Development of two PCR-based techniques for detecting helical and coccoid forms of Helicobacter pylori

Journal of Clinical Microbiology

Volumn 42, Issue 8, 2004, Pages 3613-3619

  Shahamat, M ^a   Alavi, M ^a   Watts, J E M ^a   Gonzalez, J M ^a,b   Sowers, K R ^a   Maeder, D W ^a   Robb, F T ^a  

^a UNIVERSITY OF MARYLAND BIOTECHNOLOGY INSTITUTE   (United States)

^b INSTITUTO DE RECURSOS NATURALES Y AGROBIOLOGÍA DE SEVILLA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; RNA 16S;

ARTICLE; BACTERIAL GENE; BACTERIAL GENOME; BACTERIAL STRAIN; BACTERIAL TRANSMISSION; BACTERIUM CULTURE; BACTERIUM DETECTION; CAMPYLOBACTER JEJUNI; EPIDEMIOLOGICAL DATA; GENE AMPLIFICATION; GENE SEQUENCE; GLMM GENE; HELICOBACTER PYLORI; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SEQUENCE ANALYSIS; STRAIN DIFFERENCE;

BASE SEQUENCE; DNA PRIMERS; HELICOBACTER INFECTIONS; HELICOBACTER PYLORI; HUMANS; POLYMERASE CHAIN REACTION; SENSITIVITY AND SPECIFICITY;

BACTERIA (MICROORGANISMS); CAMPYLOBACTER; CAMPYLOBACTER JEJUNI; COCCOIDEA; HELICOBACTER; HELICOBACTER PYLORI;

EID: 3843142864     PISSN: 00951137     EISSN: None     Source Type: Journal    
DOI: 10.1128/JCM.42.8.3613-3619.2004     Document Type: Article

References (46)

1. Akcan, Y., E. S. Alper, M. Z. Bicik, and N. Aytug. 2000. The transmission of Helicobacter pylori via exposure to common sources outweighs the person-to-person contact among spouses in developing countries. Am. J. Gastroenterol. 95:317-319.
2. Alm, R. A., L. S. Ling, D. T. Moir, B. L. King, E. D. Brown, P. C. Doig, D. R. Smith, B. Noonan, B. C. Guild, B. L. deJonge, G. Carmel, P. J. Tummino, A. Caruso, M. Uria-Nickelsen, D. M. Mills, C. Ives, R. Gibson, D. Merberg, S. D. Mills, Q. Jiang, D. E. Taylor, G. F. Vovis, and T. J. Trust. 1999. Genomic-sequence comparison of two unrelated isolates of the human gastric pathogen Helicobacterpylori. Nature 397:176-180.
3. Altschul, S. F., W. Gish, W. Miller, E. W. Myers, and D. J. Lipman. 1999. Basic local alignment search tool. J. Mol. Biol. 215:403-410.
4. Bickley, J., R. J. Owen, A. G. Fraser, and R. E. Pounder. 1993. Evaluation of the polymerase chain reaction for detecting the urease C gene of Helicobacter pylori in gastric biopsy samples and dental plaque. J. Med. Microbiol. 39:338-344.
5. Bunn, J. E., W. G. MacKay, J. E. Thomas, D. C. Reid, and L. T. Weaver. 2002. Detection of Helicobacter pylori DNA in drinking water biofilms: implications for transmission in early life. Lett. Appl. Microbiol. 34:450-454.
6. Cantet, F., C. Magras, A. Marais, M. Federighi, and F. Megraud. 1999. Helicobacter species colonizing pig stomach: molecular characterization and determination of prevalence. Appl. Environ. Microbiol. 55:4672-4676.
7. Chanto Grettel, A. O., N. Gras, R. A. Alm, F. Megraud, and A. Maralis. 2002. Identification of strain-specific genes located outside the plasticity zone in nine clinical isolates of Helicobacter pylori. Microbiology 148:3671-3680.
8. Christensen, H. J. K., and J. E. Olsen. 1999. Differentiation of Campylobacter coli and C. jejuni by length and DNA sequence of the 16S-23S rRNA internal spacer region. Microbiology 145:99-105.
9. Chuanfu, L. I., H. A. Thanzhu, D. S. Chi, D. A. Ferguson, C. Jiang, J. J. Laffan, and E. Thomas. 1997. Differentiation of Helicobacter pylori strains directly from gastric biopsy specimens by PCR-based restriction fragment length polymorphism analysis without culture. J. Clin. Microbiol. 35:3021-3025.
10. Clemens, J., A. M. Rao, M. Qadri, F. Huda, S. B. Kay, F. P. Van Loon, D. Sack, B. A. Pradhan, and R. B. Sack. 1995. Impact of infection by Helicobacter pylori on the risk and severity of endemic cholera. J. Infect. Dis. 171:1653-1656.
11. Dale, A., T. J. Darboe, M. K. Coward, W. A. Harding, and L. T. Weaver. 1998. Helicobacter pylori infection, gastric acid secretion, and infant growth. J. Pediatr. Gastroenterol. 26:393-397.
12. Deltenre, M., and E. de Koster. 2000. How come I've got it? (a review of Helicobacter pylori transmission). Eur. J. Gastroenterol. Hepatol. 12:479-482.
13. De Reuse, H., A. Labigne, and D. Mengin-Lecreulx. 1997. The Helicobacter pylori ureC gene codes for a phosphoglucosamine mutase. J. Bacteriol. 179: 3488-3493.
14. Dewhirst, F. E., J. G. Fox, and S. L. W. On. 2000. Recommended minimal standards for describing new species of the genus Helicobacter. Int. J. Syst. Evol. Microbiol. 50:2231-2237.
15. Engstrand, L. 2001. Helicobacter in water and waterborne routes of transmission. J. Appl. Microbiol. 90:80-84.
16. Feldman, R. A. 2001. Epidemiologic observations and open questions about disease and infection caused by Helicobacter pylori, p. 29-51. In M. Achtman and S. Suerbaum (ed.), Helicobacter pylori: molecular and cellular biology. Horizon Scientific Press, Wymondham, United Kingdom.
17. Giannino, V., M. Santagati, G. Guardo, C. Cascone, G. Rappazzo, and S. Stefani. 2003. Conservation of the mosaic structure of the four internal transcribed spacers and localization of the rm operons on the Streptococcus pneumoniae genome. FEMS Microbiol. Lett. 223:245-252.
18. Groote, D. D., F. Haesebrouck, L. J. V. Doorn, P. Vandamme, and R. Ducatelle. 2001. Evaluation of a group-specific 16S ribosomal DNA-based PCR for detection of Helicobacter bizzozeronii, Helicobacter felis, and Helicobacter salomonis in fresh and paraffin-embedded gastric biopsy specimens. J. Clin. Microbiol. 39:1197-1199,
19. Hassall, E. 2001. Peptic ulcer disease and current approaches to Helicobacter pylori. J. Pediatr. Gastroenterol. 138:462-468.
20. Hegarty, J., M. Dowd, and K. H. Baker. 1999. Occurrence of Helicobacter pylori in surface water in the United States. J. Appl. Microbiol. 87:697-701.
21. Hobbie, J. E., R. J. Daley, and S. Jasper. 1977. Use of Nucleopore filters for counting bacteria by fluorescence microscopy. Appl. Environ. Microbiol. 33:1225-1228.
22. Hopkins, R. J., and J. G. Morris. 1994. Helicobacter pylori: the missing link in perspective. Am. J. Med. 31:265-277.
23. Horiuchi, T., T. Ohkusa, M. Watanabe, D. Kobayashi, H. Miwa, and Y. Eishi. 2001. Helicobacterpylori DNA in drinking water in Japan. Microbiol. Immunol. 45:515-519.
24. Hulten, K., H. Enorth, T. Nystrom, and L. Engstrand. 1998. Presence of Helicobacter species DNA in Swedish water. J. Appl. Microbiol. 85:282-286.
25. Kabir, S. 2001. Detection of Helicobacter pylori in faeces by culture, PCR and enzyme immunoassay. J. Med. Microbiol. 50:1021-1029.
26. Lane, D. J., B. Pace, G. J. Olsen, D. A. Stahl, M. L. Sogin, and N. R. Pace. 1985. Rapid determination of 16S ribosomal sequences for phylogenetic analysis. Proc. Natl. Acad. Sci. USA 82:6955-6959.
27. Lindkvist, P., F. Enquselassie, D. Asrat, I. Nilsson, L. Muhe, and J. Giesecke. 1999. Helicobacter pylori infection in Ethiopian children: a cohort study. Scand. J. Infect. Dis. 31:475-480.
28. Lu, J. J., C. L. Perng, R. Y. Shyu, C. H. Chen, Q. Lou, S. K. F. Chang, and C. H. Lee. 1999. Comparison of five PCR methods for detection of Helicobacter pylori DNA in gastric tissues. J. Clin. Microbiol. 37:772-774.
29. Lu, Y., T. E. Redlinger, R. Avitia, A. Galindo, and K. Goodman. 2002. Isolation and genotyping of Helicobacter pylori from untreated municipal wastewater. Appl. Environ. Microbiol. 68:1436-1439.
30. Mai, U. E. H., M. Shahamat, and R. R. Colwell. 1990. Survival of Helicobacterpylori in the environment, p. 91-96. In H. Menge (ed.), Proceedings of the Second International Symposium on Helicobacterpylori. Springer-Verlag, Berlin, Germany.
31. Malaty, H. M., N. D. Logan, D. Y. Graham, and J. E. Ramchatesingh. 2001. Helicobacter pylori infection in preschool and school-aged minority children: effect of socioeconomic indicators and breast-feeding practices. Clin. Infect. Dis. 32:1387-1392.
32. Mazari-Hiriart, M., Y. Lopez-Vidal, and Y. Y. Calva. 2001. Helicobacter pylori in water systems for human use in Mexico City. Water Sci. Technol. 43:93-98.
33. Mijs, W., K. De Veeese, A. Devos, H. Pottel, A. Valgaeren, C. Evans, J. Norton, D. Parker, L. Rigouts, F. Portaels, U. Reischl, S. Watterson, G. Pfyffer, and R. Rossau. 2002. Evaluation of a commercial line probe assay for identification of Mycobacterium species from liquid and solid culture. Eur. J. Clin. Microbiol. Infect. Dis. 21:794-802.
34. Mora, D., G. Ricci, S. Guglielmetti, D. Daffonchio, and M. G. Fortina. 2003. 16S-23S rRNA intergenic spacer region sequence variation in Streptococcus thermophilus and related dairy streptococci and development of a multiplex ITS-SSCP analysis for their identification. Microbiology 149:807-813.
35. Mukhopadhyay, B., E. F. Johnson, and R. S. Wolfe. 1999. Reactor-scale cultivation of the hyperthermophilic methanarchaeon Methanococcus jannaschii to high cell densities. Appl. Environ. Microbiol. 65:5059-5065.
36. Rahman, M., A. K. Mukhopadhyay, S. Nahar, S. Datta, M. M. Ahmad, S. Sarker, I. M. Masud, L. Engstrand, M. J. Albert, G. B. Nair, and D. E. Berg, 2003. DNA-level characterization of Helicobacter pylori strains from patients with overt disease and with benign infections in Bangladesh. J. Clin. Microbiol. 41:2008-2014.
37. Sasaki, K, Y. Tajiri, M. Sata, Y. Fujii, F. Matsubara, M. Zhao, S. Shimizu, A. Toyonaga, and K. Tanikawa. 1999. Helicobacter pylori in the natural environment. Scand. J. Infect. Dis. 31:275-279.
38. Shahamat, M., U. Mal, C. Paszko-Kolva, M. Kessel, and R. R. Colwell. 1993. Use of autoradiography to assess viability of Helicobacter pylori in water. Appl. Environ. Microbiol. 59:1231-1235.
39. Shahinian, M. L., D. J. Passaro, D. L. Swerdlow, E. D. Mintz, M. Rodriguez, and J. Parsonnel. 2000. Helicobacterpylori and epidemic Vibrio cholerae O1 infection in Peru. Lancet 355:377-378.
40. Song, Y., C. Liu, D. Molitoris, T. J. Tomzynski, M. McTeague, E. Read, and S. M. Finegold. 2002. Use of 16S-23S rRNA spacer-region (SR)-PCR for identification of intestinal clostridia. Syst. Appl. Microbiol. 25:528-535.
41. Suerbaum, S., and P. Michetti. 2002. Helicobacter pylori infection. N. Engl. J. Med. 347:1175-1186.
42. Thomas, J. E., A. Dale, M. Harding, W. A. Coward, T. J. Cole, and J. Weaver. 1999. Helicobacter pylori colonization in early life. Pediatr. Res. 45:218-223.
43. Thompson, J. D., D. G. Higgins, and T. J. Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix-choice. Nucleic Acids Res. 22:4673-4680.
44. Tomb, J. F., O. White, A. R. Kerlavage, R. A. Clayton, G. G. Sutton, R. D. Fleischmann, K. A. Ketchum, H. P. Klenk, S. Gill, B. A. Dougherty, K. Nelson, J. Quackenbush, L. Zhou, E. F. Kirkness, S. Peterson, B. Loftus, D. Richardson, R. Dodson, H. G. Khalak, A. Glodek, K. McKenney, L. M. Fitzegerald, N. Lee, M. D. Adams, J. C. Venter, et al. 1997. The complete genome sequence of the gastric pathogen Helicobacter pylori. Nature 388: 539-547.
45. Velazquez, M., and J. M. Feirtag. 1999. Helicobacter pylori: characteristics, pathogenicity, detection methods and mode of transmission implicating foods and water. Int. J. Food Microbiol. 53:95-104.
46. Westblom, T. U., S. J. Czinn, and C. S. Nedrud (ed.). 1999. Current topics in microbiology and immunology, vol. 241. Gastroduodenal disease and Helicobacter pylori: pathophysiology, diagnosis and treatment. Springer-Verlag, Berlin, Germany.