1887

Abstract

A Gram-negative, rod-shaped bacterial strain, YC6729, was isolated from vermicompost collected at Masan, Korea, and its taxonomic position was investigated by a polyphasic taxonomic approach. Strain YC6729 grew optimally at 30 °C and at pH 6.5–8.5. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain YC6729 belongs to the genus in the family . It was related most closely to KP01 (96.4 % 16S rRNA gene sequence similarity), Gsoil 040 (96.1 %), IAM 12650 (96.1 %) and DSM 2588 (93.3 %). Strain YC6729 contained MK-7 as the major menaquinone and homospermidine as the major polyamine. The fatty acids of strain YC6729 were iso-C, Cω5, iso-C 3-OH, C, anteiso-C and/or Cω6,9, iso-C 2-OH and/or Cω7, C, iso-C 3-OH, iso-C G, Cω5, iso-C I and/or C 3-OH, C 2-OH, C 3-OH and unknown fatty acid ECL 13.565. The polar lipid profile contained phosphatidylethanolamine, unknown aminolipids and unknown lipids. The total DNA G+C content of strain YC6729 was 48.9 mol%. The phenotypic, chemotaxonomic and phylogenetic data showed that strain YC6729 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is YC6729 ( = KACC 13774  = DSM 22224).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.023028-0
2011-10-01
2019-10-23
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/61/10/2373.html?itemId=/content/journal/ijsem/10.1099/ijs.0.023028-0&mimeType=html&fmt=ahah

References

  1. Aria M. , Monroy F. , Dominguez J. , Mato S. . ( 2002; ). How earthworm density affects microbial biomass and activity in pig manure. . Eur J Soil Biol 38:, 7–10. [CrossRef]
    [Google Scholar]
  2. Aslam Z. , Yasir M. , Jeon C. O. , Chung Y. R. . ( 2009; ). Lysobacter oryzae sp. nov., isolated from the rhizosphere of rice (Oryza sativa L.). . Int J Syst Evol Microbiol 59:, 675–680. [CrossRef] [PubMed]
    [Google Scholar]
  3. Atlas R. M. . ( 1993; ). Handbook of Microbiological Media. Edited by Parks L. C. . . Boca Raton, FL:: CRC Press;.
    [Google Scholar]
  4. Ausubel F. W. , Brent R. , Kingston R. E. , Moore D. D. , Seidman J. G. , Smith J. A. , Struhl K. . ( 1995; ). Current Protocols in Molecular Biology. New York:: Wiley;.
    [Google Scholar]
  5. 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. [CrossRef] [PubMed]
    [Google Scholar]
  6. Brown A. E. . ( 2007; ). Benson’s Microbiological Applications: Laboratory Manual in General Microbiology. New York:: McGraw-Hill;.
    [Google Scholar]
  7. Busse H. J. , Auling G. . ( 1988; ). Polyamine pattern as a chemotaxonomic marker within the Proteobacteria. . Syst Appl Microbiol 11:, 1–8.[CrossRef]
    [Google Scholar]
  8. Busse H. J. , Bunka S. , Hensel A. , Lubitz W. . ( 1997; ). Discrimination of members of the family Pasteurellaceae based on polyamine patterns. . Int J Syst Bacteriol 47:, 698–708. [CrossRef]
    [Google Scholar]
  9. Cappuccino J. G. , Sherman N. . ( 2002; ). Microbiology: a Laboratory Manual, , 6th edn.. Menlo Park, CA:: Benjamin/Cummings;.
    [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. [CrossRef] [PubMed]
    [Google Scholar]
  11. Costilow R. N. . ( 1981; ). Biophysical factors in growth. . In Manual of Methods for General Bacteriology, pp. 66–78. Edited by Gerhardt P. , Murray R. G. E. , Costilow R. N. , Nester E. W. , Wood W. A. , Krieg N. R. , Phillips G. B. . . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  12. Dittmer J. C. , Lester R. L. . ( 1964; ). A simple, specific spray for the detection of phospholipids on thin-layer chromatograms. . J Lipid Res 15:, 126–127.[PubMed]
    [Google Scholar]
  13. Fautz E. , Reichenbach H. . ( 1980; ). A simple test for flexirubin-type pigments. . FEMS Microbiol Lett 8:, 87–91. [CrossRef]
    [Google Scholar]
  14. Felsenstein J. . ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39:, 783–791. [CrossRef]
    [Google Scholar]
  15. 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]
  16. Hendricks C. W. , Doyle J. D. , Hugley B. . ( 1995; ). A new solid medium for enumerating cellulose-utilizing bacteria in soil. . Appl Environ Microbiol 61:, 2016–2019.[PubMed]
    [Google Scholar]
  17. Jacin H. , Mishkin A. R. . ( 1965; ). Separation of carbohydrates on borate impregnated silica gel G plates. . J Chromatogr A 18:, 170–173. [CrossRef] [PubMed]
    [Google Scholar]
  18. Janssen P. H. , Yates P. S. , Grinton B. E. , Taylor P. M. , Sait M. . ( 2002; ). Improved culturability of soil bacteria and isolation in pure culture of novel members of the divisions Acidobacteria, Actinobacteria, Proteobacteria, and Verrucomicrobia . . Appl Environ Microbiol 68:, 2391–2396. [CrossRef] [PubMed]
    [Google Scholar]
  19. Kämpfer P. , Young C. C. , Sridhar K. R. , Arun A. B. , Lai W. A. , Shen F. T. , Rekha P. D. . ( 2006; ). Transfer of [Flexibacter] sancti, [Flexibacter] filiformis, [Flexibacter] japonensis and [Cytophaga] arvensicola to the genus Chitinophaga and description of Chitinophaga skermanii sp. nov.. Int J Syst Evol Microbiol 56:, 2223–2228. [CrossRef] [PubMed]
    [Google Scholar]
  20. Kämpfer P. , Lodders N. , Falsen E. . ( 2011; ). Hydrotalea flava gen. nov., sp. nov., a new species of the phylum Bacteriodetes and allocation of the genera Chitinophaga, Sediminibacterium, Lacibacter, Flavihumibacter, Flavisolibacter, Niabella, Niastella, Segetibacter, Parasegetibacter, Terrimonas, Ferruginibacter, Filimonas and Hydrotalea to the family Chitinophagaceae fam. nov.. Int J Syst Evol Microbiol 61:, 518–523.[CrossRef]
    [Google Scholar]
  21. Kim M. K. , Jung H. Y. . ( 2007; ). Chitinophaga terrae sp. nov., isolated from soil. . Int J Syst Evol Microbiol 57:, 1721–1724. [CrossRef] [PubMed]
    [Google Scholar]
  22. Kroppenstedt R. M. . ( 1982; ). Separation of bacterial menaquinones by HPLC using reverse phase (RP 18) and a silver loaded ion exchanger as stationary phases. . J Liq Chromatogr 5:, 2359–2367. [CrossRef]
    [Google Scholar]
  23. Lane D. J. . ( 1991; ). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115–175. Edited by Stackebrandt E. , Goodfellow M. . . New York:: Wiley;.
    [Google Scholar]
  24. Lee H. G. , An D. S. , Im W. T. , Liu Q. M. , Na J. R. , Cho D. H. , Jin C. W. , Lee S. T. , Yang D. C. . ( 2007; ). Chitinophaga ginsengisegetis sp. nov. and Chitinophaga ginsengisoli sp. nov., isolated from soil of a ginseng field in South Korea. . Int J Syst Evol Microbiol 57:, 1396–1401. [CrossRef] [PubMed]
    [Google Scholar]
  25. 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]
  26. 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]
  27. Oyaizu H. , Komagata K. , Amemura A. , Harada T. . ( 1982; ). A succinoglycan-decomposing bacterium, Cytophaga arvensicola sp. nov.. J Gen Appl Microbiol 28:, 369–388. [CrossRef]
    [Google Scholar]
  28. Ross H. N. M. , Grant W. D. , Harris J. E. . ( 1985; ). Lipids in archaebacterial taxonomy. . In Chemical Methods in Bacterial Systematics, pp. 289–300. Edited by Goodfellow M. , Minnikin D. E. . . London:: Academic Press;.
    [Google Scholar]
  29. 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]
  30. Sangkhobol V. , Skerman V. B. D. . ( 1981; ). Chitinophaga, a new genus of chitinolytic myxobacteria. . Int J Syst Bacteriol 31:, 285–293. [CrossRef]
    [Google Scholar]
  31. Tamura K. , Dudley J. , Nei M. , Kumar S. . ( 2007; ). mega4: molecular evolutionary genetics analysis (mega) software version 4.0. . Mol Biol Evol 24:, 1596–1599. [CrossRef] [PubMed]
    [Google Scholar]
  32. Ten L. N. , Im W. T. , Kim M. K. , Kang M. S. , Lee S. T. . ( 2004; ). Development of a plate technique for screening of polysaccharide-degrading microorganisms by using a mixture of insoluble chromogenic substrates. . J Microbiol Methods 56:, 375–382. [CrossRef] [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. [CrossRef] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.023028-0
Loading
/content/journal/ijsem/10.1099/ijs.0.023028-0
Loading

Data & Media loading...

Supplements

vol. , part 10, pp. 2373 - 2378

. Two-dimensional thin-layer chromatogram of polar lipids from strain YC6729 (a) and KACC 12763 (b). A polar lipid thin-layer chromatogram sprayed with molybdatophosphoric acid reagent following separation by 2D TLC. Ascending solvent system: (I) chloroform/methanol/water (65 : 25 : 4, by vol.); (II) chloroform/acetic acid/methanol/water (80 : 15 : 12 : 4, by vol.). PE, phosphatidylethanolamine; AL, unknown aminolipid; APL, unknown aminophospholipid; L, unknown lipid.



IMAGE

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