1887

Abstract

A Gram-stain-negative, rod-shaped bacterial strain, designated S9-10, was isolated from a sediment sample from the Yellow Sea near China. Phylogenetic analysis of 16S rRNA gene sequences revealed that strain S9-10 was a member of the family Flavobacteriaceae and formed a distinct lineage. The genomic DNA G+C content of strain S9-10 was 34.2 mol%. The major respiratory quinone was MK-6. The predominant cellular fatty acids were iso-C15 : 0 (21.1 %), iso-C15 : 1G (16.3 %) and iso-C17 : 0 3-OH (12.0 %). The polar lipid profile contained phosphatidylethanolamine, aminophospholipid, aminoglycolipid, two unidentified aminolipids and five unidentified polar lipids. On the basis of phenotypic, genotypic, chemotaxonomic and phylogenetic analyses, strain S9-10 represents a novel species of a novel genus of the family Flavobacteriaceae , for which the name Oceanihabitans sediminis gen. nov., sp. nov. is proposed. The type strain of Oceanihabitans sediminis is S9-10 (=DSM 28133 =LMG 28074).

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2016-09-01
2019-10-20
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References

  1. Alarico S., Rainey F. A., Empadinhas N., Schumann P., Nobre M. F., da Costa M. S..( 2002;). Rubritepida flocculans gen. nov., sp. nov., a new slightly thermophilic member of the α-1 subclass of the Proteobacteria. . Syst Appl Microbiol 25: 198–206. [CrossRef] [PubMed]
    [Google Scholar]
  2. Altenburger P., Kämpfer P., Makristathis A., Lubitz W., Busse H.-J..( 1996;). Classification of bacteria isolated from a medieval wall painting. . J Biotechnol 47: 39–52. [CrossRef]
    [Google Scholar]
  3. Bernardet J.-F., Bowman J. P..( 2006;). The genus Flavobacterium. . In The Prokaryotes, a Handbook on the Biology of Bacteria, , 3rd edn..,vol. 7 pp. 481–531. Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K. H., Stackebrandt E.. New York:: Springer;.
    [Google Scholar]
  4. Bernardet J.-F., Nakagawa Y..( 2006;). An introduction to the family Flavobacteriaceae. . In The Prokaryotes, a Handbook on the Biology of Bacteria, , 3rd edn..,vol. 7, pp. 455–480. Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K. H., Stackebrandt E.. New York:: Springer;.
    [Google Scholar]
  5. Bernardet J. F., Nakagawa Y., Holmes B..( 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. [CrossRef] [PubMed]
    [Google Scholar]
  6. Bligh E. G., Dyer W. J..( 1959;). A rapid method of total lipid extraction and purification. . Can J Biochem Physiol 37: 911–917. [CrossRef] [PubMed]
    [Google Scholar]
  7. Bowman J. P., Nichols D. S..( 2005;). Novel members of the family Flavobacteriaceae from Antarctic maritime habitats including Subsaximicrobium wynnwilliamsii gen. nov., sp. nov., Subsaximicrobium saxinquilinus sp. nov., Subsaxibacter broadyi gen. nov., sp. nov., Lacinutrix copepodicola gen. nov., sp. nov., and novel species of the genera Bizionia, Gelidibacter and Gillisia. . Int J Syst Evol Microbiol 55: 1471–1486. [CrossRef] [PubMed]
    [Google Scholar]
  8. Bowman J. P..( 2006;). The marine clade of the family Flavobacteriaceae: the genera Aequorivita, Arenibacter, Cellulophaga, Croceibacter, Formosa, Gelidibacter, Gillisia, Maribacter, Mesonia, Muricauda, Polaribacter, Psychroflexus, Psychroserpens, Robiginitalea, Salegentibacter, Tenacibaculum, Ulvibacter, Vitellibacter and Zobellia. . In The Prokaryotes, a Handbook on the Biology of Bacteria, , 3rd edn..,vol. 7 pp. 677–694. Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K. H., Stackebrandt E.. New York:: Springer;.
    [Google Scholar]
  9. Hameed A., Shahina M., Lin S. Y., Lai W. A., Hsu Y. H., Liu Y. C., Young C. C..( 2014;). Aquibacter zeaxanthinifaciens gen. nov., sp. nov., a zeaxanthin-producing bacterium of the family Flavobacteriaceae isolated from surface seawater, and emended descriptions of the genera Aestuariibaculum and Gaetbulibacter. . Int J Syst Evol Microbiol 64: 138–145. [CrossRef] [PubMed]
    [Google Scholar]
  10. Hameed A., Shahina M., Lin S. Y., Lai W. A., Liu Y. C., Hsu Y. H., Cheng I. C., Young C. C..( 2014;). Robertkochia marina gen. nov., sp. nov., of the family Flavobacteriaceae, isolated from surface seawater, and emended descriptions of the genera Joostella and Galbibacter. . Int J Syst Evol Microbiol 64: 533–539. [CrossRef] [PubMed]
    [Google Scholar]
  11. Hameed A., Shahina M., Lin S. Y., Liu Y. C., Lai W. A., Young C. C..( 2014;). Gramella oceani sp. nov., a zeaxanthin-producing bacterium of the family Flavobacteriaceae isolated from marine sediment. . Int J Syst Evol Microbiol 64: 2675–2681. [CrossRef] [PubMed]
    [Google Scholar]
  12. Jeong S. H., Park M. S., Jin H. M., Lee K., Park W., Jeon C. O..( 2013;). 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. [CrossRef] [PubMed]
    [Google Scholar]
  13. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. et al.( 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]
  14. 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]
  15. Kwon Y. M., Choi D., Yang S. H., Kwon K. K., Kim S. J..( 2014;). Hoppeia youngheungensis gen. nov., sp. nov., a member of the Flavobacteriaceae isolated from tidal flat sediment, and emended descriptions of the genus Sediminibacter and Sediminibacter furfurosus. . Int J Syst Evol Microbiol 64: 2053–2059. [CrossRef] [PubMed]
    [Google Scholar]
  16. Lee S.-Y., Park S., Oh T.-K., Yoon J.-H..( 2010;). Description of Olleya aquimaris sp. nov., isolated from seawater, and emended description of the genus Olleya Mancuso Nichols et al. 2005. . Int J Syst Evol Microbiol 60: 887–891. [CrossRef] [PubMed]
    [Google Scholar]
  17. Li H., Zhang X. Y., Liu C., Liu A., Qin Q. L., Su H. N., Shi M., Zhou B. C., Chen X. L. et al.( 2015;). Bizionia arctica sp. nov., isolated from Arctic fjord seawater, and emended description of the genus Bizionia. . Int J Syst Evol Microbiol 65: 2925–2930. [CrossRef] [PubMed]
    [Google Scholar]
  18. Liu K., Li S., Jiao N., Tang K..( 2014;). Gramella flava sp. nov., a member of the family Flavobacteriaceae isolated from seawater. . Int J Syst Evol Microbiol 64: 165–168. [CrossRef] [PubMed]
    [Google Scholar]
  19. Liu C., Wen X.-R., Zhang X.-Y., Su H.-N., Chen X.-L., Shi M..( 2016;). Arcticiflavibacter luteus gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from intertidal sand. . Int J Syst Evol Microbiol 65: 144–149. [CrossRef]
    [Google Scholar]
  20. Mancuso Nichols C., Bowman J. P., Guezennec J..( 2005;). Olleya marilimosa gen. nov., sp. nov., an exopolysaccharide-producing marine bacterium from the family Flavobacteriaceae, isolated from the Southern Ocean. . Int J Syst Evol Microbiol 55: 1557–1561. [CrossRef] [PubMed]
    [Google Scholar]
  21. Margesin R., Gander S., Zacke G., Gounot A. M., Schinner F..( 2003;). Hydrocarbon degradation and enzyme activities of cold-adapted bacteria and yeasts. . Extremophiles 7: 451–458. [CrossRef] [PubMed]
    [Google Scholar]
  22. Margesin R., Zhang D. C..( 2013;). Humitalea rosea gen. nov., sp. nov., an aerobic bacteriochlorophyll-containing bacterium of the family Acetobacteraceae isolated from soil. . Int J Syst Evol Microbiol 63: 1411–1416. [CrossRef] [PubMed]
    [Google Scholar]
  23. 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]
  24. Nedashkovskaya O. I., Kim S. B., Han S. K., Rhee M. S., Lysenko A. M., Rohde M., Zhukova N. V., Frolova G. M., Mikhailov V. V., Bae K. S..( 2004;). Algibacter lectus gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from green algae. . Int J Syst Evol Microbiol 54: 1257–1261. [CrossRef] [PubMed]
    [Google Scholar]
  25. Nedashkovskaya O. I., Kim S. B., Han S. K., Snauwaert C., Vancanneyt M., Swings J., Kim K. O., Lysenko A. M., Rohde M. et al.( 2005a;). Winogradskyella thalassocola gen. nov., sp. nov., Winogradskyella epiphytica sp. nov. and Winogradskyella eximia sp. nov., marine bacteria of the family Flavobacteriaceae. . Int J Syst Evol Microbiol 55: 49–55. [CrossRef] [PubMed]
    [Google Scholar]
  26. Nedashkovskaya O. I., Kim S. B., Lysenko A. M., Frolova G. M., Mikhailov V. V., Bae K. S..( 2005b;). Bizionia paragorgiae gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from the soft coral Paragorgia arborea. . Int J Syst Evol Microbiol 55: 375–378. [CrossRef] [PubMed]
    [Google Scholar]
  27. Park S., Park J. M., Jung Y. T., Kang C. H., Yoon J. H..( 2015;). Lacinutrix undariae sp. nov., isolated from a brown algae reservoir. . Int J Syst Evol Microbiol 65: 2696–2701. [CrossRef] [PubMed]
    [Google Scholar]
  28. Saitou N., Nei M..( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4: 406–425.[PubMed]
    [Google Scholar]
  29. Sambrook J., Frisch E. F., Maniatis T..( 1989;). Molecular Cloning: A Laboratory Manual, , 2nd edn.. Cold Spring Harbor, NY:: Cold Spring Harbor Laboratory;.
    [Google Scholar]
  30. Sasser M..( 1990;). Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids. MIDI Technical Note 101. Newark, DE:: MIDI;.
    [Google Scholar]
  31. Song J., Choi A., Im M., Joung Y., Yoshizawa S., Cho J.-C., Kogure K..( 2015;). Aurantivirga profunda gen. nov., sp. nov., isolated from deep-seawater, a novel member of the family Flavobacteriaceae. . Int J Syst Evol Microbiol 65: 4850–4856. [CrossRef] [PubMed]
    [Google Scholar]
  32. Stolz A., Busse H. J., Kämpfer P..( 2007;). Pseudomonas knackmussii sp. nov. . Int J Syst Evol Microbiol 57: 572–576. [CrossRef] [PubMed]
    [Google Scholar]
  33. Süßmuth R., Eberspächer J., Haag R., Springer W..( 1987;). Biochemisch-Mikrobiologisches Praktikum. Stuttgart:: Georg Thieme Verlag;.
    [Google Scholar]
  34. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S..( 2013;). mega6: molecular evolutionary gGenetics analysis version 6.0. . Mol Biol Evol 30: 2725–2729. [CrossRef] [PubMed]
    [Google Scholar]
  35. Tindall B. J..( 1990a;). A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. . Syst Appl Microbiol 13: 128–130. [CrossRef]
    [Google Scholar]
  36. Tindall B. J..( 1990b;). Lipid composition of Halobacterium lacusprofundi. . FEMS Microbiol Letts 66: 199–202. [CrossRef]
    [Google Scholar]
  37. Tindall B. J., Sikorski J., Smibert R. M., Kreig N. R..( 2007;). Phenotypic characterization and the principles of comparative systematics. . In Methods for General and Molecular Microbiology, , 3rd edn., pp. 330–393. Edited by Reddy C. A., Beveridge T. J., Breznak J. A., Marzluf G., Schmidt T. M., Snyder L. R.. Washington, DC:: ASM Press;.
    [Google Scholar]
  38. Yoon J. H., Won S. M., Park D. S., Park S..( 2014;). Seonamhaeicola aphaedonensis gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from a tidal flat sediment. . Int J Syst Evol Microbiol 64: 1876–1881. [CrossRef] [PubMed]
    [Google Scholar]
  39. Zhang D. C., Wang H. X., Liu H. C., Dong X. Z., Zhou P. J..( 2006;). Flavobacterium glaciei sp. nov., a novel psychrophilic bacterium isolated from the China No.1 glacier. . Int J Syst Evol Microbiol 56: 2921–2925. [CrossRef] [PubMed]
    [Google Scholar]
  40. Zhang D. C., Redzic M., Schinner F., Margesin R..( 2011;). Glaciimonas immobilis gen. nov., sp. nov., a member of the family Oxalobacteraceae isolated from alpine glacier cryoconite. . Int J Syst Evol Microbiol 61: 2186–2190. [CrossRef] [PubMed]
    [Google Scholar]
  41. Zhang D. C., Margesin R..( 2015;). Gelidibacter sediminis sp. nov., isolated from a sediment sample of the Yellow Sea. . Int J Syst Evol Microbiol 65: 2304–2309. [CrossRef] [PubMed]
    [Google Scholar]
  42. Zhang R. G., Tan X., Zhao X. M., Deng J., Lv J..( 2014;). Moheibacter sediminis gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from sediment, and emended descriptions of Empedobacter brevis, Wautersiella falsenii and Weeksella virosa. . Int J Syst Evol Microbiol 64: 1481–1487. [CrossRef] [PubMed]
    [Google Scholar]
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