1887

Abstract

A yellow-pigmented, Gram-negative, aerobic, rod-shaped bacterium, strain KIS3-4, was isolated from soil collected on Daechung Island in the West Sea of Korea. Phylogenetic analysis based on the 16S rRNA gene sequence placed strain KIS3-4 in a distinct lineage in the family . Strain KIS3-4 shared 87.3–93.7 % sequence similarity with members of the family , and was related most closely to the genera and . In its biochemical characteristics, strain KIS3-4 was clearly separable from other genera within the family on the basis of the hydrolysis of cellulose and urea, high G+C content (64 mol%) and fatty acid profile. Major fatty acids (>10 % of the total fatty acids) were iso-C 9 (32.8 %), iso-C (18.0 %) and iso-C (12.7 %). Q-8 was the predominant respiratory quinone. Phosphatidylethanolamine and several unidentified aminophospholipids and phospholipids were present. Based on its unique phenotypic, genotypic and phylogenetic features, strain KIS3-4 represents a novel genus and species, for which the name gen. nov., sp. nov. is proposed. The type strain of is KIS3-4 (=KACC 12734 =JCM 15422).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.005165-0
2009-09-01
2019-12-15
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/59/9/2308.html?itemId=/content/journal/ijsem/10.1099/ijs.0.005165-0&mimeType=html&fmt=ahah

References

  1. An, D.-S., Im, W.-T., Yang, H.-C., Yang, D.-C. & Lee, S.-T. ( 2005; ). Dyella koreensis sp. nov., a β-glucosidase-producing bacterium. Int J Syst Evol Microbiol 55, 1625–1628.[CrossRef]
    [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 P. Gerhardt, R. G. E. Murray, W. A. Wood & N. R. Krieg. Washington, DC: American Society for Microbiology.
  3. Costello, E. K. & Schmidt, S. K. ( 2006; ). Microbial diversity in alpine tundra wet meadow soil: novel Chloroflexi from a cold, water-saturated environment. Environ Microbiol 8, 1471–1486.[CrossRef]
    [Google Scholar]
  4. Cunha, S., Tiago, I., Pires, A. L., da Costa, M. S. & Veríssimo, A. ( 2006; ). Dokdonella fugitiva sp. nov., a Gammaproteobacterium isolated from potting soil. Syst Appl Microbiol 29, 191–196.[CrossRef]
    [Google Scholar]
  5. De Clercq, D., Van Trappen, S., Cleenwerck, I., Ceustermans, A., Swings, J., Coosemans, J. & Ryckeboer, J. ( 2006; ). Rhodanobacter spathiphylli sp. nov., a gammaproteobacterium isolated from the roots of Spathiphyllum plants grown in a compost-amended potting mix. Int J Syst Evol Microbiol 56, 1755–1759.[CrossRef]
    [Google Scholar]
  6. Groth, I., Schumann, P., Weiss, N., Martin, K. & Rainey, F. A. ( 1996; ). Agrococcus jenensis gen. nov., sp. nov., a new genus of actinomycetes with diaminobutyric acid in the cell wall. Int J Syst Bacteriol 46, 234–239.[CrossRef]
    [Google Scholar]
  7. Hiraishi, A. ( 1992; ). Direct automated sequencing of 16S rDNA amplified by polymerase chain reaction from bacterial cultures without DNA purification. Lett Appl Microbiol 15, 210–213.[CrossRef]
    [Google Scholar]
  8. Im, W. T., Lee, S. T. & Yokota, A. ( 2004; ). Rhodanobacter fulvus sp. nov., a β-galactosidase-producing gammaproteobacterium. J Gen Appl Microbiol 50, 143–147.[CrossRef]
    [Google Scholar]
  9. Jin, L., Kim, K. K., Im, W. T., Yang, H. C. & Lee, S. T. ( 2007; ). Aspromonas composti gen. nov., sp. nov., a novel member of the family Xanthomonadaceae. Int J Syst Evol Microbiol 57, 1876–1880.[CrossRef]
    [Google Scholar]
  10. Johansen, J. E., Binnerup, S. J., Kroer, N. & Mølbak, L. ( 2005; ). Luteibacter rhizovicinus gen. nov., sp. nov., a yellow-pigmented gammaproteobacterium isolated from the rhizosphere of barley (Hordeum vulgare L.). Int J Syst Evol Microbiol 55, 2285–2291.[CrossRef]
    [Google Scholar]
  11. Kim, B. Y., Weon, H. Y., Lee, K. H., Seok, S. J., Kwon, S. W., Go, S. J. & Stackebrandt, E. ( 2006; ). Dyella yeojuensis sp. nov., isolated from greenhouse soil in Korea. Int J Syst Evol Microbiol 56, 2079–2082.[CrossRef]
    [Google Scholar]
  12. 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]
  13. Kwon, S. W., Kim, J. S., Park, I. C., Yoon, S. H., Park, D. H., Lim, C. K. & Go, S. J. ( 2003; ). Pseudomonas koreensis sp. nov., Pseudomonas umsongensis sp. nov. and Pseudomonas jinjuensis sp. nov., novel species from farm soils in Korea. Int J Syst Evol Microbiol 53, 21–27.[CrossRef]
    [Google Scholar]
  14. Lee, E. M., Jeon, C. O., Choi, I., Chang, K. S. & Kim, C. J. ( 2005; ). Silanimonas lenta gen. nov., sp. nov., a slightly thermophilic and alkaliphilic gammaproteobacterium isolated from a hot spring. Int J Syst Evol Microbiol 55, 385–389.[CrossRef]
    [Google Scholar]
  15. Lee, C. S., Kim, K. K., Aslam, Z. & Lee, S. T. ( 2007; ). Rhodanobacter thiooxydans sp. nov., isolated from a biofilm on sulfur particles used in an autotrophic denitrification process. Int J Syst Evol Microbiol 57, 1775–1779.[CrossRef]
    [Google Scholar]
  16. Lozada, M., Figuerola, E. L. M., Itria, R. F. & Erijman, L. ( 2006; ). Replicability of dominant bacterial populations after long-term surfactant-enrichment in lab-scale activated sludge. Environ Microbiol 8, 625–638.[CrossRef]
    [Google Scholar]
  17. Ludwig, W., Strunk, O., Klugbauer, S., Klugbauer, N., Weizenegger, M., Neumaier, J., Bachleitner, M. & Schleifer, K. H. ( 1998; ). Bacterial phylogeny based on comparative sequence analysis. Electrophoresis 19, 554–568.[CrossRef]
    [Google Scholar]
  18. Mergaert, J., Cnockaert, M. C. & Swings, J. ( 2002; ). Fulvimonas soli gen. nov., sp. nov., a γ-proteobacterium isolated from soil after enrichment on acetylated starch plastic. Int J Syst Evol Microbiol 52, 1285–1289.[CrossRef]
    [Google Scholar]
  19. 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]
  20. 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]
  21. Nalin, R., Simonet, P., Vogel, T. M. & Normand, P. ( 1999; ). Rhodanobacter lindaniclasticus gen. nov., sp. nov., a lindane-degrading bacterium. Int J Syst Bacteriol 49, 19–23.[CrossRef]
    [Google Scholar]
  22. Reasoner, D. J. & Geldreich, E. E. ( 1985; ). A new medium for the enumeration and subculture of bacteria from potable water. Appl Environ Microbiol 49, 1–7.
    [Google Scholar]
  23. Saddler, G. S. & Bradbury, J. F. ( 2005; ). Order III. Xanthomonadales. In Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 2, part B, pp. 63–122. Edited by D. J. Brenner, N. R. Krieg, J. T. Staley & G. M. Garrity. New York: Springer.
  24. Saha, P., Krishnamurthi, S., Mayilraj, S., Prasad, G. S., Bora, T. C. & Chakrabarti, T. ( 2005; ). Aquimonas voraii gen. nov., sp. nov., a novel gammaproteobacterium isolated from a warm spring of Assam, India. Int J Syst Evol Microbiol 55, 1491–1495.[CrossRef]
    [Google Scholar]
  25. 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.
  26. Thompson, J. D., Higgins, D. G. & Gibson, T. J. ( 1994; ). clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22, 4673–4680.[CrossRef]
    [Google Scholar]
  27. Weon, H. Y., Kim, B. Y., Hong, S. B., Jeon, Y. A., Kwon, S. W., Go, S. J. & Koo, B. S. ( 2007; ). Rhodanobacter ginsengisoli sp. nov. and Rhodanobacter terrae sp. nov., isolated from soil cultivated with Korean ginseng. Int J Syst Evol Microbiol 57, 2810–2813.[CrossRef]
    [Google Scholar]
  28. Xie, C.-H. & Yokota, A. ( 2005; ). Dyella japonica gen. nov., sp. nov., a γ-proteobacterium isolated from soil. Int J Syst Evol Microbiol 55, 753–756.[CrossRef]
    [Google Scholar]
  29. Yoon, J. H., Kang, S. J. & Oh, T. K. ( 2006; ). Dokdonella koreensis gen. nov., sp. nov., isolated from soil. Int J Syst Evol Microbiol 56, 145–150.[CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.005165-0
Loading
/content/journal/ijsem/10.1099/ijs.0.005165-0
Loading

Data & Media loading...

Supplements

Transmission electron micrograph of cells of strain KIS3-4 . Bar, 1 µm.

IMAGE

Polar lipid profiles of strain KIS3-4 (a) and DSM 17203 (b) after separation by two-dimensional TLC. APL1–4, Unidentified aminophospholipids; L, unidentified polar lipid; PE, phosphatidylethanolamine; PL1–4, unidentified phospholipids.

IMAGE

Polar lipid profiles of strain KIS3-4 (a) and DSM 17203 (b) after separation by two-dimensional TLC. APL1–4, Unidentified aminophospholipids; L, unidentified polar lipid; PE, phosphatidylethanolamine; PL1–4, unidentified phospholipids.

IMAGE

Fatty acid comparisons among strain KIS3-4 and related members of the family . [PDF](73 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