1887

Abstract

A Gram-stain positive, strictly aerobic, non-motile and coccus-shaped actinobacterium, designated strain NEAU-ST5-33, was isolated from saline and alkaline soils in Dechang Township, Zhaodong City, PR China. It formed beige-yellow colonies and grew at NaCl concentrations of 0–5 % (w/v) (optimum 0 %), at pH 6.0–9.0 (optimum pH 7.0) and over a temperature range of 4–50 °C (optimum 35 °C). Based on 16S rRNA gene sequence analysis, strain NEAU-ST5-33 was phylogenetically closely related to the type strains of species of the genus , CMS 76or, DSM 20447, HO-9042, YIM 70003, K07-05 and HO-9041, with respective sequence similarities of 98.8 %, 98.8 %, 98.3 %, 98.1 %, 98.1 % and 97.9 %. DNA–DNA hybridization relatedness values of strain NEAU-ST5-33 with type strains of the closely related species ranged from 54 ± 1 % to 34 ± 1 %. The DNA G+C content was 61.2 mol%. The major fatty acids (>5 %) were C anteiso, C iso and Cω7 and/or Cω6. The major menaquinone detected was MK-8 (H), and the polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, one unknown aminolipid and one unknown lipid. On the basis of the genotypic, chemotaxonomic and phenotypic data, we propose that strain NEAU-ST5-33 represents a novel species of the genus , with the name sp. nov. The type strain is NEAU-ST5-33 ( = CGMCC 1.12187 = DSM 25872).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.000372
2015-09-01
2024-03-29
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/9/3024.html?itemId=/content/journal/ijsem/10.1099/ijs.0.000372&mimeType=html&fmt=ahah

References

  1. Cerny G. ( 1978;). Studies on aminopeptidase test for the distinction of Gram-negative from Gram-positive bacteria. Eur J Appl Microbiol Biotechnol 5 113122 [View Article].
    [Google Scholar]
  2. Cowan S.T., Steel K.J. ( 1965). Manual for the Identification of Medical Bacteria., London: Cambridge University Press;.
    [Google Scholar]
  3. Dastager S.G., Tang S.-K., Srinivasan K., Lee J.-C., Li W.-J. ( 2014;). Kocuria indica sp. nov., isolated from a sediment sample. Int J Syst Evol Microbiol 64 869874 [View Article] [PubMed].
    [Google Scholar]
  4. De Ley J., Cattoir H., Reynaerts A. ( 1970;). The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12 133142 [View Article] [PubMed].
    [Google Scholar]
  5. Felsenstein J. ( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17 368376 [View Article] [PubMed].
    [Google Scholar]
  6. Felsenstein J. ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39 783791 [View Article].
    [Google Scholar]
  7. Huss V.A.R., Festl H., Schleifer K.H. ( 1983;). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4 184192 [View Article] [PubMed].
    [Google Scholar]
  8. Kim S.B., Nedashkovskaya O.I., Mikhailov V.V., Han S.K., Kim K.O., Rhee M.S., Bae K.S. ( 2004;). Kocuria marina sp. nov., a novel actinobacterium isolated from marine sediment. Int J Syst Evol Microbiol 54 16171620 [View Article] [PubMed].
    [Google Scholar]
  9. Kim O.S., Cho Y.J., Lee K., Yoon S.H., Kim M., Na H., Park S.C., Jeon Y.S., Lee J.H., other authors. ( 2012;). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62 716721 [View Article] [PubMed].
    [Google Scholar]
  10. Kimura M. ( 1980;). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16 111120 [View Article] [PubMed].
    [Google Scholar]
  11. Kovács G., Burghardt J., Pradella S., Schumann P., Stackebrandt E., Màrialigeti K. ( 1999;). Kocuria palustris sp. nov. and Kocuria rhizophila sp. nov., isolated from the rhizoplane of the narrow-leaved cattail (Typha angustifolia). Int J Syst Bacteriol 49 167173 [View Article] [PubMed].
    [Google Scholar]
  12. Lee J.S., Shin Y.K., Yoon J.H., Takeuchi M., Pyun Y.R., Park Y.H. ( 2001;). Sphingomonas aquatilis sp. nov., Sphingomonas koreensis sp. nov., and Sphingomonas taejonensis sp. nov., yellow-pigmented bacteria isolated from natural mineral water. Int J Syst Evol Microbiol 51 14911498. [CrossRef]
    [Google Scholar]
  13. Li W.J., Zhang Y.Q., Schumann P., Chen H.H., Hozzein W.N., Tian X.P., Xu L.H., Jiang C.L. ( 2006;). Kocuria aegyptia sp. nov., a novel actinobacterium isolated from a saline, alkaline desert soil in Egypt. Int J Syst Evol Microbiol 56 733737 [View Article] [PubMed].
    [Google Scholar]
  14. Marmur J. ( 1961;). A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3 208218 [View Article].
    [Google Scholar]
  15. Marmur J., Doty P. ( 1962;). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 5 109118 [View Article] [PubMed].
    [Google Scholar]
  16. Mayilraj S., Kroppenstedt R.M., Suresh K., Saini H.S. ( 2006;). Kocuria himachalensis sp. nov., an actinobacterium isolated from the Indian Himalayas. Int J Syst Evol Microbiol 56 19711975 [View Article] [PubMed].
    [Google Scholar]
  17. Minnikin D.E., O'Donnell A.G., Goodfellow M., Alderson G., Athalye M., Schaal A., Parlett J.H. ( 1984;). An integrated procedure for the extraction of isoprenoid quinones and polar lipids. J Microbiol Methods 2 233241 [View Article].
    [Google Scholar]
  18. Pan Y., Huang H., Meng J., Xiao H., Li C., Meng L., Hong S., Liu H., Wang X., Jiang J. ( 2012;). [Biodiversity of culturable halotolerant and halophilic bacteria isolated from saline-alkaline soils in Songnen Plain]. Wei Sheng Wu Xue Bao 52 11871194 (in Chinese) .
    [Google Scholar]
  19. Park E.-J., Kim M.-S., Roh S.W., Jung M.-J., Bae J.-W. ( 2010a;). Kocuria atrinae sp. nov., isolated from traditional Korean fermented seafood. Int J Syst Evol Microbiol 60 914918 [View Article] [PubMed].
    [Google Scholar]
  20. Park E.-J., Roh S.W., Kim M.-S., Jung M.-J., Shin K.S., Bae J.-W. ( 2010b;). Kocuria koreensis sp. nov., isolated from fermented seafood. Int J Syst Evol Microbiol 60 140143 [View Article] [PubMed].
    [Google Scholar]
  21. Rainey F.A., Nobre M.F., Schumann P., Stackebrandt E., da Costa M.S. ( 1997;). Phylogenetic diversity of the deinococci as determined by 16S ribosomal DNA sequence comparison. Int J Syst Bacteriol 47 510514 [View Article] [PubMed].
    [Google Scholar]
  22. Reddy G.S., Prakash J.S., Prabahar V., Matsumoto G.I., Stackebrandt E., Shivaji S. ( 2003;). Kocuria polaris sp. nov., an orange-pigmented psychrophilic bacterium isolated from an Antarctic cyanobacterial mat sample. Int J Syst Evol Microbiol 53 183187 [View Article] [PubMed].
    [Google Scholar]
  23. Saitou N., Nei M. ( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4 406425.
    [Google Scholar]
  24. Sasser M. ( 1990). Identification of bacteria by gas chromatography of cellular fatty acids MIDI Technical Note 101 Newark, DE: MIDI Inc;.
    [Google Scholar]
  25. Schleifer K.H. ( 1985;). Analysis of the chemical composition and primary structure of murein. Methods Microbiol 18 123156. [CrossRef]
    [Google Scholar]
  26. Schleifer K.H., Kandler O. ( 1972;). Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36 407477.
    [Google Scholar]
  27. Sehgal S.N., Gibbons N.E. ( 1960;). Effect of some metal ions on the growth of Halobacterium cutirubrum . Can J Microbiol 6 165169 [View Article] [PubMed].
    [Google Scholar]
  28. Seo Y.B., Kim D.E., Kim G.D., Kim H.W., Nam S.W., Kim Y.T., Lee J.H. ( 2009;). Kocuria gwangalliensis sp. nov., an actinobacterium isolated from seawater. Int J Syst Evol Microbiol 59 27692772 [View Article] [PubMed].
    [Google Scholar]
  29. Smibert R.M., Krieg N.R. ( 1994;). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. Washington, DC: American Society for Microbiology;.
    [Google Scholar]
  30. Stackebrandt E., Koch C., Gvozdiak O., Schumann P. ( 1995;). Taxonomic dissection of the genus Micrococcus: Kocuria gen. nov., Nesterenkonia gen. nov., Kytococcus gen. nov., Dermacoccus gen. nov., and Micrococcus Cohn 1872 gen. emend. Int J Syst Bacteriol 45 682692 [View Article] [PubMed].
    [Google Scholar]
  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. Tang S.K., Wang Y., Lou K., Mao P.H., Xu L.H., Jiang C.L., Kim C.J., Li W.J. ( 2009;). Kocuria halotolerans sp. nov., an actinobacterium isolated from a saline soil in China. Int J Syst Evol Microbiol 59 13161320 [View Article] [PubMed].
    [Google Scholar]
  33. 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]
  34. Tittsler R.P., Sandholzer L.A. ( 1936;). The use of semi-solid agar for the detection of bacterial motility. J Bacteriol 31 575580.
    [Google Scholar]
  35. Tvrzová L., Schumann P., Sedlácek I., Pácová Z., Spröer C., Verbarg S., Kroppenstedt R.M. ( 2005;). Reclassification of strain CCM 132, previously classified as Kocuria varians, as Kocuria carniphila sp. nov.. Int J Syst Evol Microbiol 55 139142 [View Article] [PubMed].
    [Google Scholar]
  36. 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]
  37. Xu X.W., Wu Y.H., Zhou Z., Wang C.S., Zhou Y.G., Zhang H.B., Wang Y., Wu M. ( 2007;). Halomonas saccharevitans sp. nov., Halomonas arcis sp. nov. and Halomonas subterranea sp. nov., halophilic bacteria isolated from hypersaline environments of China. Int J Syst Evol Microbiol 57 16191624 [View Article] [PubMed].
    [Google Scholar]
  38. Yun J.H., Roh S.W., Jung M.J., Kim M.S., Park E.J., Shin K.S., Nam Y.D., Bae J.W. ( 2011;). Kocuria salsicia sp. nov., isolated from salt-fermented seafood. Int J Syst Evol Microbiol 61 286289 [View Article] [PubMed].
    [Google Scholar]
  39. Zhou Y., Dong J., Wang X., Huang X., Zhang K.Y., Zhang Y.Q., Guo Y.F., Lai R., Li W.J. ( 2007;). Chryseobacterium flavum sp. nov., isolated from polluted soil. Int J Syst Evol Microbiol 57 17651769 [View Article] [PubMed].
    [Google Scholar]
  40. Zhou G., Luo X., Tang Y., Zhang L., Yang Q., Qiu Y., Fang C. ( 2008;). Kocuria flava sp. nov. and Kocuria turfanensis sp. nov., airborne actinobacteria isolated from Xinjiang, China. Int J Syst Evol Microbiol 58 13041307 [View Article] [PubMed].
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.000372
Loading
/content/journal/ijsem/10.1099/ijs.0.000372
Loading

Data & Media loading...

Supplements

Supplementary Data

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