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Abstract

A Gram-stain-negative, strictly aerobic bacterium, designated KJ21, was isolated from a tidal flat in South Korea. Cells were non-motile rods showing oxidase- and catalase-positive activities. Growth of strain KJ21 was observed at 10–35 °C (optimum, 30 °C), at pH 6.0–8.5 (optimum, pH 7.0) and in the presence of 1–5 % (w/v) NaCl (optimum, 2 %). Strain KJ21 contained summed feature 8 (comprising C18 : 1ω7c/C18  : 1ω6c), C16 : 0, 10-methyl C19 : 0 and C10 : 0 3-OH as the major fatty acids and ubiquinone-10 as the major isoprenoid quinone. Phosphatidylglycerol, diphosphatidylglycerol, phosphatidylcholine, an unknown aminolipid and an unknown lipid were detected as the major polar lipids. The G+C content of the genomic DNA was 53.9 mol%. Phylogenic analysis based on 16S rRNA gene sequences showed that strain KJ21 formed a tight phylogenetic lineage with the members of the genus Pacificibacter with a 100 % bootstrap value. Strain KJ21 was most closely related to Pacificibacter maritimus KMM 9031 (98.7 %) and Pacificibacter marinus HDW-9 (98.4 %), and the DNA–DNA relatedness values between strain KJ21 and the type strains of P. maritimus and P. marinus were 46.9±4.2 % and 39.8±5.7, respectively. On the basis of phenotypic, chemotaxonomic and molecular properties, it is clear that strain KJ21 represents a novel species of the genus Pacificibacter , for which the name Pacificibacter aestuarii sp. nov. is proposed. The type strain is KJ21 (=KACC 19098=JCM 31805).

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2017-09-06
2019-12-08
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References

  1. Romanenko LA, Tanaka N, Svetashev VI, Kalinovskaya NI. Pacificibacter maritimus gen. nov., sp. nov., isolated from shallow marine sediment. Int J Syst Evol Microbiol 2011;61:1375–1381 [CrossRef][PubMed]
    [Google Scholar]
  2. Park S, Kang CH, Park JM, Yoon JH. Aquimixticola soesokkakensis gen. nov., sp. nov., a novel lipolytic alphaproteobacterium isolated from the junction between the ocean and a freshwater spring, and reclassification of Roseovarius marinus as Pacificibacter marinus comb. nov. and emended description of the genus Pacificibacter. Antonie van Leeuwenhoek 2014;106:647–655 [CrossRef][PubMed]
    [Google Scholar]
  3. Jung YT, Lee JS, Oh KH, Oh TK, Yoon JH. Roseovarius marinus sp. nov., isolated from seawater. Int J Syst Evol Microbiol 2011;61:427–432 [CrossRef][PubMed]
    [Google Scholar]
  4. Kim JM, Jin HM, Jeon CO. Muricauda taeanensis sp. nov., isolated from a marine tidal flat. Int J Syst Evol Microbiol 2013;63:2672–2677 [CrossRef][PubMed]
    [Google Scholar]
  5. Lo N, Jin HM, Jeon CO. Photobacterium aestuarii sp. nov., a marine bacterium isolated from a tidal flat. Int J Syst Evol Microbiol 2014;64:625–630 [CrossRef][PubMed]
    [Google Scholar]
  6. Lo N, Kim KH, Baek K, Jia B, Jeon CO. Aestuariicella hydrocarbonica gen. nov., sp. nov., an aliphatic hydrocarbon-degrading bacterium isolated from a sea tidal flat. Int J Syst Evol Microbiol 2015;65:1935–1940 [CrossRef][PubMed]
    [Google Scholar]
  7. Kim KH, Jin HM, Jeong HI, Jeon CO. Maribacter lutimaris sp. nov., isolated from marine sediment. Int J Syst Evol Microbiol 2016;66:1773–1778 [CrossRef][PubMed]
    [Google Scholar]
  8. Kim JM, Le NT, Chung BS, Park JH, Bae JW et al. Influence of soil components on the biodegradation of benzene, toluene, ethylbenzene, and o-, m-, and p-xylenes by the newly isolated bacterium Pseudoxanthomonas spadix BD-a59. Appl Environ Microbiol 2008;74:7313–7320 [CrossRef][PubMed]
    [Google Scholar]
  9. Yoon SH, Ha SM, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017;67:1613–1617 [CrossRef][PubMed]
    [Google Scholar]
  10. Chun BH, Lee Y, Jin HM, Jeon CO. Cloacibacterium caeni sp. nov., isolated from activated sludge. Int J Syst Evol Microbiol 2017; in press [CrossRef][PubMed]
    [Google Scholar]
  11. Nawrocki EP, Eddy SR. Query-dependent banding (QDB) for faster RNA similarity searches. PLoS Comput Biol 2007;3:e56 [CrossRef][PubMed]
    [Google Scholar]
  12. Felsenstein J. Phylip (Phylogeny Inference Package), Version 3.6a Seattle, WA: Department of Genetics, University of Washington; 2002
    [Google Scholar]
  13. Stamatakis A. RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 2014;30:1312–1313 [CrossRef][PubMed]
    [Google Scholar]
  14. Wang Q, Garrity GM, Tiedje JM, Cole JR. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol 2007;73:5261–5267 [CrossRef][PubMed]
    [Google Scholar]
  15. Chang HW, Nam YD, Jung MY, Kim KH, Roh SW et al. Statistical superiority of genome-probing microarrays as genomic DNA–DNA hybridization in revealing the bacterial phylogenetic relationship compared to conventional methods. J Microbiol Methods 2008;75:523–530 [CrossRef][PubMed]
    [Google Scholar]
  16. Stackebrandt E, Frederiksen W, Garrity GM, Grimont PA, Kämpfer P et al. Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. Int J Syst Evol Microbiol 2002;52:1043–1047 [CrossRef][PubMed]
    [Google Scholar]
  17. Gomori G. Preparation of buffers for use in enzyme studies. In Colowick SP, Kaplan NO. (editors) Methods in Enzymology New York: Academic Press; 1955; pp.138–146
    [Google Scholar]
  18. Smibert RM, Krieg NR. Phenotypic characterization. In Gerhardt P. (editor) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994; pp.607–654
    [Google Scholar]
  19. Lafay B, Ruimy R, de Traubenberg CR, Breittmayer V, Gauthier MJ et al. Roseobacter algicola sp. nov., a new marine bacterium isolated from the phycosphere of the toxin-producing dinoflagellate Prorocentrum lima. Int J Syst Bacteriol 1995;45:290–296 [CrossRef][PubMed]
    [Google Scholar]
  20. Lányí B. Classical and rapid identification methods for medically important bacteria. Methods Microbiol 1987;19:1–67
    [Google Scholar]
  21. Jeong SH, Park MS, Jin HM, Lee K, Park W et al. 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 2013;63:332–338 [CrossRef][PubMed]
    [Google Scholar]
  22. Gonzalez JM, Saiz-Jimenez C. A fluorimetric method for the estimation of G+C mol% content in microorganisms by thermal denaturation temperature. Environ Microbiol 2002;4:770–773 [CrossRef][PubMed]
    [Google Scholar]
  23. Minnikin DE, O'Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984;2:233–241 [CrossRef]
    [Google Scholar]
  24. Komagata K, Suzuki K. Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 1987;19:161–208[CrossRef]
    [Google Scholar]
  25. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101 Newark, DE: MIDI Inc; 1990
    [Google Scholar]
  26. Minnikin DE, Patel PV, Alshamaony L, Goodfellow M. Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 1977;27:104–117 [CrossRef]
    [Google Scholar]
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