1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 66, Issue 8

sp. nov., an agar-degrading bacterium isolated from a tidal flat Free

Abstract

A Gram-reaction-negative, aerobic, non-spore forming, rod-shaped bacterium motile with a single polar flagellum, designated strain hydD622, was isolated from the sediment of a tidal flat at Asan Bay, Korea. Strain hydD622 exhibited an agarolytic activity. Comparison of 16S rRNA gene sequences revealed that strain hydD622 was closely related to KCTC 42116, KCTC 22256 and KCTC 32555 with similarities of 98.4, 98.0 and 96.5 %, respectively. Strain hydD622 was clustered distantly from the other genera in the family but formed a unique clade within the genus based on the 16S rRNA gene sequence. The DNA–DNA relatedness with KCTC 42116 and KCTC 22256 was 39.0 and 37.8 %, respectively. The major fatty acids (>10 %) were C,Cω6/Cω7 and Cω6/Cω7. The respiratory quinone was ubiquinone-8, and the polar lipid profile consisted of phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol and an unidentified lipid. The DNA G+C content was 44 mol%. On the basis of physiological, chemotaxonomic and phylogenetic analyses, strain hydD622 represents a novel species within the genus , for which the name sp. nov. is proposed. The type strain of sp. nov. is hydD622 (=KCTC 32543=CGMCC 1.12692).

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): agarolytic , taxonomy and tidal flat
© 2016 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001155
2016-08-01
2024-04-19
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/66/8/3119.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001155&mimeType=html&fmt=ahah

References

  1. Bates R. G., Bower V. E. 1956; Alkaline solutions for pH control. Anal Chem 28:1322–1324 [CrossRef]
     [Google Scholar]
  2. Buck J. D. 1982; Nonstaining (KOH) method for determination of gram reactions of marine bacteria. Appl Environ Microbiol 44:992–993[PubMed]
     [Google Scholar]
  3. Chen W. P., Kuo T. T. 1993; A simple and rapid method for the preparation of gram-negative bacterial genomic DNA. Nucleic Acids Res 21:2260 [View Article]
     [Google Scholar]
  4. Chi W. J., Chang Y. K., Hong S. K. 2012; Agar degradation by microorganisms and agar-degrading enzymes. Appl Microbiol Biotechnol 94:917–930 [View Article][PubMed]
     [Google Scholar]
  5. Du Z. J., Lv G. Q., Rooney A. P., Miao T. T., Xu Q. Q., Chen G. J. 2011; Agarivorans gilvus sp. nov. isolated from seaweed. Int J Syst Evol Microbiol 61:493–496 [View Article][PubMed]
     [Google Scholar]
  6. Ezaki T., Hashimoto Y., Yabuuchi E. 1989; 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 Evol Microbiol 39:224–229
     [Google Scholar]
  7. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376[PubMed] [CrossRef]
     [Google Scholar]
  8. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
     [Google Scholar]
  9. Fitch W. M. 1971; Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416 [CrossRef]
     [Google Scholar]
  10. Gomori G. 1955; Preparation of buffers for use in enzyme studies. Methods Enzymol 1:138–146 [CrossRef]
     [Google Scholar]
  11. Hall T. A. 1999; BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp Ser 41:95–98
     [Google Scholar]
  12. Janssen P. H., Yates P. S., Grinton B. E., Taylor P. M., Sait M. 2002; Improved culturability of soil bacteria and isolation in pure culture of novel members of the divisions Acidobacteria, Actinobacteria, Proteobacteria, and Verrucomicrobia . Appl Environ Microbiol 68:2391–2396 [View Article][PubMed]
     [Google Scholar]
  13. Kim K. K., Lee J. S., Lee K. C., Oh H. M., Kim S. G. 2010; Pontibaca methylaminivorans gen. nov., sp. nov., a member of the family Rhodobacteraceae . Int J Syst Evol Microbiol 60:2170–2175 [View Article][PubMed]
     [Google Scholar]
  14. Kim S. G., Bae H. S., Lee S. T. 2001; A novel denitrifying bacterial isolate that degrades trimethylamine both aerobically and anaerobically via two different pathways. Arch Microbiol 176:271–277 [View Article][PubMed]
     [Google Scholar]
  15. Kurahashi M., Yokota A. 2004; Agarivorans albus gen. nov., sp. nov., a gamma-proteobacterium isolated from marine animals. Int J Syst Evol Microbiol 54:693–697 [View Article][PubMed]
     [Google Scholar]
  16. Mesbah M., Premachandran U., Whitman W. B. 1989; Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39:159–167 [CrossRef]
     [Google Scholar]
  17. Minnikin D. E., O'Donnell A. G., Goodfellow M. 1984; An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241 [CrossRef]
     [Google Scholar]
  18. Park S., Park J. M., Jung Y. T., Yoon J. H. 2014; Agarivorans litoreus sp. nov., a novel gammaproteobacterium isolated from seawater and emended description of the genus Agarivorans. Antonie van Leeuwenhoek . Int J Gen Mol Microbiol 106:1041–1047
     [Google Scholar]
  19. Reasoner D. J., Geldreich E. E. 1985; A new medium for the enumeration and subculture of bacteria from potable water. Appl Environ Microbiol 49:1–7[PubMed]
     [Google Scholar]
  20. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Evol 4:406–425
     [Google Scholar]
  21. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. 2013; mega6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729 [View Article][PubMed]
     [Google Scholar]
  22. Thompson J. D., Gibson T. J., Plewniak F., Jeanmougin F., Higgins D. G. 1997; The clustal_x windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876–4882 [View Article][PubMed]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001155
Loading
Agarivorans aestuarii sp. nov., an agar-degrading bacterium isolated from a tidal flat
Int J Syst Evol Microbiol 66, 3119 (2016); https://doi.org/10.1099/ijsem.0.001155
/content/journal/ijsem/10.1099/ijsem.0.001155
/content/journal/ijsem/10.1099/ijsem.0.001155
Loading

Data & Media loading...

Supplements

Supplementary File 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