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Volume 65, Issue Pt_2

gen. nov., sp. nov., isolated from a sea-tidal flat sediment Free

Abstract

A Gram-stain-negative, strictly aerobic bacterium, designated strain GY12, was isolated from a tidal flat of South Korea. Cells were moderately halotolerant, catalase- and oxidase-positive rods with gliding motility, and were devoid of flagella. Growth of strain GY12 was observed at 15–40 °C (optimum 25–30 °C), pH 6.0–8.5 (optimum pH 7.0–7.5) and with 1–5 % (w/v) NaCl (optimum 1–2 %). The major cellular fatty acids were iso-C G, iso-C and iso-C 3-OH. The polar lipids consisted almost entirely of phosphatidylethanolamine, two unidentified aminolipids and two unidentified lipids. The G+C content of the genomic DNA was 34.8 mol% and the only respiratory quinone detected was menaquinone-6 (MK-6). Strain GY12 was most closely related to the genera , , and with 16S rRNA gene sequence similarities of 94–97 %, but phylogenetic inferences based on 16S rRNA gene sequences showed that the strain formed phyletic lineages distinct from these genera within the family . On the basis of phenotypic and molecular features, strain GY12 represents a novel species of a new genus in the family , for which the name gen. nov., sp. nov. is proposed. The type strain of the type species is GY12 ( = KACC 16441 = JCM 18325).

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Funding
This study was supported by the:
  • National Institute of Biological Resources (Award 2014-02-001)
  • Ministry of Environment (MOE), Korea
© 2015 IUMS
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2015-02-01
2024-04-16
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References

  1. Bernardet J. F. ( 2011 ). Family I. Flavobacteriaceae Reichenbach 1992. . In Bergey’s Manual of Systematic Bacteriology, , 2nd edn., vol. 4, pp. 106–111. Edited by Krieg N. R., Ludwig W., Whitman W. B., Hedlund B. P., Paster B. J., Staley J. T., Ward N., Brown D., Parte A. . New York:: Springer;.
     [Google Scholar]
  2. 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, 128–148. [View Article]
    [Google Scholar]
  3. 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, 1049–1070. [View Article] [PubMed]
    [Google Scholar]
  4. Biebl H., Allgaier M., Tindall B. J., Koblizek M., Lünsdorf H., Pukall R., Wagner-Döbler I. ( 2005 ). Dinoroseobacter shibae gen. nov., sp. nov., a new aerobic phototrophic bacterium isolated from dinoflagellates. . Int J Syst Evol Microbiol 55, 1089–1096. [View Article] [PubMed]
    [Google Scholar]
  5. Bowman J. P. ( 2000 ). Description of Cellulophaga algicola sp. nov., isolated from the surfaces of Antarctic algae, and reclassification of Cytophaga uliginosa (ZoBell and Upham 1944) Reichenbach 1989 as Cellulophaga uliginosa comb. nov.. Int J Syst Evol Microbiol 50, 1861–1868.[PubMed]
    [Google Scholar]
  6. Bowman J. P. ( 2005 ). The Marine Clade of the Flavobacteriaceae: the genera Aequorivita, Arenibacter, Cellulophaga, Croceibacter, Formosa, Gelidibacter, Gillisiia, Maribacter, Mesonia, Muricauda, Polaribacter, Psychroflexus, Psychroserpens, Robiginitaleav, Salgenetibacter, Tenacibaculum, Ulvibacter, Vitellibacter and Zobellia . . In The Prokaryotes: an Evolving Electronic Resource for the Microbiological Community. New York:: Springer;.
     [Google Scholar]
  7. Einen J., Øvreås L. ( 2006 ). Flaviramulus basaltis gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from seafloor basalt. . Int J Syst Evol Microbiol 56, 2455–2461. [View Article] [PubMed]
    [Google Scholar]
  8. Euzéby J. P. ( 1997 ). List of bacterial names with standing in nomenclature: a folder available on the internet. . Int J Syst Bacteriol 47, 590–592. [View Article] [PubMed]
    [Google Scholar]
  9. Felsenstein J. ( 2002 ). phylip (phylogeny inference package) version 3.6a. Distributed by the author. . Department of Genome Sciences, University of Washington, Seattle, USA;.
     [Google Scholar]
  10. Garrity G. M., Bell J. A., Lilburn T. ( 2005 ). The revised road map to the manual. . In Bergey's Manual of Systematic Bacteriology, , 2nd edn., vol. 2, pp. 159–187. Edited by Brenner D. J., Krieg N. R., Staley J. T. . New York:: Springer;. [View Article]
    [Google Scholar]
  11. Gonzalez J. M., Saiz-Jimenez C. ( 2002 ). A fluorimetric method for the estimation of G+C mol% content in microorganisms by thermal denaturation temperature. . Environ Microbiol 4, 770–773. [View Article] [PubMed]
    [Google Scholar]
  12. Jeong S. H., Jin H. M., Lee H. J., Jeon C. O. ( 2013a ). Altererythrobacter gangjinensis sp. nov., a marine bacterium isolated from a tidal flat. . Int J Syst Evol Microbiol 63, 971–976. [View Article] [PubMed]
    [Google Scholar]
  13. Jeong S. H., Park M. S., Jin H. M., Lee K., Park W., Jeon C. O. ( 2013b ). Aestuariibaculum suncheonense gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from a tidal flat and emended descriptions of the genera Gaetbulibacter and Tamlana . . Int J Syst Evol Microbiol 63, 332–338. [View Article] [PubMed]
    [Google Scholar]
  14. Jooste P. J. ( 1985 ). The taxonomy and significance of Flavobacterium-Cytophaga strains from dairy sources. PhD thesis , University of the Orange Free State, Bloemfontein, South Africa;.
     [Google Scholar]
  15. Jung S.-Y., Kang S.-J., Lee M.-H., Lee S.-Y., Oh T.-K., Yoon J.-H. ( 2005 ). Gaetbulibacter saemankumensis gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from a tidal flat sediment in Korea. . Int J Syst Evol Microbiol 55, 1845–1849. [View Article] [PubMed]
    [Google Scholar]
  16. Jung Y.-T., Kim J.-H., Oh T.-K., Yoon J.-H. ( 2012 ). Mariniflexile aquimaris sp. nov., isolated from seawater, and emended description of the genus Mariniflexile Nedashkovskaya et al. 2006. . Int J Syst Evol Microbiol 62, 539–544. [View Article] [PubMed]
    [Google Scholar]
  17. 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. [View Article] [PubMed]
    [Google Scholar]
  18. Kirchman D. L. ( 2002 ). The ecology of Cytophaga-Flavobacteria in aquatic environments. . FEMS Microbiol Ecol 39, 91–100.[PubMed]
    [Google Scholar]
  19. Komagata K., Suzuki K. ( 1987 ). Lipid and cell-wall analysis in bacterial systematics. . Methods Microbiol 19, 161–208. [View Article]
    [Google Scholar]
  20. Lányí B. ( 1987 ). Classical and rapid identification methods for medically important bacteria. . Methods Microbiol 19, 1–67. [View Article]
    [Google Scholar]
  21. Lee S. D. ( 2007 ). Tamlana crocina gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae, isolated from beach sediment in Korea. . Int J Syst Evol Microbiol 57, 764–769. [View Article] [PubMed]
    [Google Scholar]
  22. Leifson E. ( 1963 ). Determination of carbohydrate metabolism of marine bacteria. . J Bacteriol 85, 1183–1184.[PubMed]
    [Google Scholar]
  23. Math R. K., Jin H. M., Kim J. M., Hahn Y., Park W., Madsen E. L., Jeon C. O. ( 2012 ). Comparative genomics reveals adaptation by Alteromonas sp. SN2 to marine tidal-flat conditions: cold tolerance and aromatic hydrocarbon metabolism. . PLoS ONE 7, e35784. [View Article] [PubMed]
    [Google Scholar]
  24. McCammon S. A., Bowman J. P. ( 2000 ). Taxonomy of Antarctic Flavobacterium species: description of Flavobacterium gillisiae sp. nov., Flavobacterium tegetincola sp. nov., and Flavobacterium xanthum sp. nov., nom. rev. and reclassification of [Flavobacterium] salegens as Salegentibacter salegens gen. nov., comb. nov.. Int J Syst Evol Microbiol 50, 1055–1063. [View Article] [PubMed]
    [Google Scholar]
  25. Minnikin D. E., Patel P. V., Alshamaony L., Goodfellow M. ( 1977 ). Polar lipid composition in the classification of Nocardia and related bacteria. . Int J Syst Bacteriol 27, 104–117. [View Article]
    [Google Scholar]
  26. Nawrocki E. P., Eddy S. R. ( 2007 ). Query-dependent banding (QDB) for faster RNA similarity searches. . PLOS Comput Biol 3, e56. [View Article] [PubMed]
    [Google Scholar]
  27. Nedashkovskaya O. I., Kim S. B., Kwak J., Mikhailov V. V., Bae K. S. ( 2006 ). Mariniflexile gromovii gen. nov., sp. nov., a gliding bacterium isolated from the sea urchin Strongylocentrotus intermedius. . Int J Syst Evol Microbiol 56, 1635–1638. [View Article] [PubMed]
    [Google Scholar]
  28. Sasser M. ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101 . Newark, DE:: MIDI Inc;.
     [Google Scholar]
  29. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607–654. Edited by Gerhardt P. . Washington, D.C.:: American Society for Microbiology;.
     [Google Scholar]
  30. Stamatakis A., Ott M., Ludwig T. ( 2005 ). RAxML-OMP: An efficient program for phylogenetic inference on SMPs. . In Proceedings of 8th International Conference on Parallel Computing Technologies (PaCT2005), Lecture Notes in Computer Science, 3506, 288–302, Springer;.
     [Google Scholar]
  31. Tan B., Soderstrom D. N. ( 1989 ). Qualitative aspects of UV-vis spectrophotometry of beta-carotene and lycopene. . J Chem Educ 66, 258–260. [View Article]
    [Google Scholar]
  32. Wang Q., Garrity G. M., Tiedje J. M., Cole J. R. ( 2007 ). Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. . Appl Environ Microbiol 73, 5261–5267. [View Article] [PubMed]
    [Google Scholar]
  33. Yoon J. H., Lee S. Y., Oh T. K. ( 2013 ). Gaetbulibacter lutimaris sp. nov., isolated from a tidal flat sediment. . Int J Syst Evol Microbiol 63, 995–1000. [View Article] [PubMed]
    [Google Scholar]
  34. Yurkov V., Stackebrandt E., Holmes A., Fuerst J. A., Hugenholtz P., Golecki J., Gad’on N., Gorlenko V. M., Kompantseva E. I., Drews G. ( 1994 ). Phylogenetic positions of novel aerobic, bacteriochlorophyll a-containing bacteria and description of Roseococcus thiosulfatophilus gen. nov., sp. nov., Erythromicrobium ramosum gen. nov., sp. nov., and Erythrobacter litoralis sp. nov.. Int J Syst Bacteriol 44, 427–434. [View Article] [PubMed]
    [Google Scholar]
  35. Zhang Y., Tang K., Shi X., Zhang X.-H. ( 2013 ). Flaviramulus ichthyoenteri sp. nov., an N-acylhomoserine lactone-degrading bacterium isolated from the intestine of a flounder (Paralichthys olivaceus), and emended descriptions of the genus Flaviramulus and Flaviramulus basaltis . . Int J Syst Evol Microbiol 63, 4477–4483. [View Article] [PubMed]
    [Google Scholar]
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Litoribaculum gwangyangense gen. nov., sp. nov., isolated from a sea-tidal flat sediment
Int J Syst Evol Microbiol 65, 381 (2015); https://doi.org/10.1099/ijs.0.068684-0
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