1887

Abstract

An aerobic, Gram-stain-negative, agarolytic rod-shaped bacterium, designated KMM 9504, was isolated from a sediment sample collected from the seashore of the Sea of Japan. Comparative 16S rRNA gene sequence analysis showed that strain KMM 9504 belonged to the genus as it was most closely related to KCTC 23293 (97.3 % sequence similarity). Strain KMM 9504 was characterized by the major ubiquinone Q-8, and by the predominance of Cω7, Cω8, followed by C, C, C and C in its fatty acid profile. Polar lipids consisted of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, an unknown aminophospholipid, an unknown aminolipid, unknown phospholipids, and unknown lipids. Based on the distinctive phenotypic characteristics, phylogenetic analysis and DNA–DNA hybridization results, it is concluded that strain KMM 9504 represents a novel species of the genus , for which the name Simiduia sp. nov. is proposed. The type strain of the species is strain KMM 9504 ( = NRIC 0917 = JCM 19759).

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2014-08-01
2019-10-21
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References

  1. Collins M. D., Shah H. N.. ( 1984;). Fatty acid, menaquinone and polar lipid composition of Rothia dentosacariosa. . Arch Microbiol 137:, 247–249. [CrossRef]
    [Google Scholar]
  2. De Ley J., Cattoir H., Reynaerts A.. ( 1970;). The quantitative measurement of DNA hybridization from renaturation rates. . Eur J Biochem 12:, 133–142. [CrossRef][PubMed]
    [Google Scholar]
  3. Folch J., Lees M., Sloane Stanley G. H.. ( 1957;). A simple method for the isolation and purification of total lipids from animal tissues. . J Biol Chem 226:, 497–509.[PubMed]
    [Google Scholar]
  4. 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]
  5. Kim B. C., Poo H., Lee K. H., Kim M. N., Park D. S., Oh H. W., Lee J. M., Shin K. S.. ( 2012;). Simiduia areninigrae sp. nov., an agarolytic bacterium isolated from sea sand. . Int J Syst Evol Microbiol 62:, 906–911. [CrossRef][PubMed]
    [Google Scholar]
  6. Marmur J., Doty P.. ( 1962;). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. . J Mol Biol 5:, 109–118. [CrossRef][PubMed]
    [Google Scholar]
  7. Mitchell K., Fallon R. J.. ( 1990;). The determination of ubiquinone profiles by reversed-phase high-performance thin-layer chromatography as an aid to the speciation of Legionellaceae. . J Gen Microbiol 136:, 2035–2041. [CrossRef]
    [Google Scholar]
  8. Owen R. J., Hill L. R., Lapage S. P.. ( 1969;). Determination of DNA base compositions from melting profiles in dilute buffers. . Biopolymers 7:, 503–516. [CrossRef][PubMed]
    [Google Scholar]
  9. Pearson W. R., Lipman D. J.. ( 1988;). Improved tools for biological sequence comparison. . Proc Natl Acad Sci U S A 85:, 2444–2448. [CrossRef][PubMed]
    [Google Scholar]
  10. Romanenko L. A., Schumann P., Rohde M., Mikhailov V. V., Stackebrandt E.. ( 2004;). Reinekea marinisedimentorum gen. nov., sp. nov., a novel gammaproteobacterium from marine coastal sediments. . Int J Syst Evol Microbiol 54:, 669–673. [CrossRef][PubMed]
    [Google Scholar]
  11. Romanenko L. A., Tanaka N., Svetashev V. I., Kurilenko V. V., Mikhailov V. V.. ( 2013a;). Luteimonas vadosa sp. nov., isolated from seashore sediment. . Int J Syst Evol Microbiol 63:, 1261–1266. [CrossRef][PubMed]
    [Google Scholar]
  12. Romanenko L. A., Tanaka N., Svetashev V. I.. ( 2013b;). Devosia submarina sp. nov., isolated from deep-sea surface sediments. . Int J Syst Evol Microbiol 63:, 3079–3085. [CrossRef][PubMed]
    [Google Scholar]
  13. Sasser M.. ( 1990;). Microbial identification by gas chromatographic analysis of fatty acid methyl esters (GC-FAME). Technical Note 101. Newark, DE:: MIDI;.
    [Google Scholar]
  14. Shida O., Takagi H., Kadowaki K., Nakamura L. K., Komagata K.. ( 1997;). Transfer of Bacillus alginolyticus, Bacillus chondroitinus, Bacillus curdlanolyticus, Bacillus glucanolyticus, Bacillus kobensis, and Bacillus thiaminolyticus to the genus Paenibacillus and emended description of the genus Paenibacillus. . Int J Syst Bacteriol 47:, 289–298. [CrossRef][PubMed]
    [Google Scholar]
  15. Shieh W. Y., Liu T. Y., Lin S. Y., Jean W. D., Chen J. S.. ( 2008;). Simiduia agarivorans gen. nov., sp. nov., a marine, agarolytic bacterium isolated from shallow coastal water from Keelung, Taiwan. . Int J Syst Evol Microbiol 58:, 895–900. [CrossRef][PubMed]
    [Google Scholar]
  16. Smibert R. M., Krieg N. R.. ( 1994;). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607–655. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R... Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  17. 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]
  18. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S.. ( 2011;). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. . Mol Biol Evol 28:, 2731–2739. [CrossRef][PubMed]
    [Google Scholar]
  19. Thompson J. D., Gibson T. J., Higgins D. G.. ( 2002;). Multiple sequence alignment using clustalW and clustalX. . In Current Protocols in Bioinformatics, 2.3.1–2.3.22. Edited by Baxevanis A. D., Stein L. D. Stein, Stormo G. D., Yates III J. R... Hoboken, NJ:: Wiley;. [CrossRef]
    [Google Scholar]
  20. 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;). Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. . Int J Syst Bacteriol 37:, 463–464. [CrossRef]
    [Google Scholar]
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