1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 66, Issue 11

sp. nov., an actinomycete isolated from coastal soil Free

Abstract

A novel actinomycete strain, designated strain KLBMP S0027, was isolated from a coastal soil collected from the coastal region of Lianyungang, Jiangsu Province, in east China, and was studied in detail for its taxonomic position. Comparative 16S rRNA gene sequence analysis showed that this strain belonged to the genus and was most closely related to WS-26 (98.5 %), NBRC 100129 (98.5 %), NBRC 100374 (98.2 %), NBRC 14402 (98.2 %) and NBRC 100375 (98 %), respectively. The strain showed a combination of chemotaxonomic and morphological properties typical of the genus . The cell wall contained -diaminopimelic acid (type IV), and whole-cell sugars were arabinose, galactose, glucose and ribose. Strain KLBMP S0027 contained MK-8(Hω-cycl) as the predominant menaquinone; C, Cω9, C 10-methyl (TBSA) and summed feature 3 (Cω7/Cω6) were the major cellular fatty acids. The polar lipids detected were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, one unknown glycolipid and two unknown lipids. Mycolic acids were detected. The G+C content of the DNA was 70.5 %. However, a combination of DNA–DNA hybridization and phenotypic data demonstrated that strain KLBMP S0027 could be clearly distinguished from the type strain of the most closely related species, WS-26. On the basis of the data presented from a polyphasic study, it was evident that this strain should be assigned to a novel species of the genus , for which the name sp. nov. is proposed. The type strain is KLBMP S0027 (=CGMCC 4.7330=KCTC 39691).

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): 16S rRNA gene , Actinomycetes , Nocardia , Novel species and Polyphasic taxonomy
© 2016 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001402
2016-11-01
2024-04-24
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/66/11/4633.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001402&mimeType=html&fmt=ahah

References

  1. 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]
  2. Ezaki T., Hashimoto Y., Yabuuchi E. 1989; Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 39:224–229 [View Article]
     [Google Scholar]
  3. Ezeoke I., Klenk H. P., Pötter G., Schumann P., Moser B. D., Lasker B. A., Nicholson A., Brown J. M. 2013; Nocardia amikacinitolerans sp. nov., an amikacin-resistant human pathogen. Int J Syst Evol Microbiol 63:1056–1061 [View Article][PubMed]
     [Google Scholar]
  4. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [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. Goodfellow M. 1971; Numerical taxonomy of some nocardioform bacteria. J Gen Microbiol 69:33–80 [View Article][PubMed]
     [Google Scholar]
  7. Goodfellow M., Lechevalier M. P. 1989; Genus Nocardia trevisan 1889, 9AL. In Bergey’s Manual of Systematic Bacteriology vol. 4 pp 2348–2361 Edited by Williams S. T., Sharpe M. E., Holt J. G. Baltimore: Williams & Wilkins;
     [Google Scholar]
  8. Goodfellow M., Jones A. L. 2012; Order V. Corynebacteriales ord. nov. In Bergey’s Manual of Systematic Bacteriology, 2nd edn. vol. 5 pp 232–243 Edited by Goodfellow M., Kämpfer P., Busse H.-J., Trujillo M. E., Suzuki K.-I., Ludwig W., Whitman W. B. New York: Springer; [CrossRef]
     [Google Scholar]
  9. Goodfellow M., Isik K., Yates E. 1999; Actinomycete systematics: an unfinished synthesis. Nova Acta Leopold 312:47–82
     [Google Scholar]
  10. Gordon R. E., Barnett D. A., Handerhan J. E., Pang C. H. 1974; Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. Int J Syst Bacteriol 24:54–63 [View Article]
     [Google Scholar]
  11. 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]
  12. He L., Li W., Huang Y., Wang L., Liu Z., Lanoot B., Vancanneyt M., Swings J. 2005; Streptomyces jietaisiensis sp. nov., isolated from soil in northern China. Int J Syst Evol Microbiol 55:1939–1944 [View Article][PubMed]
     [Google Scholar]
  13. Kaewkla O., Franco C. M. 2010; Nocardia callitridis sp. nov., an endophytic actinobacterium isolated from a surface-sterilized root of an Australian native pine tree. Int J Syst Evol Microbiol 60:1532–1536 [View Article][PubMed]
     [Google Scholar]
  14. Kelly K. L. 1964 Inter-Society Color Council-National Bureau of Standards Color-Name Charts Illustrated with Centroid Colors published in US Washington, DC: US Government Printing;
     [Google Scholar]
  15. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. et al. 2012; Introducing EzTaxon-e: 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]
  16. Kim M., Oh H. S., Park S. C., Chun J. 2014; Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 64:346–351 [View Article][PubMed]
     [Google Scholar]
  17. Kluge A. G., Farris J. S. 1969; Quantitative phyletics and the evolution of anurans. Syst Zool 18:1–32 [View Article]
     [Google Scholar]
  18. Lasker B. A., Bell M., Klenk H. P., Spröer C., Schumann C., Schumann P., Brown J. M. 2014; Nocardia vulneris sp. nov., isolated from wounds of human patients in North America. Antonie Van Leeuwenhoek 106:543–553 [View Article][PubMed]
     [Google Scholar]
  19. Lechevalier M. P., Lechevalier H. 1970; Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20:435–443 [View Article]
     [Google Scholar]
  20. 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 [View Article]
     [Google Scholar]
  21. Minnikin D. E., Hutchinson I. G., Caldicott A. B., Goodfellow M. 1980; Thin-layer chromatography of methanolysates of mycolic acid-containing bacteria. J Chromatogr 188:221–233 [View Article]
     [Google Scholar]
  22. 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]
  23. Qin S., Chen H. H., Zhao G. Z., Li J., Zhu W. Y., Xu L. H., Jiang J. H., Li W. J. 2012; Abundant and diverse endophytic actinobacteria associated with medicinal plant Maytenus austroyunnanensis in Xishuangbanna tropical rainforest revealed by culture-dependent and culture-independent methods. Environ Microbiol Rep 4:522–531 [View Article][PubMed]
     [Google Scholar]
  24. 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]
  25. Sasser M. 1990 Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc;
     [Google Scholar]
  26. Sazak A., Sahin N., Camas M. 2012; Nocardia goodfellowii sp. nov. and Nocardia thraciensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 62:1228–1234 [View Article][PubMed]
     [Google Scholar]
  27. Seo J. P., Lee S. D. 2006; Nocardia harenae sp. nov., an actinomycete isolated from beach sand. Int J Syst Evol Microbiol 56:2203–2207 [View Article][PubMed]
     [Google Scholar]
  28. Shirling E. B., Gottlieb D. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [View Article]
     [Google Scholar]
  29. Stackebrandt E., Ebers J. 2006; Taxonomic parameters revisited: tarnished gold standards. Microbiology Today 33:152–155
     [Google Scholar]
  30. Takeda K., Kang Y., Yazawa K., Gonoi T., Mikami Y. 2010; Phylogenetic studies of Nocardia species based on gyrB gene analyses. J Med Microbiol 59:165–171 [View Article][PubMed]
     [Google Scholar]
  31. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. 2011; mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739 [View Article][PubMed]
     [Google Scholar]
  32. Tanasupawat S., Phongsopitanun W., Suwanborirux K., Ohkuma M., Kudo T. 2016; Nocardia rayongensis sp. nov., isolated from Thai peat swamp forest soil. Int J Syst Evol Microbiol 66:1950–1955 [View Article][PubMed]
     [Google Scholar]
  33. Trevisan V. 1889 I Generi E Le Specie Delle Batteriacee Milan: Zanaboni & Gabuzzi;
     [Google Scholar]
  34. Vaddavalli R., Peddi S., Kothagauni S. Y., Linga V. R. 2014; Nocardia bhagyanesis sp. nov., a novel actinomycete isolated from the rhizosphere of Callistemon citrinus (Curtis), India. Antonie Van Leeuwenhoek 105:443–450 [View Article][PubMed]
     [Google Scholar]
  35. Waksman S. A. 1967 The Actinomycetes. A Summary of Current Knowledge New York: Ronald Press;
     [Google Scholar]
  36. 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. et al. 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 [CrossRef]
     [Google Scholar]
  37. Williams S. T., Goodfellow M., Alderson G., Wellington E. M. H., Sneath P. H. A., Sackin M. J. 1983; Numerical classification of Streptomyces and related genera. J Gen Microbiol 129:1743–1813 [View Article][PubMed]
     [Google Scholar]
  38. Xing K., Qin S., Fei S. M., Lin Q., Bian G. K., Miao Q., Wang Y., Cao C. L., Tang S. K. et al. 2011; Nocardia endophytica sp. nov., an endophytic actinomycete isolated from the oil-seed plant Jatropha curcas L. Int J Syst Evol Microbiol 61:1854–1858 [View Article][PubMed]
     [Google Scholar]
  39. Xu P., Li W. J., Tang S. K., Zhang Y. Q., Chen G. Z., Chen H. H., Xu L. H., Jiang C. L. 2005; Naxibacter alkalitolerans gen. nov., sp. nov., a novel member of the family Oxalobacteraceae' isolated from China. Int J Syst Evol Microbiol 55:1149–1153 [View Article][PubMed]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001402
Loading
Nocardiajiangsuensis sp. nov., an actinomycete isolated from coastal soil
Int J Syst Evol Microbiol 66, 4633 (2016); https://doi.org/10.1099/ijsem.0.001402
/content/journal/ijsem/10.1099/ijsem.0.001402
/content/journal/ijsem/10.1099/ijsem.0.001402
Loading

Data & Media loading...

Supplements

Supplementary File 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