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Paracoccus aquimaris sp. nov., isolated from seawater

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Abstract

A Gram-stain negative, motile and short rod-shaped bacterial strain, designated KF89T, was isolated from seawater of Tong-Yeong, South of Korea. Growth occurred between 10 and 35 °C (optimum 32 °C) and at pH 6.0–9.0 (optimum pH 7.0) and at 0–7 % NaCl (optimum at 2 % NaCl). The 16S rRNA gene sequence identified it as a member of the genus Paracoccus that belongs to the phylum Proteobacteria. Based on the 16S rRNA gene sequence, the highest degree of gene sequence similarities were shared with Paracoccus homiensis DD-R11T (97.3 %), P. zeaxanthinifaciens ATCC21588T (97.1 %), P. rhizosphaerae CC-CCM15-8T (96.9 %), P. beibuensis JLT1284 (96.9 %) and P. aestuarii B7T (96.6 %). Strain KF89T contained Ubiquinone-10 as the major respiratory quinone, and the polar lipid profile included phosphatidylglycerol, phosphatidylcholine, diphosphatidylglycerol and an unidentified aminolipid. The major fatty acid of strain KF89T is C18:1 ω7c and the DNA G+C content is 57 mol%. Strain KF89T showed a DNA–DNA relatedness with P. homiensis KACC 11518T of 49 %. Based on phylogenetic and phenotypic analyses, strain KF89T is clearly shown to be a novel member of the genus Paracoccus. The type strain is Paracoccus aquimaris KF89T (=KEMB 3-508T = JCM 19892T).

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References

  • Beijerinck MW, Minkman DCJ (1910) Bildung und Verbrauch von Stickoxydul durch Bakterien. Zentralblatt für Bakteriologie, Parasitenkunde und Infektionskrankheiten und Hygiene, Abteilung II 25:30–63

    Google Scholar 

  • Berry A, Janssens D, Humbelin M et al (2003) Paracoccus zeaxanthinifaciens sp. nov., a zeaxanthin-producing bacterium. Int J Syst Evol Microbiol 53:231–238

    Article  CAS  PubMed  Google Scholar 

  • Brown AE (2008) Benson’s microbiological applications: laboratory manual in general microbiology, 10th edn. McGraw-Hill, New York

    Google Scholar 

  • Cappuccino JG, Sherman N (2010) Microbiology: a laboratory manual, 9th edn. Benjamin Cummings, San Francisco, pp 69–74, 161–164

  • Davis DH, Doudoroff M, Stanier RY, Mandel M (1969) Proposal to reject the genus Hydrogenomonas: taxonomic implications. Int J Syst Evol Microbiol 19:375–390

    Google Scholar 

  • Doetsch RN (1981) Determinative methods of light microscopy. In: Gerhardt P, Murray RGE, Costilow RN, Nester EW, Wood WA, Krieg NR, Phillips GH (eds) Manual of methods for general bacteriology. American Society for Microbiology, Washington, pp 21–33

    Google Scholar 

  • Ezaki T, Hashimoto Y, Yabuuchi E (1989) 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 Evol Microbiol 39:224–229

    Google Scholar 

  • Felsenstein J (1985) Confidence limit on phylogenies: an approach using the bootstrap. Evolution 39:783–791

    Article  Google Scholar 

  • Fitch WM (1971) Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416

    Article  Google Scholar 

  • Hiraishi A, Ueda Y, Ishihara J, Mori T (1996) Comparative lipoquinone analysis of influent sewage and activated sludge by high performance liquid chromatography and photodiode array detection. J Gen Appl Microbiol 42:457–469

    Article  CAS  Google Scholar 

  • Kim BY, Weon HY, Yoo SH, Kwon SW, Cho YH et al (2006) Paracoccus homiensis sp. nov., isolated from a sea-sand sample. Int J Syst Evol Microbiol 56:2387–2390

    Article  CAS  PubMed  Google Scholar 

  • Kim OS, Cho YJ, Lee K, Yoon SH, Kim M, Na H, Park SC, Jeon YS, Lee JH 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

    Article  CAS  PubMed  Google Scholar 

  • Kimura M (1983) The neutral theory of molecular evolution. Cambridge University Press, Cambridge

    Book  Google Scholar 

  • Komagata K, Suzuki K (1987) Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19:1–207

    Google Scholar 

  • Marmur J (1961) A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3:208–218

    Article  CAS  Google Scholar 

  • Mesbah M, Premachandran U, Whitman WB (1989) Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39:159–167

    Article  CAS  Google Scholar 

  • MIDI (1999) Sherlock microbial identification system operating manual, version 3.0. MIDI, Newark

    Google Scholar 

  • Minnikin DE, Patel PV, Alshamaony L, Goodfellow M (1977) Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 27:104–117

    Article  CAS  Google Scholar 

  • Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M, Schaal A, Parlett JH (1984) An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microb Methods 2:233–241

    Article  CAS  Google Scholar 

  • Peter K, Lai Wei-An, Young CC, Rekha K, Martin HJ et al (2012) Paracoccus rhizosphaerae sp. nov., isolated from the rhizosphere of the plant Crossostephium chinense (L.) Makino (Seremban). Int J Syst Evol Microbiol 62:2750–2756

    Article  Google Scholar 

  • Roh SW, Nam YD, Chang HW, Kim KH, Kim MS, Shin KS, Yoon JH, Oh HM, Bae JW (2009) Paracoccus aestuarii sp. nov., isolated from tidal flat sediment. Int J Syst Evol Microbiol 59:790–794

    Article  CAS  PubMed  Google Scholar 

  • Saitou N, Nei M (1987) The neighbour-joining method: a new method for reconstructing phylogenetic trees. Mol Bio Evol 4:406–425

    CAS  Google Scholar 

  • Stackebrandt E, Goebel BM (1994) Taxonomic note: a place for DNA–DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44:846–849

    Article  CAS  Google Scholar 

  • Tamaoka J, Komagata K (1984) Determination of DNA base composition by reversed phase high-performance liquid chromatography. FEMS Microbiol Lett 25:125–128

    Article  CAS  Google Scholar 

  • Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 24:4876–4882

    Article  Google Scholar 

  • Wayne LG, Brenner DJ, Colwell RR et al (1987) International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464

    Article  Google Scholar 

  • Zheng Q, Wang Y, Chen C, Wang Y, Xia X, Fu Y, Zhang R, Jiao N (2011) Paracoccus beibuensis sp. nov., Isolated from the South China Sea. Curr Microbiol 62:710–714

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgments

This research is supported by National Research Foundation of Korea (NRF-2013M3A2A1067498) and Korea Environmental Microorganism Bank (NRF-2010-0007473).

Author information

Authors and Affiliations

  1. Department of Bioengineering, Kyonggi University, 94-6 Iui-dong Yeongtong-gu, Suwon, 443-760, Republic of Korea

    Kunho Kim

  2. Department of Life Science, College of Natural Science, Kyonggi University, 94-6 Iui-dong Yeongtong-gu, Suwon, 443-760, Republic of Korea

    Sang-Seob Lee

Authors
  1. Kunho Kim
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  2. Sang-Seob Lee
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Corresponding author

Correspondence to Sang-Seob Lee.

Additional information

The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of strain KF89T is KP716798.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Figure S1

Transmission electron micrographic picture of strain KF89T. The cells are stained by negatively. (PPTX 93 kb)

Figure S2

Polar lipid profile contained phosphatidylglycerol, phosphatidycholine, diphosphatidylglycerol, unidentified phospholipid, unidentified amino lipid and three unidentified lipids. (PPTX 392 kb)

Figure S3

Maximum likelihood tree of strain KF89T and closely related Paracoccus type strains based on 16S rRNA gene sequence comparisons. (PPTX 445 kb)

Figure S4

Maximum parsimony tree of strain KF89T and closely related Paracoccus type strains based on 16S rRNA gene sequence comparisons. (PPTX 388 kb)

Supplementary material 5 (DOCX 16 kb)

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Kim, K., Lee, SS. Paracoccus aquimaris sp. nov., isolated from seawater. Antonie van Leeuwenhoek 108, 871–877 (2015). https://doi.org/10.1007/s10482-015-0541-0

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  • DOI: https://doi.org/10.1007/s10482-015-0541-0

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