sp. nov., isolated from a desert soil Free

Abstract

A moderately halophilic bacterium, strain YIM 70202, was isolated from a desert soil sample collected from Egypt and was subjected to a taxonomic investigation. In a phylogenetic dendrogram based on 16S rRNA gene sequence analysis, strain YIM 70202 was affiliated to the clade, showing 94.5–96.8 % 16S rRNA gene sequence similarity to the recognized species of the genus , in which CCM 3516 was the nearest neighbour. The DNA–DNA relatedness value of the novel isolate with CCM 3516 was 12.7 %. The novel isolate grew at temperatures between 4 and 45 °C and at pH values ranging from 7.0 to 11.0, with an optimum of 30 °C and pH 8.0–9.0, respectively. Strain YIM 70202 grew optimally in the presence of 10 % NaCl (w/v) and growth was observed at NaCl concentrations in the range 1–25 % (w/v). Chemotaxonomic data revealed that strain YIM 70202 contained MK-6 as the predominant respiratory quinone, possessed -Lys–Gly as the cell-wall peptidoglycan, had phosphatidylglycerol, diphosphatidylglycerol and an unknown glycolipid as the polar lipids and contained i-C and ai-C as the predominant fatty acids. The DNA GC content was 49.7 mol%. The biochemical and chemotaxonomic properties demonstrate that strain YIM 70202 represents a novel species of the genus . The name sp. nov. is proposed with strain YIM 70202 (=CGMCC 1.6511=KCTC 3941) as the type strain.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.64967-0
2007-08-01
2024-03-29
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/57/8/1901.html?itemId=/content/journal/ijsem/10.1099/ijs.0.64967-0&mimeType=html&fmt=ahah

References

  1. Aslam Z., Lim J. H., Im W. T., Yasir M., Chung Y. R., Lee S. T. 2007; Salinicoccus jeotgali sp. nov., isolated from jeotgal, a traditional Korean fermented seafood. Int J Syst Evol Microbiol 57:633–638 [CrossRef]
    [Google Scholar]
  2. Cerny G. 1978; Studies on aminopeptidase for the distinction of Gram-negative from Gram-positive bacteria. Eur J Appl Microbiol Biotechnol 5:113–122 [CrossRef]
    [Google Scholar]
  3. Collins M. D., Jones D. 1980; Lipids in the classification and identification of coryneform bacteria containing peptidoglycan based on 2,4-diaminobutyric acid. J Appl Bacteriol 48:452–470
    [Google Scholar]
  4. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. 1977; Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230 [CrossRef]
    [Google Scholar]
  5. De Ley J., Cattoir H., Reynaerts A. 1970; The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12:133–142 [CrossRef]
    [Google Scholar]
  6. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [CrossRef]
    [Google Scholar]
  7. Franca L., Rainey F. A., Nobre M. F., Costa M. S. 2006; Salinicoccus salsiraiae sp. nov.: a new moderately halophilic gram-positive bacterium isolated from salted skate. Extremophiles 10:531–536 [CrossRef]
    [Google Scholar]
  8. Gram H. C. 1884; über die isolierte Färbung der Schizomyceten in Schnitt- und Trockenpräparaten. Fortschr Med 2:185–189 (in German
    [Google Scholar]
  9. Groth I., Schumann P., Rainey F. A., Martin K., Schuetze B., Augsten K. 1997; Demetria terragena gen. nov., sp. nov. a new genus of actinomycetes isolated from compost soil. Int J Syst Bacteriol 47:1129–1133 [CrossRef]
    [Google Scholar]
  10. Huß V. A. R., Festl H., Schleifer K.-H. 1983; Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4:184–192 [CrossRef]
    [Google Scholar]
  11. Jahnke K. D. 1992; BASIC computer program for evaluation of spectroscopic DNA renaturation data from GILFORD SYSTEM 2600 spectrophotometer on a PC/XT/AT type personal computer. J Microbiol Methods 15:61–73 [CrossRef]
    [Google Scholar]
  12. Kelly K. L. 1964 Inter-Society Color Council – National Bureau of Standards Color Name Charts Illustrated with Centroid Colors Washington, DC: US Government Printing Office;
    [Google Scholar]
  13. Kimura M. 1980; A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequence. J Mol Evol 16:111–120 [CrossRef]
    [Google Scholar]
  14. Kroppenstedt R. M. 1985; Fatty acid and menaquinone analysis of actinomycetes and related organisms. In Chemical Methods in Bacterial Systematics pp 173–199 Edited by Goodfellow M., Minnikin D. E. London: Academic Press;
    [Google Scholar]
  15. Kumar S., Tamura K., Jakobsen I. B., Nei M. 2001; mega2: molecular evolutionary genetics analysis software. Bioinformatics 17:1244–1245 [CrossRef]
    [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., Collins M. D., Goodfellow M. 1979; Fatty acid and polar lipid composition in the classification of Cellulomonas, Oerskovia and related taxa. J Appl Bacteriol 47:87–95 [CrossRef]
    [Google Scholar]
  18. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
    [Google Scholar]
  19. Schleifer K. H. 1985; Analysis of the chemical composition and primary structure of murein. Methods Microbiol 18:123–156
    [Google Scholar]
  20. Schleifer K. H., Kandler O. 1972; Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36:407–477
    [Google Scholar]
  21. Shirling E. B., Gottlieb D. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [CrossRef]
    [Google Scholar]
  22. Stackebrandt E., Goebel B. M. 1994; Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44:846–849 [CrossRef]
    [Google Scholar]
  23. 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 [CrossRef]
    [Google Scholar]
  24. Ventosa A., Marquez M. C., Ruiz-Berraquero F., Kocur M. 1990; Salinicoccus roseus gen. nov., sp. nov. a new moderately halophilic Gram-positive coccus. Syst Appl Microbiol 13:29–33 [CrossRef]
    [Google Scholar]
  25. Ventosa A., Marquez M. C., Weiss N., Tindall B. J. 1992; Transfer of Marinococcus hispanicus to the genus Salinicoccus as Salinicoccus hispanicus comb. nov. Syst Appl Microbiol 15:530–534 [CrossRef]
    [Google Scholar]
  26. 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 37:463–464 [CrossRef]
    [Google Scholar]
  27. Xu P., Li W. J., Xu L. H., Jiang C. L. 2003; A microwave based method for genomic DNA extraction from actinomycetes. Microbiology (Beijing) 30:82–84 (in Chinese
    [Google Scholar]
  28. Zhang W., Xue Y., Ma Y., Zhou P., Ventosa A., Grant W. D. 2002; Salinicoccus alkaliphilus sp. nov., a novel alkaliphile and moderate halophile from Baer Soda Lake in Inner Mongolia Autonomous Region, China. Int J Syst Evol Microbiol 52:789–793 [CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.64967-0
Loading
/content/journal/ijsem/10.1099/ijs.0.64967-0
Loading

Data & Media loading...

Most cited Most Cited RSS feed