1887

Abstract

A novel Gram-positive, motile, rod-shaped bacterium isolated from a saline soil in China was characterized by a polyphasic taxonomic approach. The strain, designated YC1, was halotolerant [tolerating up to 15 % (w/v) NaCl] and alkaliphilic (growing at a broad pH range of 5–13). 16S rRNA gene sequence analysis revealed that the isolate belonged to the genus , showing highest similarity to JCM 13285 (98.0 %). However, DNA–DNA hybridization indicated low levels of genomic relatedness with JCM 13285 (8.5 %). The major isoprenoid quinone was MK-7 and the cellular fatty acid profile consisted of significant amounts of iso-C (38.6 %) and anteiso-C (35.9 %). The predominant polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The G+C content of the genomic DNA was 41.8 mol%. On the basis of the polyphasic evidence from this study, strain YC1 (=KCTC 13181=CGMCC 1.6854) should be classified as the type strain of a novel species of the genus , for which the name sp. nov. is proposed.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.000653-0
2009-06-01
2024-12-08
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/59/6/1460.html?itemId=/content/journal/ijsem/10.1099/ijs.0.000653-0&mimeType=html&fmt=ahah

References

  1. Ash, C., Farrow, J. A. E., Wallbanks, S. & Collins, M. D.(1991). Phylogenetic heterogeneity of the genus Bacillus revealed by comparative analysis of small-subunit-ribosomal RNA sequences. Lett Appl Microbiol 13, 202–206. [Google Scholar]
  2. Bishop, D. G., Rutberg, L. & Samuelsson, B.(1967). The chemical composition of the cytoplasmic membrane of Bacillus subtilis. Eur J Biochem 2, 448–453.[CrossRef] [Google Scholar]
  3. Borchert, M. S., Nielsen, P., Graeber, I., Kaesler, I., Szewzyk, U., Pape, T., Antranikian, G. & Schäfer, T.(2007).Bacillus plakortidis sp. nov. and Bacillus murimartini sp. nov., novel alkalitolerant members of rRNA group 6. Int J Syst Evol Microbiol 57, 2888–2893.[CrossRef] [Google Scholar]
  4. Bousfield, I. J., Keddie, R. M., Dando, T. R. & Shaw, S.(1985). Simple rapid methods of cell wall analysis as an aid in the identification of aerobic coryneform bacteria. In Chemical Methods in Bacterial Systematics, pp. 221–236. Edited by M. Goodfellow & D. E. Minnikin. London: Academic Press.
  5. Brosius, J., Palmer, M. L., Kennedy, P. J. & Noller, H. F.(1978). Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli. Proc Natl Acad Sci U S A 75, 4801–4805.[CrossRef] [Google Scholar]
  6. Brundish, D. E., Shaw, N. & Baddiley, J.(1965). The occurrence of glycolipids in Gram-positive bacteria. Biochem J 95, 21c–22c. [Google Scholar]
  7. 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]
  8. De Clerck, E., Rodríguez-Díaz, M., Vanhoutte, T., Heyrman, J., Logan, N. A. & De Vos, P.(2004).Anoxybacillus contaminans sp. nov. and Bacillus gelatini sp. nov., isolated from contaminated gelatin batches. Int J Syst Evol Microbiol 54, 941–946.[CrossRef] [Google Scholar]
  9. 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]
  10. 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]
  11. Felsenstein, J.(1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef] [Google Scholar]
  12. Felsenstein, J.(1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef] [Google Scholar]
  13. Felsenstein, J.(1993).phylip (phylogeny inference package), version 3.5c. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  14. Ghosh, A., Bhardwaj, M., Satyanarayana, T., Khurana, M., Mayilraj, S. & Jain, R. K.(2007).Bacillus lehensis sp. nov., an alkalitolerant bacterium isolated from soil. Int J Syst Evol Microbiol 57, 238–242.[CrossRef] [Google Scholar]
  15. Horikoshi, K.(2006).Alkaliphiles. Tokyo: Kodansha.
  16. 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]
  17. 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]
  18. Kämpfer, P.(1994). Limits and possibilities of total fatty acid analysis for classification and identification of Bacillus species. Syst Appl Microbiol 17, 86–98.[CrossRef] [Google Scholar]
  19. Kämpfer, P., Rossellό-Mora, R., Falsen, E., Busse, H.-J. & Tindall, B. J.(2006).Cohnella thermotolerans gen. nov., sp. nov., and classification of ‘Paenibacillus hongkongensis’ as Cohnella hongkongensis sp. nov. Int J Syst Evol Microbiol 56, 781–786.[CrossRef] [Google Scholar]
  20. 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]
  21. Kimura, M.(1983).The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press.
  22. Komagata, K. & Suzuki, K.(1987). Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19, 161–207. [Google Scholar]
  23. Kumar, S., Tamura, K., Jakobsen, I.-B. & Nei, M.(2001).mega2: Molecular Evolutionary Genetics Analysis software. Bioinformatics 17, 1244–1245.[CrossRef] [Google Scholar]
  24. Lee, J.-C., Lim, J.-M., Park, D.-J., Jeon, C. O., Li, W.-J. & Kim, C.-J.(2006).Bacillus seohaeanensis sp. nov., a halotolerant bacterium that contains l-lysine in its cell wall. Int J Syst Evol Microbiol 56, 1893–1898.[CrossRef] [Google Scholar]
  25. Lim, J.-M., Jeon, C. O. & Kim, C.-J.(2006).Bacillus taeanensis sp. nov., a halophilic Gram-positive bacterium from a solar saltern in Korea. Int J Syst Evol Microbiol 56, 2903–2908.[CrossRef] [Google Scholar]
  26. Liu, H., Liu, R., Yang, S.-Y., Gao, W.-K., Zhang, C.-X., Zhang, K.-Y. & Lai, R.(2008).Flavobacterium anhuiense sp. nov., isolated from field soil. Int J Syst Evol Microbiol 58, 756–760.[CrossRef] [Google Scholar]
  27. Minnikin, D. E., O'Donnell, A. G., Goodfellow, M., Alderson, G., Athalye, M., Schaal, A. & Parlett, J. H.(1984). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2, 233–241.[CrossRef] [Google Scholar]
  28. Nielsen, P., Rainey, F. A., Outtrup, H., Priest, F. G. & Fritze, D.(1994). Comparative 16S rDNA sequence analysis of some alkaliphilic bacilli and the establishment of a sixth rRNA group within the genus Bacillus. FEMS Microbiol Lett 117, 61–66.[CrossRef] [Google Scholar]
  29. Nogi, Y., Takami, H. & Horikoshi, K.(2005). Characterization of alkaliphilic Bacillus strains used in industry: proposal of five novel species. Int J Syst Evol Microbiol 55, 2309–2315.[CrossRef] [Google Scholar]
  30. Nowlan, B., Dodia, M. S., Singh, S. P. & Patel, B. K. C.(2006).Bacillus okhensis sp. nov., a halotolerant and alkalitolerant bacterium from an Indian saltpan. Int J Syst Evol Microbiol 56, 1073–1077.[CrossRef] [Google Scholar]
  31. Olivera, N., Siñeriz, F. & Breccia, J. D.(2005).Bacillus patagoniensis sp. nov., a novel alkalitolerant bacterium from the rhizosphere of Atriplex lampa in Patagonia, Argentina. Int J Syst Evol Microbiol 55, 443–447.[CrossRef] [Google Scholar]
  32. 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]
  33. Saitou, N. & Nei, M.(1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425. [Google Scholar]
  34. Sasser, M.(1990). Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl 20, 16 [Google Scholar]
  35. 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.
  36. 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]
  37. Täubel, M., Kämpfer, P., Buczolits, S., Lubitz, W. & Busse, H.-J.(2003).Bacillus barbaricus sp. nov., isolated from an experimental wall painting. Int J Syst Evol Microbiol 53, 725–730.[CrossRef] [Google Scholar]
  38. 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]
  39. 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]
  40. 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]
  41. 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]
  42. Yoon, J.-H., Kim, I.-G., Kang, K. H., Oh, T.-K. & Park, Y.-H.(2004).Bacillus hwajinpoensis sp. nov. and an unnamed Bacillus genomospecies, novel members of Bacillus rRNA group 6 isolated from sea water of the East Sea and the Yellow Sea in Korea. Int J Syst Evol Microbiol 54, 803–808.[CrossRef] [Google Scholar]
  43. Zhang, T., Fan, X., Hanada, S., Kamagata, Y. & Fang, H. H. P.(2006).Bacillus macauensis sp. nov., a long-chain bacterium isolated from a drinking water supply. Int J Syst Evol Microbiol 56, 349–353.[CrossRef] [Google Scholar]
/content/journal/ijsem/10.1099/ijs.0.000653-0
Loading
/content/journal/ijsem/10.1099/ijs.0.000653-0
Loading

Data & Media loading...

Supplements

vol. , part 6, pp. 1460 - 1464

Two-dimensional TLC of the polar lipids of strain YC1 and JCM 13285 .

Transmission electron micrograph of cells of strain YC1 grown on LB agar for 24 h at 30°C.

Combined file [ PDF] 206 KB

 



PDF
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