1887

Abstract

Strain IK-1 was isolated from decaying tissues of the shrub collected on O‘ahu, Hawai‘i. Cells were rods that stained Gram-negative. Gliding motility was not observed. The strain was oxidase-negative and catalase-positive. Zeaxanthin was the major carotenoid. Flexirubin-type pigments were not detected. The most abundant fatty acids in whole cells of IK-1 grown on R2A were iso-C and one or both of Cω7 and Cω6. Based on comparisons of the nucleotide sequence of the 16S rRNA gene, the closest neighbouring type strains were WB 3.3-2 and WB 4.1-42, with which IK-1 shares 93.84 and 93.67 % identity, respectively. The G+C content of the genomic DNA was 44.2 mol%. On the basis of distance from its nearest phylogenetic neighbours and phenotypic differences, the species sp. nov. is proposed to accommodate strain IK-1 ( = ATCC BAA-2412 = CIP 110358) as the type strain. The description of the genus is emended to reflect the DNA G+C contents of IK-1 and other species of the genus described since the original description of the genus.

Funding
This study was supported by the:
  • National Science Foundation EPSCoR EPS award (Award 0919607)
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2013-09-01
2024-03-29
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References

  1. Ali Z., Cousin S., Frühling A., Brambilla E., Schumann P., Yang Y., Stackebrandt E. ( 2009 ). Flavobacterium rivuli sp. nov., Flavobacterium subsaxonicum sp. nov., Flavobacterium swingsii sp. nov. and Flavobacterium reichenbachii sp. nov., isolated from a hard water rivulet. . Int J Syst Evol Microbiol 59, 26102617. [View Article] [PubMed]
    [Google Scholar]
  2. Altschul S. F., Madden T. L., Schäffer A. A., Zhang J., Zhang Z., Miller W., Lipman D. J. ( 1997 ). Gapped blast and psi-blast: a new generation of protein database search programs. . Nucleic Acids Res 25, 33893402. [View Article] [PubMed]
    [Google Scholar]
  3. Bernardet J.-F., Segers P., Vancanneyt M., Berthe F., Kersters K., Vandamme P. ( 1996 ). Cutting a Gordian knot: emended classification and description of the genus Flavobacterium, emended description of the family Flavobacteriaceae, and proposal of Flavobacterium hydatis nom. nov. (basonym, Cytophaga aquatilis Strohl and Tait 1978). . Int J Syst Bacteriol 46, 128148. [View Article]
    [Google Scholar]
  4. Bernardet J.-F., Nakagawa Y., Holmes B. Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes ( 2002 ). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. . Int J Syst Evol Microbiol 52, 10491070. [View Article] [PubMed]
    [Google Scholar]
  5. Bidigare R. R., Van Heukelem L., Trees C. C. ( 2005 ). Analysis of algal pigments by high-performance liquid chromatography. . In Algal Culturing Techniques, pp. 327345. Edited by Andersen R. A. . Burlington, MA:: Academic Press;. [View Article]
    [Google Scholar]
  6. Castresana J. ( 2000 ). Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. . Mol Biol Evol 17, 540552. [View Article] [PubMed]
    [Google Scholar]
  7. Donachie S. P., Christenson B. W., Kunkel D. D., Malahoff A., Alam M. ( 2002 ). Microbial community in acidic hydrothermal waters of volcanically active White Island, New Zealand. . Extremophiles 6, 419425. [View Article] [PubMed]
    [Google Scholar]
  8. Donachie S. P., Bowman J. P., Alam M. ( 2004 ). Psychroflexus tropicus sp. nov., an obligately halophilic CytophagaFlavobacteriumBacteroides group bacterium from an Hawaiian hypersaline lake. . Int J Syst Evol Microbiol 54, 935940. [View Article] [PubMed]
    [Google Scholar]
  9. Edgar R. C. ( 2004 ). muscle: multiple sequence alignment with high accuracy and high throughput. . Nucleic Acids Res 32, 17921797. [View Article] [PubMed]
    [Google Scholar]
  10. Gerhardt P., Murray R. G. E., Costilow R. N., Nester E. W., Wood W. A., Krieg N. R., Phillips G. B. (editors) ( 1981 ). Manual of Methods for General Bacteriology. Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  11. Lane D. J. ( 1991 ). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115175. Edited by Stackebrandt E., Goodfellow M. . Chichester:: Wiley;.
    [Google Scholar]
  12. Lee S., Weon H. Y., Kim S. J., Ahn T. Y. ( 2011 ). Flavobacterium koreense sp. nov., Flavobacterium chungnamense sp. nov., and Flavobacterium cheonanense sp. nov., isolated from a freshwater reservoir. . J Microbiol 49, 387392. [View Article] [PubMed]
    [Google Scholar]
  13. 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]
  14. Sasser M. ( 1997 ). Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids. MIDI Technical Note 101. Newark, DE:: MIDI, Inc;.
    [Google Scholar]
  15. Stamatakis A., Ludwig T., Meier H. ( 2005 ). RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees. . Bioinformatics 21, 456463. [View Article] [PubMed]
    [Google Scholar]
  16. Wright S. W., Jeffrey S. W., Mantoura R. F. C., Llewellyn C. A., Bjornland T., Repeta D., Welschmeyer N. ( 1991 ). Improved HPLC method for the analysis of chlorophylls and carotenoids from marine phytoplankton. . Mar Ecol Prog Ser 77, 183196. [View Article]
    [Google Scholar]
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