1887

International Journal of Systematic and Evolutionary Microbiology

Volume 57, Issue 6

sp. nov., isolated from human faeces Free

Abstract

Three Gram-negative, anaerobic, rod-shaped bacteria (strains CB40, CB41 and CB42) were isolated from human faeces. Based on phylogenetic analysis and specific phenotypic characteristics, these strains were included in the genus , and 16S rRNA gene sequence analysis indicated that these strains represented a novel species. The strains were most closely related to the type strains of and , with sequence similarities of 93.4 and 89.8 %, respectively. The G+C content of strain CB42 is 44.7 mol%. Major fatty acids were anteiso-C, C, iso-C 3-OH and C 9. On the basis of the data presented, a novel species, sp. nov., is proposed, with CB42 (=JCM 13818=DSM 18228) as the type strain.

  • Published Online:
© SGM
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.64979-0
2007-06-01
2019-12-07
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/57/6/1323.html?itemId=/content/journal/ijsem/10.1099/ijs.0.64979-0&mimeType=html&fmt=ahah

References

  1. Bakir, M. A., Kitahara, M., Sakamoto, M., Matsumoto, M. & Benno, Y. ( 2006a; ). Bacteroides intestinalis sp. nov., isolated from human faeces. Int J Syst Evol Microbiol 56, 151–154.[CrossRef]
    [Google Scholar]
  2. Bakir, M. A., Kitahara, M., Sakamoto, M., Matsumoto, M. & Benno, Y. ( 2006b; ). Bacteroides finegoldii sp. nov., isolated from human faeces. Int J Syst Evol Microbiol 56, 931–935.[CrossRef]
    [Google Scholar]
  3. Bakir, M. A., Sakamoto, M., Matsumoto, M., Kitahara, M. & Benno, Y. ( 2006c; ). Bacteroides dorei sp. nov., isolated from human faeces. Int J Syst Evol Microbiol 56, 1639–1643.[CrossRef]
    [Google Scholar]
  4. Benno, Y., Endo, K., Mizutani, T., Namba, Y., Komori, T. & Mitsuoka, T. ( 1989; ). Comparison of fecal microflora of elderly persons in rural and urban areas of Japan. Appl Environ Microbiol 55, 1100–1105.
     [Google Scholar]
  5. Eckburg, P. B., Bik, E. M., Bernstein, C. N., Purdom, E., Dethlefsen, L., Sargent, M., Gill, S. R., Nelson, K. E. & Relman, D. A. ( 2005; ). Diversity of the human intestinal microbial flora. Science 308, 1635–1638.[CrossRef]
    [Google Scholar]
  6. Felsenstein, J. ( 1985; ). Confidence limits of phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef]
    [Google Scholar]
  7. Finegold, S. M., Sutter, V. L. & Mathisen, G. E. ( 1983; ). Normal indigenous flora. In Human Intestinal Microflora in Health and Disease, pp. 3–31. Edited by D. J. Hentges. New York: Academic Press.
  8. Hayashi, H., Sakamoto, M. & Benno, Y. ( 2002a; ). Phylogenetic analysis of the human gut microbiota using 16S rDNA clone libraries and strictly anaerobic culture-based methods. Microbiol Immunol 46, 535–548.[CrossRef]
    [Google Scholar]
  9. Hayashi, H., Sakamoto, M. & Benno, Y. ( 2002b; ). Fecal microbial diversity in a strict vegetarian as determined by molecular analysis and cultivation. Microbiol Immunol 46, 819–831.[CrossRef]
    [Google Scholar]
  10. Holdeman, L. V., Cato, E. P. & Moore, W. E. C. ( 1977; ). Anaerobe Laboratory Manual, 4th edn. Blacksburg, VA: Virginia Polytechnic Institute and State University.
  11. Kimura, M. ( 1980; ). A simple method for estimating the evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16, 111–120.[CrossRef]
    [Google Scholar]
  12. Kitahara, M., Takamine, F., Imamura, T. & Benno, Y. ( 2001; ). Clostridium hiranonis sp. nov., a human intestinal bacterium with bile acid 7α-dehydroxylating activity. Int J Syst Evol Microbiol 51, 39–44.
     [Google Scholar]
  13. Kitahara, M., Sakamoto, M., Ike, M., Sakata, S. & Benno, Y. ( 2005; ). Bacteroides plebeius sp. nov. and Bacteroides coprocola sp. nov., isolated from human faeces. Int J Syst Evol Microbiol 55, 2143–2147.[CrossRef]
    [Google Scholar]
  14. Lan, P. T. N., Sakamoto, M., Sakata, S. & Benno, Y. ( 2006; ). Bacteroides barnesiae sp. nov., Bacteroides salanitronis sp. nov. and Bacteroides gallinarum sp. nov., isolated from chicken caecum. Int J Syst Evol Microbiol 56, 2853–2859.[CrossRef]
    [Google Scholar]
  15. Matsuki, T., Watanabe, K., Fujimoto, J., Takada, T. & Tanaka, R. ( 2004; ). Use of 16S rRNA gene-targeted group-specific primers for real-time PCR analysis of predominant bacteria in human feces. Appl Environ Microbiol 70, 7220–7228.[CrossRef]
    [Google Scholar]
  16. Mayberry, W. R., Lambe, D. W., Jr & Ferguson, K. P. ( 1982; ). Identification of Bacteroides species by cellular fatty acid profiles. Int J Syst Bacteriol 32, 21–27.[CrossRef]
    [Google Scholar]
  17. Mitsuoka, T., Morishita, Y., Terada, A. & Yamamoto, S. ( 1969; ). A simple method (“plate-in-bottle method”) for the cultivation of fastidious anaerobes. Jpn J Microbiol 13, 383–385.[CrossRef]
    [Google Scholar]
  18. Miyagawa, E., Azuma, R. & Suto, T. ( 1979; ). Cellular fatty acid composition in gram-negative obligately anaerobic rods. J Gen Appl Microbiol 25, 41–51.[CrossRef]
    [Google Scholar]
  19. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
     [Google Scholar]
  20. Sakamoto, M., Suzuki, M., Umeda, M., Ishikawa, I. & Benno, Y. ( 2002; ). Reclassification of Bacteroides forsythus (Tanner et al. 1986) as Tannerella forsythensis corrig., gen. nov., comb. nov. Int J Syst Evol Microbiol 52, 841–849.[CrossRef]
    [Google Scholar]
  21. Sakamoto, M., Suzuki, M., Huang, Y., Umeda, M., Ishikawa, I. & Benno, Y. ( 2004; ). Prevotella shahii sp. nov. and Prevotella salivae sp. nov., isolated from the human oral cavity. Int J Syst Evol Microbiol 54, 877–883.[CrossRef]
    [Google Scholar]
  22. Sakamoto, M., Huang, Y., Umeda, M., Ishikawa, I. & Benno, Y. ( 2005; ). Prevotella multiformis sp. nov., isolated from human subgingival plaque. Int J Syst Evol Microbiol 55, 815–819.[CrossRef]
    [Google Scholar]
  23. Sakka, K., Furuse, S. & Shimada, K. ( 1989; ). Cloning and expression in Escherichia coli of thermophilic Clostridium sp. F1 genes related to cellulose hydrolysis. Agric Biol Chem 53, 905–910.[CrossRef]
    [Google Scholar]
  24. Shah, H. N. & Collins, M. D. ( 1980; ). Fatty acid and isoprenoid quinone composition in the classification of Bacteroides melaninogenicus and related taxa. J Appl Bacteriol 48, 75–87.[CrossRef]
    [Google Scholar]
  25. Shah, H. N. & Collins, M. D. ( 1983; ). Genus Bacteroides. A chemotaxonomical perspective. J Appl Bacteriol 55, 403–416.[CrossRef]
    [Google Scholar]
  26. Stackebrandt, E. & Goebel, B. M. ( 1994; ). Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44, 846–849.[CrossRef]
    [Google Scholar]
  27. Suau, A., Bonnet, R., Sutren, M., Godon, J.-J., Gibson, G. R., Collins, M. D. & Doré, J. ( 1999; ). Direct analysis of genes encoding 16S rRNA from complex communities reveals many novel molecular species within the human gut. Appl Environ Microbiol 65, 4799–4807.
     [Google Scholar]
  28. Tamaoka, J. & Komagata, K. ( 1984; ). Determination of DNA base composition by reversed phase high-performance liquid chromatography. FEMS Microbiol Lett 25, 125–128.[CrossRef]
    [Google Scholar]
  29. 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]
  30. Wilson, K. H. & Blitchington, R. B. ( 1996; ). Human colonic biota studied by ribosomal DNA sequence analysis. Appl Environ Microbiol 62, 2273–2278.
     [Google Scholar]
  31. Zoetendal, E. G., Akkermans, A. D. & de Vos, W. M. ( 1998; ). Temperature gradient gel electrophoresis analysis of 16S rRNA from human fecal samples reveals stable and host-specific communities of active bacteria. Appl Environ Microbiol 64, 3854–3859.
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.64979-0
Loading
Bacteroides coprophilus sp. nov., isolated from human faeces
Int J Syst Evol Microbiol 57, 1323 (2007); https://doi.org/10.1099/ijs.0.64979-0
/content/journal/ijsem/10.1099/ijs.0.64979-0
/content/journal/ijsem/10.1099/ijs.0.64979-0
Loading

Data & Media loading...

Supplements

vol. , part 6, pp. 1323 - 1326

Results of API 20A tests.

Results of Rapid ID 32A tests.

Cellular fatty acid compositions of strains of sp. nov. and related type strains.

[PDF file of Supplementary Tables S1-S3](32 KB)

PDF

Most Cited This Month

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