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Volume 64, Issue Pt_6

sp. nov., an arsenite-resistant bacterium isolated from soil Free

Abstract

A Gram-reaction-negative, aerobic, motile, rod-shaped, arsenite [As(III)]-resistant bacterium, designated strain YW8, was isolated from agricultural soil. 16S rRNA gene sequence analysis showed over 97 % sequence similarity to strains of the environmental species , , , , and . However, the phylogenetic tree indicated that strain YW8 formed a separate clade from . DNA–DNA hybridization experiments showed that the DNA–DNA relatedness values between strain YW8 and its closest phylogenetic neighbours were below 24.2–35.5 %, which clearly separated the strain from these closely related species. The major cellular fatty acids of strain YW8 were C, C cyclo, Cω7, and summed feature 3(Cω6 and/or Cω7). The genomic DNA G+C content was 69.3 mol%, and the major respiratory quinone was ubiquinone-8. The predominant polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, three unknown phospholipids, an unknown polar lipid and phosphatidylserine. The major polyamines were 2-hydroxyputrescine and putrescine. On the basis of morphological, physiological and biochemical characteristics, phylogenetic position, DNA–DNA hybridization and chemotaxonomic data, strain YW8 is considered to represent a novel species of the genus , for which the name sp. nov. is proposed; the type strain is YW8 ( = CCTCC AB2012103 = KACC 16853).

  • Published Online:
Funding
This study was supported by the:
  • National Natural Science Foundation of China (Award 31200087)
  • China Postdoctoral Science Foundation funded project (Award 2012M521094)
  • China Postdoctoral Science Special Foundation (Award 2013T60546)
  • Fundamental Research Funds for the Central Universities (Award Y0201200232)
  • Fundamental Research Funds for Environment and Plant Protection Institute, CATAS (Award 2010hzsZDZX001)
© 2014 IUMS
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2014-06-01
2024-04-24
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References

  1. Blümel S., Busse H.-J., Stolz A., Kämpfer P. ( 2001 ). Xenophilus azovorans gen. nov., sp. nov., a soil bacterium that is able to degrade azo dyes of the Orange II type. . Int J Syst Evol Microbiol 51, 1831–1837. [View Article] [PubMed]
    [Google Scholar]
  2. Breznak J. A., Costilow R. N. ( 1994 ). Physicochemical factors in growth. . In Methods for General and Molecular Bacteriology, pp. 137–154. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  3. Buck J. D. ( 1982 ). Nonstaining (KOH) method for determination of Gram reactions of marine bacteria. . Appl Environ Microbiol 44, 992–993.[PubMed]
    [Google Scholar]
  4. Busse H.-J., Auling G. ( 1988 ). Polyamine pattern as a chemotaxonomic marker within the Proteobacteria . . Syst Appl Microbiol 11, 1–8. [View Article]
    [Google Scholar]
  5. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. ( 1977 ). Distribution of menaquinones in actinomycetes and corynebacteria. . J Gen Microbiol 100, 221–230. [View Article] [PubMed]
    [Google Scholar]
  6. De Mey E., Drabik-Markiewicz G., De Maere H., Peeters M.-C., Derdelinckx G., Paelinck H., Kowalska T. ( 2012 ). Dabsyl derivatisation as an alternative for dansylation in the detection of biogenic amines in fermented meat products by reversed phase high performance liquid chromatography. . Food Chem 130, 1017–1023. [View Article]
    [Google Scholar]
  7. 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, 224–229. [View Article]
    [Google Scholar]
  8. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368–376. [View Article] [PubMed]
    [Google Scholar]
  9. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783–791. [View Article]
    [Google Scholar]
  10. Grabovich M., Gavrish E., Kuever J., Lysenko A. M., Podkopaeva D., Dubinina G. ( 2006 ). Proposal of Giesbergeria voronezhensis gen. nov., sp. nov. and G. kuznetsovii sp. nov. and reclassification of [Aquaspirillum] anulus, [A.] sinuosum and [A.] giesbergeri as Giesbergeria anulus comb. nov., G. sinuosa comb. nov. and G. giesbergeri comb. nov., and [Aquaspirillum] metamorphum and [A.] psychrophilum as Simplicispira metamorpha gen. nov., comb. nov. and S. psychrophila comb. nov.. Int J Syst Evol Microbiol 56, 569–576. [View Article] [PubMed]
    [Google Scholar]
  11. Kates M. ( 1972 ). Techniques of Lipidology. New York:: Elsevier;.
     [Google Scholar]
  12. Kates M. ( 1986 ). Influence of salt concentration on membrane lipids of halophilic bacteria. . FEMS Microbiol Lett 39, 95–101. [View Article]
    [Google Scholar]
  13. Kim B.-Y., Weon H.-Y., Yoo S.-H., Lee S.-Y., Kwon S.-W., Go S.-J., Stackebrandt E. ( 2006 ). Variovorax soli sp. nov., isolated from greenhouse soil. . Int J Syst Evol Microbiol 56, 2899–2901. [View Article] [PubMed]
    [Google Scholar]
  14. Kim S. J., Kim Y. S., Weon H. Y., Anandham R., Noh H. J., Kwon S. W. ( 2010 ). Xenophilus aerolatus sp. nov., isolated from air. . Int J Syst Evol Microbiol 60, 327–330. [View Article] [PubMed]
    [Google Scholar]
  15. 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, 716–721. [View Article] [PubMed]
    [Google Scholar]
  16. Kimura M. ( 1980 ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16, 111–120. [View Article] [PubMed]
    [Google Scholar]
  17. Lane D. L. ( 1991 ). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115–175. Edited by Stackebrandt E. R., Goodfellow M. . Chichester:: Wiley;.
     [Google Scholar]
  18. Mandel M., Marmur J. ( 1968 ). Use of ultraviolet absorbance-temperature profile for determining the guanine plus cytosine content of DNA. . Methods Enzymol 12B, 195–206. [View Article]
    [Google Scholar]
  19. McCarthy A. J., Cross T. ( 1984 ). A taxonomic study of Thermomonospora and other monosporic actinomycetes. . J Gen Microbiol 130, 5–25. [View Article]
    [Google Scholar]
  20. Oren A., Duker S., Ritter S. ( 1996 ). The polar lipid composition of Walsby’s square bacterium. . FEMS Microbiol Lett 138, 135–140. [View Article]
    [Google Scholar]
  21. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406–425.[PubMed]
    [Google Scholar]
  22. Sambrook J., Russell D. W. ( 2001 ). Molecular Cloning: a Laboratory Manual, , 3rd edn.. Cold Spring Harbor, NY:: Cold Spring Harbor Laboratory;.
     [Google Scholar]
  23. Sasser M. ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE:: MIDI;.
     [Google Scholar]
  24. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607–654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  25. Suzuki M., Nakagawa Y., Harayama S., Yamamoto S. ( 2001 ). Phylogenetic analysis and taxonomic study of marine Cytophaga-like bacteria: proposal for Tenacibaculum gen. nov. with Tenacibaculum maritimum comb. nov. and Tenacibaculum ovolyticum comb. nov., and description of Tenacibaculum mesophilum sp. nov. and Tenacibaculum amylolyticum sp. nov.. Int J Syst Evol Microbiol 51, 1639–1652. [View Article] [PubMed]
    [Google Scholar]
  26. Tamaoka J., Katayama-Fujimura Y., Kuraishi H. ( 1983 ). Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. . J Appl Bacteriol 54, 31–36. [View Article]
    [Google Scholar]
  27. 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, 2731–2739. [View Article] [PubMed]
    [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, 4876–4882. [View Article] [PubMed]
    [Google Scholar]
  29. Tindall B. J., Rosselló-Móra R., Busse H.-J., Ludwig W., Kämpfer P. ( 2010 ). Notes on the characterization of prokaryote strains for taxonomic purposes. . Int J Syst Evol Microbiol 60, 249–266. [View Article] [PubMed]
    [Google Scholar]
  30. 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. [View Article]
    [Google Scholar]
  31. Weeger W., Lièvremont D., Perret M., Lagarde F., Hubert J.-C., Leroy M., Lett M.-C. ( 1999 ). Oxidation of arsenite to arsenate by a bacterium isolated from an aquatic environment. . Biometals 12, 141–149. [View Article] [PubMed]
    [Google Scholar]
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Xenophilus arseniciresistens sp. nov., an arsenite-resistant bacterium isolated from soil
Int J Syst Evol Microbiol 64, 1926 (2014); https://doi.org/10.1099/ijs.0.061515-0
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