1887

Abstract

The taxonomic properties of strain DC2c-G4, a Gram-staining-negative, ovoid, gellan-gum-degrading bacterial isolate, were examined. Phylogenetic analysis based on 16S rRNA gene sequences identified this isolate as a member of the phylum and closest to the genus . The 16S rRNA gene sequence similarities between this isolate and any of the type strains of species of the genus were less than 95 %. In addition, the absence of a single prostheca and the predominant menaquinone MK-7(H) supported the differentiation of this isolate from the genus . Here, we propose gen. nov., sp. nov. to accommodate the isolate. The type strain of the type species is DC2c-G4 ( = NBRC 108608 = CIP 110457).

Funding
This study was supported by the:
  • Institute for Fermentation, Osaka (IFO)
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2013-08-01
2024-03-29
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References

  1. Bergmann G. T., Bates S. T., Eilers K. G., Lauber C. L., Caporaso J. G., Walters W. A., Knight R., Fierer N. ( 2011 ). The under-recognized dominance of Verrucomicrobia in soil bacterial communities. . Soil Biol Biochem 43, 14501455. [View Article] [PubMed]
    [Google Scholar]
  2. Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. (editors) ( 1994 ). Methods for General and Molecular Bacteriology. Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  3. Hedlund B. P. ( 2010 ). Phylum XXIII. Verrucomicrobia phyl. nov. . In Bergey's Manual of Systematic Bacteriology, , 2nd edn., vol. 4, pp. 795841. Edited by Krieg N. R., Staley J. T., Brown D. R., Hedlund B. P., Paster B. J. . New York:: Springer;.
    [Google Scholar]
  4. Hedlund B. P., Gosink J. J., Staley J. T. ( 1997 ). Verrucomicrobia div. nov., a new division of the bacteria containing three new species of Prosthecobacter . . Antonie van Leeuwenhoek 72, 2938. [View Article] [PubMed]
    [Google Scholar]
  5. Huang X., Miller W. ( 1991 ). A time-efficient, linear-space local similarity algorithm. . Adv Appl Math 12, 337357. [View Article]
    [Google Scholar]
  6. Janssen P. H., Yates P. S., Grinton B. E., Taylor P. M., Sait M. ( 2002 ). Improved culturability of soil bacteria and isolation in pure culture of novel members of the divisions Acidobacteria, Actinobacteria, Proteobacteria, and Verrucomicrobia . . Appl Environ Microbiol 68, 23912396. [View Article] [PubMed]
    [Google Scholar]
  7. Katsuta A., Adachi K., Matsuda S., Shizuri Y., Kasai H. ( 2005 ). Ferrimonas marina sp. nov.. Int J Syst Evol Microbiol 55, 18511855. [View Article] [PubMed]
    [Google Scholar]
  8. Kielak A., Rodrigues J. L. M., Kuramae E. E., Chain P. S. G., van Veen J. A., Kowalchuk G. A. ( 2010 ). Phylogenetic and metagenomic analysis of Verrucomicrobia in former agricultural grassland soil. . FEMS Microbiol Ecol 71, 2333. [View Article] [PubMed]
    [Google Scholar]
  9. Kumar S., Nei M., Dudley J., Tamura K. ( 2008 ). mega: a biologist-centric software for evolutionary analysis of DNA and protein sequences. . Brief Bioinform 9, 299306. [View Article] [PubMed]
    [Google Scholar]
  10. Lane D. J. ( 1991 ). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115147. Edited by Stackebrandt E., Goodfellow M. . New York:: John Wiley & Sons;.
    [Google Scholar]
  11. Martinez-Romero E., Caballero-Mellado J. ( 1996 ). Rhizobium phylogenies and bacterial genetic diversity. . Crit Rev Plant Sci 15, 113140. [CrossRef]
    [Google Scholar]
  12. Mesbah M., Premachandran U., Whitman W. B. ( 1989 ). Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. . Int J Syst Bacteriol 39, 159167. [View Article]
    [Google Scholar]
  13. Otsuka S., Sudiana I.-M., Komori A., Isobe K., Deguchi S., Nishiyama M., Shimizu H., Senoo K. ( 2008 ). Community structure of soil bacteria in a tropical rainforest several years after fire. . Microbes Environ 23, 4956. [View Article] [PubMed]
    [Google Scholar]
  14. Otsuka S., Ueda H., Suenaga T., Uchino Y., Hamada M., Yokota A., Senoo K. ( 2013 ). Roseimicrobium gellanilyticum gen. nov., sp. nov., a new member of the class Verrucomicrobiae . . Int J Syst Evol Microbiol 63, 19821986. [View Article] [PubMed]
    [Google Scholar]
  15. Pruesse E., Quast C., Knittel K., Fuchs B. M., Ludwig W., Peplies J., Glöckner F. O. ( 2007 ). silva: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with arb . . Nucleic Acids Res 35, 71887196. [View Article] [PubMed]
    [Google Scholar]
  16. Sangwan P., Kovac S., Davis K. E. R., Sait M., Janssen P. H. ( 2005 ). Detection and cultivation of soil verrucomicrobia. . Appl Environ Microbiol 71, 84028410. [View Article] [PubMed]
    [Google Scholar]
  17. Seviour E. M., Williams C., DeGrey B., Soddell J. A., Seviour K. C., Lindrea K. C. ( 1994 ). Studies on filamentous bacteria from Australian activated sludge plants. . Water Res 28, 23352342. [View Article]
    [Google Scholar]
  18. 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, 846849. [View Article]
    [Google Scholar]
  19. Staley J. T., Mandel M. ( 1973 ). Deoxyribonucleic acid base composition of Prosthecomicrobium and Ancalomicrobium strains. . Int J Syst Bacteriol 23, 271273. [View Article]
    [Google Scholar]
  20. Takeda M., Yoneya A., Miyazaki Y., Kondo K., Makita H., Kondoh M., Suzuki I., Koizumi J. ( 2008 ). Prosthecobacter fluviatilis sp. nov., which lacks the bacterial tubulin btubA and btubB genes. . Int J Syst Evol Microbiol 58, 15611565. [View Article] [PubMed]
    [Google Scholar]
  21. Ueda H., Otsuka S., Senoo K. ( 2010 ). Bacterial communities constructed in artificial consortia of bacteria and Chlorella vulgaris . . Microbes Environ 25, 3640. [View Article] [PubMed]
    [Google Scholar]
  22. Vu H. T., Otsuka S., Ueda H., Senoo K. ( 2010 ). Cocultivated bacteria can increase or decrease the culture lifetime of Chlorella vulgaris . . J Gen Appl Microbiol 56, 413418. [View Article] [PubMed]
    [Google Scholar]
  23. Yoon J., Yasumoto-Hirose M., Matsuo Y., Nozawa M., Matsuda S., Kasai H., Yokota A. ( 2007a ). Pelagicoccus mobilis gen. nov., sp. nov., Pelagicoccus albus sp. nov. and Pelagicoccus litoralis sp. nov., three novel members of subdivision 4 within the phylum ‘Verrucomicrobia’, isolated from seawater by in situ cultivation. . Int J Syst Evol Microbiol 57, 13771385. [View Article] [PubMed]
    [Google Scholar]
  24. Yoon J., Matsuo Y., Matsuda S., Adachi K., Kasai H., Yokota A. ( 2007b ). Rubritalea spongiae sp. nov. and Rubritalea tangerina sp. nov., two carotenoid- and squalene-producing marine bacteria of the family Verrucomicrobiaceae within the phylum ‘Verrucomicrobia’, isolated from marine animals. . Int J Syst Evol Microbiol 57, 23372343. [View Article] [PubMed]
    [Google Scholar]
  25. Yoon J., Matsuo Y., Adachi K., Nozawa M., Matsuda S., Kasai H., Yokota A. ( 2008 ). Description of Persicirhabdus sediminis gen. nov., sp. nov., Roseibacillus ishigakijimensis gen. nov., sp. nov., Roseibacillus ponti sp. nov., Roseibacillus persicicus sp. nov., Luteolibacter pohnpeiensis gen. nov., sp. nov. and Luteolibacter algae sp. nov., six marine members of the phylum ‘Verrucomicrobia’, and emended descriptions of the class Verrucomicrobiae, the order Verrucomicrobiales and the family Verrucomicrobiaceae . . Int J Syst Evol Microbiol 58, 9981007. [View Article] [PubMed]
    [Google Scholar]
  26. Yoon J., Matsuo Y., Matsuda S., Kasai H., Yokota A. ( 2010 ). Cerasicoccus maritimus sp. nov. and Cerasicoccus frondis sp. nov., two peptidoglycan-less marine verrucomicrobial species, and description of Verrucomicrobia phyl. nov., nom. rev.. J Gen Appl Microbiol 56, 213222. [View Article] [PubMed]
    [Google Scholar]
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