1887

Abstract

A filamentous actinomycete strain, designated GW9-2, was isolated from a soil sample collected from the Fildes Peninsula, King George Island, West Antarctica. The strain was identified using a polyphasic taxonomic approach. The strain grew slowly on most media tested, producing small amounts of aerial mycelia and no diffusible pigments on most media tested. The strain grew in the presence of 0–12 % (w/v) NaCl (optimum, 2–4 %), at pH 9.0–11.0 (optimum, pH 9.0) and 10–37 °C (optimum, 28 °C). The isolate contained -diaminopimelic acid, no diagnostic sugars and MK-9(H) as the predominant menaquinone. The major phospholipids were phosphatidylglycerol, phosphatidylcholine and phosphatidylmethylethanolamine. The major fatty acids were iso-C, anteiso-C, Cω9, iso-C and iso-C. DNA–DNA relatedness was 37.6 % with DSM 44048, the nearest phylogenetic relative (97.93 % 16S rRNA gene sequence similarity). On the basis of the results of a polyphasic study, a novel species, sp. nov., is proposed. The type strain is GW9-2 ( = CGMCC 4.7023 = DSM 45699 = NRRL B-24873).

Funding
This study was supported by the:
  • National Natural Science Foundation of China (Award 31200009)
  • Chinese Polar Environment Comprehensive Investigation & Assessment Programmes (Award CHINARE2013-01-06-06)
  • Shandong Provincial Science and Technology Development Program (Award 2009GG10002082)
  • Shandong Provincial Natural Science Foundation (Award ZR2010CM042)
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.053595-0
2014-01-01
2024-03-29
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/1/174.html?itemId=/content/journal/ijsem/10.1099/ijs.0.053595-0&mimeType=html&fmt=ahah

References

  1. Abyzov S. S., Philipova S. N., Kuznetsov V. D. ( 1983 ). Nocardiopsis antarcticus, a new species of actinomycetes, isolated from the ice sheet of the central Antarctic glacier. . Izv Akad Nauk SSSR Biol 4, 559568.
    [Google Scholar]
  2. Al-Zarban S. S., Abbas I., Al-Musallam A. A., Steiner U., Stackebrandt E., Kroppenstedt R. M. ( 2002 ). Nocardiopsis halotolerans sp. nov., isolated from salt marsh soil in Kuwait. . Int J Syst Evol Microbiol 52, 525529.[PubMed]
    [Google Scholar]
  3. Bernatchez H., Lebreux E. ( 1991 ). Nocardiopsis dassonvillei recovered from a lung biopsy and a possible cause of extrinsic allergic alveolitis. . Clin Microbiol Newsl 13, 174175. [View Article]
    [Google Scholar]
  4. Chen Y. G., Cui X. L., Kroppenstedt R. M., Stackebrandt E., Wen M. L., Xu L. H., Jiang C. L. ( 2008 ). Nocardiopsis quinghaiensis sp. nov., isolated from saline soil in China. . Int J Syst Evol Microbiol 58, 699705. [View Article] [PubMed]
    [Google Scholar]
  5. Chen Y. G., Wang Y. X., Zhang Y. Q., Tang S. K., Liu Z. X., Xiao H. D., Xu L. H., Cui X. L., Li W. J. ( 2009 ). Nocardiopsis litoralis sp. nov., a halophilic marine actinomycete isolated from a sea anemone. . Int J Syst Evol Microbiol 59, 27082713. [View Article] [PubMed]
    [Google Scholar]
  6. Cui X. L., Mao P. H., Zeng M., Li W. J., Zhang L. P., Xu L. H., Jiang C. L. ( 2001 ). Streptimonospora salina gen. nov., sp. nov., a new member of the family Nocardiopsaceae . . Int J Syst Evol Microbiol 51, 357363.[PubMed]
    [Google Scholar]
  7. De Ley J., Cattoir H., Reynaerts A. ( 1970 ). The quantitative measurement of DNA hybridization from renaturation rates. . Eur J Biochem 12, 133142. [View Article] [PubMed]
    [Google Scholar]
  8. Du Y.-L., Cao Y., Lu F., Li F., Cao Y., Wang X.-L., Wang Y.-Z. ( 2008 ). Biodegradation behaviors of thermoplastic starch (TPS) and thermoplastic dialdehyde starch (TPDAS) under controlled composting conditions. . Polym Test 27, 924930. [View Article]
    [Google Scholar]
  9. Fang C. Y., Zhang J. L., Pang H. C., Li Y. Y., Xin Y. H., Zhang Y. B. ( 2011 ). Nocardiopsis flavescens sp. nov., an actinomycete isolated from marine sediment. . Int J Syst Evol Microbiol 61, 26402645. [View Article] [PubMed]
    [Google Scholar]
  10. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783791. [View Article]
    [Google Scholar]
  11. Felsenstein J. ( 2002 ). phylip (phylogeny inference package), version 3.6a, Distributed by the author. . Department of Genetics, University of Washington;, Seattle, USA:.
    [Google Scholar]
  12. Fitch W. M. ( 1971 ). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20, 406416. [View Article]
    [Google Scholar]
  13. Grund E., Kroppenstedt R. M. ( 1990 ). Chemotaxonomy and numerical taxonomy of the genus Nocardiopsis Meyer 1976. . Int J Syst Bacteriol 40, 511. [View Article]
    [Google Scholar]
  14. Hamedi J., Mohammadipanah F., von Jan M., Pötter G., Schumann P., Spröer C., Klenk H. P., Kroppenstedt R. M. ( 2010 ). Nocardiopsis sinuspersici sp. nov., isolated from sandy rhizospheric soil. . Int J Syst Evol Microbiol 60, 23462352. [View Article] [PubMed]
    [Google Scholar]
  15. Hamedi J., Mohammadipanah F., Pötter G., Spröer C., Schumann P., Göker M., Klenk H. P. ( 2011 ). Nocardiopsis arvandica sp. nov., isolated from sandy soil. . Int J Syst Evol Microbiol 61, 11891194. [View Article] [PubMed]
    [Google Scholar]
  16. Huß V. A., Festl H., Schleifer K. H. ( 1983 ). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. . Syst Appl Microbiol 4, 184192. [View Article] [PubMed]
    [Google Scholar]
  17. Jahnke K. D. ( 1992 ). basic computer program for evaluation of spectroscopic DNA renaturation data from GILFORD System 2600 spectrophotometer on a PC/XT/AT type personal computer. . J Microbiol Methods 15, 6173. [View Article]
    [Google Scholar]
  18. Kelly K. L. ( 1964 ). Inter-Society Color Council–National Bureau of Standards Color Name Charts Illustrated with Centroid Colors. Washington, DC:: US Government Printing Office;.
    [Google Scholar]
  19. 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 ( 2012 ). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. . Int J Syst Evol Microbiol 62, 716721. [View Article] [PubMed]
    [Google Scholar]
  20. Kimura M. ( 1980 ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16, 111120. [View Article] [PubMed]
    [Google Scholar]
  21. Kroppenstedt R. M. ( 1982 ). Separation of bacterial menaquinones by HPLC using reverse phase (RP18) and a silver loaded ion exchanger as stationary phases. . J Liq Chromatogr 5, 23592367. [View Article]
    [Google Scholar]
  22. Kroppenstedt R. M. ( 1985 ). Fatty acid and menaquinone analysis of actinomycetes and related organisms. . In Chemical Methods in Bacterial Systematics (Society for Applied Biotechnology Technical Series vol. 20), pp. 173199. Edited by Goodfellow M., Minnikin D. E. . New York:: Academic Press;.
    [Google Scholar]
  23. Kroppenstedt R. M., Evtushenko L. I. ( 2002 ). The family Nocardiopsaceae . . In The Prokaryotes: an Evolving Electronic Database for the Microbial Community, , 3rd edn. (release 3.11). Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K.-H., Stackebrandt E. . New York:: Springer;.
    [Google Scholar]
  24. Li M. G., Li W. J., Xu P., Cui X. L., Xu L. H., Jiang C. L. ( 2003 ). Nocardiopsis xinjiangensis sp. nov., a halophilic actinomycete isolated from a saline soil sample in China. . Int J Syst Evol Microbiol 53, 317321. [View Article] [PubMed]
    [Google Scholar]
  25. Li W. J., Park D. J., Tang S. K., Wang D., Lee J. C., Xu L. H., Kim C. J., Jiang C. L. ( 2004 ). Nocardiopsis salina sp. nov., a novel halophilic actinomycete isolated from saline soil in China. . Int J Syst Evol Microbiol 54, 18051809. [View Article] [PubMed]
    [Google Scholar]
  26. Li W.-J., Kroppenstedt R. M., Wang D., Tang S.-K., Lee J.-C., Park D.-J., Kim C.-J., Xu L.-H., Jiang C.-L. ( 2006 ). Five novel species of the genus Nocardiopsis isolated from hypersaline soils and emended description of Nocardiopsis salina Li et al. 2004. . Int J Syst Evol Microbiol 56, 10891096. [View Article] [PubMed]
    [Google Scholar]
  27. Marmur J. ( 1961 ). A procedure for the isolation of deoxyribonucleic acid from microorganisms. . J Mol Biol 3, 208218. [View Article]
    [Google Scholar]
  28. Marmur J., Doty P. ( 1962 ). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. . J Mol Biol 5, 109118. [View Article] [PubMed]
    [Google Scholar]
  29. Meyer J. ( 1976 ). Nocardiopsis, a new genus of the order Actinomycetales . . Int J Syst Bacteriol 26, 487493. [View Article]
    [Google Scholar]
  30. 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, 233241. [View Article]
    [Google Scholar]
  31. Qin S., Li J., Chen H. H., Zhao G. Z., Zhu W. Y., Jiang C. L., Xu L. H., Li W. J. ( 2009 ). Isolation, diversity, and antimicrobial activity of rare actinobacteria from medicinal plants of tropical rain forests in Xishuangbanna, China. . Appl Environ Microbiol 75, 61766186. [View Article] [PubMed]
    [Google Scholar]
  32. Sabry S. A., Ghanem N. B., Abu-Ella G. A., Schumann P., Stackebrandt E., Kroppenstedt R. M. ( 2004 ). Nocardiopsis aegyptia sp. nov., isolated from marine sediment. . Int J Syst Evol Microbiol 54, 453456. [View Article] [PubMed]
    [Google Scholar]
  33. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406425.[PubMed]
    [Google Scholar]
  34. Sasser M. ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids. . USFCC Newsl 20, 16.
    [Google Scholar]
  35. Shirling E. B., Gottlieb D. ( 1966 ). Methods for characterization of Streptomyces species. . Int J Syst Bacteriol 16, 313340. [View Article]
    [Google Scholar]
  36. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  37. Staneck J. L., Roberts G. D. ( 1974 ). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. . Appl Microbiol 28, 226231.[PubMed]
    [Google Scholar]
  38. Tamura K., Dudley J., Nei M., Kumar S. ( 2007 ). mega4: molecular evolutionary genetics analysis (mega) software version 4.0. . Mol Biol Evol 24, 15961599. [View Article] [PubMed]
    [Google Scholar]
  39. 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, 48764882. [View Article] [PubMed]
    [Google Scholar]
  40. Vasanthi V., Hoti S. L. ( 1992 ). Microbial flora in gut of Culex quinquefasciatus breeding in cess pits. . Southeast Asian J Trop Med Public Health 23, 312317.[PubMed]
    [Google Scholar]
  41. 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, 463464. [View Article]
    [Google Scholar]
  42. Williams S. T., Goodfellow M., Alderson G. ( 1989 ). Genus Streptomyces Waksman and Henrici 1943, 339AL . . In Bergey’s Manual of Systematic Bacteriology, vol. 4, pp. 24522492. Edited by Williams S. T., Sharpe M. E., Holt J. G. . Baltimore:: Williams & Wilkins;.
    [Google Scholar]
  43. 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, 11491153. [View Article] [PubMed]
    [Google Scholar]
  44. Yassin A. F., Galinski E. A., Wohlfarth A., Jahnke K.-D., Schaal K. P., Trüper H. G. ( 1993 ). A new actinomycete species, Nocardiopsis lucentensis sp. nov.. Int J Syst Bacteriol 43, 266271. [View Article]
    [Google Scholar]
  45. Yassin A. F., Rainey F. A., Burghardt J., Gierth D., Ungerechts J., Lux I., Seifert P., Bal C., Schaal K. P. ( 1997 ). Description of Nocardiopsis synnemataformans sp. nov., elevation of Nocardiopsis alba subsp. prasina to Nocardiopsis prasina comb. nov., and designation of Nocardiopsis antarctica and Nocardiopsis alborubida as later subjective synonyms of Nocardiopsis dassonvillei . . Int J Syst Bacteriol 47, 983988. [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.053595-0
Loading
/content/journal/ijsem/10.1099/ijs.0.053595-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF
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