1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 70, Issue 4

sp. nov., isolated from from lake sediment Free

Abstract

An aerobic and Gram-stain-negative bacterial strain, designated UKS-15, was isolated from lake water in the Republic of Korea. Results of 16S rRNA gene sequence and phylogenetic analyses indicated that the novel isolate belongs to the genus and was most closely related to RCML-52 (98.0 %), 9 NM-14 (97.4 %) and FJY8 (97.2 %). The DNA G+C content was 69.1 mol%. Strain UKS-15 possessed ubiquinone-8 (Q-8) as the sole respiratory quinone and the fatty acid profile comprised iso-C, iso-C and summed feature 9 (iso-C ω9 and/or C 10-methyl) as its major components. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and one unidentified aminophospholipid. Moreover, the physiological and biochemical results and low level of DNA–DNA relatedness (<22.0 %) allowed the phenotypic and genotypic differentiation of strain UKS-15 from other species. Therefore, on the basis of the data from this polyphasic taxonomic study, strain UKS-15 should represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is UKS-15 (=JCM 30983=KACC 18719).

  • Received:
  • Accepted:
  • Revised:
  • Published Online:
Keyword(s): 16S rRNA gene , draft genome , Lysobacter lacus and polyphasic taxonomy
Funding
This study was supported by the:
  • This work was supported by the project on survey and excavation of Korean indigenous species of the National Institute of Biological Resources (NIBR) under the Ministry of Environment, by a grant from KRIBB Research Initiative Program, and by Korea Research Fellowship of Korea (NRF) funded by the Ministry of Science and ICT (project no. 2019H1D3A1A02070958). (Award 2019H1D3A1A02070958)
    • Principle Award Recipient: Wan-Taek Im
© 2020 The Authors
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003950
2020-03-02
2024-04-19
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/70/4/2211.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.003950&mimeType=html&fmt=ahah

References

  1. Christensen P, COOK FD. Lysobacter, a new genus of Nonfruiting, gliding bacteria with a high base ratio. Int J Syst Bacteriol 1978; 28:367–393 [View Article]
     [Google Scholar]
  2. Park JH, Kim R, Aslam Z, Jeon CO, Chung YR. Lysobacter capsici sp. nov., with antimicrobial activity, isolated from the rhizosphere of pepper, and emended description of the genus Lysobacter . Int J Syst Evol Microbiol 2008; 58:387–392 [View Article]
     [Google Scholar]
  3. Wang Y, Dai J, Zhang L, Luo X, Li Y et al. Lysobacter ximonensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 2009; 59:786–789 [View Article]
     [Google Scholar]
  4. Sullivan RF, Holtman MA, Zylstra GJ, White JF, Kobayashi DY. Taxonomic positioning of two biological control agents for plant diseases as Lysobacter enzymogenes based on phylogenetic analysis of 16S rDNA, fatty acid composition and phenotypic characteristics. J Appl Microbiol 2003; 94:1079–1086 [View Article]
     [Google Scholar]
  5. Yang S-Z, Feng G-D, Zhu H-H, Wang Y-H. Lysobacter mobilis sp. nov., isolated from abandoned lead-zinc ore. Int J Syst Evol Microbiol 2015; 65:833–837 [View Article]
     [Google Scholar]
  6. Siddiqi MZ, Im W-T. Lysobacter hankyongensis sp. nov., isolated from activated sludge and Lysobacter sediminicola sp. nov., isolated from freshwater sediment. Int J Syst Evol Microbiol 2016a; 66:212–218 [View Article]
     [Google Scholar]
  7. Siddiqi MZ, Im W-T. Lysobacter pocheonensis sp. nov., isolated from soil of a ginseng field. Arch Microbiol 2016b; 198:551–557 [View Article]
     [Google Scholar]
  8. Lee D, Jang JH, Cha S, Seo T. Lysobacter humi sp. nov., isolated from soil. Int J Syst Evol Microbiol 2017; 67:951–955 [View Article]
     [Google Scholar]
  9. Ye X-M, Chu C-W, Shi C, Zhu J-C, He Q et al. Lysobacter caeni sp. nov., isolated from the sludge of a pesticide manufacturing factory. Int J Syst Evol Microbiol 2015; 65:845–850 [View Article]
     [Google Scholar]
  10. Siddiqi MZ, Shafi SM, Im W-T, Muhammad Shafi S, WT I. Complete genome sequencing of Arachidicoccus ginsenosidimutans sp. nov., and its application for production of minor ginsenosides by finding a novel ginsenoside-transforming β-glucosidase. RSC Adv 2017; 7:46745–46759 [View Article]
     [Google Scholar]
  11. 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]
  12. 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 [View Article]
     [Google Scholar]
  13. Hall TA. BioEdit: a user-friendly biological sequence alignment editor and analysis program for windows 95/98/NT. Nucleic Acids Symp Ser 1999; 41:95–98
     [Google Scholar]
  14. Kimura M. The Neutral Theory of Molecular Evolution Cambridge: Cambridge Universite Press; 1983
     [Google Scholar]
  15. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [View Article]
     [Google Scholar]
  16. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971; 20:406–416 [View Article]
     [Google Scholar]
  17. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30:2725–2729 [View Article]
     [Google Scholar]
  18. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article]
     [Google Scholar]
  19. Buck JD, Nonstaining BJD. Nonstaining (KOH) method for determination of gram reactions of marine bacteria. Appl Environ Microbiol 1982; 44:992–993
     [Google Scholar]
  20. Webley DM. A simple method for producing microcultures in hanging drops with special reference to organisms utilizing oils. J Gen Microbiol 1953; 8:66–71 [View Article]
     [Google Scholar]
  21. Cappuccino JG, Sherman N. Microbiology, A Laboratory Manual, 6th ed. California: Pearson Education, Inc; 2002
     [Google Scholar]
  22. Moore DD, Dowhan D. Preparation and analysis of DNA. Current protocols in molecular biology 19952.0.1-2.0.3
     [Google Scholar]
  23. Mesbah M, Premachandran U, Whitman WB. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 1989; 39:159–167 [View Article]
     [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 [View Article]
     [Google Scholar]
  25. Hiraishi A, Ueda Y, Ishihara J, Mori T. Comparative lipoquinone analysis of influent sewage and activated sludge by high-performance liquid chromatography and photodiode array detection. J Gen Appl Microbiol 1996; 42:457–469 [View Article]
     [Google Scholar]
  26. Sasser M. Identification of bacteria through fatty acid analysis. Methods in Phytobacteriol 1990199–204
     [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 [View Article]
     [Google Scholar]
  28. 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]
  29. Liu M, Liu Y, Wang Y, Luo X, Dai J et al. Lysobacter xinjiangensis sp. nov., a moderately thermotolerant and alkalitolerant bacterium isolated from a gamma-irradiated sand soil sample. Int J Syst Evol Microbiol 2011; 61:433–437 [View Article]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.003950
Loading
Lysobacter lacus sp. nov., isolated from from lake sediment
Int J Syst Evol Microbiol 70, 2211 (2020); https://doi.org/10.1099/ijsem.0.003950
/content/journal/ijsem/10.1099/ijsem.0.003950
/content/journal/ijsem/10.1099/ijsem.0.003950
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited 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