1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 63, Issue Pt_3

sp. nov., isolated from surface-sterilized roots of Free

Abstract

A Gram-stain-positive, rod-shaped actinobacterium, designated strain I10A-01402, was isolated from surface-sterilized roots of a medicinal plant, , collected in a suburb of Beijing, China. Chemotaxonomically, the strain contained -diaminopimelic acid as the diagnostic diamino acid and MK-8(H) as the predominant menaquinone. The phospholipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol. The major fatty acids were Cω9, Cω9, C, C and iso-C. The genomic DNA G+C content was 70.4 mol%. 16S rRNA gene sequence analysis indicated that strain I10A-01402 belonged to the genus . Phylogenetic analyses based on 16S rRNA gene sequences showed that the isolate formed a robust cluster with Gsoil 485, MSL-09 and KSL-1. On the basis of the evidence from our polyphasic taxonomic study, a novel species, sp. nov., is proposed. The type strain is I10A-01402 ( = CPCC 203382  = DSM 24552  = KCTC 29022).

  • Published Online:
Funding
This study was supported by the:
  • National Infrastructure of Microbial Resources (NIMR)
  • National Natural Science Foundation of China (NSFC) (Award 81173026, 30870026 and 30970008)
  • National S&T Major Special Project on Major New Drug Innovation (Award 2010ZX09403, 2010ZX09402 and 2010ZX09401)
  • Special Fund for Health-scientific Research in the Public Interest (Award 201002021)
© 2013 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.044982-0
2013-03-01
2024-04-16
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/63/3/1068.html?itemId=/content/journal/ijsem/10.1099/ijs.0.044982-0&mimeType=html&fmt=ahah

References

  1. Choi D. H., Kim H. M., Noh J. H., Cho B. C. ( 2007 ). Nocardioides marinus sp. nov.. Int J Syst Evol Microbiol 57, 775–779. [View Article] [PubMed]
    [Google Scholar]
  2. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. ( 1977 ). Distribution of menaquinones in actinomycetes and corynebacteria. . J Gen Microbiol 100, 221–230. [View Article] [PubMed]
    [Google Scholar]
  3. Cui Y. S., Lee S. T., Im W. T. ( 2009 ). Nocardioides ginsengisoli sp. nov., isolated from soil of a ginseng field. . Int J Syst Evol Microbiol 59, 3045–3050. [View Article] [PubMed]
    [Google Scholar]
  4. Dastager S. G., Lee J. C., Ju Y. J., Park D. J., Kim C. J. ( 2008 ). Nocardioides koreensis sp. nov., Nocardioides bigeumensis sp. nov. and Nocardioides agariphilus sp. nov., isolated from soil from Bigeum Island, Korea. . Int J Syst Evol Microbiol 58, 2292–2296. [View Article] [PubMed]
    [Google Scholar]
  5. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783–791. [View Article]
    [Google Scholar]
  6. Groth I., Schumann P., Rainey F. A., Martin K., Schuetze B., Augsten K. ( 1997 ). Demetria terragena gen. nov., sp. nov., a new genus of actinomycetes isolated from compost soil. . Int J Syst Bacteriol 47, 1129–1133. [View Article] [PubMed]
    [Google Scholar]
  7. Im W. T., Kim S. Y., Liu Q. M., Yang J. E., Lee S. T., Yi T. H. ( 2010 ). Nocardioides ginsengisegetis sp. nov., isolated from soil of a ginseng field. . J Microbiol 48, 623–628. [View Article] [PubMed]
    [Google Scholar]
  8. Kim K. H., Roh S. W., Chang H. W., Nam Y. D., Yoon J. H., Jeon C. O., Oh H.-M., Bae J. W. ( 2009 ). Nocardioides basaltis sp. nov., isolated from black beach sand. . Int J Syst Evol Microbiol 59, 42–47. [View Article] [PubMed]
    [Google Scholar]
  9. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S, Lee J. H. & other authors ( 2007 ). Introducing EzTaxon: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. . Int J Syst Evol Microbiol 62, 716–721. [View Article] [PubMed]
    [Google Scholar]
  10. 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]
  11. Kimura M. ( 1983 ). The Neutral Theory of Molecular Evolution. Cambridge:: Cambridge University Press;. [View Article]
    [Google Scholar]
  12. Kroppenstedt R. M. ( 1985 ). Fatty acid and menaquinone analysis of actinomycetes and related organisms. . In Chemical Methods in Bacterial Systematics (Society for Applied Bacteriology Technical Series vol. 20), pp. 173–199. Edited by Goodfellow M., Minnikin D. E. . New York:: Academic Press;.
     [Google Scholar]
  13. Lechevalier M. P., Lechevalier H. A. ( 1980 ). The chemotaxonomy of actinomycetes. . In Actinomycete Taxonomy (SIM Special Publication no. 6), pp. 227–291. Edited by Dietz A., Thayer D. W. . Fairfax, VA:: Society for Industrial Microbiology;.
     [Google Scholar]
  14. Lee D. W., Hyun C. G., Lee S. D. ( 2007 ). Nocardioides marinisabuli sp. nov., a novel actinobacterium isolated from beach sand. . Int J Syst Evol Microbiol 57, 2960–2963. [View Article] [PubMed]
    [Google Scholar]
  15. Lee S. H., Liu Q. M., Lee S. T., Kim S. C., Im W. T. ( 2012 ). Nocardioides ginsengagri sp. nov., isolated from the soil of a ginseng field. . Int J Syst Evol Microbiol 62, 591–595. [View Article] [PubMed]
    [Google Scholar]
  16. Li W. J., Xu P., Schumann P., Zhang Y. Q., Pukall R., Xu L. H., Stackebrandt E., Jiang C. L. ( 2007 ). Georgenia ruanii sp. nov., a novel actinobacterium isolated from forest soil in Yunnan (China), and emended description of the genus Georgenia . . Int J Syst Evol Microbiol 57, 1424–1428. [View Article] [PubMed]
    [Google Scholar]
  17. Marmur J., Doty P. ( 1962 ). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. . J Mol Biol 5, 109–118. [View Article] [PubMed]
    [Google Scholar]
  18. Meier A., Kirschner P., Schröder K. H., Wolters J., Kroppenstedt R. M., Böttger E. C. ( 1993 ). Mycobacterium intermedium sp. nov.. Int J Syst Bacteriol 43, 204–209. [View Article] [PubMed]
    [Google Scholar]
  19. 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]
  20. Nesterenko O. A., Kvasnikov E. I., Nogina T. M. ( 1985 ). Nocardioidaceae fam. nov., a new family of the order Actinomycetales Buchanan 1917. . Mikrobiol Zh 47, 3–12.
     [Google Scholar]
  21. Prauser H. ( 1976 ). Nocardioides, a new genus of the order Actinomycetales . . Int J Syst Bacteriol 26, 58–65. [View Article]
    [Google Scholar]
  22. 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]
  23. Smibert R. M., Krieg N. L. ( 1994 ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607–654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  24. Tamura T., Yokota A. ( 1994 ). Transfer of Nocardioides fastidiosa Collins and Stackebrandt 1989 to the genus Aeromicrobium as Aeromicrobium fastidiosum comb. nov.. Int J Syst Bacteriol 44, 608–611. [View Article]
    [Google Scholar]
  25. 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. [View Article] [PubMed]
    [Google Scholar]
  26. 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]
  27. Woo S.-G., Srinivasan S., Yang J., Jung Y.-A., Kim M. K., Lee M. ( 2012 ). Nocardioides daejeonensis sp. nov., a denitrifying bacterium isolated from sludge in a sewage-disposal plant. . Int J Syst Evol Microbiol 62, 1199–1203. [View Article] [PubMed]
    [Google Scholar]
  28. Yi H., Chun J. ( 2004a ). Nocardioides ganghwensis sp. nov., isolated from tidal flat sediment. . Int J Syst Evol Microbiol 54, 1295–1299. [View Article] [PubMed]
    [Google Scholar]
  29. Yi H., Chun J. ( 2004b ). Nocardioides aestuarii sp. nov., isolated from tidal flat sediment. . Int J Syst Evol Microbiol 54, 2151–2154. [View Article] [PubMed]
    [Google Scholar]
  30. Zhang Y.-Q., Yu L.-Y., Wang D., Liu H.-Y., Sun C.-H., Jiang W., Zhang Y.-Q., Li W.-J. ( 2008 ). Roseomonas vinacea sp. nov., a Gram-negative coccobacillus isolated from a soil sample. . Int J Syst Evol Microbiol 58, 2070–2074. [View Article] [PubMed]
    [Google Scholar]
  31. Zhang D.-C., Schumann P., Redzic M., Zhou Y.-G., Liu H.-C., Schinner F., Margesin R. ( 2012 ). Nocardioides alpinus sp. nov., a psychrophilic actinomycete isolated from alpine glacier cryoconite. . Int J Syst Evol Microbiol 62, 445–450. [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.044982-0
Loading
Nocardioides perillae sp. nov., isolated from surface-sterilized roots of Perilla frutescens
Int J Syst Evol Microbiol 63, 1068 (2013); https://doi.org/10.1099/ijs.0.044982-0
/content/journal/ijsem/10.1099/ijs.0.044982-0
/content/journal/ijsem/10.1099/ijs.0.044982-0
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