1887

Abstract

Analysis of 16S rRNA gene sequences has been the method generally used to study the evolution and phylogeny of bacteria. Phylogenetic analysis of the 16S rRNA gene has shown the position of the genus in the -subclass of the . Because 16S rRNA-based phylogeny does not always correspond to the results of polyphasic taxonomy, and the related species cannot always be separated, new phylogenetic markers for species are needed. In this study, conserved partial (600 bp) 60 kDa heat-shock protein (HSP60) sequences were used to study the phylogeny of 37 strains of gastric and enterohepatic species, including type strains of 15 species with validly published names, reference strains of flexispira taxa and , and and canine flexispira strains. The partial HSP60 gene sequence proved to be a useful phylogenetic marker for the genus , providing a means of differentiating all 15 species analysed. In the resulting phylogenetic tree, gastric species and enterohepatic species with flexispira morphology formed tight, separate clusters. In general, HSP60 sequence similarities between species were significantly lower than the corresponding 16S rRNA gene sequence similarities, indicating a better resolution for species identification. In addition, a specific PCR method for identifying was developed based on the partial HSP60 sequence.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.02839-0
2004-05-01
2024-04-19
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/54/3/ijs540753.html?itemId=/content/journal/ijsem/10.1099/ijs.0.02839-0&mimeType=html&fmt=ahah

References

  1. Bryner J. H., Richie A. E., Pollet L., Kirkbridge C. A., Collins J. E. 1987; Experimental infection and abortion of pregnant guinea pigs with a unique spirillum-like bacterium isolated from aborted ovine fetuses. Am J Vet Res 48:91–95
    [Google Scholar]
  2. Dewhirst F. E., Fox J. G., Mendes E. N., Paster B. J., Gates C. E., Kirkbride C. A., Eaton K. A. 2000a; Flexispira rappini ’ strains represent at least 10 Helicobacter taxa. Int J Syst Evol Microbiol 50:1781–1787
    [Google Scholar]
  3. Dewhirst F. E., Fox J. G., On S. L. W. 2000b; Recommended minimal standards for describing new species of the genus Helicobacter . Int J Syst Evol Microbiol 50:2231–2237 [CrossRef]
    [Google Scholar]
  4. Eckloff B. W., Podzorski R. P., Kline B. C., Cockerill F. R. III 1994; A comparison of 16S ribosomal DNA sequences from five isolates of Helicobacter pylori . Int J Syst Bacteriol 44:320–323 [CrossRef]
    [Google Scholar]
  5. Fink A. L. 1999; Chaperone-mediated protein folding. Physiol Rev 79:425–449
    [Google Scholar]
  6. Fox J. G., Correa P., Taylor N. S., Lee A., Otto G., Murphy J. C., Rose R. 1990; Helicobacter mustelae -associated gastritis in ferrets. An animal model of Helicobacter pylori gastritis in humans. Gastroenterology 99:352–361
    [Google Scholar]
  7. Fox J. G., Yan L. L., Dewhirst F. E., Paster B. J., Shames B., Murphy J. C., Hayward A., Belcher J. C., Mendes E. N. 1995; Helicobacter bilis sp. nov., a novel Helicobacter species isolated from bile, livers, and intestines of aged, inbred mice. J Clin Microbiol 33:445–454
    [Google Scholar]
  8. Goh S. H., Potter S., Wood J. O., Hemmingsen S. M., Reynolds R. P., Chow A. W. 1996; HSP60 gene sequences as universal targets for microbial species identification: studies with coagulase-negative staphylococci. J Clin Microbiol 34:818–823
    [Google Scholar]
  9. Gueneau P., Loiseaux-De Goër S. 2002; Helicobacter : molecular phylogeny and the origin of gastric colonization in the genus. Infect Genet Evol 1:215–223 [CrossRef]
    [Google Scholar]
  10. Hänninen M.-L., Happonen I., Saari S., Jalava K. 1996; Culture and characteristics of Helicobacter bizzozeronii , a new canine gastric Helicobacter sp. Int J Syst Bacteriol 46:160–166 [CrossRef]
    [Google Scholar]
  11. Hänninen M.-L., Utriainen M., Happonen I., Dewhirst F. E. 2003; Helicobacter sp. flexispira 16S rDNA taxa 1, 4 and 5 and Finnish porcine Helicobacter isolates are members of the species Helicobacter trogontum (taxon 6). Int J Syst Evol Microbiol 53:425–433 [CrossRef]
    [Google Scholar]
  12. Hurtado A., Owen R. J. 1997; A rapid identification scheme for Helicobacter pylori and other species of Helicobacter based on 23S rRNA gene polymorphism. Syst Appl Microbiol 20:222–231 [CrossRef]
    [Google Scholar]
  13. Jalava K., Kaartinen M., Utriainen M., Happonen I., Hänninen M.-L. 1997; Helicobacter salomonis sp. nov., a canine gastric Helicobacter sp. related to Helicobacter felis and Helicobacter bizzozeronii . Int J Syst Bacteriol 47:975–982 [CrossRef]
    [Google Scholar]
  14. 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
    [Google Scholar]
  15. Jalava K., On S., Harrington C. S., Andersen L., Hänninen M.-L., Vandamme P. 2001; A cultured strain of “ Helicobacter heilmannii ,” a human gastric pathogen identified as H. bizzozeronii : evidence for zoonotic potential of Helicobacter . Emerg Infect Dis 7:1036–1038 [CrossRef]
    [Google Scholar]
  16. Jian W., Zhu L., Dong X. 2001; New approach to phylogenetic analysis of the genus Bifidobacterium based on partial HSP60 gene sequences. Int J Syst Evol Microbiol 51:1633–1638 [CrossRef]
    [Google Scholar]
  17. Jukes T. H., Cantor C. R. 1969; Evolution of protein molecules. In Mammalian Protein Metabolism pp  21–132 Edited by Munro H. N. New York: Academic Press;
    [Google Scholar]
  18. Kostia S., Veijalainen P., Hirvi U., Hänninen M.-L. 2003; Cytolethal distending toxin B gene ( cdtB ) homologues in taxa 2, 3 and 8 and in six canine isolates of Helicobacter sp. flexispira. J Med Microbiol 52:103–108 [CrossRef]
    [Google Scholar]
  19. Kwok A. Y. C., Chow A. W. 2003; Phylogenetic study of Staphylococcus and Macrococcus species based on partial hsp60 gene sequences. Int J Syst Evol Microbiol 53:87–92 [CrossRef]
    [Google Scholar]
  20. Maggi Solcà N., Bernasconi M. V., Valsangiacomo C., Van Doorn L.-J., Piffaretti J.-C. 2001; Population genetics of Helicobacter pylori in the southern part of Switzerland analysed by sequencing of four housekeeping genes ( atpD , glnA , scoB and recA ), and by vacA , cagA , iceA and IS 605 genotyping. Microbiology 147:1693–1707
    [Google Scholar]
  21. Mendes E. N., Queiroz D. M. M., Dewhirst F. E., Paster B. J., Moura S. B., Fox J. G. 1996; Helicobacter trogontum sp. nov., isolated from the rat intestine. Int J Syst Bacteriol 46:916–921 [CrossRef]
    [Google Scholar]
  22. On S. L. W. 1996; Identification methods for campylobacters, helicobacters, and related organisms. Clin Microbiol Rev 9:405–422
    [Google Scholar]
  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 [CrossRef]
    [Google Scholar]
  24. Paster B. J., Lee A., Fox J. G., Dewhirst F. E., Tordoff L. A., Fraser G. J., O'Rourke J. L., Taylor N. S., Ferrero R. 1991; Phylogeny of Helicobacter felis sp. nov., Helicobacter mustelae , and related bacteria. Int J Syst Bacteriol 41:31–38 [CrossRef]
    [Google Scholar]
  25. Patterson M. M., Schrenzel M. D., Feng Y., Xu S., Dewhirst F. E., Paster B. J., Thibodeau S. A., Versalovic J., Fox J. G. 2000; Helicobacter aurati sp. nov., a urease-positive Helicobacter species cultured from gastrointestinal tissues of Syrian hamsters. J Clin Microbiol 38:3722–3728
    [Google Scholar]
  26. Pitcher D. G., Saunders N. A., Owen R. J. 1989; Rapid extraction of bacterial genomic DNA with guanidium thiocyanate. Lett Appl Microbiol 8:151–156 [CrossRef]
    [Google Scholar]
  27. Rusanganwa E., Singh B., Gupta R. S. 1992; Cloning of HSP60 (GroEL) operon from Clostridium perfringens using a polymerase chain reaction based approach. Biochim Biophys Acta 113090–94 [CrossRef]
    [Google Scholar]
  28. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
    [Google Scholar]
  29. Segal G., Ron E. Z. 1996; Regulation and organization of the groE and dnaK operons in Eubacteria. FEMS Microbiol Lett 138:1–10 [CrossRef]
    [Google Scholar]
  30. Shen Z., Feng Y., Fox J. G. 2000; Identification of enterohepatic Helicobacter species by restriction fragment-length polymorphism analysis of the 16S rRNA gene. Helicobacter 5:121–128
    [Google Scholar]
  31. 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 [CrossRef]
    [Google Scholar]
  32. Thompson J. D., Higgins D. G., Gibson T. J. 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 [CrossRef]
    [Google Scholar]
  33. Vandamme P., Harrington C. S., Jalava K., On S. L. 2000; Misidentifying helicobacters: the Helicobacter cinaedi example. J Clin Microbiol 38:2261–2266
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.02839-0
Loading
/content/journal/ijsem/10.1099/ijs.0.02839-0
Loading

Data & Media loading...

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error