1887

Abstract

A novel Gram-stain-positive, non-motile, non-spore-forming, coccobacillus-shaped, strictly aerobic bacterium, designated strain H23T48, was isolated from the faecal sample of an oriental stork collected from the Seoul Grand Park Zoo in Seoul, Republic of Korea. Optimal growth of strain H23T48 was observed at 30–37 °C, pH 8 and with 3 % (w/v) NaCl. 16S rRNA gene sequence-based phylogenetic analysis revealed that strain H23T48 was closely related to the genus , with 97.0 and 96.7 % sequence similarities to EBR4-1-2 and H5, respectively. Strain H23T48 possessed MK-9(H) as the major menaquinone and C (42.4 %), C 9 (31.3 %) and C (17.7 %) as the major cellular fatty acids. The polar lipids included phosphatidylglycerol, two unidentified lipids, six unidentified phospholipids and two unidentified glycophospholipids. The amino acid composition of the cell-wall peptidoglycan was alanine, lysine, glutamic acid, aspartic acid and glycine. The genomic G+C content of strain H23T48 is 59.5 mol% and the average nucleotide identity value between H23T48 and KCT C33148 (=EBR4-1-2) is 75.5 %. Based on the obtained data, strain H23T48 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is H23T48 (=KCTC 49253=JCM 33282).

Funding
This study was supported by the:
  • National Research Foundation of Korea (Award NRF-2020R1A2C3012797)
    • Principle Award Recipient: Jin-Woo Bae
  • National Research Foundation of Korea (Award NRF-2018R1A5A1025077)
    • Principle Award Recipient: Jin-Woo Bae
  • Ministry of Food and Drug Safety (Award 20172MFDS195)
    • Principle Award Recipient: Jin-Woo Bae
  • Ministry of Environment (MOE) of the Republic of Korea (Award NIBR201801106)
    • Principle Award Recipient: Jin-Woo Bae
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2020-09-04
2024-04-18
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References

  1. Bird Life International Ciconia boyciana. The IUCN red list of threatened species. IUCN 2018e.T22697695A131942061
    [Google Scholar]
  2. ZJ D, Miao TT, Lin XZ, Liul QQ, Chen GJ. Flaviflexus huanghaiensis gen. nov., sp nov., an actinobacterium of the family Actinomycetaceae . International Journal of Systematic and Evolutionary Microbiology 2013; 63:1863–1867
    [Google Scholar]
  3. Jin L, Ko S-R, Lee H-G, Kim B-H, Kim H-S, SR K, Kim HS et al. Flaviflexus salsibiostraticola sp. nov., an actinobacterium isolated from a biofilm reactor. Int J Syst Evol Microbiol 2014; 64:3293–3296 [View Article]
    [Google Scholar]
  4. Lawson PA, Falsen E, Akervall E, Vandamme P, Collins MD. Characterization of some actinomyces-like isolates from human clinical specimens: reclassification of Actinomyces suis (Soltys and Spratling) as Actinobaculum suis comb. nov. and description of Actinobaculum schaalii sp. nov. Int J Syst Bacteriol 1997; 47:899–903 [View Article]
    [Google Scholar]
  5. Schaal KP, Yassin AF, Stackebrandt E. The Family Actinomycetaceae: The Genera Actinomyces, Actinobaculum, Arcanobacterium, Varibaculum, and Mobiluncus. The Prokaryotes Springer New York; 2006 pp 430–537
    [Google Scholar]
  6. Yassin AF, Hupfer H, Siering C, Schumann P. Comparative chemotaxonomic and phylogenetic studies on the genus Arcanobacterium Collins et al. 1982 emend. Lehnen et al. 2006: proposal for Trueperella gen. nov. and emended description of the genus Arcanobacterium . Int J Syst Evol Microbiol 2011; 61:1265–1274 [View Article]
    [Google Scholar]
  7. Hoyles L, Collins MD, Falsen E, Nikolaitchouk N, McCartney AL. Transfer of members of the genus Falcivibrio to the genus Mobiluncus, and emended description of the genus Mobiluncus . Syst Appl Microbiol 2004; 27:72–83 [View Article]
    [Google Scholar]
  8. Hall V, Collins MD, Lawson PA, Hutson RA, Falsen E et al. Characterization of some actinomyces-like isolates from human clinical sources: description of Varibaculum cambriensis gen. nov., sp. nov. J Clin Microbiol 2003; 41:640–644 [View Article]
    [Google Scholar]
  9. Lane DJ. 16S/23S rRNA sequencing. In Stackebrandt E, Goodfellow M. (editors) Nucleic Acid Techniques in Bacterial Systematics New York: Wiley; 1991 pp 115–175
    [Google Scholar]
  10. Yoon S-H, Ha S-M, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically United database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67:1613–1617 [View Article]
    [Google Scholar]
  11. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994; 22:4673–4680 [View Article]
    [Google Scholar]
  12. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425
    [Google Scholar]
  13. Tamura K, Nei M. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 1993; 10:512–526
    [Google Scholar]
  14. Nei M, Kumar S. Molecular Evolution and Phylogenetics Oxford; New York: Oxford University Press; 2000
    [Google Scholar]
  15. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [View Article]
    [Google Scholar]
  16. Tittsler RP, Sandholzer LA. The use of semi-solid agar for the detection of bacterial Motility1. J Bacteriol 1936; 31:575–580 [View Article]
    [Google Scholar]
  17. Schaeffer AB, Fulton MD. A simplified method of staining endospores. Science 1933; 77:194 [View Article]
    [Google Scholar]
  18. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI, Inc; 1990
    [Google Scholar]
  19. MIDI Sherlock Microbial Identification System Operating Manual, Version 3.0 Newark, DE: MIDI, Inc; 1999
    [Google Scholar]
  20. Kim S-J, Cho H, Ahn J-H, Weon H-Y, Joa J-H et al. Paenibacillus nuruki sp. nov., isolated from Nuruk, a Korean fermentation starter. J Microbiol. 2019; 57:836–841 [View Article]
    [Google Scholar]
  21. Collins MD, Jones D. A note on the separation of natural mixtures of bacterial ubiquinones using reverse-phase partition thin-layer chromatography and high performance liquid chromatography. J Appl Bacteriol 1981; 51:129–134 [View Article]
    [Google Scholar]
  22. Xin H, Itoh T, Zhou P, Suzuki K, Kamekura M et al. Natrinema versiforme sp. nov., an extremely halophilic archaeon from Aibi salt lake, Xinjiang, China. Int J Syst Evol Microbiol 2000; 50:1297–1303 [View Article]
    [Google Scholar]
  23. Tindall BJ. Lipid composition of Halobacterium lacusprofundi . FEMS Microbiol Lett 1990; 66:199–202 [View Article]
    [Google Scholar]
  24. Kim J, Kim JY, Song HS, Cha I-T, Roh SW et al. Paracoccus jeotgali sp. nov., isolated from Korean salted and fermented shrimp. J Microbiol 2019; 57:444–449 [View Article]
    [Google Scholar]
  25. Oh YJ, Kim JY, Jo HE, Park HK, Lim SK et al. Lentibacillus cibarius sp. nov., isolated from kimchi, a Korean fermented food. J Microbiol 2020; 58:387-394 [View Article][PubMed]
    [Google Scholar]
  26. Bousfield GR, Sugino H, Ward DN. Demonstration of a COOH-terminal extension on equine lutropin by means of a common acid-labile bond in equine lutropin and equine chorionic gonadotropin. J Biol Chem 1985; 260:9531–9533
    [Google Scholar]
  27. Brettin T, Davis JJ, Disz T, Edwards RA, Gerdes S et al. RASTtk: a modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes. Sci Rep 2015; 5:8365 [View Article]
    [Google Scholar]
  28. Yoon S-H, Ha S-min, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek 2017; 110:1281–1286 [View Article]
    [Google Scholar]
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