1887

Abstract

A bacterial strain designated Ruye-90 was isolated from a freshwater tilapiine cichlid fish culture pond in Taiwan and characterized using a polyphasic taxonomic approach. Strain Ruye-90 was Gram-negative, aerobic, yellow-coloured, rod-shaped, and motile by means of a single polar flagellum. Growth occurred at 4–30 °C (optimum, 20–30 °C), at pH 7.0–9.0 (optimum, pH 8.0–9.0) and with 0–2 % NaCl (optimum, 0 %). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain Ruye-90 belonged to the genus and its most closely related neighbour was JA3-B52 with sequence similarity of 97.5 %. The major fatty acids were summed feature 3 (comprising Cω7 and/or Cω6, 41.3 %), C (19.3 %), Cω7 (8.4 %) and C 3-OH (7.0 %). The major respiratory quinone was Q-8. The DNA G+C content of the genomic DNA was 49.0 mol%. The polar lipid profile consisted of a mixture of phosphatidylethanolamine, phosphatidylglycerol, phosphatidylserine, aminolipid and two uncharacterized phospholipids. The DNA–DNA relatedness of strain Ruye-90 with respect to recognized members of the genus was less than 70 %. On the basis of the genotypic, chemotaxonomic and phenotypic data, strain Ruye-90 represents a novel species in the genus , for which the name sp. nov. is proposed. The type strain is Ruye-90 ( = LMG 26339 = BCRC 80263 = KCTC 23315).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.043836-0
2013-04-01
2024-04-27
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/63/4/1457.html?itemId=/content/journal/ijsem/10.1099/ijs.0.043836-0&mimeType=html&fmt=ahah

References

  1. Anzai Y., Kudo Y., Oyaizu H. ( 1997 ). The phylogeny of the genera Chryseomonas, Flavimonas, and Pseudomonas supports synonymy of these three genera. . Int J Syst Bacteriol 47, 249251. [View Article] [PubMed]
    [Google Scholar]
  2. Beveridge T. J., Lawrence J. R., Murray R. G. E. ( 2007 ). Sampling and staining for light microscopy. . In Methods for General and Molecular Bacteriology, 3rd edn , pp. 1933. Edited by Beveridge T. J., Breznak J. A., Marzluf G. A., Schmidt T. M., Snyder L. R. . Washington, D.C.:: American Society for Microbiology;.
    [Google Scholar]
  3. Bowman J. P. ( 2000 ). Description of Cellulophaga algicola sp. nov., isolated from the surfaces of Antarctic algae, and reclassification of Cytophaga uliginosa (ZoBell and Upham 1944) Reichenbach 1989 as Cellulophaga uliginosa comb. nov.. Int J Syst Evol Microbiol 50, 18611868.[PubMed]
    [Google Scholar]
  4. Brettar I., Christen R., Höfle M. G. ( 2002 ). Rheinheimera baltica gen. nov., sp. nov., a blue-coloured bacterium isolated from the central Baltic Sea. . Int J Syst Evol Microbiol 52, 18511857. [View Article] [PubMed]
    [Google Scholar]
  5. Brettar I., Christen R., Höfle M. G. ( 2006 ). Rheinheimera perlucida sp. nov., a marine bacterium of the Gammaproteobacteria isolated from surface water of the central Baltic Sea. . Int J Syst Evol Microbiol 56, 21772183. [View Article] [PubMed]
    [Google Scholar]
  6. Breznak J. A., Costilow R. N. ( 2007 ). Physicochemical factors in growth. . In Methods for General and Molecular Bacteriology, 3rd edn , pp. 309329. Edited by Beveridge T. J., Breznak J. A., Marzluf G. A., Schmidt T. M., Snyder L. R. . Washington, D.C.:: American Society for Microbiology;.
    [Google Scholar]
  7. Chen W. M., Laevens S., Lee T. M., Coenye T., De Vos P., Mergeay M., Vandamme P. ( 2001 ). Ralstonia taiwanensis sp. nov., isolated from root nodules of Mimosa species and sputum of a cystic fibrosis patient. . Int J Syst Evol Microbiol 51, 17291735. [View Article] [PubMed]
    [Google Scholar]
  8. Chen W. M., Lin C. Y., Sheu S. Y. ( 2010a ). Investigating antimicrobial activity in Rheinheimera sp. due to hydrogen peroxide generated by L-lysine oxidase activity. . Enzyme Microb Technol 46, 487493. [View Article]
    [Google Scholar]
  9. Chen W. M., Lin C. Y., Young C. C., Sheu S. Y. ( 2010b ). Rheinheimera aquatica sp. nov., an antimicrobial activity producing bacterium isolated from freshwater culture pond. . J Microbiol Biotechnol 20, 13861392. [View Article] [PubMed]
    [Google Scholar]
  10. Chun J., Lee J.-H., Jung Y., Kim M., Kim S., Kim B. K., Lim Y. W. ( 2007 ). EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. . Int J Syst Evol Microbiol 57, 22592261. [View Article] [PubMed]
    [Google Scholar]
  11. Cole J. R., Wang Q., Cardenas E., Fish J., Chai B., Farris R. J., Kulam-Syed-Mohideen A. S., McGarrell D. M., Marsh T. & other authors ( 2009 ). The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. . Nucleic Acids Res 37 (Database issue), D141D145. [View Article] [PubMed]
    [Google Scholar]
  12. Collins M. D. ( 1985 ). Isoprenoid quinone analysis in classification and identification. . In Chemical Methods in Bacterial Systematics, pp. 267287. Edited by Goodfellow M., Minnikin D. E. . London:: Academic Press;.
    [Google Scholar]
  13. Embley T. M., Wait R. ( 1994 ). Structural lipids of eubacteria. . In Chemical Methods in Prokaryotic Systematics, pp. 121161. Edited by Goodfellow M., O’Donnell A. G. . England:: John Wiley & Sons Ltd;.
    [Google Scholar]
  14. 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 Bacteriol 39, 224229. [View Article]
    [Google Scholar]
  15. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368376. [View Article] [PubMed]
    [Google Scholar]
  16. Felsenstein J. ( 1993 ). phylip (phylogeny inference package), version 3 . 5c. Distributed by the author. . Department of Genome Sciences, University of Washington;, Seattle, USA:.
    [Google Scholar]
  17. Hall T. A. ( 1999 ). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. . Nucleic Acids Symp Ser 41, 9598.
    [Google Scholar]
  18. Halpern M., Senderovich Y., Snir S. ( 2007 ). Rheinheimera chironomi sp. nov., isolated from a chironomid (Diptera; Chironomidae) egg mass. . Int J Syst Evol Microbiol 57, 18721875. [View Article] [PubMed]
    [Google Scholar]
  19. Kimura M. ( 1983 ). The Neutral Theory of Molecular Evolution. Cambridge:: Cambridge University Press;. [View Article]
    [Google Scholar]
  20. Kluge A. G., Farris F. S. ( 1969 ). Quantitative phyletics and the evolution of anurans. . Syst Zool 18, 132. [View Article]
    [Google Scholar]
  21. Li H. J., Zhang X. Y., Zhang Y. J., Zhou M. Y., Gao Z. M., Chen X. L., Dang H. Y., Zhang Y. Z. ( 2011 ). Rheinheimera nanhaiensis sp. nov., isolated from marine sediments, and emended description of the genus Rheinheimera Brettar et al. 2002 emend. Merchant et al. 2007. . Int J Syst Evol Microbiol 61, 10161022. [View Article] [PubMed]
    [Google Scholar]
  22. Liu Y., Jiang J. T., Xu C. J., Liu Y. H., Song X. F., Li H., Liu Z. P. ( 2012 ). Rheinheimera longhuensis sp. nov., isolated from a slightly alkaline lake, and emended description of genus Rheinheimera Brettar et al. 2002. . Int J Syst Evol Microbiol 62, 29272933. [View Article] [PubMed]
    [Google Scholar]
  23. Merchant M. M., Welsh A. K., McLean R. J. C. ( 2007 ). Rheinheimera texasensis sp. nov., a halointolerant freshwater oligotroph. . Int J Syst Evol Microbiol 57, 23762380. [View Article] [PubMed]
    [Google Scholar]
  24. 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, 159167. [View Article]
    [Google Scholar]
  25. Nokhal T. H., Schlegel H. G. ( 1983 ). Taxonomic study of Paracoccus denitrificans . . Int J Syst Bacteriol 33, 2637. [View Article]
    [Google Scholar]
  26. Powers E. M. ( 1995 ). Efficacy of the Ryu nonstaining KOH technique for rapidly determining gram reactions of food-borne and waterborne bacteria and yeasts. . Appl Environ Microbiol 61, 37563758.[PubMed]
    [Google Scholar]
  27. Romanenko L. A., Uchino M., Falsen E., Zhukova N. V., Mikhailov V. V., Uchimura T. ( 2003 ). Rheinheimera pacifica sp. nov., a novel halotolerant bacterium isolated from deep sea water of the Pacific. . Int J Syst Evol Microbiol 53, 19731977. [View Article] [PubMed]
    [Google Scholar]
  28. Ryu S. H., Chung B. S., Park M., Lee S. S., Lee S. S., Jeon C. O. ( 2008 ). Rheinheimera soli sp. nov., a gammaproteobacterium isolated from soil in Korea. . Int J Syst Evol Microbiol 58, 22712274. [View Article] [PubMed]
    [Google Scholar]
  29. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406425.[PubMed]
    [Google Scholar]
  30. Sasser, M. (1990). Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
  31. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. ( 2011 ). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. . Mol Biol Evol 28, 27312739. [View Article] [PubMed]
    [Google Scholar]
  32. 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, 48764882. [View Article] [PubMed]
    [Google Scholar]
  33. Tindall B. J., Sikorski J., Smibert R. A., Krieg N. R. ( 2007 ). Phenotypic characterization and the principles of comparative systematics. . In Methods for General and Molecular Bacteriology, 3rd edn , pp. 330393. Edited by Beveridge T. J., Breznak J. A., Marzluf G. A., Schmidt T. M., Snyder L. R. . Washington, D.C.:: American Society for Microbiology;.
    [Google Scholar]
  34. Wayne L. G., Brenner D. J., Colwell R. R., Grimont P. A. D., Kandler O., Krichevsky M. I., Moore L. H., Moore W. E. C., Murray R. G. E. & other authors ( 1987 ). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. . Int J Syst Bacteriol 37, 463464. [View Article]
    [Google Scholar]
  35. Wen C. M., Tseng C. S., Cheng C. Y., Li Y. K. ( 2002 ). Purification, characterization and cloning of a chitinase from Bacillus sp. NCTU2. . Biotechnol Appl Biochem 35, 213219. [View Article] [PubMed]
    [Google Scholar]
  36. Yakimov M. M., Golyshin P. N., Lang S., Moore E. R. B., Abraham W.-R., Lünsdorf H., Timmis K. N. ( 1998 ). Alcanivorax borkumensis gen. nov., sp. nov., a new, hydrocarbon-degrading and surfactant-producing marine bacterium. . Int J Syst Bacteriol 48, 339348. [View Article] [PubMed]
    [Google Scholar]
  37. Yoon J.-H., Park S. E., Kang S.-J., Oh T.-K. ( 2007 ). Rheinheimera aquimaris sp. nov., isolated from seawater of the East Sea in Korea. . Int J Syst Evol Microbiol 57, 13861390. [View Article] [PubMed]
    [Google Scholar]
  38. Zhang X., Sun L., Qiu F., McLean R. J. C., Jiang R., Song W. ( 2008 ). Rheinheimera tangshanensis sp. nov., a rice root-associated bacterium. . Int J Syst Evol Microbiol 58, 24202424. [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.043836-0
Loading
/content/journal/ijsem/10.1099/ijs.0.043836-0
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