1887

Abstract

Designated strain K5 was isolated from soil on Jeju Island. The bacterium was aerobic, Gram-stain-negative, oxidase-positive, catalase-low activity, motile, short-rod shaped, opaque and formed white colonies that were circular, raised and had entire margins. Strain K5 was able to grow at 15–40 °C, pH 4–9 and at 0–2 % (w/v) NaCl concentration. Phylogenetic analysis based on its 16S rRNA gene sequences indicated that strain K5 is closely related to A15 (98.9 % sequence similarity), Sp-1 (98.7 %) and LM-6T (97.4 %). The sole respiratory quinone was determined to be ubiquinone-10. The dominant fatty acids of strain K5 were summed feature 8 (C ω / C ω, 29.8 %), C cyclo ω8 (20.2 %) and C (24.4 %). DNA G+C content was 63.6 % and DNA–DNA relatedness between strain K5 and other three members of the genus ranged from 24 to 28 %. The major polar lipids were identified as phosphatidylglycerol, phosphatidylethanolamine and aminolipids. Moreover, polyphasic characterization revealed that strain K5 represents a novel species in the genus for which the name sp. nov. is proposed. The type strain is K5 (=KCCM 43295=LMG 30611).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003872
2020-01-30
2020-02-28
Loading full text...

Full text loading...

References

  1. Sorokina AY, Chernousova EY, Dubinina GA. Ferrovibrio denitrificans gen. nov., sp. nov., a novel neutrophilic facultative anaerobic Fe(II)-oxidizing bacterium. FEMS Microbiol Lett 2012;335: 19– 25 [CrossRef]
    [Google Scholar]
  2. Song M, Zhang L, Sun B, Zhang H, Ding H et al. Ferrovibrio xuzhouensis sp. nov., a cyhalothrin-degrading bacterium isolated from cyhalothrin contaminated wastewater. Antonie van Leeuwenhoek 2015;108: 377– 382 [CrossRef]
    [Google Scholar]
  3. Dahal RH, Kim J. Ferrovibrio soli sp. nov., a novel cellulolytic bacterium isolated from stream bank soil. Int J Syst Evol Microbiol 2018;68: 427– 431 [CrossRef]
    [Google Scholar]
  4. Koh HW, Hong H, Min UG, Kang MS, Kim SG et al. Rhodanobacter aciditrophus sp. nov., an acidophilic bacterium isolated from mine wastewater. Int J Syst Evol Microbiol 2015;65: 4574– 4579 [CrossRef]
    [Google Scholar]
  5. Weisburg WG, Barns SM, Pelletier DA, Lane DJ. 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 1991;173: 697– 703 [CrossRef]
    [Google Scholar]
  6. Thompson J, 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]
    [Google Scholar]
  7. Kimura M. The neutral theory of molecular evolution and the world view of the neutralists. Genome 1989;31: 24– 31 [CrossRef]
    [Google Scholar]
  8. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016;33: 1870– 1874 [CrossRef]
    [Google Scholar]
  9. Chin CS, Alexander DH, Marks P, Klammer AA, Drake J et al. Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data. Nat Methods 2013;10: 563– 569 [CrossRef]
    [Google Scholar]
  10. Tatusova T, DiCuccio M, Badretdin A, Chetvernin V, Nawrocki EP et al. Ncbi prokaryotic genome annotation pipeline. Nucleic Acids Res 2016;44: 6614– 6624 [CrossRef]
    [Google Scholar]
  11. Parks DH, Imelfort M, Skennerton CT, Hugenholtz P, Tyson GW. CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res 2015;25: 1043– 1055 [CrossRef]
    [Google Scholar]
  12. Blin K, Shaw S, Steinke K, Villebro R, Ziemert N et al. antiSMASH 5.0: updates to the secondary metabolite genome mining pipeline. Nucleic Acids Res 2019;47: W81– W87 [CrossRef]
    [Google Scholar]
  13. 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]
  14. Webley DM, Farmer VC. A simple method for producing microcultures in hanging drops with special reference to organisms utilizing oils. J Gen Microbiol 1953;8: 66– 71 [CrossRef]
    [Google Scholar]
  15. Kim SJ, Park SJ, Cha IT, Min D, Kim JS et al. Metabolic versatility of toluene-degrading, iron-reducing bacteria in tidal flat sediment, characterized by stable isotope probing-based metagenomic analysis. Environ Microbiol 2014;16: 189– 204 [CrossRef]
    [Google Scholar]
  16. Smibert RM, Krieg NR. Phenotypic characterization In Gerhardt P, Murray RGE, Wood WA, Krieg NR. (editors) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994; pp 607– 654
    [Google Scholar]
  17. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc; 1990
    [Google Scholar]
  18. Komagata K, Suzuki K-I. Lipid and cell-wall analysis in bacterial Systematics. Methods Microbiol 1987;19: 161– 207
    [Google Scholar]
  19. Hu HY, Fujie K, Urano K. Development of a novel solid phase extraction method for the analysis of bacterial quinones in activated sludge with a higher reliability. J Biosci Bioeng 1999;87: 378– 382 [CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.003872
Loading
/content/journal/ijsem/10.1099/ijsem.0.003872
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF
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