1887

International Journal of Systematic and Evolutionary Microbiology

Volume 67, Issue 6

Photobacterium alginatilyticum sp. nov., a marine bacterium isolated from bottom seawater Free

Abstract

A Gram-straining-negative, facultatively aerobic, rod-shaped strain, motile by a polar flagellum and designated P03D4, was isolated from the bottom seawater of the East China Sea. Growth occurred at 10–50 °C (optimum 32 °C), pH 5.0–10.0 (optimum pH 6.0) and in the presence of 1–7 % (w/v) NaCl (optimum 3 %). Phylogenetic analysis based on 16S rRNA gene sequence placed P03D4 within the genus Photobacterium of the family Vibrionaceae in the class Gammaproteobacteria , and revealed that strain P03D4 was most closely related to Photobacterium frigidiphilum SL13 with 96.9 % sequence similarity and had sequence similarities with other species of the genus Photobacterium in the range 94.6–96.9 %. The dominant fatty acids were summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH) and C16 : 0. The polar lipids of strain P03D4 comprised phosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine and one unknown lipid. The major respiratory quinone was ubiquinone-8 (Q-8). The DNA G+C content of strain P03D4 was 44.3 mol%. On the basis of the evidence from this polyphasic study, strain P03D4 is proposed as representing a novel species of the genus Photobacterium , for which the name Photobacterium alginatilyticum sp. nov. is proposed. The type strain is P03D4 (=KCTC 52365=MCCC 1K03200=CGMCC 1.15764).

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): bottom seawater , Photobacterium alginatilyticum and the East China Sea
© 2017 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001886
2017-06-14
2019-10-14

  • From This Site

    /content/journal/ijsem/10.1099/ijsem.0.001886
    dcterms_title,dcterms_subject,pub_keyword
    10
    5
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/67/6/1912.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001886&mimeType=html&fmt=ahah

References

  1. Beijerinck M. Le Photobacterium luminosum, bactérie lumineuse de la mer Du nord. Arch Neerl Sci Exactes Nat 1889;23:401–427
     [Google Scholar]
  2. Reichelt JL, Baumann P. Taxonomy of the marine, luminous bacteria. Arch Mikrobiol 1973;94:283–330 [CrossRef]
     [Google Scholar]
  3. Boisvert H, Chatelain R, Bassot JM. Étude d’un Photobacterium isolé de l’organe lumineux de poissons Leiognathidae. Ann Inst Pasteur 1967;112:520–524
     [Google Scholar]
  4. Reichelt JL, Baumann P, Baumann L. Study of genetic relationships among marine species of the genera Beneckea and Photobacterium by means of in vitro DNA/DNA hybridization. Arch Microbiol 1976;110:101–120 [CrossRef][PubMed]
     [Google Scholar]
  5. Park YD, Baik KS, Seong CN, Bae KS, Kim S et al. Photobacterium ganghwense sp. nov., a halophilic bacterium isolated from sea water. Int J Syst Evol Microbiol 2006;56:745–749 [CrossRef][PubMed]
     [Google Scholar]
  6. Ast JC, Cleenwerck I, Engelbeen K, Urbanczyk H, Thompson FL et al. Photobacterium kishitanii sp. nov., a luminous marine bacterium symbiotic with deep-sea fishes. Int J Syst Evol Microbiol 2007;57:2073–2078 [CrossRef][PubMed]
     [Google Scholar]
  7. Yoshizawa S, Wada M, Kita-Tsukamoto K, Yokota A, Kogure K. Photobacterium aquimaris sp. nov., a luminous marine bacterium isolated from seawater. Int J Syst Evol Microbiol 2009;59:1438–1442 [CrossRef][PubMed]
     [Google Scholar]
  8. Lucena T, Ruvira MA, Pascual J, Garay E, Macián MC et al. Photobacterium aphoticum sp. nov., isolated from coastal water. Int J Syst Evol Microbiol 2011;61:1579–1584 [CrossRef][PubMed]
     [Google Scholar]
  9. Gomez-Gil B, Roque A, Rotllant G, Peinado L, Romalde JL et al. Photobacterium swingsii sp. nov., isolated from marine organisms. Int J Syst Evol Microbiol 2011;61:315–319 [CrossRef][PubMed]
     [Google Scholar]
  10. Chimetto LA, Cleenwerck I, Thompson CC, Brocchi M, Willems A et al. Photobacterium jeanii sp. nov., isolated from corals and zoanthids. Int J Syst Evol Microbiol 2010;60:2843–2848 [CrossRef][PubMed]
     [Google Scholar]
  11. Kim YO, Kim KK, Park S, Kang SJ, Lee JH et al. Photobacterium gaetbulicola sp. nov., a lipolytic bacterium isolated from a tidal flat sediment. Int J Syst Evol Microbiol 2010;60:2587–2591 [CrossRef][PubMed]
     [Google Scholar]
  12. Deep K, Poddar A, das SK. Photobacterium panuliri sp. nov., an alkalitolerant marine bacterium isolated from eggs of spiny lobster, Panulirus penicillatus from Andaman sea. Curr Microbiol 2014;69:660–668 [CrossRef][PubMed]
     [Google Scholar]
  13. 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]
  14. Nogi Y, Masui N, Kato C. Photobacterium profundum sp. nov., a new, moderately barophilic bacterial species isolated from a deep-sea sediment. Extremophiles 1998;2:1–8 [CrossRef][PubMed]
     [Google Scholar]
  15. Beveridge T, Lawrence J, Murray R. Sampling and staining for light microscopy. In Reddy CA, Beveridge TJ, Breznak JA, Marzluf G, Schmidt TM, Snyder LR. et al. (editors) Methods for General and Molecular Microbiology Washington, DC: American Society for Microbiology; 2007; pp.19–33
     [Google Scholar]
  16. Bernardet JF, Nakagawa Y, Holmes B.Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 2002;52:1049–1070 [CrossRef][PubMed]
     [Google Scholar]
  17. Trick CG. Hydroxamate-siderophore production and utilization by marine eubacteria. Curr Microbiol 1989;18:375–378 [CrossRef]
     [Google Scholar]
  18. Tindall BJ, Sikorski J, Smibert RM, Krieg NR. Phenotypic characterization and the principles of comparative systematics. In Reddy CA, Beveridge TJ, Breznak JA, Marzluf G, Schmidt TM, Snyder LR. et al. (editors) Methods for General and Molecular Microbiology Washington, DC: American Society for Microbiology; 2007; pp.330–393
     [Google Scholar]
  19. Yoon JH, Lee KC, Kho YH, Kang KH, Kim CJ et al. Halomonas alimentaria sp. nov., isolated from jeotgal, a traditional Korean fermented seafood. Int J Syst Evol Microbiol 2002;52:123–130 [CrossRef][PubMed]
     [Google Scholar]
  20. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc; 1990
     [Google Scholar]
  21. 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]
  22. Collins MD, Shah HN. Fatty acid, menaquinone and polar lipid composition of Rothia dentocariosa. Arch Microbiol 1984;137:247–249 [CrossRef]
     [Google Scholar]
  23. Komagata K, Suzuki K. Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 1988;19:161–207[CrossRef]
     [Google Scholar]
  24. Xie CH, Yokota A. Phylogenetic analyses of Lampropedia hyalina based on the 16S rRNA gene sequence. J Gen Appl Microbiol 2003;49:345–349 [CrossRef][PubMed]
     [Google Scholar]
  25. Moore ERB, Arnscheidt A, Krüger A, Strömpl C, Mau M et al. Simplified protocols for the preparation of genomic DNA from bacterial cultures. In Akkermans ADL, van Elsas JD, de Bruijn FJ. (editors) Molecular Microbial Ecology Manual 1.6vol. 1 Kluwer: Dordrecht; 1999; pp.1–15
     [Google Scholar]
  26. Mesbah M, Whitman WB. Measurement of deoxyguanosine/thymidine ratios in complex mixtures by high-performance liquid chromatography for determination of the mole percentage guanine + cytosine of DNA. J Chromatogr 1989;479:297–306 [CrossRef][PubMed]
     [Google Scholar]
  27. Baumann P, Baumann L. Genus II. Photobacterium Beijerinck 1889, 401AL. In Krieg NR, Holt JG. (editors) Bergey’s Manual of Systematic Bacteriologyvol. 1 Baltimore: Williams & Wilkins; 1984; pp.539–545
     [Google Scholar]
  28. Ausubel F, Brent R, Kingston R, Moore D, Seidman J et al. Short Protocols in Molecular Biology: A Compendium of Methods From Current Protocols in Molecular Biology, 3rd ed. New York: Wiley; 1995
     [Google Scholar]
  29. Zhang Z, Yu T, Xu T, Zhang XH. Aquimarina pacifica sp. nov., isolated from seawater. Int J Syst Evol Microbiol 2014;64:1991–1997 [CrossRef][PubMed]
     [Google Scholar]
  30. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M et al. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 2012;62:716–721 [CrossRef][PubMed]
     [Google Scholar]
  31. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997;25:4876–4882 [CrossRef][PubMed]
     [Google Scholar]
  32. Tamura K, Peterson D, Peterson N, Stecher G, Nei M et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011;28:2731–2739 [CrossRef][PubMed]
     [Google Scholar]
  33. Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 1980;16:111–120 [CrossRef][PubMed]
     [Google Scholar]
  34. 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]
  35. Seo HJ, Bae SS, Lee JH, Kim SJ. Photobacterium frigidiphilum sp. nov., a psychrophilic, lipolytic bacterium isolated from deep-sea sediments of Edison Seamount. Int J Syst Evol Microbiol 2005;55:1661–1666 [CrossRef][PubMed]
     [Google Scholar]
  36. Seo HJ, Bae SS, Yang SH, Lee JH, Kim SJ. Photobacterium aplysiae sp. nov., a lipolytic marine bacterium isolated from eggs of the sea hare Aplysia kurodai. Int J Syst Evol Microbiol 2005;55:2293–2296 [CrossRef][PubMed]
     [Google Scholar]
  37. Yoon JH, Lee JK, Kim YO, Oh TK. Photobacterium lipolyticum sp. nov., a bacterium with lipolytic activity isolated from the Yellow Sea in Korea. Int J Syst Evol Microbiol 2005;55:335–339 [CrossRef][PubMed]
     [Google Scholar]
  38. Johnson RM, Weisrock WP. Hyphomicrobium indicum sp. nov. (Hyphomicrobiaceae Douglas). Int J Syst Bacteriol 1969;19:295–307 [CrossRef]
     [Google Scholar]
  39. Xie CH, Yokota A. Transfer of Hyphomicrobium indicum to the genus Photobacterium as Photobacterium indicum comb. nov. Int J Syst Evol Microbiol 2004;54:2113–2116 [CrossRef][PubMed]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001886
Loading
Photobacterium alginatilyticum sp. nov., a marine bacterium isolated from bottom seawater
Int J Syst Evol Microbiol 67, 1912 (2017); https://doi.org/10.1099/ijsem.0.001886
/content/journal/ijsem/10.1099/ijsem.0.001886
/content/journal/ijsem/10.1099/ijsem.0.001886
Loading

Data & Media loading...

Supplementary File 1

PDF

Most Cited This Month

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error