1887

Abstract

Strain ATCC 39727, which produces the antibiotic A40926 (the natural precursor of the antibiotic dalbavancin), was isolated from a soil sample collected in India, and it was originally classified as a member of the genus on the base of morphology and cell-wall composition. A phylogenetic analysis based on 16S rRNA gene sequences indicates that the strain forms a distinct clade within the genus , and it is most closely related to DSM 43173 (98.72 % similarity) and A4036 (98.69 %). The strain forms an extensively branched substrate mycelium and aerial hyphae that form spiral chains of spores with ridged surfaces. The cell wall contains diaminopimelic acid and the whole-cell sugars are glucose, ribose, galactose, mannose and madurose (madurose as the diagnostic sugar). The -acyl type of muramic acid is acetyl. The predominant menaquinone is MK-9(H), with minor amounts of MK-9(H), MK-9(H) and MK-9(H). The polar-lipid profile includes diphosphatidylglycerol, phosphatidylethanolamine, hydroxyphosphatidylethanolamine, phosphatidylmethylethanolamine, hydroxyphosphatidylmethylethanolamine, phosphatidylinositol and a series of uncharacterized phospholipids, glycolipids and phosphoglycolipids. The major cellular fatty acids are iso-C and 10-methyl C. The genomic DNA G+C content is 71.2 mol%. Significant differences in the morphological, chemotaxonomic and biochemical data, together with DNA–DNA relatedness between strain ATCC 39727 and closely related type strains, clearly demonstrated that strain ATCC 39727 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is ATCC 39727 ( = DSM 100948).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.000810
2016-02-01
2021-10-22
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/66/2/912.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.000810&mimeType=html&fmt=ahah

References

  1. Ara I., Kudo T., Matsumoto A., Takahashi Y., Omura S. 2007; Nonomuraea maheshkhaliensis sp. nov., a novel actinomycete isolated from mangrove rhizosphere mud. J Gen Appl Microbiol 53:159–166 [View Article][PubMed]
    [Google Scholar]
  2. Beltrametti F., Jovetic S., Feroggio M., Gastaldo L., Selva E., Marinelli F. 2004; Valine influences production and complex composition of glycopeptide antibiotic A40926 in fermentations of Nonomuraea sp. ATCC 39727. J Antibiot (Tokyo) 57:37–44 [View Article][PubMed]
    [Google Scholar]
  3. Binda E., Marinelli F., Marcone G. L. 2014; Old and new glycopeptide antibiotics: action and resistance. Antibiotics (Basel) 3:572–594 [View Article]
    [Google Scholar]
  4. Camas M., Sazak A., Spröer C., Klenk H. P., Cetin D., Guven K., Sahin N. 2013; Nonomuraea jabiensis sp. nov., isolated from arid soil. Int J Syst Evol Microbiol 63:212–218 [View Article][PubMed]
    [Google Scholar]
  5. Cao Y. R., Jin R. X., Jiang Y., He W. X., Jiang C. L. 2012; Nonomuraea soli sp. nov., an actinomycete isolated from soil. Int J Syst Evol Microbiol 62:1587–1591 [View Article][PubMed]
    [Google Scholar]
  6. Cashion P., Holder-Franklin M. A., McCully J., Franklin M. 1977; A rapid method for the base ratio determination of bacterial DNA. Anal Biochem 81:461–466 [View Article][PubMed]
    [Google Scholar]
  7. Chiba S., Suzuki M., Ando K. 1999; Taxonomic re-evaluation of ‘Nocardiopsis’ sp. K-252T ( = NRRL 15532T): a proposal to transfer this strain to the genus Nonomuraea as Nonomuraea longicatena sp. nov. Int J Syst Bacteriol 49:1623–1630 [View Article][PubMed]
    [Google Scholar]
  8. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. 1977; Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230 [View Article][PubMed]
    [Google Scholar]
  9. De Ley J., Tijtgat R. 1970; Evaluation of membrane filter methods for DNA-DNA hybridization. Antonie van Leeuwenhoek 36:461–474 [View Article][PubMed]
    [Google Scholar]
  10. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [View Article][PubMed]
    [Google Scholar]
  11. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
    [Google Scholar]
  12. Goldstein B. P., Selva E., Gastaldo L., Berti M., Pallanza R., Ripamonti F., Ferrari P., Denaro M., Arioli V., Cassani G. 1987; A40926, a new glycopeptide antibiotic with anti-Neisseria activity. Antimicrob Agents Chemother 31:1961–1966 [View Article][PubMed]
    [Google Scholar]
  13. Goodfellow M., Alderson G., Lacey J. 1979; Numerical taxonomy of Actinomadura and related actinomycetes. J Gen Microbiol 112:95–111 [View Article][PubMed]
    [Google Scholar]
  14. Hsu S. C., Lockwood J. L. 1975; Powdered chitin agar as a selective medium for enumeration of actinomycetes in water and soil. Appl Microbiol 29:422–426[PubMed]
    [Google Scholar]
  15. Huss V. A., Festl H., Schleifer K. H. 1983; Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4:184–192 [View Article][PubMed]
    [Google Scholar]
  16. Kämpfer P., Kroppenstedt R. M., Grün-Wollny I. 2005; Nonomuraea kuesteri sp. nov. Int J Syst Evol Microbiol 55:847–851 [View Article][PubMed]
    [Google Scholar]
  17. Kieser T., Bibb M. J., Buttner M. J., Chater K. F., Hopwood D. A. 2000 Practical Streptomyces Genetics Norwich: John Innes Centre;
    [Google Scholar]
  18. 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 [View Article][PubMed]
    [Google Scholar]
  19. 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 [View Article][PubMed]
    [Google Scholar]
  20. Kroppenstedt R. M. 1982; Separation of bacterial menaquinones by HPLC using reverse phase (RP-18) and a silver loaded ion exchanger. J Liq Chromatogr 5:2359–2367 [View Article]
    [Google Scholar]
  21. Kroppenstedt R. M., Stackebrandt E., Goodfellow M. 1990; Taxonomic revision of the actinomycete genera Actinomadura and Microtetraspora . Syst Appl Microbiol 13:148–160 [View Article]
    [Google Scholar]
  22. Kuykendall L. D., Roy M. A., O'Neill J. J., Devine T. E. 1988; Fatty acids, antibiotic resistance, and deoxyribonucleic acid homology groups of Bradyrhizobium japonicum . Int J Syst Bacteriol 38:358–361 [View Article]
    [Google Scholar]
  23. Larkin M. A., Blackshields G., Brown N. P., Chenna R., McGettigan P. A., McWilliam H., Valentin F., Wallace I. M., Wilm A., other authors. 2007; Clustal W and Clustal X version 2.0. Bioinformatics 23:2947–2948 [View Article][PubMed]
    [Google Scholar]
  24. Lechevalier M. P., Lechevalier H. 1970; Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20:435–443 [View Article]
    [Google Scholar]
  25. Li J., Zhao G. Z., Huang H. Y., Zhu W. Y., Lee J. C., Xu L. H., Kim C. J., Li W. J. 2011; Nonomuraea endophytica sp. nov., an endophytic actinomycete isolated from Artemisia annua L. Int J Syst Evol Microbiol 61:757–761 [View Article][PubMed]
    [Google Scholar]
  26. Li X., Zhang L., Ding Y., Gao Y., Ruan J., Huang Y. 2012; Nonomuraea jiangxiensis sp. nov., isolated from acidic soil. Int J Syst Evol Microbiol 62:1409–1413 [View Article][PubMed]
    [Google Scholar]
  27. Maerz A., Paul M. R. 1950 A Dictionary of Color, 2nd edn. New York: McGraw-Hill;
    [Google Scholar]
  28. Marcone G. L., Beltrametti F., Binda E., Carrano L., Foulston L., Hesketh A., Bibb M., Marinelli F. 2010; Novel mechanism of glycopeptide resistance in the A40926 producer Nonomuraea sp. ATCC 39727. Antimicrob Agents Chemother 54:2465–2472 [View Article][PubMed]
    [Google Scholar]
  29. Marcone G. L., Binda E., Carrano L., Bibb M., Marinelli F. 2014; Relationship between glycopeptide production and resistance in the actinomycete Nonomuraea sp. ATCC 39727. Antimicrob Agents Chemother 58:5191–5201 [View Article][PubMed]
    [Google Scholar]
  30. 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]
  31. Miller L. T. 1982; Single derivatization method for routine analysis of bacterial whole-cell fatty acid methyl esters, including hydroxy acids. J Clin Microbiol 16:584–586[PubMed]
    [Google Scholar]
  32. 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]
  33. Monciardini P., Sosio M. 2004; Reclassification as a Nonomuraea sp. of the strain ATCC 39727, producing the glycopeptide antibiotic A40926. J Antibiot (Tokyo) 57:68–70 [View Article][PubMed]
    [Google Scholar]
  34. Nakaew N., Sungthong R., Yokota A., Lumyong S. 2012; Nonomuraea monospora sp. nov., an actinomycete isolated from cave soil in Thailand, and emended description of the genus Nonomuraea . Int J Syst Evol Microbiol 62:3007–3012 [View Article][PubMed]
    [Google Scholar]
  35. Nonomura H., Ohara Y. 1971; Distribution of actinomycetes in soil. XI. Some new species of the genus Actinomadura Lechevalier et al. . J Ferment Technol 49:904–912
    [Google Scholar]
  36. Ozdemir-Kocak F., Isik K., Veyisoglu A., Tatar D., Sahin N. 2014; Nonomuraea muscovyensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 64:2467–2472 [View Article][PubMed]
    [Google Scholar]
  37. Qin S., Zhao G. Z., Klenk H. P., Li J., Zhu W. Y., Xu L. H., Li W. J. 2009; Nonomuraea antimicrobica sp. nov., an endophytic actinomycete isolated from a leaf of Maytenus austroyunnanensis . Int J Syst Evol Microbiol 59:2747–2751 [View Article][PubMed]
    [Google Scholar]
  38. Quintana E., Maldonado L., Goodfellow M. 2003; Nonomuraea terrinata sp. nov., a novel soil actinomycete. Antonie van Leeuwenhoek 84:1–6 [View Article][PubMed]
    [Google Scholar]
  39. Rachniyom H., Matsumoto A., Indananda C., Duangmal K., Takahashi Y., Thamchaipenet A. 2015; Nonomuraea syzygii sp. nov., an endophytic actinomycete isolated from the roots of a jambolan plum tree (Syzygium cumini L. Skeels). Int J Syst Evol Microbiol 65:1234–1240 [View Article][PubMed]
    [Google Scholar]
  40. 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]
  41. Shirling E. B., Gottlieb D. 1966; Method for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [View Article]
    [Google Scholar]
  42. Sripreechasak P., Tanasupawat S., Suwanborirux K., Inahashi Y., Matsumoto A., Shiomi K., Takahashi Y. 2013; Nonomuraea thailandensis sp. nov. isolated from Thai soil. J Antibiot (Tokyo) 66:79–84 [View Article][PubMed]
    [Google Scholar]
  43. Stackebrandt E., Rainey F. A., Ward-Rainey N. L. 1997; Proposal for a new hierarchic classification system, Actinobacteria classis nov. Int J Syst Bacteriol 47:479–491 [View Article]
    [Google Scholar]
  44. Stackebrandt E., Wink J., Steiner U., Kroppenstedt R. M. 2001; Nonomuraea dietzii sp. nov. Int J Syst Evol Microbiol 51:1437–1441 [View Article][PubMed]
    [Google Scholar]
  45. Staneck J. L., Roberts G. D. 1974; Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28:226–231[PubMed]
    [Google Scholar]
  46. Sungthong R., Nakaew N. 2015; The genus Nonomuraea: a review of a rare actinomycete taxon for novel metabolites. J Basic Microbiol 55:554–565 [View Article][PubMed]
    [Google Scholar]
  47. Tamaoka J., Komagata K. 1984; Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25:125–128 [View Article]
    [Google Scholar]
  48. 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]
  49. 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 pp 330–393Edited by Reddy C. A., Beveridge T. J., Breznak J. A., Marzluf G., Schmidt T. M., Snyder L. R., 3rd edn. Washington, DC: American Society for Microbiology; [View Article]
    [Google Scholar]
  50. Waksman S. A. 1961; Classification, identification, and description of genera and species. In The Actinomycetes pp 328–334 Baltimore: Williams & Wilkins;
    [Google Scholar]
  51. Wang F., Xu X. X., Qu Z., Wang C., Lin H. P., Xie Q. Y., Ruan J. S., Sun M., Hong K. 2011; Nonomuraea wenchangensis sp. nov., isolated from mangrove rhizosphere soil. Int J Syst Evol Microbiol 61:1304–1308 [View Article][PubMed]
    [Google Scholar]
  52. Wang X., Zhao J., Liu C., Wang J., Shen Y., Jia F., Wang L., Zhang J., Yu C., Xiang W. 2013; Nonomuraea solani sp. nov., an actinomycete isolated from eggplant root (Solanum melongena L.). Int J Syst Evol Microbiol 63:2418–2423 [View Article][PubMed]
    [Google Scholar]
  53. Wang S., Liu C., Zhang Y., Zhao J., Zhang X., Yang L., Wang X., Xiang W. 2014; Nonomuraea guangzhouensis sp. nov., and Nonomuraea harbinensis sp. nov., two novel actinomycetes isolated from soil. Antonie van Leeuwenhoek 105:109–118 [View Article][PubMed]
    [Google Scholar]
  54. 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; Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464 [View Article]
    [Google Scholar]
  55. Xi L., Zhang L., Ruan J., Huang Y. 2011; Nonomuraea maritima sp. nov., isolated from coastal sediment. Int J Syst Evol Microbiol 61:2740–2744 [View Article][PubMed]
    [Google Scholar]
  56. Zhang Z., Wang Y., Ruan J. 1998; Reclassification of Thermomonospora and Microtetraspora . Int J Syst Bacteriol 48:411–422 [View Article][PubMed]
    [Google Scholar]
  57. Zhang X., Zhang Y., Zhao J., Liu C., Wang S., Yang L., He H., Xiang W., Wang X. 2014a; Nonomuraea fuscirosea sp. nov., an actinomycete isolated from the rhizosphere soil of rehmannia (Rehmannia glutinosa Libosch). Int J Syst Evol Microbiol 64:1102–1107 [View Article][PubMed]
    [Google Scholar]
  58. Zhang Y., Zhao J., Liu C., Shen Y., Jia F., Wang X., Xiang W. 2014b; Nonomuraea shaanxiensis sp. nov., a novel actinomycete isolated from a soil sample. Antonie van Leeuwenhoek 105:57–64 [View Article][PubMed]
    [Google Scholar]
  59. Zhao G. Z., Li J., Huang H. Y., Zhu W. Y., Xu L. H., Li W. J. 2011; Nonomuraea rhizophila sp. nov., an actinomycete isolated from rhizosphere soil. Int J Syst Evol Microbiol 61:2141–2145 [View Article][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.000810
Loading
/content/journal/ijsem/10.1099/ijsem.0.000810
Loading

Data & Media loading...

Supplements

Supplementary Data

PDF

Most cited this month 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