1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 57, Issue 6

gen. nov., sp. nov. Free

Abstract

Strain Jip14, a Gram-negative, non-spore-forming, rod-shaped, non-motile bacterium, was isolated from dried rice straw and characterized in order to determine its taxonomic position. 16S rRNA gene sequence analysis revealed that strain Jip14 belongs to the family , and the highest degree of sequence similarity was determined to be to DSM 12145 (88.5 %), DSM 12126 (87.6 %), DSM 2366 (87.1 %) and LMG 22862 (86.9 %). Chemotaxonomic data revealed that strain Jip14 possesses menaquinone MK-7 and the predominant fatty acids C iso, C, C 10-methyl, C iso 3-OH and summed feature 3 (C iso 2-OH/C 7). The results of physiological and biochemical tests clearly demonstrated that strain Jip14 represents a distinct species. Based on these data, Jip14 should be classified within a novel genus and species, for which the name gen. nov., sp. nov. is proposed. The type strain of is Jip14 (=KCTC 12643=LMG 23493).

  • Published Online:
SGM
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.64677-0
2007-06-01
2024-04-24
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/57/6/1336.html?itemId=/content/journal/ijsem/10.1099/ijs.0.64677-0&mimeType=html&fmt=ahah

References

  1. Buck J. D. 1982; Nonstaining (KOH) method for determination of Gram reactions of marine bacteria. Appl Environ Microbiol 44:992–993
     [Google Scholar]
  2. Busse J., Auling G. 1988; Polyamine pattern as a chemotaxonomic marker within the Proteobacteria . Syst Appl Microbiol 11:1–8 [CrossRef]
     [Google Scholar]
  3. Cappuccino J. G., Sherman N. 2002 Microbiology: a Laboratory Manual , 6th edn. Menlo Park, CA: Pearson Education/Benjamin Cummings;
     [Google Scholar]
  4. Collins M. D., Jones D. 1981; Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implications. Microbiol Rev 45:316–354
     [Google Scholar]
  5. Felsenstein J. 1985; Confidence limit on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [CrossRef]
     [Google Scholar]
  6. Gallego V., García M. T., Ventosa A. 2006; Pedobacter aquatilis sp. nov., isolated from drinking water, and emended description of the genus Pedobacter . Int J Syst Evol Microbiol 56:1853–1858 [CrossRef]
     [Google Scholar]
  7. Hall T. A. 1999; BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98
     [Google Scholar]
  8. Holmes B., Weaver R. E., Steigerwalt A. G., Brenner D. J. 1988; A taxonomic study of Flavobacterium spiritivorum and Sphingobacterium mizutae : proposal of Flavobacterium yabuuchiae sp. nov. and Flavobacterium mizutaii comb. nov. Int J Syst Bacteriol 38:348–353 [CrossRef]
     [Google Scholar]
  9. Hwang C. Y., Choi D. H., Cho B. C. 2006; Pedobacter roseus sp. nov., isolated from a hypertrophic pond, and emended description of the genus Pedobacter . Int J Syst Evol Microbiol 56:1831–1836 [CrossRef]
     [Google Scholar]
  10. Kim M. K., Im W.-T., Ohta H., Lee M., Lee S.-T. 2005; Sphingopyxis granuli sp. nov., a β -glucosidase-producing bacterium in the family Sphingomonadaceae in α -4 subclass of the Proteobacteria . J Microbiol 43:152–157
     [Google Scholar]
  11. Kim K.-H., Ten L. N., Liu Q.-M., Im W.-T., Lee S.-T. 2006; Sphingobacterium daejeonense sp. nov., isolated from a compost sample. Int J Syst Evol Microbiol 56:2031–2036 [CrossRef]
     [Google Scholar]
  12. Kimura M. 1983 The Neutral Theory of Molecular Evolution Cambridge: Cambridge University Press;
     [Google Scholar]
  13. Kumar S., Tamura K., Jakobsen I. B., Nei M. 2001; mega2: molecular evolutionary genetics analysis software. Bioinformatics 17:1244–1245 [CrossRef]
     [Google Scholar]
  14. Kwon S.-W., Kim B. Y., Lee K.-H., Jang K.-Y., Seok S.-J., Kwon J.-S., Kim W.-G., Weon H. Y. 2007; Pedobacter suwonensis sp. nov., isolated from the rhizosphere of Chinese cabbage ( Brassica campestris ). Int J Syst Evol Microbiol 57:480–484 [CrossRef]
     [Google Scholar]
  15. Margesin R., Spröer C., Schumann P., Schinner F. 2003; Pedobacter cryoconitis sp. nov., a facultative psychrophile from alpine glacier cryoconite. Int J Syst Evol Microbiol 53:1291–1296 [CrossRef]
     [Google Scholar]
  16. 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]
  17. Minnikin D. E., O'Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal K., Parlett J. H. 1984; An integrated procedure for the extraction of isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241 [CrossRef]
     [Google Scholar]
  18. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
     [Google Scholar]
  19. Sasser M. 1990; Identification of bacteria by gas chromatography of cellular fatty acids . MIDI Technical Note 101: Newark, DE: MIDI Inc;
     [Google Scholar]
  20. Schenkel E., Berlaimont V., Dubois J., Helson-Cambier M., Hanocq M. 1995; Improved high-performance liquid chromatographic method for the determination of polyamines as their benzoylated derivatives: application to P388 cancer cells. J Chromatogr B Biomed Appl 668:189–197 [CrossRef]
     [Google Scholar]
  21. Shin Y. K., Lee J.-S., Chun C. O., Kim H.-J., Park Y.-H. 1996; Isoprenoid quinone profiles of the Leclercia adecarboxylata KCTC 1036T . J Microbiol Biotechnol 6:68–69
     [Google Scholar]
  22. Shivaji S., Ray M. K., Rao N. S., Saisree L., Jagannadham M. V., Kumar G. S., Reddy G. S. N., Bhargava P. M. 1992; Sphingobacterium antarcticus sp. nov., a psychrotrophic bacterium from the soils of Schirmacher Oasis, Antarctica. Int J Syst Bacteriol 42:102–106 [CrossRef]
     [Google Scholar]
  23. Shivaji S., Chaturvedi P., Reddy G. S. N., Suresh K. 2005; Pedobacter himalayensis sp. nov., from the Hamta glacier located in the Himalayan mountain ranges of India. Int J Syst Evol Microbiol 55:1083–1088 [CrossRef]
     [Google Scholar]
  24. Steyn P. L., Segers P., Vancanneyt M., Sandra P., Kersters K., Joubert J. J. 1998; Classification of heparinolytic bacteria into a new genus, Pedobacter , comprising four species: Pedobacter heparinus comb.nov., Pedobacter piscium comb. nov., Pedobacter africanus sp. nov. and Pedobacter saltans sp. nov.Proposal of the family Sphingobacteriaceae fam. nov. Int J Syst Bacteriol 48:165–177 [CrossRef]
     [Google Scholar]
  25. Takeuchi M., Yokota A. 1992; Proposals of Sphingobacterium faecium sp. nov., Sphingobacterium piscium sp. nov., Sphingobacterium heparinum comb. nov., Sphingobacterium thalpophilum comb. nov. and two genospecies of the genus Sphingobacterium , and synonymy of Flavobacterium yabuuchiae and Sphingobacterium spiritivorum . J Gen Appl Microbiol 38:465–482 [CrossRef]
     [Google Scholar]
  26. Tamaoka J., Komagata K. 1984; Determination of DNA base composition by reversed phase high-performance liquid chromatography. FEMS Microbiol Lett 25:125–128 [CrossRef]
     [Google Scholar]
  27. Ten L. N., Liu Q.-M., Im W.-T., Lee M., Yang D.-C., Lee S.-T. 2006; Pedobacter ginsengisoli sp. nov., a DNase-producing bacterium isolated from soil of a ginseng field in South Korea. Int J Syst Evol Microbiol 56:2565–2570 [CrossRef]
     [Google Scholar]
  28. 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]
  29. Vanparys B., Kim H., Lebbe L., De Vos P. 2005; Pedobacter caeni sp. nov., a novel species isolated from a nitrifying inoculum. Int J Syst Evol Microbiol 55:1315–1318 [CrossRef]
     [Google Scholar]
  30. Weisburg W. G., Barns S. M., Pelletier D. A., Lane D. J. 1991; 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 173:697–703
     [Google Scholar]
  31. Yabuuchi E., Kaneko T., Yano I., Moss C. W., Miyoshi N. 1983; Sphingobacterium gen. nov., Sphingobacterium spiritivorum comb.nov., Sphingobacterium multivorum comb. nov., Sphingobacterium mizutae sp. nov., and Flavobacterium indologenes sp. nov.: glucose-nonfermenting gram-negative rods in CDC groups IIK-2 and IIb. Int J Syst Bacteriol 33:580–598 [CrossRef]
     [Google Scholar]
  32. Yoon J.-H., Lee M.-H., Kang S.-J., Park S.-Y., Oh T.-K. 2006; Pedobacter sandarakinus sp. nov., isolated from soil. Int J Syst Evol Microbiol 56:1273–1277 [CrossRef]
     [Google Scholar]
  33. Yoon M.-H., Ten L. N., Im W.-T., Lee S.-T. 2007; Pedobacter panaciterrae sp. nov., isolated from soil in South Korea. Int J Syst Evol Microbiol 57:381–386 [CrossRef]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.64677-0
Loading
Parapedobacter koreensis gen. nov., sp. nov.
Int J Syst Evol Microbiol 57, 1336 (2007); https://doi.org/10.1099/ijs.0.64677-0
/content/journal/ijsem/10.1099/ijs.0.64677-0
/content/journal/ijsem/10.1099/ijs.0.64677-0
Loading

Data & Media loading...

Most cited Most Cited RSS feed

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