1887

Abstract

An actinomycete strain, designated I12A-02593, was isolated from a desert soil crust sample collected in the Shapotou region of Tengger Desert, north-west China. The isolate grew well on International Project (ISP) media 2, 3, 5 and 7, YS and Bennett’s agar; it produced spherical bodies and formed clumps on the aerial mycelia on ISP 5 agar plates. Chemotaxonomically, the strain contained -diaminopimelic acid as the diagnostic diamino acid, arabinose and galactose as the diagnostic sugars in whole-cell hydrolysates, MK-9(H) as the sole isoprenoid quinone, and iso-C, iso-C 2-OH and iso-C H as the major cellular fatty acids, without mycolic acids. The profile of the phospholipids mainly comprised diphosphatidylglycerol, phosphatidylethanolamine and hydroxyphosphatidylethanolamine. The genomic DNA G+C content was 70.1 mol%. The 16S rRNA gene sequence of strain I12A-02593 exhibited 96.4–97.4 % similarities with members of the genus . In the phylogenetic tree based on 16S rRNA gene sequences, the isolate formed a robust cluster with NBRC 105245, NBRC 105524, NBRC 105525, NBRC 105883and NBRC 106673. DNA–DNA hybridization values between strain I12A-02593 and the five species of the genus were all less than 70 %. On the basis of the polyphasic taxonomy evidence, a novel species of the genus is proposed, with the name sp. nov. The type strain is I12A-02593 ( = CPCC 203543 = DSM 45828 = NBRC 109453 = KCTC 29165). An emended description of the genus is also provided.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.061051-0
2014-09-01
2019-11-21
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/9/3120.html?itemId=/content/journal/ijsem/10.1099/ijs.0.061051-0&mimeType=html&fmt=ahah

References

  1. Ara I., Tsetseg B., Daram D., Suto M., Ando K.. ( 2011;). Actinophytocola burenkhanensis sp. nov., isolated from Mongolian soil. . Int J Syst Evol Microbiol 61:, 1033–1038. [CrossRef][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. [CrossRef][PubMed]
    [Google Scholar]
  3. De Ley J., Cattoir H., Reynaerts A.. ( 1970;). The quantitative measurement of DNA hybridization from renaturation rates. . Eur J Biochem 12:, 133–142. [CrossRef][PubMed]
    [Google Scholar]
  4. Felsenstein J.. ( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17:, 368–376. [CrossRef][PubMed]
    [Google Scholar]
  5. Felsenstein J.. ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39:, 783–791. [CrossRef]
    [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. [CrossRef][PubMed]
    [Google Scholar]
  7. Guo X.-X., Qiu D.-H., Ruan J.-S., Huang Y.. ( 2011;). Actinophytocola xinjiangensis sp. nov., isolated from virgin forest soil. . Int J Syst Evol Microbiol 61:, 2928–2932. [CrossRef][PubMed]
    [Google Scholar]
  8. Indananda C., Matsumoto A., Inahashi Y., Takahashi Y., Duangmal K., Thamchaipenet A.. ( 2010;). Actinophytocola oryzae gen. nov., sp. nov., isolated from the roots of Thai glutinous rice plants, a new member of the family Pseudonocardiaceae. . Int J Syst Evol Microbiol 60:, 1141–1146. [CrossRef][PubMed]
    [Google Scholar]
  9. Kellogg J. A., Bankert D. A., Withers G. S., Sweimler W., Kiehn T. E., Pfyffer G. E.. ( 2001;). Application of the Sherlock Mycobacteria Identification System using high-performance liquid chromatography in a clinical laboratory. . J Clin Microbiol 39:, 964–970. [CrossRef][PubMed]
    [Google Scholar]
  10. 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:, 716–721. [CrossRef][PubMed]
    [Google Scholar]
  11. 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. [CrossRef][PubMed]
    [Google Scholar]
  12. Kimura M.. ( 1983;). The Neutral Theory of Molecular Evolution. Cambridge:: Cambridge University Press;. [CrossRef]
    [Google Scholar]
  13. Kluge A. G., Farris F. S.. ( 1969;). Quantitative phyletics and the evolution of anurans. . Syst Zool 18:, 1–32. [CrossRef]
    [Google Scholar]
  14. 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]
  15. Lechevalier H., Lechevalier M. P.. ( 1965;). Classification des actinomycètes aérobies basée sur leur morphologie et leur composition chimique. . Ann Inst Pasteur (Paris) 108:, 662–673. (in French).[PubMed]
    [Google Scholar]
  16. Lechevalier M. P., Lechevalier H. A.. ( 1980;). The chemotaxonomy of actinomycetes. . In Actinomycete Taxonomy (Special Publication no. 6), pp. 227–291. Edited by Dietz A., Thayer D. W... Arlington, VA:: Society for Industrial Microbiology;.
    [Google Scholar]
  17. 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. [CrossRef][PubMed]
    [Google Scholar]
  18. Marmur J., Doty P.. ( 1962;). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. . J Mol Biol 5:, 109–118. [CrossRef][PubMed]
    [Google Scholar]
  19. 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. [CrossRef][PubMed]
    [Google Scholar]
  20. 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]
  21. Otoguro M., Yamamura H., Tamura T., Irzaldi R., Ratnakomala S., Ridwan R., Kartina G., Triana E., Nurkanto A.. & other authors ( 2011;). Actinophytocola timorensis sp. nov. and Actinophytocola corallina sp. nov., isolated from soil. . Int J Syst Evol Microbiol 61:, 834–838. [CrossRef][PubMed]
    [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. Shirling E. B., Gottlieb D.. ( 1966;). Methods for characterization of Streptomyces species. . Int J Syst Bacteriol 16:, 313–340. [CrossRef]
    [Google Scholar]
  24. 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]
  25. Stackebrandt E., Goebel B. M.. ( 1994;). Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. . Int J Syst Bacteriol 44:, 846–849. [CrossRef]
    [Google Scholar]
  26. 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. [CrossRef][PubMed]
    [Google Scholar]
  27. Yuan L.-J., Zhang Y.-Q., Guan Y., Wei Y.-Z., Li Q.-P., Yu L.-Y., Li W.-J., Zhang Y.-Q.. ( 2008;). Saccharopolyspora antimicrobica sp. nov., an actinomycete from soil. . Int J Syst Evol Microbiol 58:, 1180–1185. [CrossRef][PubMed]
    [Google Scholar]
  28. 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. [CrossRef][PubMed]
    [Google Scholar]
  29. Zhou Z.-H., Liu Z.-H., Qian Y.-D., Kim S. B., Goodfellow M.. ( 1998;). Saccharopolyspora spinosporotrichia sp. nov., a novel actinomycete from soil. . Int J Syst Bacteriol 48:, 53–58. [CrossRef][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.061051-0
Loading
/content/journal/ijsem/10.1099/ijs.0.061051-0
Loading

Data & Media loading...

Supplements

Supplementary Material 

PDF

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