1887

Abstract

A Gram-reaction-negative bacterial strain, designated GH1-19, was isolated from a tidal mudflat sample collected in Gangwha Island, Republic of Korea. Cells of the novel micro-organism were strictly aerobic, non-sporulating, motile and rod-shaped. Growth occurred at 10–40 °C (optimum, 30 °C), pH 6–9 (pH 8) and in the presence of 1–9 % NaCl (3 %). Comparative analysis of complete or nearly complete 16S rRNA gene sequences exhibited that strain GH1-19 formed a distinct cluster between CAU 1311 (97.42 % sequence similarity) and L1 8-17 (97.35 %). Similarity levels of 16S rRNA gene sequences between the novel strain and other members of the family were below 96.6 %. The isoprenoid quinone was Q-10. The major fatty acids were Cωc, C, summed feature 3 (C 7 and/or C 6) and C 3-OH. The polar lipids consisted of diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, an unidentified aminolipid, an unidentified phospholipid and an unidentified lipid. The G+C content of the DNA was 63.2 mol% (draft genome). DNA–DNA relatedness value between the novel strain and the type strain of was 12.7±9.0 %. On the basis of data from phenotypic, chemotaxonomic and DNA–DNA hybridization studies together with phylogenetic analyses, strain GH1-19 (=KCTC 62376=DSM 106292) represents a novel species of the genus , for which the name sp. nov. is proposed, with the emended description of the genus .

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003749
2020-02-03
2020-09-29
Loading full text...

Full text loading...

References

  1. Thongphrom C, Kim JW, Yoon JH, Bora N, Kim W. Marimonas arenosa gen. nov., sp. nov., isolated from sea sand. Int J Syst Evol Microbiol 2017; 67:121–126 [CrossRef]
    [Google Scholar]
  2. 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]
  3. Lane DJ. 16S/23S rRNA Sequencing. In Stackebrandt E, Goodfellow M. (editors) Nucleic Acid Techniques in Bacterial Systematics London: John Wiley and Sons; 1991 pp 115–144
    [Google Scholar]
  4. 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]
  5. Brosius J, Palmer ML, Kennedy PJ, Noller HF. Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli . Proc Natl Acad Sci USA 1978; 75:4801–4805 [CrossRef]
    [Google Scholar]
  6. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [CrossRef]
    [Google Scholar]
  7. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971; 20:406–416 [CrossRef]
    [Google Scholar]
  8. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [CrossRef]
    [Google Scholar]
  9. Felsenstein J. PHYLIP (phylogeny inference package) version 3.6a. Distributed by the author Seattle, USA: Department of Genome Sciences, University of Washington; 2002
    [Google Scholar]
  10. 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]
  11. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [CrossRef]
    [Google Scholar]
  12. Meier-Kolthoff JP, Göker M. TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. Nat Commun 2019; 10:2182 [CrossRef]
    [Google Scholar]
  13. Lefort V, Desper R, Gascuel O. FastME 2.0: a comprehensive, accurate, and fast distance-based phylogeny inference program. Mol Biol Evol 2015; 32:2798–2800 [CrossRef]
    [Google Scholar]
  14. Farris JS. Estimating phylogenetic trees from distance matrices. Am Nat 1972; 106:645–668 [CrossRef]
    [Google Scholar]
  15. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [CrossRef]
    [Google Scholar]
  16. 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]
  17. Lee SD. Maribius pontilimi sp. nov., isolated from a tidal mudflat. Int J Syst Evol Microbiol 2018; 68:353–357 [CrossRef]
    [Google Scholar]
  18. Seo SH, Lee SD. Altererythrobacter marensis sp. nov., isolated from seawater. Int J Syst Evol Microbiol 2010; 60:307–311 [CrossRef]
    [Google Scholar]
  19. Collins MD. Anaysis of isoprenoid quinones. Methods Microbiol 1985; 18:329–366
    [Google Scholar]
  20. 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]
  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. Minnikin DE, Patal 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]
  23. 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]
    [Google Scholar]
  24. 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]
  25. Feng T, Kim KH, Jeong SE, Kim W, Jeon CO. Aquicoccus porphyridii gen. nov., sp. nov., isolated from a small marine red alga, Porphyridium marinum . Int J Syst Evol Microbiol 2018; 68:283–288 [CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.003749
Loading
/content/journal/ijsem/10.1099/ijsem.0.003749
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited this month Most Cited RSS feed

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