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Volume 58, Issue 6

sp. nov., isolated from a desert soil Free

Abstract

A Gram-negative, rod-shaped, non-motile, non-spore-forming bacterium, designated strain HR2, was isolated from a soil sample from the Taklimaken Desert in Xinjiang Province, China. Strain HR2 grew optimally at pH 7.0–8.0 and 30–37 °C in the presence of 0–1 % (w/v) NaCl. An analysis of 16S rRNA gene sequences revealed that strain HR2 fell within the radiation of the genus , the highest level of similarity being found with respect to IAM 13000 (97.5 %); the levels of sequence similarity with respect to other recognized species were <96.4 %. DNA–DNA hybridization showed that the genetic relatedness between strain HR2 and IAM 13000 was 53.2 %. The G+C content of the genomic DNA of strain HR2 was 55.2 mol%. The major fatty acids were 18 : 1, summed feature 3 and 16 : 0. The hydroxylated fatty acids 10 : 0 3-OH, 12 : 0 3-OH and 12 : 0 2-OH were also present. The data obtained in this polyphasic study indicated that this isolate represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is HR2 (=KCTC 22129=CGMCC 1.6858).

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2008-06-01
2023-09-23
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References

  1. Anzai, Y., Kim, H., Park, J.-Y., Wakabayashi, H. & Oyaizu, H.(2000). Phylogenetic affiliation of the pseudomonads based on 16S rRNA sequence. Int J Syst Evol Microbiol 50, 1563–1589.[CrossRef] [Google Scholar]
  2. Brosius, J., Palmer, J. L., Kennedy, J. P. & Noller, H. F.(1978). Complete nucleotide sequence of 16S ribosomal RNA gene from Escherichia coli. Proc Natl Acad Sci U S A 75, 4801–4805.[CrossRef] [Google Scholar]
  3. Cashion, P., Holder-Franklin, M. A., McCully, J. & Franklin, M.(1997). A rapid method for the base ratio determination of bacterial DNA. Anal Biochem 81, 461–466. [Google Scholar]
  4. Cui, X. L., Mao, P. H., Tseng, M., Li, W. J., Zhang, L. P., Xu, L. H. & Jiang, C. L.(2001).Streptomonospora salina gen. nov., a new member of the family Nocardiopsaceae. Int J Syst Evol Microbiol 51, 357–363. [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. Escara, J. F. & Hutton, J. R.(1980). Thermal stability and renaturation of DNA in dimethyl sulfoxide solutions: acceleration of renaturation rate. Biopolymers 19, 1315–1327.[CrossRef] [Google Scholar]
  7. Felsenstein, J.(1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef] [Google Scholar]
  8. Felsenstein, J.(1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef] [Google Scholar]
  9. Felsenstein, J.(1993).phylip (phylogeny inference package), version 3.5c. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  10. Hatayama, K., Kawai, S., Shoun, H., Ueda, Y. & Nakamura, A.(2005).Pseudomonas azotifigens sp. nov., a novel nitrogen-fixing bacterium isolated from a compost pile. Int J Syst Evol Microbiol 55, 1539–1544.[CrossRef] [Google Scholar]
  11. Hauser, E., Kämpfer, P. & Busse, H.-J.(2004).Pseudomonas psychrotolerans sp. nov. Int J Syst Evol Microbiol 54, 1633–1637.[CrossRef] [Google Scholar]
  12. 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]
  13. 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]
  14. Kersters, K., Ludwig, W., Vancanneyt, M., De Vos, P., Gillis, M. & Schleifer, K.-H.(1996). Recent changes in the classification of the pseudomonads: an overview. Syst Appl Microbiol 19, 465–477.[CrossRef] [Google Scholar]
  15. 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]
  16. Kimura, M.(1983).The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press.
  17. King, E. O., Ward, M. K. & Rainey, D. E.(1954). Two simple media for the demonstration of pyocyanin and fluorescein. J Lab Clin Med 44, 301–307. [Google Scholar]
  18. Kumar, S., Tamura, K., Jakobsen, I.-B. & Nei, M.(2001).mega2: molecular evolutionary genetics analysis software. Bioinformatics 17, 1244–1245.[CrossRef] [Google Scholar]
  19. Manaia, C. M. & Moore, E. R. B.(2002).Pseudomonas thermotolerans sp. nov., a thermotolerant species of the genus Pseudomonas sensu stricto. Int J Syst Evol Microbiol 52, 2203–2209.[CrossRef] [Google Scholar]
  20. Oyaizu, H. & Komagata, K.(1983). Grouping of Pseudomonas species on the basis of cellular fatty acid composition and the quinone system with special reference to the existence of 3-hydroxy fatty acids. J Gen Appl Microbiol 29, 17–40.[CrossRef] [Google Scholar]
  21. Palleroni, N. J.(1984). Genus I. Pseudomonas Migula 1894. In Bergey's Manual of Systematic Bacteriology, vol. 1, pp. 141–199. Edited by N. R. Krieg & J. G. Holt. Baltimore: Williams & Wilkins.
  22. Park, M., Ryu, S. H., Thi Vu, T.-H., Ro, H.-S., Yun, P.-Y. & Jeon, C. O.(2007).Flavobacterium defluvii sp. nov., isolated from activated sludge. Int J Syst Evol Microbiol 57, 233–237.[CrossRef] [Google Scholar]
  23. Romanenko, L. A., Uchino, M., Falsen, E., Frolova, G. M., Zhukova, N. V. & Mikhailov, V. V.(2005).Pseudomonas pachastrellae sp. nov., isolated from a marine sponge. Int J Syst Evol Microbiol 55, 919–924.[CrossRef] [Google Scholar]
  24. Saitou, N. & Nei, M.(1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425. [Google Scholar]
  25. Sasser, M.(1990). Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl 20, 16 [Google Scholar]
  26. Smibert, R. M. & Krieg, N. R.(1994). Phenotypic characterization. In Methods for General and Molecular Bacteriology, pp. 607–654. Edited by P. Gerhardt, R. G. E. Murray, W. A. Wood & N. R. Krieg. Washington, DC: American Society for Microbiology.
  27. Stackebrandt, E., Frederiksen, W., Garrity, G. M., Grimont, P. A. D., Kämpfer, P., Maiden, M. C. J., Nesme, X., Rosselló-Mora, R., Swings, J. & other authors(2002). Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. Int J Syst Evol Microbiol 52, 1043–1047.[CrossRef] [Google Scholar]
  28. 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, 4876–4888.[CrossRef] [Google Scholar]
  29. Xu, P., Li, W.-J., Tang, S.-K., Zhang, Y.-Q., Chen, G.-Z., Chen, H.-H., Xu, L.-H. & Jiang, C.-L.(2005).Naxibacter alkalitolerans gen. nov., sp. nov., a novel member of the family ‘Oxalobacteraceae’ isolated from China. Int J Syst Evol Microbiol 55, 1149–1153.[CrossRef] [Google Scholar]
  30. Yamaguchi, S. & Yokoe, M.(2000). A novel protein-deamidating enzyme from Chryseobacterium proteolyticum sp. nov., a newly isolated bacterium from soil. Appl Environ Microbiol 66, 3337–3343.[CrossRef] [Google Scholar]
  31. Yoon, J.-H., Kim, H., Kim, S.-B., Kim, H.-J., Kim, W. Y., Lee, S. T., Goodfellow, M. & Park, Y.-H.(1996). Identification of Saccharomonospora strains by the use of genomic DNA fragments and rRNA gene probes. Int J Syst Bacteriol 46, 502–505.[CrossRef] [Google Scholar]
  32. Yumoto, I., Yamazaki, K., Hishinuma, M., Nodasaka, Y., Suemori, A., Nakajima, K., Inoue, N. & Kawasaki, K.(2001).Pseudomonas alcaliphila sp. nov., a novel facultatively psychrophilic alkaliphile isolated from seawater. Int J Syst Evol Microbiol 51, 349–355. [Google Scholar]
  33. 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 a polluted soil. Int J Syst Evol Microbiol 57, 1765–1769.[CrossRef] [Google Scholar]
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Pseudomonas duriflava sp. nov., isolated from a desert soil
Int J Syst Evol Microbiol 58, 1404 (2008); https://doi.org/10.1099/ijs.0.65716-0
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vol. , part 6, pp. 1404-1408

Transmission electron micrographs of strain HR2 . [PDF](193 KB)

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