Genetic determinants and polymorphisms specific for human-adapted serovars of Salmonella enterica that cause enteric fever

Journal of Clinical Microbiology

Volumn 44, Issue 6, 2006, Pages 2007-2018

  Tracz, Dobryan M ^a   Tabor, Helen ^a   Jerome, Morganne ^a   Ng, Lai King ^a   Gilmour, Matthew W ^a  

^a PUBLIC HEALTH AGENCY OF CANADA   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

MICROSPHERE;

ARTICLE; BACTERIAL GENE; BACTERIAL GENETICS; BACTERIAL VIRULENCE; BACTERIUM DETECTION; BACTERIUM IDENTIFICATION; COMPARATIVE GENOMIC HYBRIDIZATION; COMPARATIVE SEQUENCE ANALYSIS; DNA MICROARRAY; GENETIC DATABASE; GENETIC POLYMORPHISM; HUMAN ADAPTED SEROTYPE; LIQUID MICROSPHERE SUSPENSION ARRAY; MICROARRAY ANALYSIS; MOLECULAR PHYLOGENY; NONHUMAN; NUCLEOTIDE SEQUENCE; PATHOGENICITY ISLAND; PATHOGENICITY ISLAND 2 GENE; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; SALMONELLA ENTERICA; SALMONELLA PARATYPHI; SALMONELLA PARATYPHI B; SALMONELLA PARATYPHI C; SALMONELLA SENDAI; SALMONELLA TYPHI; SEQUENCE ANALYSIS; SEROTYPE; SSEC GENE; SSEF GENE; TRPS GENE; TYPHOID FEVER;

BACTERIAL PROTEINS; BACTERIAL TYPING TECHNIQUES; BASE SEQUENCE; COMPUTATIONAL BIOLOGY; HUMANS; MICROSPHERES; MOLECULAR SEQUENCE DATA; POLYMERASE CHAIN REACTION; POLYMORPHISM, GENETIC; SALMONELLA ENTERICA; SALMONELLA PARATYPHI A; SALMONELLA TYPHI; SEQUENCE ANALYSIS, DNA; SEROTYPING; TYPHOID FEVER;

BACTERIA (MICROORGANISMS); SALMONELLA; SALMONELLA ENTERICA;

EID: 33745139849     PISSN: 00951137     EISSN: None     Source Type: Journal    
DOI: 10.1128/JCM.02630-05     Document Type: Article

References (48)

1. Baker, S., Y. Sarwar, H. Aziz, A. Haque, A. Ali, G. Dougan, J. Wain, and A. Haque. 2005. Detection of Vi-negative Salmonella enterica serovar Typhi in the peripheral blood of patients with typhoid fever in the Faisalabad region of Pakistan. J. Clin. Microbiol. 43:4418-4425.
2. Bhan, M. K., R. Bahl, and S. Bhatnagar. 2005. Typhoid and paratyphoid fever. Lancet 366:749-762.
3. Boyd, E. F., F. S. Wang, P. Beltran, S. A. Plock, K. Nelson, and R. K. Selander. 1993. Salmonella reference collection B (SARB): strains of 37 serovars of subspecies I. J. Gen. Microbiol. 139(Pt 6):1125-1132.
4. Chan, K., S. Baker, C. C. Kim, C. S. Detweiler, G. Dougan, and S. Falkow. 2003. Genomic comparison of Salmonella enterica serovars and Salmonella bongori by use of an S. enterica serovar Typhimurium DNA microarray. J. Bacteriol. 185:553-563.
5. 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.
6. Crump, J. A., S. P. Luby, and E. D. Mintz. 2004. The global burden of typhoid fever. Bull. W. H. O. 82:346-353.
7. Demczuk, W., R. Ahmed, D. L. Woodward, C. G. Clark, L. K. Ng, K. Dore, N. Ciampa, and A. Muckle. 2001. Laboratory surveillance data for enteric pathogens in Canada. National Microbiology Laboratory, Winnipeg, Manitoba, Canada.
8. Deng, W., S. R. Liou, G. Plunkett, G. F. Maybew, D. J. Rose, V. Burland, V. Kodoyianni, D. C. Scbwartz, and F. R. Blattner. 2003. Comparative genomics of Salmonella enterica serovar Typhi strains Ty2 and CT18. J. Bacteriol. 185:2330-2337.
9. Farrell, J. J., L. J. Doyle, R. M. Addison, L. B. Reller, G. S. Hall, and G. W. Procop. 2005. Broad-range (pan) Salmonella and Salmonella serotype Typhispecific real-time PCR assays: potential tools for the clinical microbiologist. Am. J. Clin. Pathol. 123:339-345.
10. Fica, A. E., S. Prat-Miranda, A. Fernandez-Ricci, K. D'Ottone, and F. C. Cabello. 1996. Epidemic typhoid in Chile: analysis by molecular and conventional methods of Salmonella typhi strain diversity in epidemic (1977 and 1981) and nonepidemic years. J. Clin. Microbiol. 34:1701-1707.
11. Franco, A., C. Gonzalez, O. S. Levine, R. Lagos, R. H. Hall, S. L. Hoffman, M. A. Moechtar, E. Gotuzzo, M. M. Levine, D. M. Hone, and J. G. Morris, Jr. 1992. Further consideration of the clonal nature of Salmonella typhi: evaluation of molecular and clinical characteristics of strains from Indonesia and Peru. J. Clin. Microbiol. 30:2187-2190.
12. Gilmour, M. W., D. M. Tracz, A. K. Andrysiak, C. G. Clark, S. Tyson, A. Severini, and L. K. Ng. 2006. Use of the espZ gene encoded in the locus of enterocyte effacement for molecular typing of Shiga toxin-producing Escherichia coli. J. Clin. Microbiol. 44:449-458.
13. Hashimoto, Y., Y. Itho, Y. Fujinaga, A. Q. Khan, F. Sultana, M. Miyake, K. Hirose, H. Yamamoto, and T. Ezaki. 1995. Development of nested PCR based on the ViaB sequence to detect Salmonella typhi. J. Clin. Microbiol. 33:3082.
14. Hirose, K., K. Itoh, H. Nakajima, T. Kurazono, M. Yamaguchi, K. Moriya, T. Ezaki, Y. Kawamura, K. Tamura, and H. Watanabe. 2002. Selective amplification of tyv (rfbE), prt (rfbS), viaB, and fliC genes by multiplex PCR for identification of Salmonella enterica serovars Typhi and Paratyphi A. J. Clin. Microbiol. 40:633-636.
15. Huson, D. H. 1998. SplitsTree: analyzing and visualizing evolutionary data. Bioinformatics 14:68-73.
16. Kaderali, L., A. Desbpande, J. P. Nolan, and P. S. White. 2003. Primer-design for multiplexed genotyping. Nucleic Acids Res. 31:1796-1802.
17. Kanack, K. J., J. A. Crawford, I. Tatsuno, M. A. Karmali, and J. B. Kaper. 2005. SepZ/EspZ is secreted and translocated into HeLa cells by the enteropathogenic Escherichia coli type III secretion system. Infect. Immun. 73:4327-4337.
18. Kariuki, S., G. Revathi, J. Muyodi, J. Mwituria, A. Munyalo, S. Mirza, and C. A. Hart. 2004. Characterization of multidrug-resistant typhoid outbreaks in Kenya. J. Clin. Microbiol. 42:1477-1482.
19. Kidgell, C., U. Reichard, J. Wain, B. Linz, M. Torpdahl, G. Dougan, and M. Achtman. 2002. Salmonella typhi, the causative agent of typhoid fever, is approximately 50,000 years old. Infect. Genet. Evol. 2:39-45.
20. Ling, J. M., N. W. Lo, Y. M. Ho, K. M. Kam, N. T. Hoa, L. T. Phi, and A. F. Cheng. 2000. Molecular methods for the epidemiological typing of Salmonella enterica serotype Typhi from Hong Kong and Vietnam. J. Clin. Microbiol. 38:292-300.
21. Livak, K. J., S. J. Flood, J. Marmaro, W. Giusti, and K. Deetz. 1995. Oligonucleotides with fluorescent dyes at opposite ends provide a quenched probe system useful for detecting PCR product and nucleic acid hybridization. PCR Methods Appl. 4:357-362.
22. Maher, K. O., J. G. Morris, Jr., E. Gotuzzo, C. Ferreccio, L. R. Ward, L. Benavente, R. E. Black, B. Rowe, and M. M. Levine. 1986. Molecular techniques in the study of Salmonella typhi in epidemiologic studies in endemic areas: comparison with Vi phage typing. Am. J. Trop. Med. Hyg. 35:831-835.
23. Massi, M. N., T. Shirakawa, A. Gotoh, A. Bishnu, M. Hatta, and M. Kawabata. 2003. Rapid diagnosis of typhoid fever by PCR assay using one pair of primers from flagellin gene of Salmonella typhi. J. Infect. Chemother. 9:233-237.
24. Massi, M. N., T. Shirakawa, A. Goloh, A. Bishnu, M. Hatta, and M. Kawabata. 2005. Quantitative detection of Salmonella enterica serovar Typhi from blood of suspected typhoid fever patients by real-time PCR. Int. J. Med. Microbiol. 295:117-120.
25. McClelland, M., K. E. Sanderson, S. W. Clifton, P. Latreille, S. Porwollik, A. Sabo, R. Meyer, T. Bieri, P. Ozersky, M. McLellan, C. R. Harkins, C. Wang, C. Nguyen, A. Berghoff, G. Elliott, S. Kohlberg, C. Strong, F. Du, J. Carter, C. Kremizki, D. Layman, S. Leonard, H. Sun, L. Fulton, W. Nash, T. Miner, P. Minx, K. Delehaunty, C. Fronick, V. Magrini, M. Nhan, W. Warren, L. Florea, J. Spieth, and R. K. Wilson. 2004. Comparison of genome degradation in Paratyphi A and Typhi, human-restricted serovars of Salmonella enterica that cause typhoid. Nat. Genet. 36:1268-1274.
26. 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.
27. Miko, A., B. Guerra, A. Schroeter, C. Dorn, and R. Helmuth. 2002. Molecular characterization of multiresistant d-tartrate-positive Salmonella enterica serovar Paratyphi B isolates. J. Clin. Microbiol. 40:3184-3191.
28. Nazarenko, I., B. Lowe, M. Darfler, P. Ikonomi, D. Schuster, and A. Rashtchian. 2002. Multiplex quantitative PCR using self-quenched primers labeled with a single fluorophore. Nucleic Acids Res. 30:e37.
29. Nikiforov, T. T., R. B. Rendle, M. L. Kotewicz, and Y. H. Rogers. 1994. The use of phosphorothioate primers and exonuclease hydrolysis for the preparation of single-stranded PCR products and their detection by solid-phase hybridization. PCR Methods Appl. 3:285-291.
30. Ochiai, R. L. 2005. Salmonella paratyphi A rates, Asia. Emerg. Infect. Dis. 11:1764-1766.
31. Olsen, S. J., J. Pruckler, W. Bibb, T. M. Nguyen, M. T. Tran, T. M. Nguyen, 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.
32. Parkhill, J., G. Dougan, K. D. James, N. R. Thomson, D. Pickard, J. Wain, C. Churcher, K. L. Mungall, S. D. Bentley, M. T. Holden, M. Sebaihia, S. Baker, D. Basham, K. Brooks, T. Chillingworth, P. Connerton, A. Cronin, P. Davis, R. M. Davies, L. Dowd, N. White, J. Farrar, T. Feltwell, N. Hamlin, A. Haque, T. T. Hien, S. Holroyd, K. Jagels, A. Krogh, T. S. Larsen, S. Leather, S. Moule, P. O'Gaora, C. Parry, M. Quail, K. Rutherford, M. Simmonds, J. Skelton, K. Stevens, S. Whitehead, and B. G. Barrell. 2001. Complete genome sequence of a multiple drug resistant Salmonella enterica serovar Typhi CT18. Nature 413:848-852.
33. Parry, C. M., T. T. Hien, G. Dougan, N. J. White, and J. J. Farrar. 2002. Typhoid fever. N. Engl. J. Med. 347:1770-1782.
34. Porwollik, S., E. F. Boyd, C. Choy, P. Cheng, L. Florea, E. Proctor, and M. McClelland. 2004. Characterization of Salmonella enterica subspecies I genovars by use of microarrays. J. Bacteriol. 186:5883-5898.
35. Prager, R., W. Rabsch, W. Streckel, W. Voigt, E. Tietze, and H. Tschape. 2003. Molecular properties of Salmonella enlerica serotype Paratyphi B distinguish between its systemic and its enteric pathovars. J. Clin. Microbiol. 41:4270-4278.
36. Reeves, M. W., G. M. Evins, A. A. Heiba, B. D. Plikaytis, and J. J. Fanner 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.
37. Rozas, J., J. C. Sanchez-DelBarrio, X. Messeguer, and R. Rozas. 2003. DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 19:2496-2497.
38. Rutherford, K., J. Parkhill, J. Crook, T. Horsnell, P. Rice, M. A. Rajandream, and B. Barrell. 2000. Artemis: sequence visualization and annotation. Bioinformatics 16:944-945.
39. Selander, R. K., P. Beltran, N. H. Smith, R. M. Barker, P. B. Crichton, D. C. Old, J. M. Musser, and T. S. Whittam. 1990. Genetic population structure, clonal phylogeny, and pathogenicity of Salmonella paratyphi B. Infect. Immun. 58:1891-1901.
40. Selander, R. K., P. Beltran, N. H. Smith, R. Helmuth, F. A. Rubin, D. J. Kopecko, K. Ferris, B. D. Tall, A. Cravioto, and J. M. Musser. 1990. Evolutionary genetic relationships of clones of Salmonella serovars that cause human typhoid and other enteric fevers. Infect. Immun. 58:2262-2275.
41. Shanahan, P. M., M. V. Jesudason, C. J. Thomson, and S. G. Amyes. 1998. Molecular analysis of and identification of antibiotic resistance genes in clinical isolates of Salmonella typhi from India. J. Clin. Microbiol. 36:1595-1600.
42. Song, J. H., H. Cho, M. Y. Park, D. S. Na, H. B. Moon, and C. H. Pai. 1993. Detection of Salmonella typhi in the blood of patients with typhoid fever by polymerase chain reaction. J. Clin. Microbiol. 31:1439-1443.
43. Sood, S., A. Kapil, N. Dash, B. K. Das, V. Goel, and P. Seth. 1999. Paratyphoid fever in India: an emerging problem. Emerg. Infect. Dis. 5:483-484.
44. Threlfall, E. J., I. S. Fisher, C. Berghold, P. Gerner-Smidt, H. Tschape, M. Cormican, I. Luzzi, F. Schnieder, W. Wannet, J. Machado, and G. Edwards. 2003. Trends in antimicrobial drug resistance in Salmonella enterica serotypes Typhi and Paratyphi A isolated in Europe, 1999-2001. Int. J. Antimicrob. Agents 22:487-491.
45. Threlfall, E. J., and L. R. Ward. 2001. Decreased susceptibility to ciprofloxacin in Salmonella enterica serotype typhi, United Kingdom. Emerg. Infect. Dis. 7:448-450.
46. Vollaard, A. M., S. Ali, H. A. van Asten, S. Widjaja, L. G. Visser, C. Surjadi, and J. T. van Dissel. 2004. Risk factors for typhoid and paratyphoid fever in Jakarta, Indonesia. JAMA 291:2607-2615.
47. Walia, M., R. Gaind, R. Mehta, P. Paul, P. Aggarwal, and M. Kalaivani. 2005. Current perspectives of enteric fever: a hospital-based study from India. Ann. Trop. Paediatr. 25:161-174.
48. Zeigler, D. R. 2003. Gene sequences useful for predicting relatedness of whole genomes in bacteria. Int. J. Syst. Evol. Microbiol. 53:1893-1900.