1887

Abstract

A Gram-stain-negative, facultatively anaerobic, rod-shaped, motile bacterium with a subpolar or lateral flagellum, designated strain XH089, was isolated from deep-sea sediment sample collected from the South Pacific Gyre (41°51′ S 153°06′ W) during the Integrated Ocean Drilling Program (IODP) Expedition 329. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain XH089 belonged to the genus and showed the highest 16S rRNA gene sequence similarities with ATCC 15749 (96.95 %), DSM 30026 (96.70 %) and B2 (96.66 %). The DNA G+C content of strain XH089 was 66.5 mol%. The major fatty acids were C and C cyclo. The major polar lipids were phosphatidylethanolamine, phosphatidylmonomethylethanolamine, diphosphatidylglycerol, three unknown phospholipids and four unknown polar lipids. On the basis of data from the polyphasic analysis, strain XH089 is considered to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is XH089 ( = DSM 27279 = JCM 19223).

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2014-07-01
2019-10-19
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References

  1. Ausubel F. M., Brent R., Kingston R. E., Moore D. D., Seidman J. G., Smith J. A., Struhl K.. (editors) ( 1995;). Short Protocols in Molecular Biology: a Compendium of Methods from Current Protocols in Molecular Biology, , 3rd edn.. New York:: Wiley;.
    [Google Scholar]
  2. Bergey D. H., Harrison F. C., Breed R. S., Hammer B. W., Huntton F. M.. ( 1923;). Bergey’s Manual of Determinative Bacteriology. Baltimore:: The Williams & Wilkins Co;.
    [Google Scholar]
  3. Beveridge T., Lawrence J., Murray R.. ( 2007;). Sampling and staining for light microscopy. . In Methods for General and Molecular Microbiology, , 3rd edn., pp. 19–33. Edited by Reddy C. A., Beveridge T. J., Breznak J. A., Marzluf G., Schmidt T. M., Snyder L. R... Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  4. Blümel S., Mark B., Busse H. J., Kämpfer P., Stolz A.. ( 2001;). Pigmentiphaga kullae gen. nov., sp. nov., a novel member of the family Alcaligenaceae with the ability to decolorize azo dyes aerobically. . Int J Syst Evol Microbiol 51:, 1867–1871. [CrossRef][PubMed]
    [Google Scholar]
  5. Coenye T., Vancanneyt M., Cnockaert M. C., Falsen E., Swings J., Vandamme P.. ( 2003a;). Kerstersia gyiorum gen. nov., sp. nov., a novel Alcaligenes faecalis-like organism isolated from human clinical samples, and reclassification of Alcaligenes denitrificans Rüger and Tan 1983 as Achromobacter denitrificans comb. nov.. Int J Syst Evol Microbiol 53:, 1825–1831. [CrossRef][PubMed]
    [Google Scholar]
  6. Coenye T., Vancanneyt M., Falsen E., Swings J., Vandamme P.. ( 2003b;). Achromobacter insolitus sp. nov. and Achromobacter spanius sp. nov., from human clinical samples. . Int J Syst Evol Microbiol 53:, 1819–1824. [CrossRef][PubMed]
    [Google Scholar]
  7. 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]
  8. Gomila M., Tvrzová L., Teshim A., Sedlácek I., González-Escalona N., Zdráhal Z., Šedo O., González J. F., Bennasar A.. & other authors ( 2011;). Achromobacter marplatensis sp. nov., isolated from a pentachlorophenol-contaminated soil. . Int J Syst Evol Microbiol 61:, 2231–2237. [CrossRef][PubMed]
    [Google Scholar]
  9. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H.. & other authors ( 2012;). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. . Int J Syst Evol Microbiol 62:, 716–721. [CrossRef][PubMed]
    [Google Scholar]
  10. Kimura M.. ( 1980;). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16:, 111–120. [CrossRef][PubMed]
    [Google Scholar]
  11. Kiredjian M., Holmes B., Kersters K., Guilvout I., Deley J.. ( 1986;). Alcaligenes piechaudii, a new species from human clinical specimens and the environment. . Int J Syst Evol Microbiol 36:, 282–287.
    [Google Scholar]
  12. Komagata K., Suzuki K.. ( 1987;). Lipid and cell-wall analysis in bacterial systematics. . Methods Microbiol 19:, 161–207. [CrossRef]
    [Google Scholar]
  13. Mackie T., McCartney J. E.. ( 1989;). Organization of the clinical laboratory. . In Mackie and McCartney’s Practical Medical Microbiology, , 13th edn., p. 21. Edited by Collee J. G., Duguid J. P., Fraser A. G., Marmion B. P... Edinburgh:: Churchill Livingstone;.
    [Google Scholar]
  14. Mesbah M., Whitman W. B.. ( 1989;). Measurement of deoxyguanosine/thymidine ratios in complex mixtures by high-performance liquid chromatography for determination of the mole percentage guanine + cytosine of DNA. . J Chromatogr A 479:, 297–306. [CrossRef][PubMed]
    [Google Scholar]
  15. 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:, 233–241. [CrossRef]
    [Google Scholar]
  16. Montero-Calasanz M. del C., Göker M., Rohde M., Spröer C., Schumann P., Busse H.-J., Schmid M., Tindall B. J., Klenk H.-P., Camacho M.. ( 2013;). Chryseobacterium hispalense sp. nov., a plant-growth-promoting bacterium isolated from a rainwater pond in an olive plant nursery, and emended descriptions of Chryseobacterium defluvii, Chryseobacterium indologenes, Chryseobacterium wanjuense and Chryseobacterium gregarium. . Int J Syst Evol Microbiol 63:, 4386–4395. [CrossRef][PubMed]
    [Google Scholar]
  17. Moore E. R. B., Arnscheidt A., Krüger A., Strömpl C., Mau M.. ( 1999;). Simplified protocols for the preparation of genomic DNA from bacterial cultures. . In Molecular Microbial Ecology Manual, 1.6.1, pp. 1–15. Edited by Akkermans A. D. L., van Elsas J. D., de Bruijn F. J... Dordrecht:: Kluwer;.
    [Google Scholar]
  18. Packer L., Vishniac W.. ( 1955;). Chemosynthetic fixation of carbon dioxide and characteristics of hydrogenase in resting cell suspensions of Hydrogenomonas ruhlandii nov. spec.. J Bacteriol 70:, 216–223.[PubMed]
    [Google Scholar]
  19. Rüger H. J., Tan T. L.. ( 1983;). Separation of Alcaligenes denitrificans sp. nov., nom. rev. from Alcaligenes faecalis on the basis of DNA base composition, DNA homology, and nitrate reduction. . Int J Syst Evol Microbiol 33:, 85–89.
    [Google Scholar]
  20. Sasser M.. ( 1990;). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. . Newark, DE:: MIDI Inc;.
  21. Skerman V. B. D., McGowan V., Sneath P. H. A.. (editors) ( 1980;). Approved lists of bacterial names. . Int J Syst Evol Microbiol 30:, 225–420.
    [Google Scholar]
  22. 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. . 44:, 846–849.
    [Google Scholar]
  23. 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]
  24. 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][PubMed]
    [Google Scholar]
  25. Tindall B. J., Sikorski J., Smibert R. M., Krieg N. R.. ( 2007;). Phenotypic characterization and the principles of comparative systematics. . In Methods for General and Molecular Microbiology, pp. 330–393. Edited by Reddy C. A., Beveridge T. J., Breznak J. A., Marzluf G., Schmidt T. M., Snyder L. R... Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  26. Vandamme P., Moore E. R., Cnockaert M., De Brandt E., Svensson-Stadler L., Houf K., Spilker T., Lipuma J. J.. ( 2013;). Achromobacter animicus sp. nov., Achromobacter mucicolens sp. nov., Achromobacter pulmonis sp. nov. and Achromobacter spiritinus sp. nov., from human clinical samples. . Syst Appl Microbiol 36:, 1–10. [CrossRef][PubMed]
    [Google Scholar]
  27. Yabuuchi E., Yano I.. ( 1981;). Achromobacter gen. nov. and Achromobacter xylosoxidans (ex Yabuuchi and Ohyama 1971) nom. rev.. Int J Syst Evol Microbiol 31:, 477–478.
    [Google Scholar]
  28. Yabuuchi E., Kawamura Y., Kosako Y., Ezaki T.. ( 1998;). Emendation of genus Achromobacter and Achromobacter xylosoxidans (Yabuuchi and Yano) and proposal of Achromobacter ruhlandii (Packer and Vishniac) comb. nov., Achromobacter piechaudii (Kiredjian et al.) comb. nov., and Achromobacter xylosoxidans subsp. denitrificans (Rüger and Tan) comb. nov.. Microbiol Immunol 42:, 429–438. [CrossRef][PubMed]
    [Google Scholar]
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