1887

Abstract

Strain XMU 506, isolated from the rhizosphere soil of an ornamental plant, L., collected from Xiamen City, China, was identified using a polyphasic approach to clarify its taxonomic position. The aerial mycelium of this organism formed long straight or curved chains of spores and sporangium-like structures. The optimum growth occurred at 28–30 °C, pH 7.0 with 0–1 % NaCl. Strain XMU 506 showed the highest 16S rRNA gene sequence similarity (96.5  %) to DSM 44226, and formed a monophyletic clade in the 16S rRNA gene phylogenetic tree together with the type strains of the genus . The chemotaxonomic properties further supported the assignment of strain XMU 506 to the genus : -diaminopimelic acid was the diagnostic amino acid in the cell wall peptidoglycan; mycolic acids were not present in the cell wall; the whole-cell hydrolysates contained arabinose, galactose, glucose and ribose. The major menaquinone was MK-9(H); the phospholipids of the isolate comprised phosphatidylethanolamine, OH-phosphatidylethanolamine, diphosphatidylglycerol and unidentified amino-, glyco- and phospholipids; the major fatty acids of the strain were iso-C, C ω6 and iso-C H. The G+C content of genomic DNA was 67.3 mol%. Based on the results of phylogenetic analysis, phenotypic and genotypic characterization, strain XMU 506 represents a novel species in the genus , for which the name sp. nov. is proposed. The type strain is XMU 506 ( = KCTC 29675 = MCCC 1K00430).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.000302
2015-08-01
2019-10-14
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/8/2581.html?itemId=/content/journal/ijsem/10.1099/ijs.0.000302&mimeType=html&fmt=ahah

References

  1. Embley M.T. , Smida J. , Stackebrandt E. . ( 1988;). The phylogeny of mycolate-less wall chemotype IV actinomycetes and description of Pseudonocardiaceae fam. nov. Syst Appl Microbiol 11: 44–52 [CrossRef].
    [Google Scholar]
  2. Felsenstein J. . ( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17: 368–376 [CrossRef] [PubMed].
    [Google Scholar]
  3. Felsenstein J. . ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783–791 [CrossRef].
    [Google Scholar]
  4. Fitch W.M. . ( 1971;). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20: 406–416 [CrossRef].
    [Google Scholar]
  5. Goodfellow M. , Kämpfer P. , Busse H.-J. , Trujillo M.E. , Suzuki K. , Ludwig W. , Whitman W.B. . ( 2012;). Bergey's Manual of Systematic Bacteriology , 2nd edn.. vol. 5 New York: Springer;.[CrossRef]
    [Google Scholar]
  6. 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]
  7. 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]
  8. 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]
  9. 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]
  10. Lechevalier M.P. , Lechevalier H.A. . ( 1970;). Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20: 435–443 [CrossRef].
    [Google Scholar]
  11. Mertz F.P. , Yao R.C. . ( 1988;). Kibdelosporangium philippinense sp. nov. isolated from soil. Int J Syst Bacteriol 38: 282–286 [CrossRef].
    [Google Scholar]
  12. 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 [CrossRef].
    [Google Scholar]
  13. 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]
  14. Sasser M. . ( 1990;). Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101 Newark, DE: MIDI Inc;.
    [Google Scholar]
  15. Sen A. , Daubin V. , Abrouk D. , Gifford I. , Berry A.M. , Normand P. . ( 2014;). Phylogeny of the class Actinobacteria revisited in the light of complete genomes. The orders ‘Frankiales’ and Micrococcales should be split into coherent entities: proposal of Frankiales ord. nov., Geodermatophilales ord. nov., Acidothermales ord. nov. and Nakamurellales ord. nov. Int J Syst Evol Microbiol 64: 3821–3832 [CrossRef] [PubMed].
    [Google Scholar]
  16. Shearer M.C. , Colman P.M. , Ferrin R.M. , Nisbet L.J. , Nash C.H. III . ( 1986a;). New genus of the Actinomycetales Kibdelosporangium aridum gen. nov., sp. nov. Int J Syst Bacteriol 36: 47–54 [CrossRef].
    [Google Scholar]
  17. Shearer M.C. , Giovenella A.J. , Grappel S.F. , Hedde R.D. , Mehta R.J. , Oh Y.K. , Pan C.H. , Pitkin D.H. , Nisbet L.J. . ( 1986b;). Kibdelins, novel glycopeptide antibiotics. I. Discovery, production, and biological evaluation. J Antibiot (Tokyo) 39: 1386–1394 [CrossRef] [PubMed].
    [Google Scholar]
  18. Shirling E.B. , Gottlieb D. . ( 1966;). Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16: 313–340 [CrossRef].
    [Google Scholar]
  19. Smibert R.M. , Krieg N.R. . ( 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, D.C.: American Society for Microbiology;.
    [Google Scholar]
  20. Stackebrandt E. . ( 1988;). Phylogenetic relationships vs. phenotypic diversity: how to achieve a phylogenetic classification system of the eubacteria. Can J Microbiol 34: 552–556 [CrossRef] [PubMed].
    [Google Scholar]
  21. 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]
  22. 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 [CrossRef] [PubMed].
    [Google Scholar]
  23. Tindall B.J. . ( 1990a;). A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 13: 128–130 [CrossRef].
    [Google Scholar]
  24. Tindall B.J. . ( 1990b;). Lipid composition of Halobacterium lacusprofundi . FEMS Microbiol Lett 66: 199–202 [CrossRef].
    [Google Scholar]
  25. Tindall B.J. , Sikorski J. , Smibert R.M. , Krieg N.R. . ( 2007;). Phenotypic characterization and the principles of comparative systematics. . In Methods for General and Molecular Microbiology , 3rd edn., pp. 330–393. Edited by Reddy C. A , Beveridge T. J , Breznak J. A , Marzluf G. A , Schmidt T. M , Snyder L. R . Washington, DC: American Society for Microbiology;.
    [Google Scholar]
  26. Tiwari K. , Gupta R.K. . ( 2012;). Rare actinomycetes: a potential storehouse for novel antibiotics. Crit Rev Biotechnol 32: 108–132 [PubMed].[CrossRef]
    [Google Scholar]
  27. Wu Y. , Lu C. , Qian X. , Huang Y. , Shen Y. . ( 2009;). Diversities within genotypes, bioactivity and biosynthetic genes of endophytic actinomycetes isolated from three pharmaceutical plants. Curr Microbiol 59: 475–482 [CrossRef] [PubMed].
    [Google Scholar]
  28. Xing K. , Bian G.K. , Qin S. , Klenk H.P. , Yuan B. , Zhang Y.J. , Li W.J. , Jiang J.H. . ( 2012;). Kibdelosporangium phytohabitans sp. nov., a novel endophytic actinomycete isolated from oil-seed plant Jatropha curcas L. containing 1-aminocyclopropane-1-carboxylic acid deaminase. Antonie van Leeuwenhoek 101: 433–441 [CrossRef] [PubMed].
    [Google Scholar]
  29. 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 [CrossRef] [PubMed].
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.000302
Loading
/content/journal/ijsem/10.1099/ijs.0.000302
Loading

Data & Media loading...

Supplementary Data



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