1887

Abstract

A novel alkaliphilic, halotolerant, rod-shaped bacterium, designated strain YIM CH208, was isolated from a soda lake in Yunnan, south-west China. The taxonomy of strain YIM CH208 was investigated by a polyphasic approach. Strain YIM CH208 was Gram-negative, strictly aerobic and non-motile and formed red colonies. Optimal growth conditions were 28 °C, pH 8.5 and 0.5–2.5 % NaCl. Phylogenetic analysis based on 16S rRNA gene sequence comparisons showed that the isolate formed a distinct line within a clade containing the genus in the phylum and was related to the species and , with sequence similarity of 91.7 and 91.6 % to the respective type strains. The DNA GC content was 45.1 mol%. The major respiratory quinone was menaquinone-7 (MK-7). The predominant cellular fatty acids were iso-C 9 (19.9 %), C 3-OH (12.1 %), iso-C 3-OH (11.3 %), summed feature 3 (iso-C 2-OH and/or C 7; 10.7 %) and C 6 (8.7 %). On the basis of the phenotypic, chemotaxonomic and phylogenetic data, strain YIM CH208 represents a novel species of a new genus, for which the name gen. nov., sp. nov. is proposed. The type strain of is YIM CH208 (=ACCC 05414 =KCTC 22899).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.021626-0
2010-12-01
2019-12-07
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/60/12/2996.html?itemId=/content/journal/ijsem/10.1099/ijs.0.021626-0&mimeType=html&fmt=ahah

References

  1. Altschul, S. F., Gish, W., Miller, W., Myers, E. W. & Lipman, D. J. ( 1990; ). Basic local alignment search tool. J Mol Biol 215, 403–410.[CrossRef]
    [Google Scholar]
  2. Anil Kumar, P., Srinivas, T. N. R., Madhu, S., Manorama, R. & Shivaji, S. ( 2010a; ). Indibacter alkaliphilus gen. nov., sp. nov., an alkaliphilic bacterium isolated from a haloalkaline lake. Int J Syst Evol Microbiol 60, 721–726.[CrossRef]
    [Google Scholar]
  3. Anil Kumar, P., Srinivas, T. N. R., Pavan Kumar, P., Madhu, S. & Shivaji, S. ( 2010b; ). Nitritalea halalkaliphila gen. nov., sp. nov., an alkaliphilic bacterium of the family ‘Cyclobacteriaceae’, phylum Bacteroidetes. Int J Syst Evol Microbiol 60, 2320–2325.[CrossRef]
    [Google Scholar]
  4. Arun, A. B., Young, C.-C., Chen, W.-M., Hung, M.-H., Lai, W.-A., Chou, J.-H., Rekha, P. D., Shen, F.-T. & Su, S. P. ( 2009; ). Belliella pelovolcani sp. nov., isolated from a mud-volcano in Taiwan. Int J Syst Evol Microbiol 59, 2534–2537.[CrossRef]
    [Google Scholar]
  5. Bauer, A. W., Kirby, W. M. M., Sherris, J. C. & Turck, M. ( 1966; ). Antibiotic susceptibility testing by a standardized single disk method. Am J Clin Pathol 45, 493–496.
    [Google Scholar]
  6. Bowman, J. P. ( 2000; ). Description of Cellulophaga algicola sp. nov., isolated from the surfaces of Antarctic algae, and reclassification of Cytophaga uliginosa (ZoBell and Upham 1944) Reichenbach 1989 as Cellulophaga uliginosa comb. nov. Int J Syst Evol Microbiol 50, 1861–1868.
    [Google Scholar]
  7. Bowman, J. P., Nichols, C. M. & Gibson, J. A. ( 2003; ). Algoriphagus ratkowskyi gen. nov., sp. nov., Brumimicrobium glaciale gen. nov., sp. nov., Cryomorpha ignava gen. nov., sp. nov. and Crocinitomix catalasitica gen. nov., sp. nov., novel flavobacteria isolated from various polar habitats. Int J Syst Evol Microbiol 53, 1343–1355.[CrossRef]
    [Google Scholar]
  8. Brettar, I., Christen, R. & Höfle, M. G. ( 2004a; ). Belliella baltica gen. nov., sp. nov., a novel marine bacterium of the CytophagaFlavobacteriumBacteroides group isolated from surface water of the central Baltic Sea. Int J Syst Evol Microbiol 54, 65–70.[CrossRef]
    [Google Scholar]
  9. Brettar, I., Christen, R. & Höfle, M. G. ( 2004b; ). Aquiflexum balticum gen. nov., sp. nov., a novel marine bacterium of the CytophagaFlavobacteriumBacteroides group isolated from surface water of the central Baltic Sea. Int J Syst Evol Microbiol 54, 2335–2341.[CrossRef]
    [Google Scholar]
  10. 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.[CrossRef]
    [Google Scholar]
  11. 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]
  12. Cottrell, M. T. & Kirchman, D. L. ( 2000; ). Community composition of marine bacterioplankton determined by 16S rRNA gene clone libraries and fluorescence in situ hybridization. Appl Environ Microbiol 66, 5116–5122.[CrossRef]
    [Google Scholar]
  13. Cowan, S. T. & Steel, K. J. ( 1965; ). Manual for the Identification of Medical Bacteria. London. : Cambridge University Press.
    [Google Scholar]
  14. Cui, X. L., Mao, P. H., Zeng, M., Li, W. J., Zhang, L. P., Xu, L. H. & Jiang, C. L. ( 2001; ). Streptomonospora salina gen. nov., sp. nov., a new member of the family Nocardiopsaceae. Int J Syst Evol Microbiol 51, 357–363.
    [Google Scholar]
  15. Felsenstein, J. ( 1981; ). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef]
    [Google Scholar]
  16. Felsenstein, J. ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef]
    [Google Scholar]
  17. Felsenstein, J. ( 1993; ). phylip (phylogeny inference package) version 3.5. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  18. Garrity, G. M. & Holt, J. G. ( 2001; ). The road map to the Manual. In Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 1, pp. 119–166. Edited by Boone, D. R., Castenholz, R. W. & Garrity, G. M.. New York. : Springer.
    [Google Scholar]
  19. Gregersen, T. ( 1978; ). Rapid method for distinction of Gram-negative from Gram-positive bacteria. Eur J Appl Microbiol Biotechnol 5, 123–127.[CrossRef]
    [Google Scholar]
  20. Kämpfer, P., Young, C.-C., Chen, W.-M., Rekha, P. D., Fallschissel, K., Lodders, N., Chou, J.-H., Shen, F.-T., Frischmann, A. & other authors ( 2010; ). Fontibacter flavus gen. nov., sp. nov., a member of the family ‘Cyclobacteriaceae’, isolated from a hot spring. Int J Syst Evol Microbiol 60, 2066–2070.[CrossRef]
    [Google Scholar]
  21. 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.[CrossRef]
    [Google Scholar]
  22. Kovács, N. ( 1956; ). Identification of Pseudomonas pyocyanea by oxidase reaction. Nature 178, 703–704.
    [Google Scholar]
  23. Kumar, S., Tamura, K. & Nei, M. ( 2004; ). mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150–163.[CrossRef]
    [Google Scholar]
  24. Liu, Y., Li, H., Jiang, J. T., Liu, Y. H., Song, X. F., Xu, C. J. & Liu, Z. P. ( 2009; ). Algoriphagus aquatilis sp. nov., isolated from a freshwater lake. Int J Syst Evol Microbiol 59, 1759–1763.[CrossRef]
    [Google Scholar]
  25. Ludwig, W., Euzéby, J. & Whitman, W. B. ( 2008; ). Draft taxonomic outline of the Bacteroidetes, Planctomycetes, Chlamydiae, Spirochaetes, Fibrobacteres, Fusobacteria, Acidobacteria, Verrucomicrobia, Dictyoglomi, and Gemmatimonadetes. Bergey's Taxonomic Outlines, vol. 4. http://www.bergeys.org/outlines/Bergeys_Vol_4_Outline.pdf.
  26. 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]
  27. Nedashkovskaya, O. I., Suzuki, M., Vysotskii, M. V. & Mikhailov, V. V. ( 2003; ). Reichenbachia agariperforans gen. nov., sp. nov., a novel marine bacterium in the phylum CytophagaFlavobacteriumBacteroides. Int J Syst Evol Microbiol 53, 81–85.[CrossRef]
    [Google Scholar]
  28. Nedashkovskaya, O. I., Kim, S. B., Vancanneyt, M., Lysenko, A. M., Shin, D. S., Park, M. S., Lee, K. H., Jung, W. J., Kalinovskaya, N. I. & other authors ( 2006; ). Echinicola pacifica gen. nov., sp. nov., a novel flexibacterium isolated from the sea urchin Strongylocentrotus intermedius. Int J Syst Evol Microbiol 56, 953–958.[CrossRef]
    [Google Scholar]
  29. Nedashkovskaya, O. I., Kim, S. B., Hoste, B., Shin, D. S., Beleneva, I. A., Vancanneyt, M. & Mikhailov, V. V. ( 2007; ). Echinicola vietnamensis sp. nov., a member of the phylum Bacteroidetes isolated from seawater. Int J Syst Evol Microbiol 57, 761–763.[CrossRef]
    [Google Scholar]
  30. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  31. Sasser, M. ( 1990; ). Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl 20, 16.
    [Google Scholar]
  32. Schmidt, M., Priemé, A. & Stougaard, P. ( 2006; ). Rhodonellum psychrophilum gen. nov., sp. nov., a novel psychrophilic and alkaliphilic bacterium of the phylum Bacteroidetes isolated from Greenland. Int J Syst Evol Microbiol 56, 2887–2892.[CrossRef]
    [Google Scholar]
  33. Tamaoka, J., Katayama-Fujimura, Y. & Kuraishi, H. ( 1983; ). Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. J Appl Bacteriol 54, 31–36.[CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.021626-0
Loading
/content/journal/ijsem/10.1099/ijs.0.021626-0
Loading

Data & Media loading...

Supplements

vol. , part 12, pp. 2996 - 3001

Maximum-likelihood tree based on almost-complete 16S rRNA gene sequences showing the phylogenetic position of strain YIM CH208 .

Absoption spectrum of an acetone/methanol extract of pigments of strain YIM CH208 .

[PDF file of Supplementary Figures](51 KB)



PDF

Most Cited This Month

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