1887

Abstract

Two novel strains, GR20-10 and GR20-13, were isolated from soil using R2A medium. The soil sample was collected from a field in the Yeongju region of Korea that was cultivated with Korean ginseng. Phylogenetic analysis based on 16S rRNA gene sequences indicated that these strains formed a cluster with several uncultured bacterial clones and with , , , and (recently reclassified as ) in the phylum . The level of 16S rRNA gene sequence similarity between the two novel strains was 98.9 %. Isolates GR20-10 and GR20-13 showed the highest sequence similarities to IFO 16041 (91.8 and 91.9 %, respectively) and ATCC 13524 (90.4 and 90.6 %, respectively). The whole-cell fatty acid profiles of the two isolates were similar and their major fatty acids were 15 : 0 iso, 17 : 0 iso 3-OH and 15 : 1 iso G. The major isoprenoid quinone of both strains was MK-7. The G+C contents of GR20-10 and GR20-13 were 45.8 and 44.3 mol%, respectively. DNA–DNA hybridization (57 % DNA–DNA hybridization value) and phenotypic data indicated that strains GR20-10 and GR20-13 each belong to a separate species. On the basis of phenotypic and phylogenetic data and genomic distinctiveness, strains GR20-10 and GR20-13 represent two novel species in a novel genus in the phylum ; the names gen. nov., sp. nov. (the type species; type strain GR20-10=KACC 11465=DSM 17620) and sp. nov. (type strain GR20-13=KACC 11466=DSM 17621) are proposed.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.64242-0
2006-08-01
2020-01-29
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/56/8/1777.html?itemId=/content/journal/ijsem/10.1099/ijs.0.64242-0&mimeType=html&fmt=ahah

References

  1. Altschul, S. F., Madden, T. L., Schaffer, 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.[CrossRef]
    [Google Scholar]
  2. Bernardet, J. F., Segers, P., Vancanneyt, M., Berthe, F., Kersters, K. & Vandamme, P. ( 1996; ). Cutting a Gordian knot: emended classification and description of the genus Flavobacterium, emended description of the family Flavobacteriaceae, and proposal of Flavobacterium hydatis nom. nov. (basonym, Cytophaga aquatilis Strohl and Tait 1978). Int J Syst Bacteriol 46, 128–148.[CrossRef]
    [Google Scholar]
  3. 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.
  4. Fautz, E. & Reichenbach, H. ( 1980; ). A simple test for flexirubin-type pigments. FEMS Microbiol Lett 8, 87–91.[CrossRef]
    [Google Scholar]
  5. Fujita, T., Okamoto, M., Kosako, Y. & Okuhara, M. ( 1996; ). Flexibacter japonensis sp. nov., a new species that produces a novel inhibitor of human leukocyte elastase isolated from soil. Curr Microbiol 33, 89–93.[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. Holmes, B., Owen, R. J. & McMeekin, T. A. ( 1984; ). Genus Flavobacterium Bergey, Harrison, Breed, Hammer and Huntoon 1923, 97AL. In Bergey's Manual of Systematic Bacteriology, vol. 1, pp. 353–361. Edited by N. R. Krieg & J. G. Holt. Baltimore: Williams & Wilkins.
  9. 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]
  10. 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]
  11. LaMontagne, M. G., Schimel, J. P. & Holden, P. A. ( 2003; ). Comparison of subsurface and surface soil bacterial communities in California grassland as assessed by terminal restriction fragment length polymorphisms of PCR-amplified 16S rRNA genes. Microb Ecol 46, 216–227.[CrossRef]
    [Google Scholar]
  12. MacFaddin, J. F. ( 2000; ). Biochemical Tests for Identification of Medical Bacteria, 3rd edn, pp. 424–438. Baltimore: Lippincott Williams & Wilkins.
  13. 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]
  14. Nakagawa, Y. & Yamasato, K. ( 1993; ). Phylogenetic diversity of the genus Cytophaga revealed by 16S rRNA sequencing and menaquinone analysis. J Gen Microbiol 139, 1155–1161.[CrossRef]
    [Google Scholar]
  15. Nakagawa, Y., Sakane, T., Suzuki, M. & Hatano, K. ( 2002; ). Phylogenetic structure of the genera Flexibacter, Flexithrix, and Microscilla deduced from 16S rRNA sequence analysis. J Gen Appl Microbiol 48, 155–165.[CrossRef]
    [Google Scholar]
  16. Reichenbach, H. ( 1989a; ). Genus I. Cytophaga Winogradsky 1929, 577AL emend. In Bergey's Manual of Systematic Bacteriology, vol. 3, pp. 2015–2050. Edited by J. T. Staley, M. P. Bryant, N. Pfennig & J. G. Holt. Baltimore: Williams & Wilkins.
  17. Reichenbach, H. ( 1989b; ). Genus Flexibacter Soriano 1945, 92AL emend. In Bergey's Manual of Systematic Bacteriology, vol. 3, pp. 2061–2071. Edited by J. T. Staley, M. P. Bryant, N. Pfennig & J. G. Holt. Baltimore: Williams & Wilkins.
  18. Sangkhobol, V. & Skerman, V. B. D. ( 1981; ). Chitinophaga, a new genus of chitinolytic myxobacteria. Int J Syst Bacteriol 31, 285–293.[CrossRef]
    [Google Scholar]
  19. Seldin, L. & Dubnau, D. ( 1985; ). Deoxyribonucleic acid homology among Bacillus polymyxa, Bacillus macerans, Bacillus azotofixans, and other nitrogen-fixing Bacillus strains. Int J Syst Bacteriol 35, 151–154.[CrossRef]
    [Google Scholar]
  20. Sly, L. I., Taghavi, M. & Fegan, M. ( 1998; ). Phylogenetic heterogeneity within the genus Herpetosiphon: transfer of the marine species Herpetosiphon cohaerens, Herpetosiphon nigricans and Herpetosiphon persicus to the genus Lewinella gen. nov. in the FlexibacterBacteroidesCytophaga phylum. Int J Syst Bacteriol 48, 731–737.[CrossRef]
    [Google Scholar]
  21. Sly, L. I., Taghavi, M. & Fegan, M. ( 1999; ). Phylogenetic position of Chitinophaga pinensis in the FlexibacterBacteroidesCytophaga phylum. Int J Syst Bacteriol 49, 479–481.[CrossRef]
    [Google Scholar]
  22. 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.
  23. Stackebrandt, E. & Goebel, B. M. ( 1994; ). Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44, 846–849.[CrossRef]
    [Google Scholar]
  24. Vandamme, P., Bernardet, J.-F., Segers, P., Kersters, K. & Holmes, B. ( 1994; ). New perspectives in the classification of the flavobacteria: description of Chryseobacterium gen. nov., Bergeyella gen. nov., and Empedobacter nom. rev. Int J Syst Bacteriol 44, 827–831.[CrossRef]
    [Google Scholar]
  25. Xie, C. H. & Yokota, A. ( 2006; ). Reclassification of [Flavobacterium] ferrugineum as Terrimonas ferruginea gen. nov., comb. nov., and description of Terrimonas lutea sp. nov., isolated from soil. Int J Syst Evol Microbiol 56, 1117–1121.[CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.64242-0
Loading
/content/journal/ijsem/10.1099/ijs.0.64242-0
Loading

Data & Media loading...

Most cited articles

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