1887

Abstract

Eight strains, 002-165, 002-079, B0021, Hojyo2, RB603B, RB677, 002-074 and RB678, isolated from the environment of food-processing factories in Japan, were characterized using a polyphasic approach. The isolates were Gram-negative, strictly aerobic, pink-pigmented, facultatively methylotrophic, non-spore-forming rods. The chemotaxonomic characteristics of these isolates included the presence of C 7 as the major cellular fatty acid and ubiquinone Q-10 as the predominant ubiquinone. The DNA G+C content was 67.1–71.1 mol%. Phylogenetic analyses of 16S rRNA and DNA gyrase B subunit () nucleotide sequence confirmed that the eight strains belonged to the clade. Moreover, a DNA–DNA hybridization analysis showed that the eight isolates represented five novel species. On the basis of their phenotypic and phylogenetic distinctiveness, the isolates represent five novel species within the genus , for which the names sp. nov. (type strain 002-165 =DSM 19562 =NBRC 103628 =NCIMB 14378), sp. nov. (type strain 002-079 =DSM 19563 =NBRC 103627 =NCIMB 14377), sp. nov. (type strain B0021 =DSM 19569 =NBRC 103629 =NCIMB 14379), sp. nov. (type strain RB677 =DSM 19566 =NBRC 103632 =NCIMB 14380) and sp. nov. (type strain 002-074 =DSM 19564 =NBRC 103626 =NCIMB 14376) are proposed.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.65583-0
2008-05-01
2020-01-23
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/58/5/1134.html?itemId=/content/journal/ijsem/10.1099/ijs.0.65583-0&mimeType=html&fmt=ahah

References

  1. Bousfield, I. J. & Green, P. N. ( 1985; ). Reclassification of bacteria of genus Protomonas Urakami and Komagata 1984 in the genus Methylobacterium (Patt, Cole, and Hanson) emend. Green and Bousfield 1983. Int J Syst Bacteriol 35, 209 [CrossRef]
    [Google Scholar]
  2. Doronina, N. V., Trostenko, Y. A., Tourova, T. P., Kuznetzov, B. B. & Leisinger, T. ( 2000; ). Methylophlia helvetica sp. nov. and Methylobacterium dichloromethanicum sp. nov. – novel aerobic facultatively methylotrophic bacteria utilizing dichloromethane. Syst Appl Microbiol 23, 210–218.[CrossRef]
    [Google Scholar]
  3. Doronina, N. V., Trotsenko, Y. A., Kuznetsov, B. B., Tourova, T. P. & Salkinoja-Salonen, M. S. ( 2002; ). Methylobacterium suomiense sp. nov. and Methylobacterium lusitanum sp. nov., aerobic, pink-pigmented, facultatively methylotrophic bacteria. Int J Syst Evol Microbiol 52, 773–777.[CrossRef]
    [Google Scholar]
  4. Felsenstein, J. ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef]
    [Google Scholar]
  5. Fitch, W. M. ( 1971; ). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20, 406–416.[CrossRef]
    [Google Scholar]
  6. Gallego, V., García, M. T. & Ventosa, A. ( 2005a; ). Methylobacterium hispanicum sp. nov. and Methylobacterium aquaticum sp. nov., isolated from drinking water. Int J Syst Evol Microbiol 55, 281–287.[CrossRef]
    [Google Scholar]
  7. Gallego, V., García, M. T. & Ventosa, A. ( 2005b; ). Methylobacterium variabile sp. nov., a methylotrophic bacterium isolated from an aquatic environment. Int J Syst Evol Microbiol 55, 1429–1433.[CrossRef]
    [Google Scholar]
  8. Gallego, V., García, M. T. & Ventosa, A. ( 2005c; ). Methylobacterium isbiliense sp. nov., isolated from the drinking water system of Sevilla, Spain. Int J Syst Evol Microbiol 55, 2333–2337.[CrossRef]
    [Google Scholar]
  9. Gallego, V., García, M. T. & Ventosa, A. ( 2006; ). Methylobacterium adhaesivum sp. nov., a methylotrophic bacterium isolated from drinking water. Int J Syst Evol Microbiol 56, 339–342.[CrossRef]
    [Google Scholar]
  10. Goto, K., Omura, T., Hara, Y. & Sadaie, Y. ( 2000; ). Application of the partial 16S rDNA sequence as an index for rapid identification of species in the genus Bacillus. J Gen Appl Microbiol 46, 1–8.[CrossRef]
    [Google Scholar]
  11. Gräf, W. & Bauer, L. ( 1973; ). Roter Bakterienaufwuchs (Corynebacterium rubrum n. spec.) in Leitungswassersystemen. Zentralbl Bakteriol [Orig B] 157, 291–303 (in German).
    [Google Scholar]
  12. Green, P. ( 1992; ). The genus Methylobacterium. In The Prokaryotes, 2nd edn, pp. 2342–2349. Edited by A. Balows, H. G. Trüper, M. Dworkin, W. Harder & K. H. Schleifer. New York: Springer-Verlag.
  13. Green, P. N., Bousfield, I. J. & Hood, D. ( 1988; ). Three new Methylobacterium species: M. rhodesianum sp. nov., M. zatmanii sp. nov., and M. fujisawaense sp. nov. Int J Syst Bacteriol 38, 124–127.[CrossRef]
    [Google Scholar]
  14. Hall, T. A. ( 1999; ). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41, 95–98.
    [Google Scholar]
  15. Ito, H. & Iizuka, H. ( 1971; ). Taxonomic studies on a radio-resistant Pseudomonas. Part XII. Studies on the microorganisms of cereal grain. Agric Biol Chem 35, 1566–1571.[CrossRef]
    [Google Scholar]
  16. Kasai, H., Tamura, T. & Harayama, S. ( 2000; ). Intrageneric relationship among Micromonospora species deduced from gyrB-based phylogeny and DNA relatedness. Int J Syst Evol Microbiol 50, 127–134.[CrossRef]
    [Google Scholar]
  17. Kato, Y., Asahara, M., Arai, D., Goto, K. & Yokota, A. ( 2005; ). Reclassification of Methylobacterium chloromethanicum and Methylobacterium dichloromethanicum as later subjective synonyms of Methylobacterium extorquens and of Methylobacterium lusitanum as a later subjective synonym of Methylobacterium rhodesianum. J Gen Appl Microbiol 51, 287–299.[CrossRef]
    [Google Scholar]
  18. Kato, Y., Asahara, M., Arai, D., Goto, K. & Yokota, A. ( 2006; ). Methylobacterium chloromethanicum pro synon. Methylobacterium extorquens; Methylobacterium dichloromethanicum pro synon. Methylobacterium extorquens; Methylobacterium lusitanum pro synon. Methylobacterium rhodesianum. In Notification of Changes in Taxonomic Opinion Previously Published Outside the IJSEM, List of Changes in Taxonomic Opinion no. 4. Int J Syst Evol Microbiol 56, 1463 [CrossRef]
    [Google Scholar]
  19. Kimura, M. ( 1980; ). A simple method for estimating evolutionary rates of base substitution through comparative studies of nucleotide sequences. J Mol Evol 16, 111–120.[CrossRef]
    [Google Scholar]
  20. Kumar, S., Tamura, K. & Nei, M. ( 2004; ). mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150–163.[CrossRef]
    [Google Scholar]
  21. Patt, T. E., Cole, G. C. & Hanson, R. S. ( 1976; ). Methylobacterium, a new genus of facultatively methylotrophic bacteria. Int J Syst Bacteriol 26, 226–229.[CrossRef]
    [Google Scholar]
  22. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  23. Sano, H., Sakai, M. & Nichijima, M. ( 1996; ). Application of MS to the search for products from marine bacteria. J Mass Spectrom Soc Jpn 44, 377–391 (in Japanese).[CrossRef]
    [Google Scholar]
  24. Satomi, M., Kimura, B., Hamada, T., Harayama, S. & Fujii, T. ( 2002; ). Phylogenetic study of the genus Oceanospirillum based on 16S rRNA and gyrB genes: emended description of the genus Oceanospirillum, description of Pseudospirillum gen. nov., Oceanobacter gen. nov. and Terasakiella gen. nov. and transfer of Oceanospirillum jannaschii and Pseudomonas stanieri to Marinobacterium as Marinobacterium jannaschii comb. nov. and Marinobacterium stanieri comb. nov. Int J Syst Evol Microbiol 52, 739–747.[CrossRef]
    [Google Scholar]
  25. 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]
  26. Thompson, J. D., Higgins, D. G. & Gibson, T. J. ( 1994; ). clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucleic Acids Res 22, 4673–4680.[CrossRef]
    [Google Scholar]
  27. Urakami, T. & Komagata, K. ( 1984; ). Protomonas, a new genus of facultatively methylotrophic bacteria. Int J Syst Bacteriol 34, 188–201.[CrossRef]
    [Google Scholar]
  28. Venkateswaran, K., Moser, D. P., Dollhopf, M. E., Lies, D. P., Saffarini, D. A., MacGregor, B. J., Ringelberg, D. B., White, D. C., Nishijima, M. & other authors ( 1999; ). Polyphasic taxonomy of the genus Shewanella and description of Shewanella oneidensis sp. nov. Int J Syst Bacteriol 49, 705–724.[CrossRef]
    [Google Scholar]
  29. Yamamoto, S. & Harayama, S. ( 1995; ). PCR amplification and direct sequencing of gyrB genes with universal primers and their application to the detection and taxonomic analysis of Pseudomonas putida strains. Appl Environ Microbiol 61, 1104–1109.
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.65583-0
Loading
/content/journal/ijsem/10.1099/ijs.0.65583-0
Loading

Data & Media loading...

Supplements

vol. , part 5, pp. 1134 - 1141

Comparison of 16S rRNA and gene sequences of the novel strains with strains of neighbouring species. [PDF](15 KB)



PDF

Most cited articles

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