A PCR-DGGE method for detection and identification of Campylobacter, Helicobacter, Arcobacter and related Epsilobacteria and its application to saliva samples from humans and domestic pets

Journal of Applied Microbiology

Volumn 103, Issue 6, 2007, Pages 2601-2615

  Petersen, R F ^a   Harrington, C S ^a,b   Kortegaard, H E ^b   On, S L W ^a,c  

^a TECHNICAL UNIVERSITY OF DENMARK   (Denmark)

^b UNIVERSITY OF COPENHAGEN   (Denmark)

^c ESR Christchurch Science Centre   (New Zealand)

Author keywords

16S PCR DGGE; Culture independent identification; Epsilobacteria; Saliva samples

Indexed keywords

ANIMALS; BACTERIA; POLYMERASE CHAIN REACTION;

16S PCR-DENATURING GRADIENT GEL ELECTROPHORESIS; CAMPYLOBACTERS; CULTURE-INDEPENDENT IDENTIFICATION; DENATURING GRADIENT GEL ELECTROPHORESIS; DETECTION AND IDENTIFICATIONS; EPSILOBACTERIA; HELICOBACTER; ITS APPLICATIONS; ORAL CAVITY; SALIVA SAMPLE;

ELECTROPHORESIS;

BACTERIUM; DETECTION METHOD; DISEASE TRANSMISSION; DOMESTIC SPECIES; ELECTROKINESIS; IDENTIFICATION METHOD; POLYMERASE CHAIN REACTION; SALIVA;

ARCOBACTER; ARTICLE; BACTERIAL STRAIN; BACTERIUM CULTURE; BACTERIUM DETECTION; BACTERIUM IDENTIFICATION; CAMPYLOBACTER; CAMPYLOBACTER GRACILIS; CAMPYLOBACTER LARI; CAT; DENATURING GRADIENT GEL ELECTROPHORESIS; DOG; HELICOBACTER; HUMAN; NONHUMAN; NUCLEOTIDE SEQUENCE; PET ANIMAL; POLYMERASE CHAIN REACTION; SALIVA; WOLINELLA SUCCINOGENES;

ANIMALIA; ARCOBACTER; ARCOBACTER BUTZLERI; CAMPYLOBACTER; CAMPYLOBACTER CONCISUS; CAMPYLOBACTER GRACILIS; CAMPYLOBACTER LARI; CANIS FAMILIARIS; EPSILONPROTEOBACTERIA; HELICOBACTER; WOLINELLA SUCCINOGENES;

EID: 36549005094     PISSN: 13645072     EISSN: 13652672     Source Type: Journal    
DOI: 10.1111/j.1365-2672.2007.03515.x     Document Type: Article

References (41)

1. Aas, J.A., Paster, B.J., Stokes, L.N., Olsen, I. Dewhirst, F.E. (2005) Defining the normal bacterial flora of the oral cavity. J Clin Microbiol 43, 5721 5732.
2. Abu Al-Soud, W., Bennedsen, M., On, S.L.W., Ouis, I-S., Vandamme, P., Nilsson, H-O., Ljungh, Å. Wadström, T. (2003) Assessment of PCR-DGGE for the identification of diverse Helicobacter species, and application to faecal samples from zoo animals to determine Helicobacter prevalence. J Med Microbiol 52, 765 771.
3. Atabay, H.I., Corry, J.E.L. On, S.L.W. (1998) Identification of unusual Campylobacter-like isolates from poultry products as Helicobacter pullorum. J Appl Microbiol 84, 1017 1024.
4. Cavalier-Smith, T. (2002) The neomuran origin of archaebacteria, the negibacterial root of the universal tree and bacterial megaclassification. Int J Syst Evol Microbiol 52, 7 76.
5. Dibart, S., Skobe, Z., Snapp, K.R., Socransky, S.S., Smith, C.M. Kent, R. (1998) Identification of bacterial species on or in crevicular epithelial cells from healthy and preiodontally diseased patients using DNA-DNA hybridisation. Oral Microbiol Immunol 13, 30 35.
6. Dunn, B.E., Cohen, H. Blaser, M.J. (1997) Helicobacter pylori. Clin Microbiol Rev 10, 720 741.
7. Elliott, D.R., Wilson, M., Buckley, C.M.F. Spratt, D.A. (2005) Cultivable oral microbiota of domestic dogs. J Clin Microbiol 43, 5470 5476.
8. Engberg, J., On, S.L.W., Harrington, C.S. Gerner-Smidt, P. (2000) Prevalence of Campylobacter, Arcobacter, Helicobacter, and Sutterella spp. in human fecal samples as estimated by a reevaluation of isolation methods for campylobacters. J Clin Microbiol 38, 286 291.
9. Fischer, S.G. Lerman, L.S. (1983) DNA fragments differing by single base-pair substitutions are separated in denaturing gradient gels: Correspondence with melting theory. Proc Natl Acad Sci 80, 1579 1583.
10. Fox, J.G. (2002) The non-H. pylori helicobacters: their expanding role in gastrointestinal and systematic diseases. Gut 50, 273 283.
11. Fox, G.E., Wisotzkey, J.D. Jurtshuk, P. Jr. (1992) How close is close: 16S rRNA sequence identity may not be sufficient to guarantee species identity. Int J Syst Bacteriol 42, 166 170.
12. Friedman, C.R., Neimann, J., Wegener, H.C. Tauxe, R.V. (2000) Epidemiology of Campylobacter jejuni infections in the United States and other industrialized nations. In Campylobacter, 2nd edn ed. Nachamkin, I. Blaser, M.J. pp. 121 138. Washington, DC : ASM Press.
13. Grehan, M., Tamotia, G., Robertson, B. Mitchell, H. (2002) Detection of Helicobacter colonization of the murine lower bowel by genus-specific PCR-denaturing gradient gel electrophoresis. Appl Environ Microbiol 68, 5164 5166.
14. Hongoh, Y., Ohkuma, M. Kudo, T. (2003) Molecular analysis of bacterial microbiota in the gut of the termite Reticulitermes speratus (Isoptera; Rhinotermitidae). FEMS Microbiol Ecol 44, 231 242.
15. Houf, K., Tutenel, A., De Zutter, L., Van Hoof, J. Vandamme, P. (2000) Development of a multiplex PCR assay for the simultaneous detection and identification of Arcobacter butzleri, Arcobacter cryaerophilus and Arcobacter skirrowii. FEMS Microbiol Lett 193, 89 94.
16. Jalava, K., On, S.L.W, Vandamme, P.A.R., Happonen, I., Sukura, A. Hänninen, M-L. (1998) Isolation and identification of Helicobacter spp. from canine and feline gastric mucosa. Appl Environ Microbiol 64, 3998 4006.
17. Kimura, S., Ooshima, T., Takiguchi, M., Sasaki, Y., Amano, A., Morisaki, I. Hamada, S. (2002) Periodontopathic bacterial infection in childhood. J Periodontol 73, 20 26.
18. Lastovica, A. Skirrow, M 2000) Clinical significance of Campylobacter and related species other than Campylobacter jejuni and C. coli. In Campylobacter ed. Blaser, M. pp. 89 120. Washington : American Society for Microbiology.
19. Macuch, P.J. Tanner, A.C.R. (2000) Campylobacter species in health, gingivitis and periodontitis. J Dent Res 79, 785 792.
20. Nilsson, H.O., Ouis, I.S., Stenram, U., Ljungh, Å., Moran, A.P., Wadström, T. Al-Soud, W.A. (2004) High prevalence of Helicobacter species detected in laboratory mouse strains by multiplex PCR-denaturing gradient gel electrophoresis and pyrosequencing. J Clin Microbiol, 42, 3781 3788.
21. Okada, M., Hayashi, F. Nagasaka, N. (2001) PCR detection of 5 putative periodontal pathogens in dental plaque samples from children 2 to 12 years of age. J Clin Periodontol 28, 576 582.
22. On, S.L.W. (1996) Identification methods for Campylobacters, Helicobacters, and related organisms. Clin Microbiol Rev 9, 405 422.
23. On, S.L.W. (2001) Taxonomy of Campylobacter, Arcobacter, Helicobacter and related bacteria: current status, future prospects and immediate concerns. J Appl Microbiol, 90, 1S 15S.
24. On, S.L.W. Harrington, C.S. (2000) Identification of taxonomic and epidemiological relationships among Campylobacter species by numerical analysis of AFLP profiles. FEMS Microbiol Lett 193, 161 169.
25. On, S.L.W Harrington, C.S. (2001) Evaluation of numerical analysis of PFGE-DNA profiles for differentiating Campylobacter fetus subspecies by comparison with phenotypic, PCR and 16S rDNA sequencing methods. J Appl Microbiol 90, 285 293.
26. On, S.L.W. Holmes, B. (1995) Classification and identification of Campylobacters, Helicobacters and allied taxa by numerical analysis of phenotypic characters. Syst Appl Microbiol 18, 374 390.
27. On, S.L.W., Atabay, H.I., Corry, J.E.L., Harrington, C.S. Vandamme, P. (1998) Emended description of Campylobacter sputorum and revision of its infrasubspecific (biovar) divisions, including C. sputorum biovar paraureolyticus, a urease-producing variant from cattle and humans. Int J Syst Bacteriol 48, 195 206.
28. Paster, B.J., Boches, S.K., Galvin, J.L., Ericson, R.E., Lau, C.N., Levanos, V.A., Sahasrabudhe, A. Dewhirst, F.E. (2001) Bacterial diversity in human subgingival plaque. J Bacteriol 183, 3770 3783.
29. Requena, T., Burton, J., Matsuki, T., Munro, K., Simon, M.A., Tanaka, R., Watanabe, K. Tannock, G.W. (2002) Identification, detection, and enumeration of human bifidobacterium species by PCR targeting the transaldolase gene. Appl Environ Microbiol 68, 2420 2427.
30. Shen, Z., Fox, J.G., Dewhirst, F.E., Paster, B.J., Foltz, C.J., Yan, L., Shames, B. Perry, L. (1997) Helicobacter rodentium sp. nov., a urease-negative Helicobacter species isolated from laboratory mice. Int J Syst Bacteriol 47, 627 634.
31. Siqueira, J.F. Jr. Rôças, I.N (2003) A 16S rDNA-based nested PCR protocol to detect Campylobacter gracilis in oral infections. Pesqui Odontol Bras 17, 142 146.
32. Siqueira, J.F. Jr., Rôças, I. Rosado, A.S. (2004) Investigation of bacterial communities associated with asymptomatic and symptomatic endodontic infections by denaturing gradient gel electrophoresis fingerprinting approach. Oral Microbiol Immunol 19, 363 370.
33. Siqueira, J.F. Jr., Rôças, I. Rosado, A.S. (2005) Application of denaturing gradient gel electrophoresis (DGGE) to the analysis of endodontic infections. J Endod 31, 775 782.
34. Sjunnesson, H., Fält, T., Sturegård, E., Abu Al-Soud, W., Ljungh, A. Wadström, T. (2003) PCR-denaturing gradient gel electrophoresis and two feces antigen tests for detection of Helicobacter pylori in mice. Curr Microbiol 47, 278 285.
35. Solnick, J.V. Schauer, D.B. (2001) Emergence of diverse Helicobacter species in the pathogenesis of gastric and enterohepatic diseases. Clin Microbiol Rev 14, 59 97.
36. Suda, R., Kurihara, C., Kurihara, M., Sato, T., Lai, C-H. Hasegawa, K. (2003) Determination of eight selected periodontal pathogens in the subgingival plaque of maxillary first molars in Japanese school children aged 8-11 years. J Periodontal Res 38, 28 35.
37. Tanner, A., Maiden, K.F.J., Macuch, P.J., Murray, L.L. Kent, R.L. Jr. (1998) Microbiota of health, gingivitis, and initial periodontitis. J Clin Periodontol 25, 85 98.
38. Tannock, G.W. (1999) Identification of lactobacilli and bifidobacteria. Curr Issues Mol Biol 1, 53 64.
39. Tolia, V., Nilsson, H-O., Boyer, K., Wuerth, A., Abu Al-Soud, W., Rabah, R. Wadsröm, T. (2004) Detection of Helicobacter ganmani-Like 16S rDNA in pediatric liver tissue. Helicobacter 9, 460 468.
40. Vandenberg, O., Dediste, A., Houf, K, Ibekwem, S., Souayah, H., Cadranel, S., Douat, N., Zissis, G. et al. (2004) Arcobacter species in humans. Emerg Infect Dis 10, 1863 1867.
41. Waldenström, J., On, S.L.W., Ottvall, R., Hasselquis, D., Harrington, C.S. Olsen, B. (2003) Avaian reservoirs and zoonotic potential of the emerging human pathogen Helicobacter canadensis. Appl Environ Microbiol 69, 7523 7526.