Bacteroides coprophilus sp. nov., isolated from human faeces

International Journal of Systematic and Evolutionary Microbiology

Volumn 57, Issue 6, 2007, Pages 1323-1326

  Hayashi, Hidenori ^a,c   Shibata, Kensaku ^a,b   Abdul Bakir, Mohammad ^a   Sakamoto, Mitsuo ^a   Tomita, Shinichi ^b   Benno, Yoshimi ^a  

^a RIKEN BIORESOURCE CENTER   (Japan)

^b TAMAGAWA UNIVERSITY   (Japan)

^c MAEBASHI INSTITUTE OF TECHNOLOGY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

FATTY ACID; RNA 16S;

ARTICLE; BACTERIAL STRAIN; BACTERIUM ISOLATION; BACTEROIDACEAE; BACTEROIDES; BACTEROIDES BARNESIAE; BACTEROIDES COPROPHILUS; BACTEROIDES SALANITRONIS; CONTROLLED STUDY; DNA DNA HYBRIDIZATION; FATTY ACID ANALYSIS; FECES MICROFLORA; GENE SEQUENCE; MOLECULAR PHYLOGENY; NONHUMAN; NUCLEOTIDE SEQUENCE; PHENOTYPE; PHYLOGENETIC TREE; PRIORITY JOURNAL; SEQUENCE ANALYSIS; STRAIN DIFFERENCE; TAXONOMIC RANK;

ANAEROBIOSIS; BACTERIAL TYPING TECHNIQUES; BACTEROIDES; BACTEROIDES INFECTIONS; BASE COMPOSITION; DNA, BACTERIAL; DNA, RIBOSOMAL; FATTY ACIDS; FECES; GENES, RRNA; HUMANS; MOLECULAR SEQUENCE DATA; PHYLOGENY; RNA, BACTERIAL; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, NUCLEIC ACID;

BACTEROIDES; COPROPHILUS; NEGIBACTERIA;

EID: 34250738512     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.64979-0     Document Type: Article

References (31)

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.
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.
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.
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.
5. Eckburg, P. B., Bik, E. M., Bernstein, C. N., Purdom, E., Dethlefsen, L., Sargent, M., Gill, S. R., Nelson, K. E. & Reiman, D. A. (2005 . Diversity of the human intestinal microbial flora. Science 308 1635-1638.
6. Felsenstein, J. (1985). Confidence limits of phylogenies: An approach using the bootstrap. Evolution 39, 783-791.
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.
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.
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.
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.
13. Kitahara, M., Sakamoto, M., Ike, M., Saketa, 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.
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 Syst Evol Microbiol 56, 2853-2859.
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.
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.
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.
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.
19. Saitou, N. & Nei, M. (1987). The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol Biol Evol 4 406-425.
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.
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.
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.
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.
24. Shah, H. N. & Collins, M. D. (1980). Fatty acid and isoprenoid quinone composition in the classification of Bacteroides melanino-genicus and related taxa. J Appl Bacteriol 48, 75-87.
25. Shah, H. N. & Collins, M. D. (1983). Genus Bacteroides. A chemotaxonomical perspective. J Appl Bacteriol 55, 403-416.
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.
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.
28. Tamaoka, J. & Komagata, K. (1984). Determination of DNA base composition by reversed phase high-performance liquid chromatography. FEMS Microbiol Lett 25, 125-128.
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.
30. Wilson, K. H. & Blitchington, R. B. (1996). Human colonic biota studied by ribosomal DNA sequence analysis. Appl Environ Microbiol 62, 2273-2278.
31. Zoetandal, E. G., Akkermans A. D. & do Vos, W. M. (1998). Temperature gradient gel electropboresis analysis of 16S rRNA from human fecal samples reveals stable and host-specific communities of active bacteria. Appl Environ Microbiol 64, 3854-3859.