1887

Abstract

The taxonomic status of a Gram-reaction-negative, aerobic, motile, rod-shaped bacterium, designated strain GH3-15, was examined by a polyphasic approach. The strain, which was isolated from the rhizosphere mudflat of a halophyte at the seashore of Gangwha Island, Republic of Korea, was found to belong to the family based on 16S rRNA gene sequences. The closest phylogenetic neighbour was SM1501 (98.3 % sequence similarity). Levels of 16S rRNA gene sequence similarity of strain GH3-15 to other members of the family were <97.1 %. The respiratory quinone was Q-10. The major fatty acids were Cω6, Cω7, C 2-OH, 11-methyl Cω7 and C. The polar lipids were phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol and sphingoglycolipid. The novel isolate exhibited growth at 20–40 °C, at pH 5–9, and in the presence of 1–7 % (w/v) NaCl. DNA relatedness between strain GH3-15 and its closet relative was 32.9±8.8 %. On the basis of phenotypic, chemotaxonomic and DNA–DNA hybridization data, in addition to a distinct phylogenetic position, strain GH3-15 (=KCTC 62380=JCM 32445) represents a novel species of the genus for which the name sp. nov. is proposed.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003625
2019-10-01
2019-10-21
Loading full text...

Full text loading...

References

  1. Shiba T, Simidu U. Erythrobacter longus gen. nov., sp. nov., an aerobic bacterium which contains bacteriochlorophyll a. Int J Syst Bacteriol 1982;32:211–217 [CrossRef]
    [Google Scholar]
  2. Lee KB, Liu CT, Anzai Y, Kim H, Aono T et al. The hierarchical system of the 'Alphaproteobacteria': description of Hyphomonadaceae fam. nov., Xanthobacteraceae fam. nov. and Erythrobacteraceae fam. nov. Int J Syst Evol Microbiol 2005;55:1907–1919 [CrossRef][PubMed]
    [Google Scholar]
  3. Kwon KK, Woo JH, Yang SH, Kang JH, Kang SG et al. Altererythrobacter epoxidivorans gen. nov., sp. nov., an epoxide hydrolase-active, mesophilic marine bacterium isolated from cold-seep sediment, and reclassification of Erythrobacter luteolus Yoon et al. 2005 as Altererythrobacter luteolus comb. nov. Int J Syst Evol Microbiol 2007;57:2207–2211 [CrossRef][PubMed]
    [Google Scholar]
  4. 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]
  5. Yoon JH, Kim H, Kim IG, Kang KH, Park YH. Erythrobacter flavus sp. nov., a slight halophile from the East Sea in Korea. Int J Syst Evol Microbiol 2003;53:1169–1174 [CrossRef][PubMed]
    [Google Scholar]
  6. Yoon JH, Kang KH, Oh TK, Park YH. Erythrobacter aquimaris sp. nov., isolated from sea water of a tidal flat of the Yellow Sea in Korea. Int J Syst Evol Microbiol 2004;54:1981–1985 [CrossRef][PubMed]
    [Google Scholar]
  7. Jung YT, Park S, Oh TK, Yoon JH. Erythrobacter marinus sp. nov., isolated from seawater. Int J Syst Evol Microbiol 2012;62:2050–2055 [CrossRef][PubMed]
    [Google Scholar]
  8. Lee YS, Lee DH, Kahng HY, Kim EM, Jung JS. Erythrobacter gangjinensis sp. nov., a marine bacterium isolated from seawater. Int J Syst Evol Microbiol 2010;60:1413–1417 [CrossRef][PubMed]
    [Google Scholar]
  9. Yoon BJ, Lee DH, Oh DC. Erythrobacter jejuensis sp. nov., isolated from seawater. Int J Syst Evol Microbiol 2013;63:1421–1426 [CrossRef][PubMed]
    [Google Scholar]
  10. Yoon JH, Oh TK, Park YH. Erythrobacter seohaensis sp. nov. and Erythrobacter gaetbuli sp. nov., isolated from a tidal flat of the Yellow Sea in Korea. Int J Syst Evol Microbiol 2005;55:71–75 [CrossRef][PubMed]
    [Google Scholar]
  11. Jung YT, Park S, Lee JS, Yoon JH. Erythrobacter lutimaris sp. nov., isolated from a tidal flat sediment. Int J Syst Evol Microbiol 2014;64:4184–4190 [CrossRef][PubMed]
    [Google Scholar]
  12. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997;24:4876–4882
    [Google Scholar]
  13. Phylip FJ. (Phylogeny Inference Package) Version 3.6a. Distributed by the Author Seattle, USA: Department of Genome Sciences, University of Washington; 2002
    [Google Scholar]
  14. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987;4:406–425 [CrossRef][PubMed]
    [Google Scholar]
  15. Jukes TH, Cantor CR. Evolution of protein molecules. In Munro HN. (editor) Mammalian Protein Metabolism New York: Academic Press; 1969; pp.21–132
    [Google Scholar]
  16. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39:783–791 [CrossRef][PubMed]
    [Google Scholar]
  17. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981;17:368–376 [CrossRef][PubMed]
    [Google Scholar]
  18. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971;20:406–416 [CrossRef]
    [Google Scholar]
  19. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009;106:19126–19131 [CrossRef][PubMed]
    [Google Scholar]
  20. Lee SD. Maribius pontilimi sp. nov., isolated from a tidal mudflat. Int J Syst Evol Microbiol 2018;68:353–357 [CrossRef][PubMed]
    [Google Scholar]
  21. Choi DH, Kim YG, Hwang CY, Yi H, Chun J et al. Tenacibaculum litoreum sp. nov., isolated from tidal flat sediment. Int J Syst Evol Microbiol 2006;56:635–640 [CrossRef][PubMed]
    [Google Scholar]
  22. Collins MD. Anaysis of isoprenoid quinones. Methods Microbiol 1985;18:329–366
    [Google Scholar]
  23. Kroppenstedt RM. Fatty acid and menaquinone analysis of actinomycetes and related organisms. In Goodfellow M, Minnikin DE. (editors) Chemical Methods in Bacterial Systematics London: Academic Press; 1985; pp.173–199
    [Google Scholar]
  24. 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]
  25. 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]
  26. Li D-D ZY-Q, Peng M, Wang N, Wang X-J et al. Erythrobacter xanthus sp. nov., isolated from surface water of the South China Sea. Int J Syst Evol Microbiol 2017;672:2459–2464
    [Google Scholar]
  27. 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]
  28. Hopwood DA, Bibb MJ, Chater KF, Kieser T, Bruton CJ et al. Genetic Manipulation of Streptomyces. A Laboratory Manual Norwich: John Innes Foundation; 1985
    [Google Scholar]
  29. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O et al. International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 1987;37:463–464
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.003625
Loading
/content/journal/ijsem/10.1099/ijsem.0.003625
Loading

Data & Media loading...

Supplements

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