1887

Abstract

A facultatively anaerobic, moderately halophilic, Gram-negative, filamentous bacterium, designated JC2469, was isolated from tidal flat sediment in Korea. Phylogenetic analysis based on 16S rRNA gene sequences showed that the isolate belonged to the phylum and its closest taxonomic relative was NCIMB 2218 (89.6 % sequence similarity). Cells appeared as filaments during exponential growth, but became fragmented to rods at stationary phase. Spherical cells were also observed in aged cultures. Strain JC2469 contained iso-C (56.2 %) and MK-7 as the predominant fatty acid and respiratory quinone, respectively. On the basis of evidence from this polyphasic study, the isolate showed substantial differences from other genera. The phylogenetic and physiological data of the present study strongly suggest that the isolate represents a novel genus and species, for which the name gen. nov., sp. nov. is proposed. The type strain of is JC2469 (=IMSNU 14138 =KCTC 22488 =JCM 15579).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.009027-0
2009-09-01
2019-10-21
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/59/9/2241.html?itemId=/content/journal/ijsem/10.1099/ijs.0.009027-0&mimeType=html&fmt=ahah

References

  1. Altschul, S. F., Madden, T. L., Schäffer, 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. Bowman, J. P. & Nichols, D. S. ( 2002; ). Aequorivita gen. nov., a member of the family Flavobacteriaceae isolated from terrestrial and marine Antarctic habitats. Int J Syst Evol Microbiol 52, 1533–1541.[CrossRef]
    [Google Scholar]
  3. Chun, J. & Goodfellow, M. ( 1995; ). A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences. Int J Syst Bacteriol 45, 240–245.[CrossRef]
    [Google Scholar]
  4. 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]
  5. Collins, M. D. ( 1985; ). Analysis of isoprenoid quinones. Methods Microbiol 18, 329–366.
    [Google Scholar]
  6. Felsenstein, J. ( 1981; ). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef]
    [Google Scholar]
  7. Felsenstein, J. ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef]
    [Google Scholar]
  8. Fitch, W. M. ( 1971; ). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20, 406–416.[CrossRef]
    [Google Scholar]
  9. Fitch, W. M. & Margoliash, E. ( 1967; ). Construction of phylogenetic trees. Science 155, 279–284.[CrossRef]
    [Google Scholar]
  10. Holmes, D. E., Nevin, K. P., Woodard, T. L., Peacock, A. D. & Lovley, D. R. ( 2007; ). Prolixibacter bellariivorans gen. nov., sp. nov., a sugar-fermenting, psychrotolerant anaerobe of the phylum Bacteroidetes, isolated from a marine-sediment fuel cell. Int J Syst Evol Microbiol 57, 701–707.[CrossRef]
    [Google Scholar]
  11. Jeon, Y. S., Chung, H., Park, S., Hur, I., Lee, J. H. & Chun, J. ( 2005; ). jphydit: a java-based integrated environment for molecular phylogeny of ribosomal RNA sequences. Bioinformatics 21, 3171–3173.[CrossRef]
    [Google Scholar]
  12. Jukes, T. H. & Cantor, C. R. ( 1969; ). Evolution of protein molecules. In Mammalian Protein Metabolism, vol. 3, pp. 21–132. Edited by H. N. Munro. New York: Academic Press.
  13. Kim, B. S., Oh, H. M., Kang, H., Park, S. S. & Chun, J. ( 2004; ). Remarkable bacterial diversity in the tidal flat sediment as revealed by 16S rDNA analysis. J Microbiol Biotechnol 14, 205–211.
    [Google Scholar]
  14. Kim, B. S., Oh, H. M., Kang, H. & Chun, J. ( 2005; ). Archaeal diversity in tidal flat sediment as revealed by 16S rDNA analysis. J Microbiol 43, 144–151.
    [Google Scholar]
  15. Kim, S., Jeong, H. & Chun, J. ( 2007; ). Clostridium aestuarii sp. nov., from tidal flat sediment. Int J Syst Evol Microbiol 57, 1315–1317.[CrossRef]
    [Google Scholar]
  16. Kim, J. H., Kim, K. Y., Hahm, Y. T., Kim, B. S., Chun, J. & Cha, C. J. ( 2008; ). Actibacter sediminis gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from tidal flat sediment. Int J Syst Evol Microbiol 58, 139–143.[CrossRef]
    [Google Scholar]
  17. Kovács, N. ( 1956; ). Identification of Pseudomonas pyocyanea by the oxidase reaction. Nature 178, 703
    [Google Scholar]
  18. Liu, Z. P., Wang, B. J., Dai, X., Liu, X. Y. & Liu, S. J. ( 2006; ). Zhouia amylolytica gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from sediment of the South China Sea. Int J Syst Evol Microbiol 56, 2825–2829.[CrossRef]
    [Google Scholar]
  19. Mesbah, M. & Whitman, W. B. ( 1989; ). Measurement of deoxyguanosine/thymidine ratios in complex mixtures by high-performance liquid chromatography for determination of the mole percentage guanine + cytosine of DNA. J Chromatogr 479, 297–306.[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. 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]
  22. Pearson, W. R. & Lipman, D. J. ( 1988; ). Improved tools for biological sequence comparison. Proc Natl Acad Sci U S A 85, 2444–2448.[CrossRef]
    [Google Scholar]
  23. Powers, E. M. ( 1995; ). Efficacy of the Ryu nonstaining KOH technique for rapidly determining gram reactions of food-borne and waterborne bacteria and yeasts. Appl Environ Microbiol 61, 3756–3758.
    [Google Scholar]
  24. Reichenbach, H. ( 1989; ). 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. Pfenning & J. G. Holt. Baltimore: Williams & Wilkins.
  25. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  26. Swofford, D. L. ( 1998; ). paup*: phylogenetic analysis using parsimony (*and other methods), version 4. Sunderland, MA: Sinauer Associates.
  27. Ueki, A., Akasaka, H., Suzuki, D. & Ueki, K. ( 2006; ). Paludibacter propionicigenes gen. nov., sp. nov., a novel strictly anaerobic, Gram-negative, propionate-producing bacterium isolated from plant residue in irrigated rice-field soil in Japan. Int J Syst Evol Microbiol 56, 39–44.[CrossRef]
    [Google Scholar]
  28. Wise, M. G., McArthur, J. V. & Shimkets, L. J. ( 2001; ). Methylosarcina fibrata gen. nov., sp. nov. and Methylosarcina quisquiliarum sp. nov., novel type 1 methanotrophs. Int J Syst Evol Microbiol 51, 611–621.
    [Google Scholar]
  29. Yi, H. & Chun, J. ( 2006a; ). Thalassobius aestuarii sp. nov., isolated from tidal flat sediment. J Microbiol 44, 171–176.
    [Google Scholar]
  30. Yi, H. & Chun, J. ( 2006b; ). Flavobacterium weaverense sp. nov. and Flavobacterium segetis sp. nov., novel psychrophiles isolated from the Antarctic. Int J Syst Evol Microbiol 56, 1239–1244.[CrossRef]
    [Google Scholar]
  31. Zhilina, T. N., Appel, R., Probian, C., Brossa, E. L., Harder, J., Widdel, F. & Zavarzin, G. A. ( 2004; ). Alkaliflexus imshenetskii gen. nov., sp. nov., a new alkaliphilic gliding carbohydrate-fermenting bacterium with propionate formation from a soda lake. Arch Microbiol 182, 244–253.
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.009027-0
Loading
/content/journal/ijsem/10.1099/ijs.0.009027-0
Loading

Data & Media loading...

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