1887
  1. Home
  2. Publications
  3. International Journal of Systematic and Evolutionary Microbiology
  4. Volume 67, Issue 8
  5. Article

f Adhaeribacter terrae sp. nov., a novel bacterium isolated from soil

PDF
200.55 Kb
HTML
54.65 Kb
  • Received:
  • Accepted:
  • Cover date:
Preview this:
Free Preview thumbnail Magnify
Zoom in
Zoomout

Adhaeribacter terrae sp. nov., a novel bacterium isolated from soil, Page 1 of 1

| /docserver/preview/fulltext/ijsem/67/8/2922_ijsem002048-1.gif

  • Strain HY02 was isolated from a soil sample collected at Namyangju-si, Gyeonggi-do, Republic of Korea. Cells of this strain were observed to be Gram-stain-negative, short and rod-shaped. Colonies were red in colour. A 16S rRNA gene sequence analysis identified this strain as a member of the genus Adhaeribacter in the family Cytophagaceae , with the highest level of 16S rRNA gene sequence similarity to Adhaeribacter terreus DNG6 (98.08 %). This strain was positive for oxidase but negative for catalase activity and acid production from glucose. Growth of strain HY02 was observed at 15–30 °C, pH 7–8 and in the presence of 0–1 % NaCl. The isolate contained MK-7 as the predominant respiratory quinone, and C18 : 0, iso-C15 : 0, summed feature 4 (anteiso-C17 : 1 B/iso-C17 : 1 I) and C16 : 0 were the major fatty acids. The major polar lipid was phosphatidylethanolamine. The genomic DNA G+C content of strain HY02 was 44.0 mol%. Phenotypic and chemotaxonomic data supported the affiliation of strain HY02 with the genus Adhaeribacter . However, strain HY02 exhibited a relatively low level of DNA–DNA relatedness with A. terreus (16.3±3.5 %). Based on its phenotypic and genotypic properties, together with its phylogenetic distinctiveness, strain HY02 should be considered a representative of a novel species in the genus Adhaeribacter , for which the name Adhaeribacter terrae sp. nov. is proposed. The type strain is HY02 (=KCTC 52512=JCM 31652).

  • The NCBI GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of strain HY02 is LC177335.1.

  • Two supplementary figures are available with the online Supplementary Material.

© 2017 IUMS | Published by the Microbiology Society

  • 1. Rickard AH, Stead AT, O'May GA, Lindsay S, Banner M et al. Adhaeribacter aquaticus gen. nov., sp. nov., a Gram-negative isolate from a potable water biofilm. Int J Syst Evol Microbiol 2005;55:821–829 [CrossRef][PubMed]
     [Google Scholar]
  • 2. Zhang JY, Liu XY, Liu SJ. Adhaeribacter terreus sp. nov., isolated from forest soil. Int J Syst Evol Microbiol 2009;59:1595–1598 [CrossRef][PubMed]
     [Google Scholar]
  • 3. Weon HY, Kwon SW, Son JA, Kim SJ, Kim YS et al. Adhaeribacter aerophilus sp. nov., Adhaeribacter aerolatus sp. nov. and Segetibacter aerophilus sp. nov., isolated from air samples. Int J Syst Evol Microbiol 2010;60:2424–2429 [CrossRef][PubMed]
     [Google Scholar]
  • 4. Weisburg WG, Barns SM, Pelletier DA, Lane DJ. 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 1991;173:697–703 [CrossRef][PubMed]
     [Google Scholar]
  • 5. Hall TA. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp Ser 1999;41:95–98
     [Google Scholar]
  • 6. 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 [CrossRef][PubMed]
     [Google Scholar]
  • 7. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987;4:406–425[PubMed]
     [Google Scholar]
  • 8. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981;17:368–376 [CrossRef][PubMed]
     [Google Scholar]
  • 9. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971;20:406–416 [CrossRef]
     [Google Scholar]
  • 10. 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][PubMed]
     [Google Scholar]
  • 11. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39:783–791 [CrossRef][PubMed]
     [Google Scholar]
  • 12. 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[CrossRef]
     [Google Scholar]
  • 13. Stackebrandt E, Goebel BM. Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the Present Species Definition in Bacteriology. Int J Syst Evol Microbiol 1994;44:846–849 [CrossRef]
     [Google Scholar]
  • 14. 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; 1992; pp.607–654
     [Google Scholar]
  • 15. Tittsler RP, Sandholzer LA. The use of semi-solid agar for the detection of bacterial motility. J Bacteriol 1936;31:575–580[PubMed]
     [Google Scholar]
  • 16. Agarwal S, Hunnicutt DW, Mcbride MJ. Cloning and characterization of the Flavobacterium johnsoniae (Cytophaga johnsonae) gliding motility gene, gldA. Proc Natl Acad Sci USA 1997;94:12139–12144 [CrossRef][PubMed]
     [Google Scholar]
  • 17. Bernardet JF, Nakagawa Y, Holmes B.Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 2002;52:1049–1070 [CrossRef][PubMed]
     [Google Scholar]
  • 18. Cappuccino JG, Sherman N. Microbiology: A Laboratory Manual, 9th ed. San Francisco, CA: Benjamin Cummings; 2010
     [Google Scholar]
  • 19. Tindall JB, Sikorski J, Simbert AR, Krieg RN. Phenotypic characterization and the principles of comparative systematics. In Reddy CA, Beveridge TJ, Breznak JA, Marzluf GA, Schmidt TM. et al. (editors) Methods for General and Molecular Microbiology, 3rd ed. Washington, DC: American Society for Microbiology; 2007; pp.330–393
     [Google Scholar]
  • 20. Wilson K. Preparation of genomic DNA from bacteria. In Ausubel FM. (editor) Current Protocols in Molecular Biology New York, NY: Jonh Wiley & Sons, Inc; 1997; pp.2.4.1–2.4.2
     [Google Scholar]
  • 21. 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 [CrossRef]
     [Google Scholar]
  • 22. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Netwark, DE: MIDI Inc; 1990
     [Google Scholar]
  • 23. 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]
  • 24. Komagata K, Suzuki KI. Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 1987;19:161–205[CrossRef]
     [Google Scholar]
  • 25. Kang JY, Chun J, Jahng KY. Nibribacter koreensis gen. nov., sp. nov., isolated from estuarine water. Int J Syst Evol Microbiol 2013;63:4663–4668 [CrossRef][PubMed]
     [Google Scholar]
  • 26. 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 [CrossRef]
     [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. Montero-Calasanz MC, Göker M, Rohde M, Spröer C, Schumann P et al. Chryseobacterium hispalense sp. nov., a plant-growth-promoting bacterium isolated from a rainwater pond in an olive plant nursery, and emended descriptions of Chryseobacterium defluvii, Chryseobacterium indologenes, Chryseobacterium wanjuense and Chryseobacterium gregarium. Int J Syst Evol Microbiol 2013;63:4386–4395 [CrossRef][PubMed]
     [Google Scholar]
http://sgm.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.002048
Loading

Supplementary Data

 Data loading....

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.002048
2017-08-18
2019-02-16
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/67/8/2922.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.002048&mimeType=html&fmt=ahah

Author and Article Information

 Figure data loading....

Footnotes:

Validated antibodies in this article

This is a required field
Please enter a valid email address
Please check the format of the address you have entered.
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error