1887

Abstract

Strain 43P was isolated as an -glucose-utilizing bacterium from soil in Japan. Cells of the strain were Gram-stain-negative, aerobic and non-motile cocci. The 16S rRNA gene sequence of the strain showed high similarity to that of (98.5 %). Phylogenetic analyses based on 16S rRNA gene sequences revealed that this strain belongs to the genus Strain 43P contained Q-10 as the sole isoprenoid quinone. The major cellular fatty acids were C ω7 or C ω6 and C , and C , C ω9, C 3-OH and summed feature 2 were detected as minor components. The DNA G+C content of strain 43P was 64.1 mol%. Strain 43P contained the major polar lipids phosphatidylcholine, phosphatidylglycerol, diphosphatidylglycerol, an unknown aminolipid and two unknown glycolipids. The DNA–DNA relatedness between strain 43P and the six related type strains of the genus , including , was below 23 %. Based on the chemotaxonomic and physiological data and the values of DNA–DNA relatedness, especially the ability to assimilate -glucose, this strain should be classified as a representative of a novel species of the genus , for which the name sp. nov. (type strain 43P = JCM 30587 = DSM 100094) is proposed.

Funding
This study was supported by the:
  • JSPS KAKENHI (Award 24658069)
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2015-11-01
2024-04-19
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References

  1. Bligh E. G., Dyer W. J. ( 1959;). A rapid method of total lipid extraction and purification. Can J Biochem Physiol 37 911917 [View Article] [PubMed].
    [Google Scholar]
  2. Davis D. H., Doudoroff M., Stanier R. Y., Mandel M. ( 1969;). Proposal to reject the genus Hydrogenomonas: taxonomic implications. Int J Syst Bacteriol 19 375390 [View Article].
    [Google Scholar]
  3. Ezaki T., Hashimoto Y., Yabuuchi E. ( 1989;). Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 39 224229 [View Article].
    [Google Scholar]
  4. Felsenstein J. ( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17 368376 [View Article] [PubMed].
    [Google Scholar]
  5. Felsenstein J. ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39 783791 [View Article].
    [Google Scholar]
  6. Hatayama K., Shoun H., Ueda Y., Nakamura A. ( 2005;). Planifilum fimeticola gen. nov., sp. nov. and Planifilum fulgidum sp. nov., novel members of the family ‘Thermoactinomycetaceae’ isolated from compost. Int J Syst Evol Microbiol 55 21012104 [View Article] [PubMed].
    [Google Scholar]
  7. Jung Y.-T., Park S., Lee J.-S., Yoon J.-H. ( 2014;). Paracoccus lutimaris sp. nov., isolated from a tidal flat sediment. Int J Syst Evol Microbiol 64 27632769 [View Article] [PubMed].
    [Google Scholar]
  8. Katayama Y., Hiraishi A., Kuraishi H. ( 1995;). Paracoccus thiocyanatus sp. nov., a new species of thiocyanate-utilizing facultative chemolithotroph, and transfer of Thiobacillus versutus to the genus Paracoccus as Paracoccus versutus comb. nov. with emendation of the genus. Microbiology 141 14691477 [View Article] [PubMed].
    [Google Scholar]
  9. Kimura M. ( 1980;). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16 111120 [View Article] [PubMed].
    [Google Scholar]
  10. Lee M.-J., Lee S.-S. ( 2013;). Paracoccus limosus sp. nov., isolated from activated sludge in a sewage treatment plant. Int J Syst Evol Microbiol 63 13111316 [View Article] [PubMed].
    [Google Scholar]
  11. Liu Z.-P., Wang B.-J., Liu X.-Y., Dai X., Liu Y.-H., Liu S.-J. ( 2008;). Paracoccus halophilus sp. nov., isolated from marine sediment of the South China Sea, China, and emended description of genus Paracoccus Davis 1969. Int J Syst Evol Microbiol 58 257261 [View Article] [PubMed].
    [Google Scholar]
  12. Ludwig W., Mittenhuber G., Friedrich C. G. ( 1993;). Transfer of Thiosphaera pantotropha to Paracoccus denitrificans . Int J Syst Bacteriol 43 363367 [View Article] [PubMed].
    [Google Scholar]
  13. McGuinnis J. M., Cole J. A., Dickinson M. C., Mingle L. A., Lapierre P., Musser K. A., Wolfgang W. J. ( 2015;). Paracoccus sanguinis sp. nov., isolated from clinical specimens of New York State patients. Int J Syst Evol Microbiol 65 18771882 [View Article].
    [Google Scholar]
  14. Minnikin D. E., O'Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal A., Parlett J. H. ( 1984;). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2 233241 [View Article].
    [Google Scholar]
  15. Nei M., Kumar S. ( 2000). Molecular Evolution and Phylogenetics New York: Oxford University Press;.
    [Google Scholar]
  16. Nguyen N.-L., Kim Y.-J., Hoang V.-A., Tran B.-T., Pham H.-S., Yang D.-C. ( 2015;). Paracoccus panacisoli sp. nov., isolated from a forest soil cultivated with Vietnamese ginseng. Int J Syst Evol Microbiol 65 14911497 [View Article] [PubMed].
    [Google Scholar]
  17. Pan J., Sun C., Zhang X.-Q., Huo Y.-Y., Zhu X.-F., Wu M. ( 2014;). Paracoccus sediminis sp. nov., isolated from Pacific Ocean marine sediment. Int J Syst Evol Microbiol 64 25122516 [View Article] [PubMed].
    [Google Scholar]
  18. Poroshina M. N., Doronina N. V., Kaparullina E. N., Kovalevskaia N. P., Trotsenko IuA. ( 2013;). [Halophilic and halotolerant aerobic methylobacteria from technogenic Solikamsk soils]. Mikrobiologiia 82 473482 (in Russian) [PubMed].
    [Google Scholar]
  19. Saitou N., Nei M. ( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4 406425 [PubMed].
    [Google Scholar]
  20. Shimizu T., Takaya N., Nakamura A. ( 2012;). An l-glucose catabolic pathway in Paracoccus species 43P. J Biol Chem 287 4044840456 [View Article] [PubMed].
    [Google Scholar]
  21. Stanier R. Y., Palleroni N. J., Doudoroff M. ( 1966;). The aerobic pseudomonads: a taxonomic study. J Gen Microbiol 43 159271 [View Article] [PubMed].
    [Google Scholar]
  22. Sun L.-N., Zhang J., Kwon S.-W., He J., Zhou S.-G., Li S.-P. ( 2013;). Paracoccus huijuniae sp. nov., an amide pesticide-degrading bacterium isolated from activated sludge of a wastewater biotreatment system. Int J Syst Evol Microbiol 63 11321137 [View Article] [PubMed].
    [Google Scholar]
  23. Sun X., Luo P., Li M. ( 2015). [View Article] [Epub ahead of print] Paracoccus angustae sp. nov., isolated from soil. Int J Syst Evol Microbiol [Epub ahead of print]
    [Google Scholar]
  24. Tamaoka J., Katayama-Fujimura Y., Kuraishi H. ( 1983;). Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. J Appl Bacteriol 54 3136 [View Article].
    [Google Scholar]
  25. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. ( 2013;). mega6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30 27252729 [View Article] [PubMed].
    [Google Scholar]
  26. 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 48764882 [View Article] [PubMed].
    [Google Scholar]
  27. Urakami T., Araki H., Oyanagi H., Suzuki K., Komagata K. ( 1990;). Paracoccus aminophilus sp. nov. and Paracoccus aminovorans sp. nov., which utilize N,N-dimethylformamide. Int J Syst Bacteriol 40 287291 [View Article] [PubMed].
    [Google Scholar]
  28. van Spanning R. J. M., Stouthamer A. H., Baker S. C., van Verseveld H. W. ( 2005;). Genus Paracoccus Davis 1969, 384AL emend. Ludwig, Mittenhuber and Friedrich 1993, 366. . In Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 2, pp. 197204. Edited by Brenner D. J., Krieg N. R., Staley J. T., Garrity G. M. New York: Springer; [View Article].
    [Google Scholar]
  29. Wayne L. G., Brenner D. J., Colwell R. R., Grimont P. A. D., Kandler O., Krichevsky M. I., Moore L. H., Moore W. E. C., Murray R. G. E., other authors. ( 1987;). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37 463464 [View Article].
    [Google Scholar]
  30. Zhu S., Zhao Q., Zhang G., Jiang Z., Sheng H., Feng H., An L. ( 2013;). Paracoccus tibetensis sp. nov., isolated from Qinghai-Tibet Plateau permafrost. Int J Syst Evol Microbiol 63 19021905 [View Article] [PubMed].
    [Google Scholar]
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