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Abstract

A lipolytic, Gram-stain-negative, aerobic, non-motile and coccoid, ovoid or rod-shaped bacterial strain, designated GM-16, was isolated from seawater around Pohang in the Republic of Korea. Strain GM-16 grew optimally at 30 °C and in the presence of 1.0–2.0 % (w/v) NaCl. The neighbour-joining phylogenetic tree of 16S rRNA gene sequences showed that strain GM-16 fell within the clade comprising the type strains of Croceicoccus species. Strain GM-16 exhibited the highest 16S rRNA gene sequence similarity (97.7 %) to the type strain of Croceicoccus pelagius and sequence similarities of 96.3–96.7 % to the type strains of the other Croceicoccus species. Strain GM-16 contained Q-10 as the predominant ubiquinone and C18 : 1 ω7c and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) as major fatty acids. The major polar lipids of strain GM-16 were phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, sphingoglycolipid and one unidentified glycolipid. The DNA G+C content of strain GM-16 was 62.6 mol%. The mean DNA–DNA relatedness value between strain GM-16 and C. pelagius DSM 101479 was 16 %. The average nucleotide identity values between strain GM-16 and the type strains of C.roceicoccus pelagius, C.roceicoccus marinus, C.roceicoccus naphthovorans and C.roceicoccus mobilis were 83.96–84.44 %. The phylogenetic and genetic data and differential phenotypic properties indicated that strain GM-16 is separated from recognized Croceicoccus species. On the basis of the data presented here, strain GM-16 is considered to represent a novel species of the genus Croceicoccus , for which the name Croceicoccus ponticola sp. nov. is proposed. The type strain is GM-16 (=KACC 19611=KCTC 62423=NBRC 113192).

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2019-04-16
2019-09-22
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References

  1. Xu XW, Wu YH, Wang CS, Wang XG, Oren A et al. Croceicoccus marinus gen. nov., sp. nov., a yellow-pigmented bacterium from deep-sea sediment, and emended description of the family Erythrobacteraceae. Int J Syst Evol Microbiol 2009;59:2247–2253 [CrossRef][PubMed]
    [Google Scholar]
  2. Huang Y, Zeng Y, Feng H, Wu Y, Xu X. Croceicoccus naphthovorans sp. nov., a polycyclic aromatic hydrocarbons-degrading and acylhomoserine-lactone-producing bacterium isolated from marine biofilm, and emended description of the genus Croceicoccus. Int J Syst Evol Microbiol 2015;65:1531–1536 [CrossRef][PubMed]
    [Google Scholar]
  3. Wu YH, Li GY, Jian SL, Cheng H, Huo YY et al. Croceicoccus pelagius sp. nov. and Croceicoccus mobilis sp. nov., isolated from marine environments. Int J Syst Evol Microbiol 2016;66:4506–4511 [CrossRef][PubMed]
    [Google Scholar]
  4. Yoon J-H, Kim H, Kim S-B, Kim H-J, Kim WY et al. Identification of Saccharomonospora Strains by the use of genomic DNA Fragments and rRNA gene probes. Int J Syst Bacteriol 1996;46:502–505 [CrossRef]
    [Google Scholar]
  5. Yoon J-H, Lee ST, Kim S-B, Kim WY, Goodfellow M et al. Restriction fragment length polymorphism analysis of pcr-amplified 16s ribosomal DNA for rapid identification of Saccharomonospora strains. Int J Syst Bacteriol 1997;47:111–114 [CrossRef]
    [Google Scholar]
  6. Yoon JH, Kang KH, Park YH. Psychrobacter jeotgali sp. nov., isolated from jeotgal, a traditional Korean fermented seafood. Int J Syst Evol Microbiol 2003;53:449–454 [CrossRef][PubMed]
    [Google Scholar]
  7. Ezaki T, Hashimoto Y, Yabuuchi E. Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 1989;39:224–229 [CrossRef]
    [Google Scholar]
  8. Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 2012;19:455–477 [CrossRef][PubMed]
    [Google Scholar]
  9. Lee I, Chalita M, Ha SM, Na SI, Yoon SH et al. ContEst16S: an algorithm that identifies contaminated prokaryotic genomes using 16S RNA gene sequences. Int J Syst Evol Microbiol 2017;67:2053–2057 [CrossRef][PubMed]
    [Google Scholar]
  10. Yoon SH, Ha SM, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek 2017;110:1281–1286 [CrossRef][PubMed]
    [Google Scholar]
  11. Komagata K, Suzuki K. Lipids and cell-wall analysis in bacterial systematics. Methods Microbiol 1987;19:161–207
    [Google Scholar]
  12. Park S, Jung YT, Choi SJ, Yoon JH. Altererythrobacter aquaemixtae sp. nov., isolated from the junction between the ocean and a freshwater spring. Int J Syst Evol Microbiol 2017;67:3446–3451 [CrossRef][PubMed]
    [Google Scholar]
  13. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc; 1990
    [Google Scholar]
  14. 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]
  15. Embley TM, Wait R. Structural lipids of eubacteria. In Goodfellow M, O’Donnell AG. (editors) Modern Microbial Methods. Chemical Methods in Prokaryotic Systematics Chichester: John Wiley & Sons; 1994; pp.121–161
    [Google Scholar]
  16. Tamaoka J, Komagata K. Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 1984;25:125–128 [CrossRef]
    [Google Scholar]
  17. Park S, Won SM, Kim H, Park DS, Yoon JH. Aestuariivita boseongensis gen. nov., sp. nov., isolated from a tidal flat sediment. Int J Syst Evol Microbiol 2014;64:2969–2974 [CrossRef][PubMed]
    [Google Scholar]
  18. Lányí B. Classical and rapid identification methods for medically important bacteria. Methods Mocrobiol 1987;19:1–67
    [Google Scholar]
  19. Bruns A, Rohde M, Berthe-Corti L. Muricauda ruestringensis gen. nov., sp. nov., a facultatively anaerobic, appendaged bacterium from German North Sea intertidal sediment. Int J Syst Evol Microbiol 2001;51:1997–2006 [CrossRef][PubMed]
    [Google Scholar]
  20. Barrow GI, Cowan FRKA. Steel’s Manual for the Identification of Medical Bacteria, 3rd ed. Cambridge: Cambridge University Press; 1993
    [Google Scholar]
  21. Baumann P, Baumann L. The marine Gram-negative eubacteria: genera Photobacterium, Beneckea, Alteromonas, Pseudomonas, and Alcaligenes. In Starr MP, Stolp H, Trüper HG, Balows A, Schlegel HG et al. (editors) The Prokaryotes Berlin: Springer; 1981; pp.1302–1331
    [Google Scholar]
  22. Cohen-Bazire G, Sistrom WR, Stanier RY. Kinetic studies of pigment synthesis by non-sulfur purple bacteria. J Cell Comp Physiol 1957;49:25–68 [CrossRef][PubMed]
    [Google Scholar]
  23. Staley JT. Prosthecomicrobium and Ancalomicrobium: new prosthecate freshwater bacteria. J Bacteriol 1968;95:1921–1942
    [Google Scholar]
  24. Stackebrandt E, Goebel BM. Taxonomic note: a Place for DNA-DNA reassociation and 16s rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Evol Microbiol 1994;44:846–849 [CrossRef]
    [Google Scholar]
  25. Wayne LG, Moore WEC, Stackebrandt E, Kandler O, Colwell RR et al. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Evol Microbiol 1987;37:463–464 [CrossRef]
    [Google Scholar]
  26. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 2018;68:461–466 [CrossRef][PubMed]
    [Google Scholar]
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