gen. nov., sp. nov., a moderately halophilic bacterium isolated from a salt mine Free

Abstract

A novel, moderately halophilic, rod-shaped bacterium, designated strain YIM D17, was isolated from a sample of sediment from a salt mine in Yunnan, south-western China. The taxonomy of strain YIM D17 was investigated using a polyphasic approach. Strain YIM D17 was Gram-stain-negative, strictly aerobic and non-motile and formed pink colonies on marine agar. Optimal growth occurred at 37 °C, pH 7.5–8.0 and in the presence of 10–15 % (w/v) NaCl. The major menaquinone was MK-7. The polar lipid profile was composed predominantly of diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, one phospholipid, one glycolipid and one aminolipid. Minor amounts of other lipids were also detectable. The predominant cellular fatty acids were iso-Cω9/10-methyl-C (24.0 %), iso-C (23.6 %) and Cω7/Cω6 (13.8 %). The DNA G+C content was 43.0 mol%. Phylogenetic analysis based on 16S rRNA gene sequence comparisons showed that the isolate formed a distinct clade with the genera and (both in the phylum ) and was related to the species , and , with sequence similarities of 85.6 %, 83.0 % and 82.8 % to the respective type strains. On the basis of its phenotypic, chemotaxonomic and phylogenetic features, strain YIM D17 represents a novel species of a new genus, for which the name gen. nov., sp. nov. is proposed. The type strain is YIM D17 ( = ACCC 10716 = DSM 21935).

Funding
This study was supported by the:
  • Ministry of Environmental Protection of China
  • National Key Sciences and Technology Program for Water Solutions (Award 2008ZX07102-004)
  • National Natural Science Foundation of China (NSFC) (Award 31000003 and 30860013)
  • Ministry of Science and Technology of China (Award 2007AA021306)
  • Yunnan Provincial Sciences and Technology Department (Award 2009DA002, 2009CD012 and 2005PY01-1)
  • Yunnan University (Award 2009C14Q and 2008YB005)
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.025502-0
2012-02-01
2024-03-28
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/62/2/390.html?itemId=/content/journal/ijsem/10.1099/ijs.0.025502-0&mimeType=html&fmt=ahah

References

  1. Alfredsson G. A., Kristjánsson J. K., Hjörleifsdottir S., Stetter K. O. 1988; Rhodothermus marinus gen. nov., sp. nov., a thermophilic, halophilic bacterium from submarine hot springs in Iceland. Microbiology 134:299–306 [CrossRef]
    [Google Scholar]
  2. Allgaier M., Uphoff H., Felske A., Wagner-Döbler I. 2003; Aerobic anoxygenic photosynthesis in Roseobacter clade bacteria from diverse marine habitats. Appl Environ Microbiol 69:5051–5059 [View Article][PubMed]
    [Google Scholar]
  3. Altschul S. F., Madden T. L., Schäffer A. A., Zhang J., Zhang Z., Miller W., Lipman D. J. 1997; Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25:3389–3402 [View Article][PubMed]
    [Google Scholar]
  4. Antón J., Oren A., Benlloch S., Rodríguez-Valera F., Amann R., Rosselló-Mora R. 2002; Salinibacter ruber gen. nov., sp. nov., a novel, extremely halophilic member of the Bacteria from saltern crystallizer ponds. Int J Syst Evol Microbiol 52:485–491[PubMed]
    [Google Scholar]
  5. Cho J. C., Giovannoni S. J. 2006; Pelagibaca bermudensis gen. nov., sp. nov., a novel marine bacterium within the Roseobacter clade in the order Rhodobacterales . Int J Syst Evol Microbiol 56:855–859 [View Article][PubMed]
    [Google Scholar]
  6. Choi D. H., Zhang G. I., Noh J. H., Kim W. S., Cho B. C. 2009; Gracilimonas tropica gen. nov., sp. nov., isolated from a Synechococcus culture. Int J Syst Evol Microbiol 59:1167–1172 [View Article][PubMed]
    [Google Scholar]
  7. Cohen-Bazire G., Sistrom W. R., Stanier R. Y. 1957; Kinetic studies of pigment synthesis by non-sulfur purple bacteria. J Cell Physiol 49:25–68 [View Article][PubMed]
    [Google Scholar]
  8. Collins M. D., Jones D. 1980; Lipids in the classification and identification of coryneform bacteria containing peptidoglycans based on 2,4-diaminobutyric acid. J Appl Bacteriol 48:459–470 [View Article]
    [Google Scholar]
  9. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. 1977; Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230[PubMed] [CrossRef]
    [Google Scholar]
  10. Cui X. L., Mao P. H., Zeng M., Li W. J., Zhang L. P., Xu L. H., Jiang C. L. 2001; Streptimonospora salina gen. nov., sp. nov., a new member of the family Nocardiopsaceae . Int J Syst Evol Microbiol 51:357–363[PubMed]
    [Google Scholar]
  11. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [View Article][PubMed]
    [Google Scholar]
  12. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
    [Google Scholar]
  13. Felsenstein J. 1993 phylip (phylogeny inference package), version 3.5. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  14. Fitch W. M. 1971; Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416 [View Article]
    [Google Scholar]
  15. Gregersen T. 1978; Rapid method for distinction of Gram-negative from Gram-positive bacteria. Eur J Appl Microbiol Biotechnol 5:123–127 [View Article]
    [Google Scholar]
  16. Hansen G. H., Sørheim R. 1991; Improved method for phenotypical characterization of marine bacteria. J Microbiol Methods 13:231–241 [View Article]
    [Google Scholar]
  17. 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]
  18. Kovacs N. 1956; Identification of Pseudomonas pyocyanea by the oxidase reaction. Nature 178:703–704 [View Article][PubMed]
    [Google Scholar]
  19. Marteinsson V. T., Bjornsdottir S. H., Bienvenu N., Kristjansson J. K., Birrien J. L. 2010; Rhodothermus profundi sp. nov., a thermophilic bacterium isolated from a deep-sea hydrothermal vent in the Pacific Ocean. Int J Syst Evol Microbiol 60:2729–2734 [View Article][PubMed]
    [Google Scholar]
  20. 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 [View Article]
    [Google Scholar]
  21. MIDI 2005 Sherlock Microbial Identification System Operating Manual, version 6 . Newark, DE: MIDI Inc;
    [Google Scholar]
  22. 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]
  23. Murray R. G. E., Doetsch R. N., Robinow F. 1994; Determinative and cytological light microscopy. In Methods for General and Molecular Bacteriology pp. 21–41 Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. Washington, DC: American Society for Microbiology;
    [Google Scholar]
  24. Olsen G. J., Woese C. R., Overbeek R. 1994; The winds of (evolutionary) change: breathing new life into microbiology. J Bacteriol 176:1–6[PubMed]
    [Google Scholar]
  25. Peña A., Valens M., Santos F., Buczolits S., Antón J., Kämpfer P., Busse H. J., Amann R., Rosselló-Mora R. 2005; Intraspecific comparative analysis of the species Salinibacter ruber . Extremophiles 9:151–161 [View Article][PubMed]
    [Google Scholar]
  26. 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]
  27. Sako Y., Takai K., Ishida Y., Uchida A., Katayama Y. 1996; Rhodothermus obamensis sp. nov., a modern lineage of extremely thermophilic marine bacteria. Int J Syst Bacteriol 46:1099–1104 [View Article][PubMed]
    [Google Scholar]
  28. Sasser M. 1990; Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl 20:16
    [Google Scholar]
  29. 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]
  30. Stoecker K., Bendinger B., Schöning B., Nielsen P. H., Nielsen J. L., Baranyi C., Toenshoff E. R., Daims H., Wagner M. 2006; Cohn’s Crenothrix is a filamentous methane oxidizer with an unusual methane monooxygenase. Proc Natl Acad Sci U S A 103:2363–2367 [View Article][PubMed]
    [Google Scholar]
  31. 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]
  32. Tamura K., Dudley J., Nei M., Kumar S. 2007; mega4: Molecular evolutionary genetics analysis (mega) software version 4.0. Mol Biol Evol 24:1596–1599 [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 25:4876–4882 [View Article][PubMed]
    [Google Scholar]
  34. Tindall B. J. 1991; Lipid composition of Rhodothermus marinus . FEMS Microbiol Lett 80:65–68 [View Article]
    [Google Scholar]
  35. Urios L., Agogué H., Lesongeur F., Stackebrandt E., Lebaron P. 2006; Balneola vulgaris gen. nov., sp. nov., a member of the phylum Bacteroidetes from the north-western Mediterranean Sea. Int J Syst Evol Microbiol 56:1883–1887 [View Article][PubMed]
    [Google Scholar]
  36. Urios L., Intertaglia L., Lesongeur F., Lebaron P. 2008; Balneola alkaliphila sp. nov., a marine bacterium isolated from the Mediterranean Sea. Int J Syst Evol Microbiol 58:1288–1291 [View Article][PubMed]
    [Google Scholar]
  37. Vaisman N., Oren A. 2009; Salisaeta longa gen. nov., sp. nov., a red, halophilic member of the Bacteroidetes . Int J Syst Evol Microbiol 59:2571–2574 [View Article][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.025502-0
Loading
/content/journal/ijsem/10.1099/ijs.0.025502-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited Most Cited RSS feed