A Gram-stain-negative, strictly aerobic bacterium, designated strain N7, was isolated from a rice paddy in South Korea. Cells of strain N7 were non-motile, non-spore-forming rods. Growth was observed at 15–35 °C (optimum of 25–30 °C) and between pH 6.0 and 8.0 (optimum of pH 6.5–7.5). The predominant isoprenoid quinone was menaquinone-7. The major cellular fatty acids of strain N7 were summed feature 3 (comprising C 7 and/or iso-C 2-OH), iso-C, anteiso-C, C and iso-C. The G+C content of the genomic DNA was 37.7 mol%. Comparative 16S rRNA gene sequence analyses showed that strain N7 formed a distinct phyletic line within the genus . Phylogenetic distances from strains of other species with validly published names were greater than 5.0 % (i.e. <95.0 % 16S rRNA gene sequence similarities). On the basis of phenotypic and molecular data, it is clear that strain N7 represents a novel species within the genus , for which the name sp. nov. is proposed. The type strain is N7 (=KACC 12821 =DSM 19973).


Article metrics loading...

Loading full text...

Full text loading...



  1. Bernardet, J. F., Nakagawa, Y. & Holmes, B.(2002). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 52, 1049–1070.[CrossRef] [Google Scholar]
  2. Chun, J., Lee, J.-H., Jung, Y., Kim, M., Kim, S., Kim, B. K. & Lim, Y. W.(2007). EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 57, 2259–2261.[CrossRef] [Google Scholar]
  3. Felsenstein, J.(2002).phylip (phylogeny inference package) version 3.6a. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  4. 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]
  5. Gomori, G.(1955). Preparation of buffers for use in enzyme studies. Methods Enzymol 1, 138–146. [Google Scholar]
  6. Jeon, C. O., Park, W., Ghiorse, W. C. & Madsen, E. L.(2004).Polaromonas naphthalenivorans sp. nov., a naphthalene-degrading bacterium from naphthalene-contaminated sediment. Int J Syst Evol Microbiol 54, 93–97.[CrossRef] [Google Scholar]
  7. Kim, J. M., Le, N. T., Chung, B. S., Park, J. H., Bae, J.-W., Madsen, E. L. & Jeon, C. O.(2008). Influence of soil components on the biodegradation of benzene, toluene, ethylbenzene, and o-, m-, and p-xylenes by the newly isolated bacterium Pseudoxanthomonas spadix BD-a59. Appl Environ Microbiol 74, 7313–7320.[CrossRef] [Google Scholar]
  8. Komagata, K. & Suzuki, K.(1987). Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19, 161–207. [Google Scholar]
  9. 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]
  10. Lányí, B.(1987). Classical and rapid identification methods for medically important bacteria. Methods Microbiol 19, 1–67. [Google Scholar]
  11. Leifson, E.(1963). Determination of carbohydrate metabolism of marine bacteria. J Bacteriol 85, 1183–1184. [Google Scholar]
  12. Lu, S., Park, M., Ro, H.-S., Lee, D. S., Park, W. & Jeon, C. O.(2006). Analysis of microbial communities using culture-dependent and culture-independent approaches in an anaerobic/aerobic SBR reactor. J Microbiol 44, 155–161. [Google Scholar]
  13. Muurholm, S., Cousin, S., Päuker, O., Brambilla, E. & Stackebrandt, E.(2007).Pedobacter duraquae sp. nov., Pedobacter westerhofensis sp. nov., Pedobacter metabolipauper sp. nov., Pedobacter hartonius sp. nov. and Pedobacter steynii sp. nov., isolated from a hard-water rivulet. Int J Syst Evol Microbiol 57, 2221–2227.[CrossRef] [Google Scholar]
  14. 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]
  15. 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.
  16. 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]
  17. 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]
  18. 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]
  19. Ten, L. N., Liu, Q.-M., Im, W.-T., Lee, M., Yang, D.-C. & Lee, S.-T.(2006).Pedobacter ginsengisoli sp. nov., a novel DNase-producing bacterium isolated from soil of a ginseng field in South Korea. Int J Syst Evol Microbiol 56, 2565–2570.[CrossRef] [Google Scholar]
  20. Thompson, J. D., Higgins, D. G. & Gibson, T. J.(1994).clustalw: 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]
  21. Vanparys, B., Heylen, K., 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]
  22. Yoon, M.-H., Ten, L. N., Im, W.-T. & Lee, S. T.(2007a).Pedobacter panaciterrae sp. nov., isolated from soil in South Korea. Int J Syst Evol Microbiol 57, 381–386.[CrossRef] [Google Scholar]
  23. Yoon, J.-H., Kang, S.-J., Oh, H. W. & Oh, T.-K.(2007b).Pedobacter insulae sp. nov., isolated from soil. Int J Syst Evol Microbiol 57, 1999–2003.[CrossRef] [Google Scholar]
  24. Yoon, J.-H., Kang, S.-J., Park, S. & Oh, T.-K.(2007c).Pedobacter lentus sp. nov. and Pedobacter terricola sp. nov., isolated from soil. Int J Syst Evol Microbiol 57, 2089–2095.[CrossRef] [Google Scholar]
  25. Yoon, J.-H., Kang, S.-J. & Oh, T.-K.(2007d).Pedobacter terrae sp. nov., isolated from soil. Int J Syst Evol Microbiol 57, 2462–2466.[CrossRef] [Google Scholar]

Data & Media loading...


vol. , part 10, pp. 2491 - 2495

Transmission electron micrograph showing the general morphology of a negatively stained cell of strain N7 after growth for 2 days at 30 °C on R2A agar. Bar, 700 nm.


Most cited this month 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