men who have sex with men-San Francisco, California, 2000-2001. MMWR Morb. Mortal. Wkly. Rep. 50:922-926.
46. Chaudhuri, R. R., M. Sebaihia, J. L. Hobman, M. A. Webber, D. L. Leyton, M. D. Goldberg, A. F. Cunningham, A. Scott-Tucker, P. R. Ferguson, C. M. Thomas, G. Frankel, C. M. Tang, E. G. Dudley, I. S. Roberts, D. A. Rasko, M. J. Pallen, J. Parkhill, J. P. Nataro, N. R. Thomson, and I. R. Henderson. Complete genome sequence and comparative metabolic profiling of the prototypical enteroaggregative Escherichia coli strain 042. PLoS One 5:e8801.
47. Chaux, C., M. Crepy, S. Xueref, C. Roure, Y. Gille, and A. M. Freydiere. 2002. Comparison of three chromogenic agar plates for isolation and identification of urinary tract pathogens. Clin. Microbiol,. Infect. 8:641-645.
48. Chiu, C. H., P. Tang, C. Chu, S. Hu, Q. Bao, J. Yu, Y. Y. Chou, H. S. Wang, and Y. S. Lee. 2005. The genome sequence of Salmonella enterica serovar Choleraesuis, a highly invasive and resistant zoonotic pathogen. Nucleic Acids Res. 33:1690-1698.
49. Church, D. L., D. Emshey, H. Semeniuk, T. Lloyd, and J. D. Pitout. 2007. Evaluation of BBL CHROMagar O157 versus sorbitol-MacConkey medium for routine detection of Escherichia coli O157 in a centralized regional clinical microbiology laboratory. J. Clin. Microbiol. 45:3098-3100.
50. Cloeckaert, A., K. Sidi Boumedine, G. Flaujac, H. Imberechts, I. D'Hooghe, and E. Chaslus-Dancla. 2000. Occurrence of a Salmonella enterica serovar Typhimurium DT104-like antibiotic resistance gene cluster including the floR gene in S. enterica serovar Agona. Antimicrob. Agents Chemother. 44:1359-1361.
51. CLSI. 2010. Performance Standards for Antimicrobial Susceptibility Testing: 20th Information Supplement. M100-S20, vol. 30, no. 1. Clinical Laboratory Standards Institute, Wayne, PA.
52. Cobeljic, M., B. Miljkovic-Selimovic, D. Paunovic-Todosijevic, Z. Velickovic, Z. Lepsanovic, N. Zec, D. Savic, R. Ilic, S. Konstantinovic, B. Jovanovic, and V. Kostic. 1996. Enteroag- gregative Escherichia coli associated with an outbreak of diarrhoea in a neonatal nursery ward. Epidemiol. Infect. 117:11-16.
53. Cohen, M. B., J. P. Nataro, D. I. Bernstein, J. Hawkins, N. Roberts, and M. A. Staat. 2005. Prevalence of diarrheagenic Escherichia coli in acute childhood enteritis: a prospective controlled study. J. Pediatr. 146:54-61.
54. Dalton, C. B., E. D. Mintz, J. G. Wells, C. A. Bopp, and R. V. Tauxe. 1999. Outbreaks of enterotoxigenic Escherichia coli infection in American adults: a clinical and epidemiologic profile. Epidemiol. Infect. 123:9-16.
55. Daskalakis, D. C., and M. J. Blaser. 2007. Another perfect storm: Shigella, men who have sex with men, and HIV. Clin. Infect. Dis. 44:335-337.
56. Reference deleted.
57. De Rycke, J., J. F. Guillot, and R. Boivin. 1997. Cytotoxins in nonenterotoxigenic strains of Escherichia coli isolated from feces of diarrheic calves. Vet. Microbiol. 15:137-150.
58. DeWitt, W. E., E. J. Gangarosa, I. Huq, and A. Zarifi. 1971. Holding media for the transport of Vibrio cholerae from field to laboratory. Am. J. Trop. Med. 20:685-688.
59. Dietzman, D. E., G. W. Fischer, and F. D. Schoenknecht. 1974. Neonatal Escherichia coli septicemia-bacterial counts in blood. J. Pediatr. 85:128-130.
60. Dobrindt, U., F. Agerer, K. Michaelis, A. Janka, C. Buchrieser, M. Samuelson, C. Svanborg, G. Gottschalk, H. Karch, and J. Hacker. 2003. Analysis of genome plasticity in pathogenic and commensal Escherichia coli isolates by use of DNA arrays. J. Bacteriol. 185:1831-1840.
61. Doi, Y., D. L. Paterson, P. Egea, A. Pascual, L. Lopez-Cerero, M. D. Navarro, J. M. Adams-Haduch, Z. A. Qureshi, H. E. Sidjabat, and J. Rodriguez-Bano. 2010. Extended-spectrum and CMY-type beta-lactamase-producing Escherichia coli in clinical samples and retail meat from Pittsburgh, USA and Seville, Spain. Clin. Microbiol. Infect. 16:33-38.
62. Donnenberg, M. S. 2002. Enteropathogenic Escherichia coli, p. 595-612. In M. J. Blaser, P. D. Smith, J. I. Ravdin, H. B. Greenberg, and R. L. Guerrant (ed.), Infections of the Gastrointestinal Tract, 2nd ed. Lippincott Williams & Wilkins, Philadelphia, PA.
63. Ecker, D. J., R. Sampath, C. Massire, L. B. Blyn, T. A. Hall, M. W. Eshoo, and S. A. Hofstadler. 2008. Ibis T5000: a universal biosensor approach for microbiology. Nat. Rev. Microbiol. 6:553-558.
64. Edwards, R. A., G. J. Olsen, and S. R. Maloy. 2002. Comparative genomics of closely related salmonellae. Trends Microbiol. 10:94-99.
65. Ethelberg, S., K. E. Olsen, P. Gerner-Smidt, and K. Molbak. 2007. The significance of the number of submitted samples and patient-related factors for faecal bacterial diagnostics. Clin. Microbiol. Infect. 13:1095-1099.
66. Ewing, W. H. 1986. Edwards and Ewing's Identification of Enterobacteriaceae, 4th ed. Elsevier Scientific Publishing Co., Inc., New York, NY.
67. Ewing, W. H. 1986. The genus Shigella, p. 135-172. In Edwards and Ewing's Identification of Enterobacteriaceae, 4th ed. Elsevier Science Publishing Co., Inc., New York, NY.
68. Ewing, W. H., et al. 1971. Biochemical Reactions of Shigella. Public Health Service Publication 72-8081. U.S. Department of Health, Education, and Welfare, Atlanta, GA.
69. Ewing, W. H., R. W. Reavis, and B. R. Davis. 1958. Provisional Shigella serotypes. Can. J. Microbiol. 4:89-107.
70. Farmer, J. J., III, G. R. Fanning, B. R. Davis, C. M. O'Hara, C. Riddle, F. W. Hickman-Brenner, M. A. Asbury, V. A. Lowery III, and D. J. Brenner. 1985. Escherichia fergusonii and Enterobacter taylorae, two new species of Enterobacteriaceae isolated from clinical specimens. J. Clin. Microbiol. 21:77-81.
71. Farmer, J. J., III. 2003. Enterobacteriaceae: introduction and identification, p. 636-653. In P. R. Murray, E. J. Baron, J. H. Jorgensen, M. A. Pfaller, and R. H. Yolken (ed.), Manual of Clinical Microbiology, 8th ed, vol. 1. ASM Press, Washington, DC.
72. Feng, P., and S. D. Weagant. 1998. Enumeration of Escherichia coli and the coliform bacteria. In Bacteriological Analytical Manual, 8th ed. AOAC International, Gaithersburg, MD. (Online.) http://www.fda.gov/Food/ScienceResearch/LaboratoryMethods/BacteriologicalAnalyticalManualBAM/UCM064948.
73. Fields, P. I., K. Blom, H. J. Hughes, L. O. Helsel, P. Feng, and B. Swaminathan. 1997. Molecular characterization of the gene encoding H antigen in Escherichia coli and development of a PCR-restriction fragment length polymorphism test for identification of E. coli O157:H7 and O157:NM. J. Clin. Microbiol. 35:1066-1070.
74. Fisher, I. S. 2004. Dramatic shift in the epidemiology of Salmonella enterica serotype Enteritidis phage types in western Europe, 1998-2003-results from the Enter-net international salmonella database. Euro. Surveill. 9:43-45.
75. Fisher, M. A., P. D. Stamper, K. M. Hujer, Z. Love, A. Croft, S. Cohen, R. A. Bonomo, K. C. Carroll, and C. A. Petti. 2009. Performance of the Phoenix bacterial identification system compared with disc diffusion methods for identifying extended-spectrum beta-lactamase, AmpC and KPC producers. J. Med. Microbiol. 58:774-778.
76. Fontana, C., M. Favaro, M. Pelliccioni, E. S. Pistoia, and C. Favalli. 2005. Use of MicroSeq 500 16S rRNA gene-based sequencing for identification of bacterial isolates that commercial automated systems failed to identify correctly. J. Clin. Microbiol. 43:615-619.
77. Friedrich, A. W., M. Bielaszewska, W. L. Zhang, M. Pulz, T. Kuczius, A. Ammon, and H. Karch. 2002. Escherichia coli harboring Shiga toxin 2 gene variants: frequency and association with clinical symptoms. J. Infect. Dis. 185:74-84.
78. Gavin, P. J., L. R. Peterson, A. C. Pasquariello, J. Blackburn, M. G. Hamming, K. J. Kuo, and R. B. Thomson, Jr. 2004. Evaluation of performance and potential clinical impact of ProSpecT Shiga toxin Escherichia coli microplate assay for detection of Shiga toxin-producing E. coli in stool samples. J. Clin. Microbiol. 42:1652-1656.
79. Reference deleted.
80. Gilligan, P. H., J. M. Janda, M. A. Karmali, and J. M. Miller. 1992. Cumitech 12A, Laboratory Diagnosis of Bacterial Diarrhea. ASM Press, Washington, DC.
81. Glandt, M., J. A. Adachi, J. J. Mathewson, Z. D. Jiang, D. DiCesare, D. Ashley, C. D. Ericsson, and H. L. DuPont. 1999. Enteroaggregative Escherichia coli as a cause of traveler's diarrhea: clinical response to ciprofloxacin. Clin. Infect. Dis. 29:335-338.
82. Goris, J., K. T. Konstantinidis, J. A. Klappenbach, T. Coenye, P. Vandamme, and J. M. Tiedje. 2007. DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int. J. Syst. Evol. Microbiol. 57:81-91.
83. Gould, H. L., C. Bopp, N. Strockbine, R. Atkinson, V. Baselski, B. Body, R. Carey, C. Crandall, S. Hurd, R. Kaplan, M. Neill, S. Shea, P. Somsel, M. Toben-D'Angelo, P. Griffin, and P. Gerner-Smidt. 2009. Recommendations for diagnosis of Shiga toxin-producing Escherichia coli infections by clinical laboratories. MMWR Morb. Mortal. Wkly. Rep. 58(RR-12):1-14.
84. Griffin, P. M., P. S. Mead, and Sivapalasingam. 2002. Escherichia coli O157:H7 and other enterohemorrhagic Escherichia coli, p. 627-642. In M. J. Blaser, J. I. Ravdin, H. B. Greenberg, and R. L. Guerrant (ed.), Infections of the Gastrointestinal Tract, 2nd ed. Lippincott Williams & Wilkins, New York, NY.
85. Grimont, P. A. D., and F.-X. Weill. 2007. Antigenic Formulae of the Salmonella Serovars, 9th ed. WHO Collaborating Centre for Reference and Research on Salmonella, Institut Pasteur, Paris, France.
86. Grys, T. E., L. M. Sloan, J. E. Rosenblatt, and R. Patel. 2009. Rapid and sensitive detection of Shiga toxin-producing Escherichia coli from nonenriched stool specimens by real-time PCR in comparison to enzyme immunoassay and culture. J. Clin. Microbiol. 47:2008-2012.
87. Guerrant, R. L., T. J. Van Gilder, T. S. Steiner, N. M. Thielman, L. Slutsker, R. V. Tauxe, T. W. Hennessy, P. M. Griffin, H. DuPont, B. Sack, P. I. Tarr, M. A. Neill, I. Nachamkin, B. Reller, M. T. Osterholm, M. L. Bennish, and L. K. Pickering. 2001. Practice guidelines for the management of infectious diarrhea. Clin. Infect. Dis. 32:331-350.
88. Guerrero, L., J. J. Calva, A. L. Morrow, F. R. Velazquez, Y. Lopez-Vidal, H. Ortega, H. Arroyo, T. G. Cleary, and L. K. Pickering. 1994. Asymptomatic Shigella infections in a cohort of Mexican children younger than two years of age. Pediatr. Infect. Dis. J. 13:597-602.
89. Gupta, A., J. Fontana, C. Crowe, B. Bolstorff, A. Stout, S. Van Duyne, M. P. Hoekstra, J. M. Whichard, T. J. Barrett, and F. J. Angulo. 2003. Emergence of multidrug-resistant Salmonella enterica serotype Newport infections resistant to expanded-spectrum cephalosporins in the United States. J. Infect. Dis. 188:1707-1716.
90. Hanning, I. B., J. D. Nutt, and S. C. Ricke. 2009. Salmonellosis outbreaks in the United States due to fresh produce: sources and potential intervention measures. Foodborne Pathog. Dis. 6:635-648.
91. Hardy, A. V., D. Mackel, D. Frazier, and D. Hamerick. 1953. The relative efficacy of cultures for Shigella. U. S. Armed Forces Med. J. 4:393-394.
92. 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.
93. Hayes, P. S., K. Blom, P. Feng, J. Lewis, N. A. Strockbine, and B. Swaminathan. 1995. Isolation and characterization of a beta-d-glucuronidase-producing strain of Escherichia coli serotype O157:H7 in the United States. J. Clin. Microbiol. 33:3347-3348.
94. Hedberg, C. W., S. J. Savarino, J. M. Besser, C. J. Paulus, V. M. Thelen, L. J. Myers, D. N. Cameron, T. J. Barrett, J. B. Kaper, and M. T. Osterholm. 1997. An outbreak of foodborne illness caused by Escherichia coli O39:NM, an agent not fitting into the existing scheme for classifying diarrheogenic E. coli. J. Infect. Dis. 176:1625-1628.
95. Herold, S., H. Karch, and H. Schmidt. 2004. Shiga toxinencoding bacteriophages-genomes in motion. Int. J. Med. Microbiol. 294:115-121.
96. Hohmann, E. L. 2001. Nontyphoidal salmonellosis. Clin. Infect. Dis. 32:263-269.
97. Holt, K. E., N. R. Thomson, J. Wain, G. C. Langridge, R. Hasan, Z. A. Bhutta, M. A. Quail, H. Norbertczak, D. Walker, M. Simmonds, B. White, N. Bason, K. Mungall, G. Dougan, and J. Parkhill. 2009. Pseudogene accumulation in the evolutionary histories of Salmonella enterica serovars Paratyphi A and Typhi. BMC Genomics 10:36.
98. Huang, D. B., H. Koo, and H. L. DuPont. 2004. Enteroag- gregative Escherichia coli: an emerging pathogen. Curr. Infect. Dis. Rep. 6:83-86.
99. Hurrell, E., E. Kucerova, M. Loughlin, J. Caubilla-Barron, A. Hilton, R. Armstrong, C. Smith, J. Grant, S. Shoo, and S. Forsythe. 2009. Neonatal enteral feeding tubes as loci for colonisation by members of the Enterobacteriaceae. BMC Infect. Dis. 9:146.
100. Huys, G., M. Cnockaert, J. M. Janda, and J. Swings. 2003. Escherichia albertii sp. nov., a diarrhoeagenic species isolated from stool specimens of Bangladeshi children. Int. J. Syst. Evol. Microbiol. 53:807-810.
101. Hyma, K. E., D. W. Lacher, A. M. Nelson, A. C. Bumbaugh, J. M. Janda, N. A. Strockbine, V. B. Young, and T. S. Whittam. 2005. Evolutionary genetics of a new pathogenic Escherichia species: Escherichia albertii and related Shigella boydii strains. J. Bacteriol. 187:619-628.
102. Hyytia-Trees, E., S. C. Smole, P. A. Fields, B. Swaminathan, and E. M. Ribot. 2006. Second generation subtyping: a proposed PulseNet protocol for multiple-locus variable-number tandem repeat analysis of Shiga toxin-producing Escherichia coli O157 (STEC O157). Foodborne Pathog. Dis. 3:118-131.
103. Ishiguro, F., Y. Kyota, M. Mochizuki, T. Fuseda, S. Omoya, H. Izumiya, and H. Watanabe. 2005. Comparison of multidrug-resistant Salmonella enterica serovar Newport isolates from a patient and sewages in Fukui Prefecture. Kansenshogaku Zasshi 79:270-275.
104. Johnson, J. R., and T. A. Russo. 2005. Molecular epidemiology of extraintestinal pathogenic (uropathogenic) Escherichia coli. Int. J. Med. Microbiol. 295:383-404.
105. Johnson, T. J., and L. K. Nolan. 2009. Pathogenomics of the virulence plasmids of Escherichia coli. Microbiol. Mol. Biol. Rev. 73:750-774.
106. Johnson, W. M., and H. Lior. 1988. A new heat-labile cyto- lethal distending toxin (CLDT) produced by Escherichia coli isolates from clinical material. Microb. Pathog. 4:103-113.
107. Kadhiravan, T., N. Wig, A. Kapil, S. K. Kabra, K. Renuka, and A. Misra. 2005. Clinical outcomes in typhoid fever: adverse impact of infection with nalidixic acid-resistant Salmonella typhi. BMC Infect. Dis. 5:37.
108. Kaper, J. B., J. P. Nataro, and H. L. Mobley. 2004. Pathogenic Escherichia coli. Nat. Rev. Microbiol. 2:123-140.
109. Karch, H., C. Janetzki-Mittmann, S. Aleksic, and M. Datz. 1996. Isolation of enterohemorrhagic Escherichia coli O157 strains from patients with hemolytic-uremic syndrome by using immunomagnetic separation, DNA-based methods, and direct culture. J. Clin. Microbiol. 34:516-519.
110. Karmali, M. A., M. Mascarenhas, S. Shen, K. Ziebell, S. Johnson, R. Reid-Smith, J. Isaac-Renton, C. Clark, K. Rahn, and J. B. Kaper. 2003. Association of genomic O island 122 of Escherichia coli EDL 933 with verocytotoxin-producing Escherichia coli seropathotypes that are linked to epidemic and/ or serious disease. J. Clin. Microbiol. 41:4930-4940.
111. Kehl, K., P. Havens, C. Behnke, and D. Acheson. 1997. Evaluation of the premier EHEC assay for detection of Shiga toxinproducing Escherichia coli. J. Clin. Microbiol. 35:2051-2054.
112. Reference deleted.
113. Kim, B. Y., J. Kang, and K. S. Kim. 2005. Invasion processes of pathogenic Escherichia coli. Int. J. Med. Microbiol. 295:463-470.
114. Kuo, C. Y., L. H. Su, J. Perera, C. Carlos, B. H. Tan, G. Kumarasinghe, T. So, P. H. Van, A. Chongthaleong, J. H. Song, and C. H. Chiu. 2008. Antimicrobial susceptibility of Shigella isolates in eight Asian countries, 2001-2004. J. Microbiol. Immunol. Infect. 41:107-111.
115. Lan, R., M. C. Alles, K. Donohoe, M. B. Martinez, and P. R. Reeves. 2004. Molecular evolutionary relationships of enteroinvasive Escherichia coli and Shigella spp. Infect. Immun. 72:5080-5088.
116. Lan, R., P. R. Reeves, and S. Octavia. 2009. Population structure, origins and evolution of major Salmonella enterica clones. Infect. Genet. Evol. 9:996-1005.
117. Lee, L. A., N. D. Puhr, E. K. Maloney, N. H. Bean, and R. V. Tauxe. 1994. Increase in antimicrobial-resistant Salmonella infections in the United States, 1989-1990. J. Infect. Dis. 170:128-134.
118. Levine, M. M., C. Ferreccio, V. Prado, M. Cayazzo, P. Abrego, J. Martinez, L. Maggi, M. M. Baldini, W. Martin, D. Maneval, et al. 1993. Epidemiologic studies of Escherichia coli diarrheal infections in a low socioeconomic level peri-urban community in Santiago, Chile. Am. J. Epidemiol. 138:849-869.
119. Levine, W. N., and M. J. Goldberg. 1994. Escherichia vul- neris osteomyelitis of the tibia caused by a wooden foreign body. Orthop. Rev. 23:262-265.
120. Levings, R. S., D. Lightfoot, S. R. Partridge, R. M. Hall, and S. P. Djordjevic. 2005. The genomic island SGI1, containing the multiple antibiotic resistance region of Salmonella enterica serovar Typhimurium DT104 or variants of it, is widely distributed in other S. enterica serovars. J. Bacteriol. 187:4401-4409.
121. Lindberg, A. A., P. D. Cam, N. Chan, L. K. Phu, D. D. Trach, G. Lindberg, K. Karlsson, A. Karnell, and E. Ekwall. 1991. Shigellosis in Vietnam: seroepidemiologic studies with use of lipopolysaccharide antigens in enzyme immunoassays. Rev. Infect. Dis. 13(Suppl. 4):S231-S237.
122. Liu, W. Q., Y. Feng, Y. Wang, Q. H. Zou, F. Chen, J. T. Guo, Y. H. Peng, Y. Jin, Y. G. Li, S. N. Hu, R. N. Johnston, G. R. Liu, and S. L. Liu. 2009. Salmonella paratyphi C: genetic divergence from Salmonella choleraesuis and pathogenic convergence with Salmonella typhi. PLoS One 4:e4510.
123. Lolekha, S., S. Vibulbandhitkit, and P. Poonyarit. 1991. Response to antimicrobial therapy for shigellosis in Thailand. Rev. Infect. Dis. 13:S342-S346.
124. Ludwig, K., E. Grabhorn, M. Bitzan, C. Bobrowski, M. J. Kemper, I. Sobottka, R. Laufs, H. Karch, and D. E. Muller-Wiefel. 2002. Saliva IgM and IgA are a sensitive indicator of the humoral immune response to Escherichia coli O157 lipopolysaccharide in children with enteropathic hemolytic uremic syndrome. Pediatr. Res. 52:307-313.
125. Mackenzie, A. M., P. Lebel, E. Orrbine, P. C. Rowe, L. Hyde, F. Chan, W. Johnson, and P. N. McLaine, and The Synsorb Pk Study Investigators. 1998. Sensitivities and specificities of Premier E. coli O157 and Premier EHEC enzyme immunoassays for diagnosis of infection with verotoxin (Shiga-like toxin)-producing Escherichia coli. J. Clin. Microbiol. 36:1608-1611.
126. Mahon, B. E., A. Ponka, W. N. Hall, K. Komatsu, S. E. Dietrich, A. Siitonen, G. Cage, P. S. Hayes, M. A. Lambert-Fair, N. H. Bean, P. M. Griffin, and L. Slutsker. 1997. An international outbreak of Salmonella infections caused by alfalfa sprouts grown from contaminated seeds. J. Infect. Dis. 175:876-882.
127. Manafi, M., and B. Kremsmaier. 2001. Comparative evaluation of different chromogenic/fluorogenic media for detecting Escherichia coli O157:H7 in food. Int. J. Food Microbiol. 71:257-262.
128. Mandal, B. K., and J. Brennand. 1988. Bacteraemia in salmonellosis: a 15 year retrospective study from a regional infectious diseases unit. BMJ 297:1242-1243.
129. Manning, S. D., R. T. Madera, W. Schneider, S. E. Dietrich, W. Khalife, W. Brown, T. S. Whittam, P. Somsel, and J. T. Rudrik. 2007. Surveillance for Shiga toxin-producing Escherichia coli, Michigan, 2001-2005. Emerg. Infect. Dis. 13:318-321.
130. March, S. B., and S. Ratnam. 1986. Sorbitol-MacConkey medium for detection of Escherichia coli O157:H7 associated with hemorrhagic colitis. J. Clin. Microbiol. 23:869-872.
131. McClelland, M., K. E. Sanderson, J. Spieth, S. W. Clifton, P. Latreille, L. Courtney, S. Porwollik, J. Ali, M. Dante, F. Du, S. Hou, D. Layman, S. Leonard, C. Nguyen, K. Scott, A. Holmes, N. Grewal, E. Mulvaney, E. Ryan, H. Sun, L. Florea, W. Miller, T. Stoneking, M. Nhan, R. Waterston, and R. K. Wilson. 2001. Complete genome sequence of Salmonella enterica serovar Typhimurium LT2. Nature 413:852-856.
132. McVeigh, A., A. Fasano, D. A. Scott, S. Jelacic, S. L. Moseley, D. C. Robertson, and S. J. Savarino. 2000. IS1414, an Escherichia coli insertion sequence with a heatstable enterotoxin gene embedded in a transposase-like gene. Infect. Immun. 68:5710-5715.
133. 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.
134. Mignard, S., and J. P. Flandrois. 2006. 16S rRNA sequencing in routine bacterial identification: a 30-month experiment. J. Microbiol. Methods 67:574-581.
135. Miqdady, M. S., Z. D. Jiang, J. P. Nataro, and H. L. DuPont. 2002. Detection of enteroaggregative Escherichia coli with formalin-preserved HEp-2 cells. J. Clin. Microbiol. 40:3066-3067.
136. Morris, C., C. K. Tam, T. S. Wallis, P. W. Jones, and J. Hackett. 2003. Salmonella enterica serovar Dublin strains which are Vi antigen-positive use type IVB pili for bacterial self-association and human intestinal cell entry. Microb. Pathog. 35:279-284.
137. Muresu, R., G. Maddau, G. Delogu, P. Cappuccinelli, and A. Squartini. 2010. Bacteria colonizing root nodules of wild legumes exhibit virulence-associated properties of mammalian pathogens. Antonie Van Leeuwenhoek 97:143-153.
138. Nataro, J. P., Y. Deng, S. Cookson, A. Cravioto, S. J. Savarino, L. D. Guers, M. M. Levine, and C. O. Tacket. 1995. Heterogeneity of enteroaggregative Escherichia coli virulence demonstrated in volunteers. J. Infect. Dis. 171:465-468.
139. Nataro, J. P., and J. B. Kaper. 1998. Diarrheagenic Escherichia coli. Clin. Microbiol. Rev. 11:142-201.
140. Naum, M., E. W. Brown, and R. J. Mason-Gamer. 2008. Is 16S rDNA a reliable phylogenetic marker to characterize relationships below the family level in the Enterobacteriaceae? J. Mol. Evol. 66:630-642.
141. Navarro, F., T. Llovet, M. A. Echeita, P. Coll, A. Aladuena, M. A. Usera, and G. Prats. 1996. Molecular typing of Salmonella enterica serovar Typhi. J. Clin. Microbiol. 34:2831-2834.
142. Nguyen, T. V., P. Le Van, C. Le Huy, K. N. Gia, and A. Weintraub. 2005. Detection and characterization of diarrheagenic Escherichia coli from young children in Hanoi, Vietnam. J. Clin. Microbiol. 43:755-760.
143. Nishi, J., J. Sheikh, K. Mizuguchi, B. Luisi, V. Burland, A. Boutin, D. J. Rose, F. R. Blattner, and J. P. Nataro. 2003. The export of coat protein from enteroaggregative Escherichia coli by a specific ATP-binding cassette transporter system. J. Biol. Chem. 278:45680-45689.
144. Novicki, T. J., J. A. Daly, S. L. Mottice, and K. C. Carroll. 2000. Comparison of sorbitol MacConkey agar and a two-step method which utilizes enzyme-linked immunosorbent assay toxin testing and a chromogenic agar to detect and isolate en- terohemorrhagic Escherichia coli. J. Clin. Microbiol. 38:547-551.
145. Oaks, J. L., T. E. Besser, S. T. Walk, D. M. Gordon, K. B. Beckmen, K. A. Burek, G. J. Haldorson, D. S. Bradway, L. Ouellette, F. R. Rurangirwa, M. A. Davis, G. Dobbin, and T. S. Whittam. Escherichia albertii in wild and domestic birds. Emerg. Infect. Dis. 16:638-646.
146. Ogura, Y., T. Ooka, Asadulghani, J. Terajima, J. P. Nougayrede, K. Kurokawa, K. Tashiro, T. Tobe, K. Nakayama, S. Kuhara, E. Oswald, H. Watanabe, and T. Hayashi. 2007. Extensive genomic diversity and selective conservation of virulence-determinants in enterohemorrhagic Escherichia coli strains of O157 and non-O157 serotypes. Genome Biol. 8:R138.
147. Ohnishi, M., K. Kurokawa, and T. Hayashi. 2001. Diversification of Escherichia coli genomes: are bacteriophages the major contributors? Trends Microbiol. 9:481-485.
148. Olsen, S. J., J. Pruckler, W. Bibb, T. M. Nguyen, M. T. Tran, S. Sivapalasingam, A. Gupta, T. P. Phan, T. C. Nguyen, V. C. Nguyen, D. C. Phung, and E. D. Mintz. 2004. Evaluation of rapid diagnostic tests for typhoid fever. J. Clin. Microbiol. 42:1885-1889.
149. Olsvik, O., and N. A. Strockbine. 1993. PCR detection of heat-stable, heat-labile, and Shiga-like toxin genes in Escherichia coli, p. 271-276. In D. H. Persing, T. F. Smith, F. C. Ten- over, and T. J. White (ed.), Diagnostic Molecular Microbiology: Principles and Applications. American Society for Microbiology, Washington, DC.
150. Oswald, E., J. De Rycke, J. F. Guillot, and R. Boivin. 1989. Cytotoxic effect of multinucleation in HeLa cell cultures associated with the presence of Vir plasmid in Escherichia coli strains. FEMS Microbiol. Lett. 49:95-99.
151. Park, C. H., H. J. Kim, D. L. Hixon, and A. Bubert. 2003. Evaluation of the Duopath verotoxin test for detection of Shiga toxins in cultures of human stools. J. Clin. Microbiol. 41:2650-2653.
152. O157. J. Clin. Microbiol. 36:598-602.
153. Paton, A. W., R. M. Ratcliff, R. M. Doyle, J. Seymour-Murray, D. Davos, J. A. Lanser, and J. C. Paton. 1996. Molecular microbiological investigation of an outbreak of hemolytic-uremic syndrome caused by dry fermented sausage contaminated with Shiga-like toxin-producing Escherichia coli. J. Clin. Microbiol. 34:1622-1627.
154. Patrick, M. E., P. M. Adcock, T. M. Gomez, S. F. Altekruse, B. H. Holland, R. V. Tauxe, and D. L. Swerdlow. 2004. Salmonella enteritidis infections, United States, 1985-1999. Emerg. Infect. Dis. 10:1-7.
155. Petti, C. A., C. R. Polage, and P. Schreckenberger. 2005. The role of 16S rRNA gene sequencing in identification of microorganisms misidentified by conventional methods. J. Clin. Microbiol. 43:6123-6125.
156. Pickard, D., J. Wain, S. Baker, A. Line, S. Chohan, M. Fookes, A. Barron, P. O. Gaora, J. A. Chabalgoity, N. Thanky, C. Scholes, N. Thomson, M. Quail, J. Parkhill, and G. Dougan. 2003. Composition, acquisition, and distribution of the Vi exopolysaccharide-encoding Salmonella enterica pathogenicity island SPI-7. J. Bacteriol. 185:5055-5065.
157. Pien, F. D., S. Shrum, J. M. Swenson, B. C. Hill, C. Thornsberry, and J. J. Farmer III. 1985. Colonization of human wounds by Escherichia vulneris and Escherichia hermannii. J. Clin. Microbiol. 22:283-285.
158. AL, p. 764-799. In G. M. Garrity, D. J. Brenner, N. R. Krieg, and J. T. Staley (ed.), Bergey's Manual of Systematic Bacteriology, 2nd ed., vol. 2. The Proteobacteria. Part B. The Gammaproteobacteria. Springer Science1Business Media, Inc., New York, NY.
159. Porwollik, S., and M. McClelland. 2007. Determination of the gene content of Salmonella genomes by microarray analysis. Methods Mol. Biol. 394:89-103.
160. Prager, R., S. Annemuller, and H. Tschape. 2005. Diversity of virulence patterns among Shiga toxin-producing Escherichia coli from human clinical cases-need for more detailed diagnostics. Int. J. Med. Microbiol. 295:29-38.
161. Prager, R., W. Rabsch, W. Streckel, W. Voigt, E. Tietze, and H. Tschape. 2003. Molecular properties of Salmonella enterica serotype Paratyphi B distinguish between its systemic and its enteric pathovars. J. Clin. Microbiol. 41:4270-4278.
162. Priest, F. G., and M. Barker. 2010. Gram-negative bacteria associated with brewery yeasts: reclassification of Obe- sumbacterium proteus biogroup 2 as Shimwellia pseudoproteus gen. nov., sp. nov., and transfer of Escherichia blattae to Shimwellia blattae comb. nov. Int. J. Syst. Evol. Microbiol. 60:828-833.
163. Pryamukhina, N. S., and N. A. Khomenko. 1988. Suggestion to supplement Shigella flexneri classification scheme with the subserovar Shigella flexneri 4c: phenotypic characteristics of strains. J. Clin. Microbiol. 26:1147-1149.
164. Rahman, M. M., J. A. Haq, M. A. Morshed, and M. A. Rahman. 2005. Salmonella enterica serovar Typhi with decreased susceptibility to ciprofloxacin-an emerging problem in Bangladesh. Int. J. Antimicrob. Agents 25:345-346.
165. Rangel, J. M., P. H. Sparling, C. Crowe, P. M. Griffin, and D. L. Swerdlow. 2005. Epidemiology of Escherichia coli O157:H7 outbreaks, United States, 1982-2002. Emerg. Infect. Dis. 11:603-609.
166. Rantakokko-Jalava, K., S. Nikkari, J. Jalava, E. Eerola, M. Skurnik, O. Meurman, O. Ruuskanen, A. Alanen, E. Kotilainen, P. Toivanen, and P. Kotilainen. 2000. Direct amplification of rRNA genes in diagnosis of bacterial infections. J. Clin. Microbiol. 38:32-39.
167. Rasko, D. A., M. J. Rosovitz, G. S. Myers, E. F. Mongodin, W. F. Fricke, P. Gajer, J. Crabtree, M. Sebaihia, N. R. Thomson, R. Chaudhuri, I. R. Henderson, V. Sperandio, and J. Ravel. 2008. The pangenome structure of Escherichia coli: comparative genomic analysis of E. coli commensal and pathogenic isolates. J. Bacteriol. 190:6881-6893.
168. Reference deleted.
169. Reeves, M. W., G. M. Evins, A. A. Heiba, B. D. Plikaytis, and J. J. Farmer III. 1989. Clonal nature of Salmonella typhi and its genetic relatedness to other salmonellae as shown by multilocus enzyme electrophoresis, and proposal of Salmonella bongori comb. nov. J. Clin. Microbiol. 27:313-320.
170. Rohde, R. 1979. Serological integration of all known Arizona species into the Kauffmann-White scheme. Zentralbl. Bakteriol. Orig. A 243:148-176. (In German.)
171. Sack, R. B., M. Rahman, M. Yunus, and E. H. Khan. 1997. Antimicrobial resistance in organisms causing diarrheal disease. Clin. Infect. Dis. 24(Suppl. 1):S102-S105.
172. Safdar, N. 2002. Risk of hemolytic uremic syndrome after antibiotic treatment of Escherichia coli O157:H7 enteritis. JAMA 288:996-1001.
173. Sanders, C. C., M. Peyret, E. S. Moland, C. Shubert, K. S. Thomson, J.-M. Boeufgras, and W. E. Sanders, Jr. 2000. Ability of the VITEK 2 advanced expert system to identify beta-lactam phenotypes in isolates of Enterobacteriaceae and Pseudomonas aeruginosa. J. Clin. Microbiol. 38:570-574.
174. Sarantuya, J., J. Nishi, N. Wakimoto, S. Erdene, J. P. Nataro, J. Sheikh, M. Iwashita, K. Manago, K. Tokuda, M. Yoshinaga, K. Miyata, and Y. Kawano. 2004. Typical enteroaggregative Escherichia coli is the most prevalent pathotype among E. coli strains causing diarrhea in Mongolian children. J. Clin. Microbiol. 42:133-139.
175. AL, p. 607-624. In G. M. Garrity, D. J. Brenner, N. R. Krieg, and J. T. Staley (ed.), Bergey's Manual of Systematic Bacteriology, 2nd ed., vol. 2. The Proteobacteria. Part B. The Gammaproteobacteria. Springer Science1Business Media, Inc., New York, NY.
176. Schmidt, H., and H. Karch. 1996. Enterohemolytic phenotypes and genotypes of Shiga toxin-producing Escherichia coli O111 strains from patients with diarrhea and hemolytic- uremic syndrome. J. Clin. Microbiol. 34:2364-2367.
177. Scotland, S. M., T. Cheasty, A. Thomas, and B. Rowe. 1991. Beta-glucuronidase activity of Vero cytotoxin-producing strains of Escherichia coli, including serogroup O157, isolated in the United Kingdom. Lett. Appl. Microbiol. 13:42-44.
178. Scotland, S. M., G. A. Willshaw, B. Said, H. R. Smith, and B. Rowe. 1989. Identification of Escherichia coli that produces heat-stable enterotoxin STA by a commercially available enzyme-linked immunoassay and comparison of the assay with infant mouse and DNA probe tests. J. Clin. Microbiol. 27:1697-1699.
179. Senanayake, S. N., A. Jadeer, G. S. Talaulikar, and J. Roy. 2006. First reported case of dialysis-related peritonitis due to Escherichia vulneris. J. Clin. Microbiol. 44:4283-4284.
180. Servin, A. L. 2005. Pathogenesis of Afa/Dr diffusely adhering Escherichia coli. Clin. Microbiol. Rev. 18:264-292.
181. Simmon, K. E., A. C. Croft, and C. A. Petti. 2006. Application of SmartGene IDNS software to partial 16S rRNA gene sequences for a diverse group of bacteria in a clinical laboratory. J. Clin. Microbiol. 44:4400-4406.
182. Reference deleted.
183. Sjogren, A. C., J. B. Kaper, A. Caprioli, and D. Karpman. 2004. Enzyme-linked immunosorbent assay for detection of Shiga toxin-producing Escherichia coli infection by antibodies to Escherichia coli secreted protein B in children with hemolytic uremic syndrome. Eur. J. Clin. Microbiol. Infect. Dis. 23:208-211.
184. Slutsker, L., A. A. Ries, K. D. Greene, J. G. Wells, L. Hutwagner, and P. M. Griffin. 1997. Escherichia coli O157:H7 diarrhea in the United States: clinical and epidemiologic features. Ann. Intern. Med. 126:505-513.
185. Smith, H. W. 1974. A search for transmissible pathogenic characters in invasive strains of Escherichia coli: the discovery of a plasmid-controlled lethal character closely associated, or identical, with colicine V. J. Gen. Microbiol. 83:95-111.
186. Sowers, E. G., J. G. Wells, and N. A. Strockbine. 1996. Evaluation of commercial latex reagents for identification of O157 and H7 antigens of Escherichia coli. J. Clin. Microbiol. 34:1286-1289.
187. Stock, I., M. Rahman, K. J. Sherwood, and B. Wiedemann. 2005. Natural antimicrobial susceptibility patterns and biochemical identification of Escherichia albertii and Hafnia alvei strains. Diagn. Microbiol.. Infect. Dis. 51:151-163.
188. Strockbine, N. A., and A. T. Maurelli. 2005. Genus XXXV. Shigella Castellani and Chalmers 1919, 936AL, p. 811-823. In G. M. Garrity, D. J. Brenner, N. R. Krieg, and J. T. Staley (ed.), Bergey's Manual of Systematic Bacteriology, 2nd ed., vol. 2. The Proteobacteria. Part B. The Gammaproteobacteria. Springer Science1Business Media, Inc., New York, NY.
189. Strockbine, N. A., J. Parsonnet, K. Greene, J. A. Kiehlbauch, and I. K. Wachsmuth. 1991. Molecular epidemiologic techniques in analysis of epidemic and endemic Shigella dysenteriae type 1 strains. J. Infect. Dis. 163:406-409.
190. Stuart, R. D. 1959. Transport medium for specimens in public health bacteriology. Public Health Rep. 74:431-438.
191. Sugiyama, K., K. Inoue, and R. Sakazaki. 2001. Mitomy- cin-supplemented washed blood agar for the isolation of Shiga toxin-producing Escherichia coli other than O157:H7. Lett. Appl. Microbiol. 33:193-195.
192. Swaminathan, B., T. J. Barrett, S. B. Hunter, R. V. Tauxe, and C. P. T. Force. 2001. PulseNet: the molecular subtyping network for foodborne bacterial disease surveillance, United States. Emerg. Infect. Dis. 7:382-389.
193. Tacket, C. O., S. L. Moseley, B. Kay, G. Losonsky, and M. M. Levine. 1990. Challenge studies in volunteers using Escherichia coli strains with diffuse adherence to HEp-2 cells. J. Infect. Dis. 162:550-552.
194. Talukder, K. A., B. K. Khajanchi, M. A. Islam, D. K. Dutta, Z. Islam, A. Safa, G. Y. Khan, K. Alam, M. A. Hossain, S. Malla, S. K. Niyogi, M. Rahman, H. Watanabe, G. B. Nair, and D. A. Sack. 2004. Genetic relatedness of ciprofloxacin-resistant Shigella dysenteriae type 1 strains isolated in south Asia. J. Antimicrob. Chemother. 54:730-734.
195. Taneja, N. 2007. Changing epidemiology of shigellosis and emergence of ciprofloxacin-resistant shigellae in India. J. Clin. Microbiol. 45:678-679.
196. Tarr, P. I., C. A. Gordon, and W. L. Chandler. 2005. Shiga toxin-producing Escherichia coli and haemolytic uraemic syndrome. Lancet 365:1073-1086.
197. Tauxe, R. V., N. D. Puhr, J. G. Wells, N. Hargrett-Bean, and P. A. Blake. 1990. Antimicrobial resistance of Shigella isolates in the USA: the importance of international travelers. J. Infect. Dis. 162:1107-1111.
198. Tazzari, P. L., F. Ricci, D. Carnicelli, A. Caprioli, A. E. Tozzi, G. Rizzoni, R. Conte, and M. Brigotti. 2004. Flow cytometry detection of Shiga toxins in the blood from children with hemolytic uremic syndrome. Cytometry B 61:40-44.
199. Tindall, B. J., P. A. Grimont, G. M. Garrity, and J. P. Euzeby. 2005. Nomenclature and taxonomy of the genus Salmonella. Int. J. Syst. Evol. Microbiol. 55:521-524.
200. Trabulsi, L. R., R. Keller, and T. A. Tardelli Gomes. 2002. Typical and atypical enteropathogenic Escherichia coli. Emerg. Infect. Dis. 8:508-513.
201. van Duynhoven, Y. T., I. H. Friesema, T. Schuurman, A. Roovers, A. A. van Zwet, L. J. Sabbe, W. K. van der Zwaluw, D. W. Notermans, B. Mulder, E. J. van Hannen, F. G. Heilmann, A. Buiting, R. Jansen, and A. M. Kooistra-Smid. 2008. Prevalence, characterisation and clinical profiles of Shiga toxin-producing Escherichia coli in The Netherlands. Clin. Microbiol. Infect. 14:437-445.
202. Verbrugh, H. A., D. R. Mekkes, R. P. Verkoyen, and J. E. Landbeer. 1987. Widal type serology using live antigen for diagnosis of Shigella flexneri dysentery. Eur. J. Clin. Microbiol. Infect. Dis. 5:540-542.
203. Vial, P. A., J. J. Mathewson, H. L. DuPont, L. Guers, and M. M. Levine. 1990. Comparison of two assay methods for patterns of adherence to HEp-2 cells of Escherichia coli from patients with diarrhea. J. Clin. Microbiol. 28:882-885.
204. Voetsch, A. C., F. J. Angulo, T. Rabatsky-Ehr, S. Shallow, M. Cassidy, S. M. Thomas, E. Swanson, S. M. Zansky, M. A. Hawkins, T. F. Jones, P. J. Shillam, T. J. Van Gilder, J. G. Wells, P. M. Griffin, et al. 2004. Laboratory practices for stool-specimen culture for bacterial pathogens, including Escherichia coli O157:H7, in the FoodNet sites, 1995-2000. Clin. Infect. Dis. 38:S190-S197.
205. von Seidlein, L., D. R. Kim, M. Ali, H. Lee, X. Wang, V. D. Thiem, G. Canh do, W. Chaicumpa, M. D. Agtini, A. Hossain, Z. A. Bhutta, C. Mason, O. Sethabutr, K. Talukder, G. B. Nair, J. L. Deen, K. Kotloff, and J. Clemens. 2006. A multicentre study of Shigella diarrhoea in six Asian countries: disease burden, clinical manifestations, and microbiology. PLoS Med. 3:e353.
206. Vugia, D. J., M. Samuel, M. M. Farley, R. Marcus, B. Shiferaw, S. Shallow, K. Smith, F. J. Angulo, et al. 2004. Invasive Salmonella infections in the United States, FoodNet, 1996-1999: incidence, serotype distribution, and outcome. Clin. Infect. Dis. 38:S149-S156.
207. Wang, W. L., L. B. Reller, B. Smallwood, N. W. Luechtefeld, and M. J. Blaser. 1983. Evaluation of transport media for Campylobacter jejuni in human fecal specimens. J. Clin. Microbiol. 18:803-807.
208. Wathen-Grady, H. G., L. E. Britt, N. A. Strockbine, and I. K. Wachsmuth. 1990. Characterization of Shigella dysenteriae serotypes 11, 12, and 13. J. Clin. Microbiol. 28:2580-2584.
209. Wathen-Grady, H. G., B. R. Davis, and G. K. Morris. 1985. Addition of three new serotypes of Shigella boydii to the Shigella schema. J. Clin. Microbiol. 21:129-132.
210. Wells, J. G., and G. K. Morris. 1981. Evaluation of transport methods for isolating Shigella spp. J. Clin. Microbiol. 13:789-790.
211. Whittam, T. S., and A. C. Bumbaugh. 2002. Inferences from whole-genome sequences of bacterial pathogens. Curr. Opin. Genet. Dev. 12:719-725.
212. Wong, C. S., S. Jelacic, R. L. Habeeb, S. L. Watkins, and P. I. Tarr. 2000. The risk of hemolytic-uremic syndrome after antibiotic treatment of Escherichia coli O157:H7 infections. N. Engl. J. Med. 342:1930-1936.
213. Woo, P. C., P. K. Leung, K. W. Leung, and K. Y. Yuen. 2000. Identification by 16S ribosomal RNA gene sequencing of an Enterobacteriaceae species from a bone marrow transplant recipient. Mol. Pathol. 53:211-215.
214. Yam, W. C., M. L. Lung, and M. H. Ng. 1992. Evaluation and optimization of a latex agglutination assay for detection of cholera toxin and Escherichia coli heat-labile toxin. J. Clin. Microbiol. 30:2518-2520.
215. Yamamoto, T., Y. Koyama, M. Matsumoto, E. Sonoda, S. Nakayama, M. Uchimura, W. Paveenkittiporn, K. Tamura, T. Yokota, and P. Echeverria. 1992. Localized, aggregative, and diffuse adherence to HeLa cells, plastic, and human small intestines by Escherichia coli isolated from patients with diarrhea. J. Infect. Dis. 166:1295-1310.