1887

Abstract

Six clinical isolates of a hitherto unknown, strictly anaerobic, Gram-negative rod showing fastidious growth were subjected to a polyphasic taxonomic study, including phenotypic, genomic and phylogenetic feature analyses. 16S rRNA gene sequenced-based phylogeny revealed that the novel strains represent a homogeneous group distant from any recognized species in the candidate phylum ‘’. The novel isolates were most closely related to species of the genus , with 88.2–88.7 % 16S rRNA gene sequence similarity. Large-scale chromosome structure and DNA G+C content also differentiated the novel strains from members of the genus . The novel strains were asaccharolytic. Major metabolic end products in trypticase/glucose/yeast extract broth were acetic, lactic, succinic and isovaleric acids and the major cellular fatty acids iso-C and C. Based on the data presented here, a new genus, gen. nov., is proposed with one novel species, sp. nov. is the first characterized species of the candidate phylum ‘’ that includes human isolates. The G+C content of the DNA of the type strain of ADV 126 (=AIP 136.05=CIP 109408=CCUG 53819) is 59.4 mol%.

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2007-12-01
2021-10-22
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References

  1. Altschul S. F., Madden T. L., Schaffer A. A., Zhang J., Zhang Z., Miller W., Lipman D. J. 1997; Gapped blast and psi-blast: a new generation of protein database search programs. Nucleic Acids Res 25:3389–3402 [CrossRef]
    [Google Scholar]
  2. Carlier J.-P. 1985; Gas chromatography of fermentation products: its application in diagnosis of anaerobic bacteria. Bull Inst Pasteur 83:57–69
    [Google Scholar]
  3. Carlier J.-P., Marchandin H., Jumas-Bilak E., Lorin V., Henry C., Carrière C., Jean-Pierre H. 2002; Anaeroglobus geminatus gen. nov., sp. nov. a novel member of the family Veillonellaceae . Int J Syst Evol Microbiol 52:983–986 [CrossRef]
    [Google Scholar]
  4. Carlier J. P., K'ouas G., Bonne I., Lozniewski A., Mory F. 2004; Oribacterium sinus gen. nov., sp. nov., within the family ‘ Lachnospiraceae ’ (phylum Firmicutes ). Int J Syst Evol Microbiol 54:1611–1615 [CrossRef]
    [Google Scholar]
  5. Cole J. R., Chai B., Farris R. J., Wang Q., Kulam-Syed-Mohideen A. S., McGarrell D. M., Bandela A. M., Cardenas E., Garrity G. M., Tiedje J. M. 2007; The ribosomal database project (RDP-II): introducing myRDP space and quality controlled public data. Nucleic Acids Res 35 (Database issue)D169–D172 [CrossRef]
    [Google Scholar]
  6. Felsenstein J. 1993 phylip (phylogeny inference package) version 3.5c. Distributed by the author, Department of Genome Sciences University of Washington; Seattle, USA:
    [Google Scholar]
  7. Garrity G. M., Holt J. G. 2001; Taxonomic outline of the Archaea and Bacteria . In Bergey's Manual of Systematic Bacteriology , 2nd edn. vol 1 pp 155–166 Edited by Boone D. R., Castenholz R. W. New York: Springer;
    [Google Scholar]
  8. Godon J.-J., Morinière J., Moletta M., Gaillac M., Bru V., Delgènes J.-P. 2005; Rarity associated with specific ecological niches in the bacterial world: the ‘ Synergistes ’ example. Environ Microbiol 7:213–224 [CrossRef]
    [Google Scholar]
  9. Guindon S., Gascuel O. 2003; A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696–704 [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;
    [Google Scholar]
  11. Horz H.-P., Citron D., Warren Y. A., Goldstein E. J. C., Conrads G. 2006; Synergistes group organisms of human origin. J Clin Microbiol 44:2914–2920 [CrossRef]
    [Google Scholar]
  12. Hugenholtz P., Goebel B. M., Pace N. R. 1998; Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J Bacteriol 180:4765–4774
    [Google Scholar]
  13. Hutter G., Schlagenhauf U., Valenza G., Horn M., Burgemeister S., Claus H., Vogel U. 2003; Molecular analysis of bacteria in periodontitis: evaluation of clone libraries, novel phylotypes and putative pathogens. Microbiology 149:67–75 [CrossRef]
    [Google Scholar]
  14. Jousimies-Somer H. R., Summanen P., Citron D. M., Baron E. J., Wexler H. M., Finegold S. M. 2002 Wadworth-KTL Anaerobic Bacteriology Manual, 6th edn. Belmont, CA: Star Publishing Company;
    [Google Scholar]
  15. Jumas-Bilak E., Jean-Pierre H., Carlier J.-P., Teyssier C., Bernard K., Gay B., Campos J., Morio F., Marchandin H. 2005; Dialister micraerophilus sp. nov. and Dialister propionicifaciens sp. nov., isolated from human clinical samples. Int J Syst Evol Microbiol 55:2471–2478 [CrossRef]
    [Google Scholar]
  16. Liu S.-L., Schryvers A. B., Sanderson K. E., Johnston R. N. 1999; Bacterial phylogenetic clusters revealed by genome structure. J Bacteriol 181:6747–6755
    [Google Scholar]
  17. Magot M., Ravot G., Campaignolle X., Ollivier B., Patel B. K. C., Fardeau M.-L., Thomas P., Crolet J.-L., Garcia J.-L. 1997; Dethiosulfovibrio peptidovorans gen. nov., sp. nov., a new anaerobic, slightly halophilic, thiosulfate-reducing bacterium from corroding offshore oil wells. Int J Syst Bacteriol 47:818–824 [CrossRef]
    [Google Scholar]
  18. Marchandin H., Jean-Pierre H., Carrière C., Canovas F., Darbas H., Jumas-Bilak E. 2001; Prosthetic joint infection due to Veillonella dispar . Eur J Clin Microbiol Infect Dis 20:340–342
    [Google Scholar]
  19. Marchandin H., Jumas-Bilak E., Gay B., Teyssier C., Jean-Pierre H., Siméon de Buochberg M., Carrière C., Carlier J.-P. 2003a; Phylogenetic analysis of some Sporomusa sub-branch members isolated from human clinical specimens: description of Megasphaera micronuciformis sp. nov. Int J Syst Evol Microbiol 53:547–553 [CrossRef]
    [Google Scholar]
  20. Marchandin H., Teyssier C., Siméon de Buochberg M., Jean-Pierre H., Carrière C., Jumas-Bilak E. 2003b; Intra-chromosomal heterogeneity between the four 16S rRNA gene copies in the genus Veillonella : implications for phylogeny and taxonomy. Microbiology 149:1493–1501 [CrossRef]
    [Google Scholar]
  21. Munson M. A., Pitt-Ford T., Chong B., Weightman A., Wade W. G. 2002; Molecular and cultural analysis of the microflora associated with endodontic infections. J Dent Res 81:761–766 [CrossRef]
    [Google Scholar]
  22. Munson M. A., Banerjee A., Watson T. F., Wade W. G. 2004; Molecular analysis of the microflora associated with dental caries. J Clin Microbiol 42:3023–3029 [CrossRef]
    [Google Scholar]
  23. 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 [CrossRef]
    [Google Scholar]
  24. Siqueira J. F. Jr, Rôças I. N. 2005; Uncultivated phylotypes and newly named species associated with primary and persistent endodontic infections. J Clin Microbiol 43:3314–3319 [CrossRef]
    [Google Scholar]
  25. Siqueira J. F. Jr, Rôças I. N. 2007; Molecular detection and identification of Synergistes phylotypes in primary endodontic infections. Oral Dis 13:398–401 [CrossRef]
    [Google Scholar]
  26. Surkov A. V., Dubinina G. A., Lysenko A. M., Glockner F. O., Kuever J. 2001; Dethiosulfovibrio russensis sp. nov., Dethiosulfovibrio marinus sp.nov. and Dethiosulfovibrio acidaminovorans sp. nov., novel anaerobic, thiosulfate- and sulfur-reducing bacteria isolated from ‘ Thiodendron ’ sulfur mats in different saline environments. Int J Syst Evol Microbiol 51:327–337
    [Google Scholar]
  27. Thompson J. D., Gibson T. J., Plewniak F., Jeanmougin F., Higgins D. G. 1997; The clustal_x windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876–4882 [CrossRef]
    [Google Scholar]
  28. Veys A., Callewaert W., Waelkens E., Van den Abbeele K. 1989; Application of gas-liquid chromatography to the routine identification of nonfermenting gram-negative bacteria in clinical specimens. J Clin Microbiol 27:1538–1542
    [Google Scholar]
  29. Warren Y. A., Citron D. M., Merriam C. V., Goldstein E. J. C. 2005; Biochemical differentiation and comparison of Desulfovibrio species and other phenotypically similar genera. J Clin Microbiol 43:4041–4045 [CrossRef]
    [Google Scholar]
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