1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 61, Issue 9

sp. nov., an actinobacterium isolated from surface-sterilized roots of L. Free

Abstract

A Gram-positive, aerobic, actinobacterial strain with rod-shaped spores, designated YIM 63158, was isolated from the surface-sterilized roots of L. collected from Yunnan province, south-west China. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM 63158 belonged to the genus . The closest neighbours were ‘’ KLBMP 1115 (99.9 % 16S rRNA gene sequence similarity), EUM 221 (99.1 %) and DSM 44774 (98.8 %); sequence similarities to other members of the genus ranged from 98.6 to 94.4 %. The chemotaxonomic characteristics, such as the cell-wall diaminopimelic acid, whole-cell sugars, fatty acid components and major menaquinones, suggested that the isolate belonged to the genus . The G+C content of the genomic DNA was 73.3 mol%. On the basis of physiological, biochemical and chemotaxonomic data, including low DNA–DNA relatedness between the isolate and other members of the genus , it is proposed that strain YIM 63158 represents a novel species in this genus, with the name sp. nov. The type strain is YIM 63158 ( = DSM 45301  = CCTCC AA 208081).

  • Published Online:
Funding
This study was supported by the:
  • National Basic Research Program of China (Award 2010CB833800)
  • National Natural Science Foundation of China (Award U0932601)
© 2011 IUMS

Erratum

An erratum has been published for this content:
sp. nov., an actinobacterium isolated from surface-sterilized roots of L.
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.027607-0
2011-09-01
2024-04-19
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/61/9/2292.html?itemId=/content/journal/ijsem/10.1099/ijs.0.027607-0&mimeType=html&fmt=ahah

References

  1. Ara I., Tsetseg B., Daram D., Suto M., Ando K. 2011; Pseudonocardia mongoliensis sp. nov. and Pseudonocardia khuvsgulensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 61:747–756 [CrossRef]
     [Google Scholar]
  2. Chen H.-H., Qin S., Li J., Zhang Y.-Q., Xu L.-H., Jiang C.-L., Kim C.-J., Li W.-J. 2009; Pseudonocardia endophytica sp. nov., isolated from the pharmaceutical plant Lobelia clavata . Int J Syst Evol Microbiol 59:559–563 [View Article][PubMed]
     [Google Scholar]
  3. Collins M. D., Jones D. 1980; Lipids in the classification and identification of coryneform bacteria containing peptidoglycan based on 2, 4-diaminobutyric acid. J Appl Bacteriol 48:459–470 [CrossRef]
     [Google Scholar]
  4. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. 1977; Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230[PubMed] [CrossRef]
     [Google Scholar]
  5. Dong X. Z., Cai M. Y. 2001 Manual for the Systematic Identification of General Bacteria Beijing: Science Press; (in Chinese)
    [Google Scholar]
  6. Duangmal K., Thamchaipenet A., Matsumoto A., Takahashi Y. 2009; Pseudonocardia acaciae sp. nov., isolated from roots of Acacia auriculiformis A. Cunn. ex Benth. Int J Syst Evol Microbiol 59:1487–1491 [View Article][PubMed]
     [Google Scholar]
  7. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [View Article][PubMed]
     [Google Scholar]
  8. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–789 [View Article]
     [Google Scholar]
  9. Felsenstein J. 2002; phylip (phylogeny inference package), version 3.6a. Distributed by the author. Department of Genome Science, University of Washington, Seattle, WA, USA..
  10. Fitch W. M. 1971; Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416 [View Article]
     [Google Scholar]
  11. 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 [View Article]
     [Google Scholar]
  12. Gu Q., Luo H., Zheng W., Liu Z., Huang Y. 2006; Pseudonocardia oroxyli sp. nov., a novel actinomycete isolated from surface-sterilized Oroxylum indicum root. Int J Syst Evol Microbiol 56:2193–2197 [View Article][PubMed]
     [Google Scholar]
  13. Guindon S., Gascuel O. 2003; A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696–704 [View Article][PubMed]
     [Google Scholar]
  14. Hasegawa T., Takizawa M., Tanida S. 1983; A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Microbiol 29:319–322 [View Article]
     [Google Scholar]
  15. Hayakawa M., Nonomura H. 1987; Humic acid-vitamin agar, a new medium for selective isolation of soil actinomycetes. J Ferment Technol 65:501–509 [View Article]
     [Google Scholar]
  16. Henssen A. 1957; Beiträge zur Morphologie und Systematic der thermophilen Actinomyceten. Arch Mikrobiol 26:373–414 (in German) [View Article]
     [Google Scholar]
  17. Huang Y., Wang L., Lu Z., Hong L., Liu Z., Tan G. Y. A., Goodfellow M. 2002; Proposal to combine the genera Actinobispora and Pseudonocardia in an emended genus Pseudonocardia, and description of Pseudonocardia zijingensis sp. nov.. Int J Syst Evol Microbiol 52:977–982 [View Article][PubMed]
     [Google Scholar]
  18. Kaewkla O., Franco C. M. M. 2010; Pseudonocardia adelaidensis sp. nov., an endophytic actinobacterium isolated from the surface-sterilized stem of a grey box tree (Eucalyptus microcarpa). Int J Syst Evol Microbiol 60:2818–2822 [View Article][PubMed]
     [Google Scholar]
  19. Kaewkla O., Franco C. M. M. 2011; Pseudonocardia eucalypti sp. nov., an endophytic actinobacterium with a unique knobby spore surface, isolated from roots of a native Australian eucalyptus tree. Int J Syst Evol Microbiol 61:742–746 [View Article]
     [Google Scholar]
  20. Kämpfer P., Kohlweyer U., Thiemer B., Andreesen J. R. 2006; Pseudonocardia tetrahydrofuranoxydans sp. nov.. Int J Syst Evol Microbiol 56:1535–1538 [View Article][PubMed]
     [Google Scholar]
  21. 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]
  22. 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 [View Article]
     [Google Scholar]
  23. Leifson E. 1960 Atlas of Bacterial Flagellation London: Academic Press;
     [Google Scholar]
  24. 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 [View Article][PubMed]
     [Google Scholar]
  25. Li J., Zhao G. Z., Chen H. H., Wang H. B., Qin S., Zhu W. Y., Xu L. H., Jiang C. L., Li W. J. 2008; Antitumour and antimicrobial activities of endophytic streptomycetes from pharmaceutical plants in rainforest. Lett Appl Microbiol 47:574–580 [View Article][PubMed]
     [Google Scholar]
  26. McVeigh H. P., Munro J., Embley T. M. 1994; The phylogenetic position of Pseudoamycolata halophobica (Akimov et al. 1989) and a proposal to reclassify it as Pseudonocardia halophobica . Int J Syst Bacteriol 44:300–302 [View Article][PubMed]
     [Google Scholar]
  27. 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]
  28. Minnikin D. E., Collins M. D., Goodfellow M. 1979; Fatty acid and polar lipid composition in the classification of Cellulomonas, Oerskovia and related taxa. J Appl Bacteriol 47:87–95 [CrossRef]
     [Google Scholar]
  29. Minnikin D. E., Hutchinson I. G., Caldicott A. B., Goodfellow M. 1980; Thin layer chromatography of methanolysates of mycolic acid-containing bacteria. J Chromatogr A 188:221–233 [View Article]
     [Google Scholar]
  30. Park S. W., Park S. T., Lee J. E., Kim Y. M. 2008; Pseudonocardia carboxydivorans sp. nov., a carbon monoxide-oxidizing actinomycete, and an emended description of the genus Pseudonocardia . Int J Syst Evol Microbiol 58:2475–2478 [View Article][PubMed]
     [Google Scholar]
  31. Prabahar V., Dube S., Reddy G. S. N., Shivaji S. 2004; Pseudonocardia antarctica sp. nov. an actinomycetes from McMurdo Dry Valleys, Antarctica. Syst Appl Microbiol 27:66–71 [View Article][PubMed]
     [Google Scholar]
  32. Qin S., Zhu W.-Y., Jiang J.-H., Klenk H.-P., Li J., Zhao G.-Z., Xu L.-H., Li W.-J. 2010; Pseudonocardia tropica sp. nov., an endophytic actinomycete isolated from the stem of Maytenus austroyunnanensis . Int J Syst Evol Microbiol 60:2524–2528 [View Article]
     [Google Scholar]
  33. Qin S., Xing K., Fei S. M., Lin Q., Chen X. M., Cao C. L., Sun Y., Wang Y., Li W. J., Jiang J. H. 2011; Pseudonocardia sichuanensis sp. nov., a novel endophytic actinomycete isolated from the root of Jatropha curcas L.. Antonie van Leeuwenhoek 99:395–401[PubMed] [CrossRef]
     [Google Scholar]
  34. Reichert K., Lipski A., Pradella S., Stackebrandt E., Altendorf K. 1998; Pseudonocardia asaccharolytica sp. nov. and Pseudonocardia sulfidoxydans sp. nov., two new dimethyl disulfide-degrading actinomycetes and emended description of the genus Pseudonocardia . Int J Syst Bacteriol 48:441–449[PubMed] [CrossRef]
     [Google Scholar]
  35. 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]
  36. Sakiyama Y., Thao N. K. N., Vinh H. V., Giang N. M., Miyadoh S., Hop D. V., Ando K. 2010; Pseudonocardia babensis sp. nov., isolated from plant litter. Int J Syst Evol Microbiol 60:2336–2340 [View Article][PubMed]
     [Google Scholar]
  37. Schäfer J., Busse H. J., Kämpfer P. 2009; Pseudonocardia parietis sp. nov., from the indoor environment. Int J Syst Evol Microbiol 59:2449–2452 [View Article][PubMed]
     [Google Scholar]
  38. Shirling E. B., Gottlieb D. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [View Article]
     [Google Scholar]
  39. 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, DC: American Society for Microbiology;
     [Google Scholar]
  40. 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 [View Article]
     [Google Scholar]
  41. Tamaoka J., Katayama-Fujimura Y., Kuraishi H. 1983; Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. J Appl Bacteriol 54:31–36 [CrossRef]
     [Google Scholar]
  42. Tamura K., Dudley J., Nei M., Kumar S. 2007; mega4: Molecular Evolutionary Genetics Analysis (mega) software version 4.0. Mol Biol Evol 24:1596–1599 [View Article][PubMed]
     [Google Scholar]
  43. Tang S.-K., Wang Y., Chen Y., Lou K., Cao L.-L., Xu L.-H., Li W.-J. 2009; Zhihengliuella alba sp. nov., and emended description of the genus Zhihengliuella . Int J Syst Evol Microbiol 59:2025–2032 [View Article][PubMed]
     [Google Scholar]
  44. 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 [View Article][PubMed]
     [Google Scholar]
  45. Warwick S., Bowen T., McVeigh H. P., Embley T. M. 1994; A phylogenetic analysis of the family Pseudonocardiaceae and the genera Actinokineospora and Saccharothrix with 16S rRNA sequences and a proposal to combine the genera Amycolata and Pseudonocardia in an emended genus Pseudonocardia . Int J Syst Bacteriol 44:293–299 [View Article][PubMed]
     [Google Scholar]
  46. 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]
  47. Zhao G.-Z., Li J., Qin S., Huang H.-Y., Zhu W.-Y., Xu L.-H., Li W.-J. 2010; Streptomyces artemisiae sp. nov., isolated from surface-sterilized tissue of Artemisia annua L.. Int J Syst Evol Microbiol 60:27–32 [View Article][PubMed]
     [Google Scholar]
  48. Zhao G.-Z., Li J., Huang H.-Y., Zhu W.-Y., Zhao L.-X., Tang S.-K., Xu L.-H., Li W.-J. 2011; Pseudonocardia artemisiae sp. nov., a novel actinobacterium isolated from surface-sterilized Artemisia annua L.. Int J Syst Evol Microbiol 61:1061–1065 [View Article]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.027607-0
Loading
Pseudonocardia kunmingensis sp. nov., an actinobacterium isolated from surface-sterilized roots of Artemisia annua L.
Int J Syst Evol Microbiol 61, 2292 (2011); https://doi.org/10.1099/ijs.0.027607-0
/content/journal/ijsem/10.1099/ijs.0.027607-0
/content/journal/ijsem/10.1099/ijs.0.027607-0
Loading

Data & Media loading...

Supplements

Supplementary material 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