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Abstract

A novel actinobacterium, designated TRM 43006, was isolated from the rhizosphere soil of in Xinjiang Province, north-west China. Phylogenetic and phenotypic analysis demonstrated that strain TRM 43006 belongs to the genus . The strain was aerobic and Gram-stain-positive; the aerial mycelium branched monopodially, forming chains of arthrospores. The spores were oval to cylindrical with smooth surfaces. The whole-cell sugar pattern of strain TRM 43006 consisted of xylose, mannitol, galactose and ribose. The menaquinones were MK-9(H), MK-9(H) and MK-9(H). The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, phosphatidylinositol, phosphatidylinositol mannosides and four unknown phospholipids. Major fatty acids were iso-C, iso-C, iso-C and anteiso-C. The G+C content of the genomic DNA was 69.0 mol%. Comparative 16S rRNA gene sequence analysis indicated that strain TRM 43006was phylogenetically most closely related to NBRC 12815(98.6 % similarity) and SD 504 (98.3 %); however, DNA–DNA hybridization studies between NBRC 12815, SD 504 and TRM 43006 showed only 30.28 and 30.65  % relatedness, respectively. Based on the evidence from this polyphasic study, strain TRM 43006 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is TRM 43006 (=KCTC 39611=CCTCC AA 2015010).

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2016-06-10
2022-01-26
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References

  1. Atlas R. M. 1993 Handbook of Microbiological Media Edited by Parks L. C. Boca Raton, FL: CRC Press;
    [Google Scholar]
  2. Darriba D., Taboada G. L., Doallo R., Posada D. 2011; ProtTest 3: fast selection of best-fit models of protein evolution. Bioinformatics 27:1164–1165 [View Article][PubMed]
    [Google Scholar]
  3. Euzeby J. P. 2014; List of Bacterial Names with Standing in Nomenclature: a folder available on the Internet. Int J Syst Bacteriol 47:590–592 [CrossRef]
    [Google Scholar]
  4. Ezaki T H. Y., Yabuuchi E. 1989; Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radio-isotopes are used to determine genetic relatedness among bacterial. Strains 39:224–229
    [Google Scholar]
  5. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376[PubMed] [CrossRef]
    [Google Scholar]
  6. Felsenstein J. 1992; Estimating effective population size from samples of sequences: a bootstrap Monte Carlo integration method. Genet Res 60:209–220[PubMed] [CrossRef]
    [Google Scholar]
  7. Gordon R. E., Barnett D. A., Handerhan J. E., Pang C. H.-N. 1974; Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. Int J Syst Bacteriol 24:54–63 [CrossRef]
    [Google Scholar]
  8. Gouy M., Guindon S., Gascuel O. 2010; SeaView version 4: A multiplatform graphical user interface for sequence alignment and phylogenetic tree building. Mol Biol Evol 27:221–224 [View Article][PubMed]
    [Google Scholar]
  9. 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]
  10. Han L., Zhang G., Miao G., Zhang X., Feng J. 2015; Streptomyces kanasensis sp. nov., an Antiviral Glycoprotein Producing Actinomycete Isolated from Forest Soil Around Kanas Lake of China. Curr Microbiol 71:627–631 [View Article][PubMed]
    [Google Scholar]
  11. Hasegawa T., Takizawa M., Tanida S. 1983; A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 29:319–322 [CrossRef]
    [Google Scholar]
  12. 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]
  13. Kim S. B., Brown R., Oldfield C., Gilbert S. C., Iliarionov S., Goodfellow M. 2000; Gordonia amicalis sp. nov., a novel dibenzothiophene-desulphurizing actinomycete. Int J Syst Evol Microbiol 50:2031–2036 [View Article][PubMed]
    [Google Scholar]
  14. 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[PubMed] [CrossRef]
    [Google Scholar]
  15. Lazzarini A., Cavaletti L., Toppo G., Marinelli F. 2000; Rare genera of actinomycetes as potential producers of new antibiotics. Antonie Van Leeuwenhoek 78:399–405[PubMed] [CrossRef]
    [Google Scholar]
  16. Lechevalier M. P. L. 1970; Chemical composition as a criterion in the classification of aerobic acfinomycetes. Int J Syst Bacteriol 20:435–443 [CrossRef]
    [Google Scholar]
  17. Manfio G. P., Zakrzewska-Czerwinska J., Atalan E., Goodfellow M. 1995; Towards minimal standards for the description of Streptomyces species. Biotechnologiia 8:228–237
    [Google Scholar]
  18. McCarthy A. J., Williams S. T. 1992; Actinomycetes as agents of biodegradation in the environment-a review. Gene 115:189–192 [View Article][PubMed]
    [Google Scholar]
  19. 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 Evol Microbiol 39:159–167
    [Google Scholar]
  20. Minnikin D. E., O’Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal K., Parlett J. H. 1984; An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:[PubMed]
    [Google Scholar]
  21. Mount D. W. 2008; Maximum parsimony method for phylogenetic prediction. CSH Protoc 32:
    [Google Scholar]
  22. Peter Kämpfer R. M. K. 1996; Numerical analysis of fatty acid patterns of coryneform bacteria and related taxa. Can J Microbiol 42:989–1005 [CrossRef]
    [Google Scholar]
  23. Pridham T. G., Gottlieb D. 1948; The Utilization of Carbon Compounds by Some Actinomycetales as an Aid for Species Determination. J Bacteriol 56:107–114[PubMed]
    [Google Scholar]
  24. Quintana E. T., Wierzbicka K., Mackiewicz P., Osman A., Fahal A. H., Hamid M. E., Zakrzewska-Czerwinska J., Maldonado L. A., Goodfellow M. 2008; Streptomyces sudanensis sp. nov., a new pathogen isolated from patients with actinomycetoma. Antonie Van Leeuwenhoek 93:305–313 [View Article][PubMed]
    [Google Scholar]
  25. 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]
  26. Shah H. N., Collins M. D. 1980; Fatty acid and isoprenoid quinone composition in the classification of Bacteroides melaninogenicus and related taxa. J Appl Bacteriol 48:75–87[PubMed] [CrossRef]
    [Google Scholar]
  27. Shirling E. B. G., Gottlieb D. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [CrossRef]
    [Google Scholar]
  28. Sun Y., Wan C. X., Zhang L. L. 2015; Identification of actinomycete TRM43006 from the soil of Populus euphratica forest and stydies on its secondary metabolites. J Tarim Univ 27:1–7
    [Google Scholar]
  29. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. 2013; MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Mol Biol Evol 30:2725–2729 [View Article][PubMed]
    [Google Scholar]
  30. Waksman S. A., Henrici A. T. 1943; The Nomenclature and Classification of the Actinomycetes. J Bacteriol 46:337–341[PubMed]
    [Google Scholar]
  31. 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]
  32. Williams S. T., Goodfellow M., Alderson G., Wellington E. M., Sneath P. H., Sackin M. J. 1983; Numerical classification of Streptomyces and related genera. J Gen Microbiol 129:1743–1813 [View Article][PubMed]
    [Google Scholar]
  33. 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]
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