1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 62, Issue Pt_12

sp. nov., isolated from marine sediment, and emended description of Fu 2011 Free

Abstract

A Gram-negative, non-motile bacterial strain that formed straight rods and straw yellow colonies, designated FCS-5, was isolated from a marine sediment from the Arabian Sea. The isolate exhibited most of the phenotypic properties expected for a member of the genus . The major fatty acids were iso-C, iso-C 3-OH, Cω9 and summed feature 3 (comprising iso-C 2-OH and/or Cω7). The only isoprenoid quinone was MK-6. The only polyamine was homospermidine and the major polar lipid was phosphatidylethanolamine. The G+C content of the genomic DNA was 32.4 mol%. According to 16S rRNA gene sequence analysis, strain FCS-5 belonged to the genus and exhibited 99.3 % 16S rRNA gene sequence similarity with F44-8 and 90.9–94.6 % sequence similarity with other members of the genus . The results of physiological and biochemical tests allowed the discrimination of the isolate from its phylogenetic relatives. Strain FCS-5 is a representative of a novel species of the genus , for which the name sp. nov. is proposed. The type strain is FCS-5 ( = MTCC 10967 = JCM 17928). An emended description of is also proposed.

  • Published Online:
Funding
This study was supported by the:
  • CSIR (Award NWP006)
© 2012 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.035691-0
2012-12-01
2024-04-23
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/62/12/2897.html?itemId=/content/journal/ijsem/10.1099/ijs.0.035691-0&mimeType=html&fmt=ahah

References

  1. Bergey D. H., Harrison F. C., Breed R. S., Hammer B. W., Huntoon F. M. 1923 Bergey’s Manual of Determinative Bacteriology Baltimore, MD: Williams & Wilkins;
     [Google Scholar]
  2. 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]
  3. Bernardet J. F., Bowman J. 2006; The genus Flavobacterium . In The Prokaryotes: a Handbook on the Biology of Bacteria, 3rd edn. vol. 7 pp. 481–531 Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K.-H., Stackebrandt E. New York: Springer;
     [Google Scholar]
  4. Bernardet J. F., Bowman J. 2011; Genus I. Flavobacterium . In Bergey’s Manual of Systematic Bacteriology, 2nd edn. vol. 4 pp. 112–154 Edited by Whitman W. Baltimore, MD: Williams & Wilkins;
     [Google Scholar]
  5. Bernardet J. F., Nakagawa Y. 2006; An introduction to the family Flavobacteriaceae . In The Prokaryotes: a Handbook on the Biology of Bacteria, 3rd edn. vol. 7 pp. 455–480 Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K.-H., Stackebrandt E. New York: Springer;
     [Google Scholar]
  6. 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 [View Article]
     [Google Scholar]
  7. Bernardet J. F., Nakagawa Y., Holmes B. Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes 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 [View Article][PubMed]
     [Google Scholar]
  8. Bligh E. G., Dyer W. J. 1959; A rapid method of total lipid extraction and purification. Can J Biochem Physiol 37:911–917 [View Article][PubMed]
     [Google Scholar]
  9. Busse H. J., Auling G. 1988; Polyamine pattern as a chemotaxonomic marker within the Proteobacteria . Syst Appl Microbiol 11:1–8 [View Article]
     [Google Scholar]
  10. 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 [View Article][PubMed]
     [Google Scholar]
  11. Cowan S. T., Steel K. J. 1965 Manual for the Identification of Medical Bacteria London: Cambridge University Press;
     [Google Scholar]
  12. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
     [Google Scholar]
  13. Fu Y., Tang X., Lai Q., Zhang C., Zhong H., Li W., Liu Y., Chen L., Sun F., Shao Z. 2011; Flavobacterium beibuense sp. nov., isolated from marine sediment. Int J Syst Evol Microbiol 61:205–209 [View Article][PubMed]
     [Google Scholar]
  14. Humphry D. R., George A., Black G. W., Cummings S. P. 2001; Flavobacterium frigidarium sp. nov., an aerobic, psychrophilic, xylanolytic and laminarinolytic bacterium from Antarctica. Int J Syst Evol Microbiol 51:1235–1243[PubMed]
     [Google Scholar]
  15. Kämpfer P., Lodders N., Martin K., Avendaño-Herrera R. 2012; Flavobacterium chilense sp. nov. and Flavobacterium araucananum sp. nov., isolated from farmed salmonid fish. Int J Syst Evol Microbiol 62:1402–1408[PubMed] [CrossRef]
     [Google Scholar]
  16. Kimura M. 1980; A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111–120 [View Article][PubMed]
     [Google Scholar]
  17. Komagata K., Suzuki K. 1987; Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19:161–207 [View Article]
     [Google Scholar]
  18. Lányí B. 1987; Classical and rapid identification methods for medically important bacteria. Methods Microbiol 19:1–67 [View Article]
     [Google Scholar]
  19. Liu H., Liu R., Yang S.-Y., Gao W.-K., Zhang C.-X., Zhang K.-Y., Lai R. 2008; Flavobacterium anhuiense sp. nov., isolated from field soil. Int J Syst Evol Microbiol 58:756–760 [View Article][PubMed]
     [Google Scholar]
  20. Mayilraj S., Saha P., Suresh K., Saini H. S. 2006; Ornithinimicrobium kibberense sp. nov., isolated from the Indian Himalayas. Int J Syst Evol Microbiol 56:1657–1661 [View Article][PubMed]
     [Google Scholar]
  21. McCammon S. A., Bowman J. P. 2000; Taxonomy of Antarctic Flavobacterium species: description of Flavobacterium gillisiae sp. nov., Flavobacterium tegetincola sp. nov., and Flavobacterium xanthum sp. nov., nom. rev. and reclassification of [Flavobacterium] salegens as Salegentibacter salegens gen. nov., comb. nov.. Int J Syst Evol Microbiol 50:1055–1063 [View Article][PubMed]
     [Google Scholar]
  22. McCammon S. A., Innes B. H., Bowman J. P., Franzmann P. D., Dobson S. J., Holloway P. E., Skerratt J. H., Nichols P. D., Rankin L. M. 1998; Flavobacterium hibernum sp. nov., a lactose-utilizing bacterium from a freshwater Antarctic lake. Int J Syst Bacteriol 48:1405–1412 [View Article][PubMed]
     [Google Scholar]
  23. 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 [View Article]
     [Google Scholar]
  24. Murray R. G. E., Doetsch R. N., Robinow C. F. 1994; Determinative and cytological light microscopy. In Methods for General and Molecular Bacteriology pp. 21–41 Edited by Gerhard P., Murray R. G. E., Wood W. A., Krieg N. R. Washington, DC: American Society for Microbiology;
     [Google Scholar]
  25. 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 [View Article][PubMed]
     [Google Scholar]
  26. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425[PubMed]
     [Google Scholar]
  27. Sasser M. 1990 Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical note 101. Newark, DE: MIDI Inc;
     [Google Scholar]
  28. Scherer P., Kneifel H. 1983; Distribution of polyamines in methanogenic bacteria. J Bacteriol 154:1315–1322[PubMed]
     [Google Scholar]
  29. Sheu S.-Y., Chiu T.-F., Young C.-C., Arun A.-B., Chen W.-M. 2011; Flavobacterium macrobrachii sp. nov., isolated from a freshwater shrimp culture pond. Int J Syst Evol Microbiol 61:1402–1407 [View Article][PubMed]
     [Google Scholar]
  30. Smibert R. M., Krieg N. R. 1994; Phenotypic characterization. In Methods for General and Molecular Bacteriology pp. 607–654 Edited by Gerhard P., Murray R. G. E., Wood W. A., Krieg N. R. Washington, DC: American Society for Microbiology;
     [Google Scholar]
  31. Smith N. R., Gordon R. E., Clark F. E. 1952 Aerobic spore forming bacteria. Agricultural Monograph no. 16. Washington, DC: US Department of Agriculture;
     [Google Scholar]
  32. Tamaki H., Hanada S., Kamagata Y., Nakamura K., Nomura N., Nakano K., Matsumura M. 2003; Flavobacterium limicola sp. nov., a psychrophilic, organic-polymer-degrading bacterium isolated from freshwater sediments. Int J Syst Evol Microbiol 53:519–526 [View Article][PubMed]
     [Google Scholar]
  33. 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 [View Article][PubMed]
     [Google Scholar]
  34. Tourova T. P., Antonov A. S. 1988; Identification of microorganisms by rapid DNA–DNA hybridization. Methods Microbiol 19:333–355 [View Article]
     [Google Scholar]
  35. Van Trappen S., Mergaert J., Swings J. 2003; Flavobacterium gelidilacus sp. nov., isolated from microbial mats in Antarctic lakes. Int J Syst Evol Microbiol 53:1241–1245 [View Article][PubMed]
     [Google Scholar]
  36. Van Trappen S., Vandecandelaere I., Mergaert J., Swings J. 2004; Flavobacterium degerlachei sp. nov., Flavobacterium frigoris sp. nov. and Flavobacterium micromati sp. nov., novel psychrophilic bacteria isolated from microbial mats in Antarctic lakes. Int J Syst Evol Microbiol 54:85–92 [View Article][PubMed]
     [Google Scholar]
  37. Wang Z.-W., Liu Y.-H., Dai X., Wang B.-J., Jiang C.-Y., Liu S.-J. 2006; Flavobacterium saliperosum sp. nov., isolated from freshwater lake sediment. Int J Syst Evol Microbiol 56:439–442 [View Article][PubMed]
     [Google Scholar]
  38. Wayne L. G., Brenner D. J., Colwell R. R., Grimont P. A. D., Kandler O., Krichevsky M. I., Moore L. H., Moore W. E. C., Murray R. G. E. other authors 1987; International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464 [View Article]
     [Google Scholar]
  39. Yi H., Oh H.-M., Lee J.-H., Kim S.-J., Chun J. 2005; Flavobacterium antarcticum sp. nov., a novel psychrotolerant bacterium isolated from the Antarctic. Int J Syst Evol Microbiol 55:637–641 [View Article][PubMed]
     [Google Scholar]
  40. Zhu F., Wang S., Zhou P. 2003; Flavobacterium xinjiangense sp. nov. and Flavobacterium omnivorum sp. nov., novel psychrophiles from the China No. 1 glacier. Int J Syst Evol Microbiol 53:853–857 [View Article][PubMed]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.035691-0
Loading
Flavobacterium rakeshii sp. nov., isolated from marine sediment, and emended description of Flavobacterium beibuense Fu et al. 2011
Int J Syst Evol Microbiol 62, 2897 (2012); https://doi.org/10.1099/ijs.0.035691-0
/content/journal/ijsem/10.1099/ijs.0.035691-0
/content/journal/ijsem/10.1099/ijs.0.035691-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

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