1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 65, Issue Pt_1

gen. nov., sp. nov., a new member of the family isolated from soil Free

Abstract

A novel actinomycete, designated strain CA15-2, was isolated from a soil sample collected from the rhizosphere of tamarisk in the Lop Nor region, Xinjiang, China, and was characterized by using a polyphasic taxonomic approach. Optimal growth occurred at 37 °C and pH 7.5–8.0 and with 5 % (w/v) NaCl. Strain CA15-2 formed white to pale-yellow branched substrate mycelium without fragmentation and sparse aerial mycelium with wavelike curves. Whole-cell hydrolysates of the isolate contained -diaminopimelic acid as the diagnostic diamino acid of the cell wall but no diagnostic sugars. The polar lipids comprised diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, phosphatidylmethylethanolamine, phosphatidylethanolamine, one unidentified glycolipid, one unidentified phospholipid and other unidentified lipids. MK-9(H), MK-10(H) and MK-10(H) were the predominant menaquinones. The major fatty acids were iso-C and C. The GC content of the genomic DNA was 69.6 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CA15-2 formed a distinct subclade in the family , with less than 95 % 16S rRNA gene sequence similarity to all known members of the family . On the basis of the evidence from our polyphasic study, a novel genus, gen. nov., is proposed, with the type species gen. nov., sp. nov. The type strain of is strain CA15-2 ( = DSM 45697 = CGMCC 4.7074).

  • Published Online:
Funding
This study was supported by the:
  • National Natural Sciences Foundation of China (Award 81172963 and 81373308)
  • National Science and Technology Major Project from the Ministry of Science and Technology of China (Award 2012ZX09301-002-001-018)
  • Specialized Research Fund for the Doctoral Programme of Higher Education from the Ministry of Education of China (Award 20111106110032)
  • Natural Sciences Foundation of Beijing (Award 7133249)
© 2015 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.055160-0
2015-01-01
2024-04-24
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/1/206.html?itemId=/content/journal/ijsem/10.1099/ijs.0.055160-0&mimeType=html&fmt=ahah

References

  1. Al-Zarban S. S., Abbas I., Al-Musallam A. A., Steiner U., Stackebrandt E., Kroppenstedt R. M. ( 2002 ). Nocardiopsis halotolerans sp. nov., isolated from salt marsh soil in Kuwait. . Int J Syst Evol Microbiol 52, 525–529.[PubMed]
    [Google Scholar]
  2. Cai M., Zhi X.-Y., Tang S.-K., Zhang Y.-Q., Xu L.-H., Li W.-J. ( 2008 ). Streptomonospora halophila sp. nov., a halophilic actinomycete isolated from a hypersaline soil. . Int J Syst Evol Microbiol 58, 1556–1560. [View Article] [PubMed]
    [Google Scholar]
  3. Cai M., Tang S.-K., Chen Y.-G., Li Y., Zhang Y.-Q., Li W.-J. ( 2009 ). Streptomonospora amylolytica sp. nov. and Streptomonospora flavalba sp. nov., two novel halophilic actinomycetes isolated from a salt lake. . Int J Syst Evol Microbiol 59, 2471–2475. [View Article] [PubMed]
    [Google Scholar]
  4. Chang X. B., Liu W. Z., Zhang X.-H. ( 2011 ). Spinactinospora alkalitolerans gen. nov., sp. nov., an actinomycete isolated from marine sediment. . Int J Syst Evol Microbiol 61, 2805–2810. [View Article] [PubMed]
    [Google Scholar]
  5. Chang X. B., Liu W. Z., Zhang X. H. ( 2012 ). Salinactinospora qingdaonensis gen. nov., sp. nov., a halophilic actinomycete isolated from a salt pond. . Int J Syst Evol Microbiol 62, 954–959. [View Article] [PubMed]
    [Google Scholar]
  6. Chen Y.-G., Cui X.-L., Kroppenstedt R. M., Stackebrandt E., Wen M.-L., Xu L.-H., Jiang C.-L. ( 2008 ). Nocardiopsis quinghaiensis sp. nov., isolated from saline soil in China. . Int J Syst Evol Microbiol 58, 699–705. [View Article] [PubMed]
    [Google Scholar]
  7. Chen Y.-G., Wang Y.-X., Zhang Y.-Q., Tang S.-K., Liu Z.-X., Xiao H.-D., Xu L.-H., Cui X.-L., Li W.-J. ( 2009 ). Nocardiopsis litoralis sp. nov., a halophilic marine actinomycete isolated from a sea anemone. . Int J Syst Evol Microbiol 59, 2708–2713. [CrossRef]
    [Google Scholar]
  8. Chen Y.-G., Zhang Y.-Q., Tang S.-K., Liu Z.-X., Xu L.-H., Zhang L.-X., Li W.-J. ( 2010 ). Nocardiopsis terrae sp. nov., a halophilic actinomycete isolated from saline soil. . Antonie van Leeuwenhoek 98, 31–38. [View Article] [PubMed]
    [Google Scholar]
  9. Chun J., Bae K. S., Moon E. Y., Jung S.-O., Lee H. K., Kim S.-J. ( 2000 ). Nocardiopsis kunsanensis sp. nov., a moderately halophilic actinomycete isolated from a saltern. . Int J Syst Evol Microbiol 50, 1909–1913.[PubMed]
    [Google Scholar]
  10. Chun J., Lee J.-H., Jung Y., Kim M., Kim S., Kim B. K., Lim Y.-W. ( 2007 ). EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. . Int J Syst Evol Microbiol 57, 2259–2261. [View Article] [PubMed]
    [Google Scholar]
  11. 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]
  12. Cui X.-L., Mao P.-H., Zeng M., Li W.-J., Zhang L.-P., Xu L.-H., Jiang C.-L. ( 2001 ). Streptimonospora salina gen. nov., sp. nov., a new member of the family Nocardiopsaceae . . Int J Syst Evol Microbiol 51, 357–363.[PubMed]
    [Google Scholar]
  13. Euzéby J. P. ( 1997 ). List of bacterial names with standing in nomenclature: a folder available on the Internet. . Int J Syst Bacteriol 47, 590–592. [View Article] [PubMed]
    [Google Scholar]
  14. Fang C. Y., Zhang J. L., Pang H. C., Li Y. Y., Xin Y. H., Zhang Y. B. ( 2011 ). Nocardiopsis flavescens sp. nov., an actinomycete isolated from marine sediment. . Int J Syst Evol Microbiol 61, 2640–2645. [View Article] [PubMed]
    [Google Scholar]
  15. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368–376. [View Article] [PubMed]
    [Google Scholar]
  16. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783–791. [View Article]
    [Google Scholar]
  17. 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]
  18. Hamedi J., Mohammadipanah F., von Jan M., Pötter G., Schumann P., Spröer C., Klenk H.-P., Kroppenstedt R. M. ( 2010 ). Nocardiopsis sinuspersici sp. nov., isolated from sandy rhizospheric soil. . Int J Syst Evol Microbiol 60, 2346–2352. [View Article] [PubMed]
    [Google Scholar]
  19. Hamedi J., Mohammadipanah F., Pötter G., Spröer C., Schumann P., Göker M., Klenk H.-P. ( 2011 ). Nocardiopsis arvandica sp. nov., isolated from sandy soil. . Int J Syst Evol Microbiol 61, 1189–1194. [View Article] [PubMed]
    [Google Scholar]
  20. Hayakawa M., Nonomura H. ( 1987 ). Humic acid-vitamin agar, a new medium for the selective isolation of soil actinomycetes. . J Ferment Technol 65, 501–509. [View Article]
    [Google Scholar]
  21. Hozzein W. N., Li W.-J., Ali M. I. A., Hammouda O., Mousa A. S., Xu L.-H., Jiang C.-L. ( 2004 ). Nocardiopsis alkaliphila sp. nov., a novel alkaliphilic actinomycete isolated from desert soil in Egypt. . Int J Syst Evol Microbiol 54, 247–252. [CrossRef]
    [Google Scholar]
  22. Hozzein W. N., Trujillo M. E. ( 2012 ). Genus I. Nocardiopsis Meyer 1976, 487AL . . In Bergey’s Manual of Systematic Bacteriology, , 2nd edn., vol. 5, pp. 1891–1906. Edited by Whitman W. B., Goodfellow M., Kämpfer P., Busse H.-J., Trujillo M. E., Ludwig W., Suzuki K., Parte A. . New York:: Springer;.
     [Google Scholar]
  23. Kämpfer P., Kroppenstedt R. M., Dott W. ( 1991 ). A numerical classification of the genera Streptomyces and Streptoverticillium using miniaturized physiological tests. . J Gen Microbiol 137, 1831–1891. [View Article]
    [Google Scholar]
  24. Kämpfer P., Schäfer J., Lodders N., Martin K. ( 2010 ). Murinocardiopsis flavida gen. nov., sp. nov., an actinomycete isolated from indoor walls. . Int J Syst Evol Microbiol 60, 1729–1734. [View Article] [PubMed]
    [Google Scholar]
  25. 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]
  26. Kroppenstedt R. M., Evtushenko L. I. ( 2006 ). The family Nocardiopsaceae . . In The Prokaryotes, , 3rd edn., vol. 3, pp. 754–795. Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K. H., Stackebrandt E. . New York:: Springer;. [View Article]
    [Google Scholar]
  27. Li M.-G., Li W.-J., Xu P., Cui X.-L., Xu L.-H., Jiang C.-L. ( 2003a ). Nocardiopsis xinjiangensis sp. nov., a halophilic actinomycete isolated from a saline soil sample in China. . Int J Syst Evol Microbiol 53, 317–321. [View Article] [PubMed]
    [Google Scholar]
  28. Li W.-J., Xu P., Zhang L.-P., Tang S.-K., Cui X.-L., Mao P.-H., Xu L.-H., Schumann P., Stackebrandt E., Jiang C. L. ( 2003b ). Streptomonospora alba sp. nov., a novel halophilic actinomycete, and emended description of the genus Streptomonospora Cui et al. 2001. . Int J Syst Evol Microbiol 53, 1421–1425. [View Article] [PubMed]
    [Google Scholar]
  29. Li W.-J., Park D.-J., Tang S.-K., Wang D., Lee J.-C., Xu L.-H., Kim C.-J., Jiang C.-L. ( 2004 ). Nocardiopsis salina sp. nov., a novel halophilic actinomycete isolated from saline soil in China. . Int J Syst Evol Microbiol 54, 1805–1809. [View Article] [PubMed]
    [Google Scholar]
  30. Li W.-J., Kroppenstedt R. M., Wang D., Tang S.-K., Lee J.-C., Park D.-J., Kim C.-J., Xu L.-H., Jiang C.-L. ( 2006 ). Five novel species of the genus Nocardiopsis isolated from hypersaline soils and emended description of Nocardiopsis salina Li et al. 2004. . Int J Syst Evol Microbiol 56, 1089–1096. [View Article] [PubMed]
    [Google Scholar]
  31. 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]
  32. Li J., Yang J., Zhu W.-Y., He J., Tian X.-P., Xie Q., Zhang S., Li W.-J. ( 2012 ). Nocardiopsis coralliicola sp. nov., isolated from the gorgonian coral, Menella praelonga . . Int J Syst Evol Microbiol 62, 1653–1658. [View Article] [PubMed]
    [Google Scholar]
  33. Marmur J. ( 1961 ). A procedure for the isolation of deoxyribonucleic acid from microorganisms. . J Mol Biol 3, 208–218. [View Article]
    [Google Scholar]
  34. Meklat A., Bouras N., Riba A., Zitouni A., Mathieu F., Rohde M., Schumann P., Spröer C., Klenk H. P., Sabaou N. ( 2014 ). Streptomonospora algeriensis sp. nov., a halophilic actinomycete isolated from soil in Algeria. . Antonie van Leeuwenhoek 106, 287–292. [View Article] [PubMed]
    [Google Scholar]
  35. 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]
  36. Meyer J. ( 1976 ). Nocardiopsis, a new genus of the order Actinomycetales . . Int J Syst Bacteriol 26, 487–493. [View Article]
    [Google Scholar]
  37. 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. [View Article]
    [Google Scholar]
  38. Rainey F. A., Ward-Rainey N., Kroppenstedt R. M., Stackebrandt E. ( 1996 ). The genus Nocardiopsis represents a phylogenetically coherent taxon and a distinct actinomycete lineage: proposal of Nocardiopsaceae fam. nov.. Int J Syst Bacteriol 46, 1088–1092. [View Article] [PubMed]
    [Google Scholar]
  39. Sabry S. A., Ghanem N. B., Abu-Ella G. A., Schumann P., Stackebrandt E., Kroppenstedt R. M. ( 2004 ). Nocardiopsis aegyptia sp. nov., isolated from marine sediment. . Int J Syst Evol Microbiol 54, 453–456. [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. Sasser, M. (1990). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
  42. Schleifer K. H., Kandler O. ( 1972 ). Peptidoglycan types of bacterial cell walls and their taxonomic implications. . Bacteriol Rev 36, 407–477.[PubMed]
    [Google Scholar]
  43. Shirling E. B., Gottlieb D. ( 1966 ). Methods for characterization of Streptomyces species. . Int J Syst Bacteriol 16, 313–340. [View Article]
    [Google Scholar]
  44. 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]
  45. 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. [View Article] [PubMed]
    [Google Scholar]
  46. Tang S.-K., Tian X.-P., Zhi X.-Y., Cai M., Wu J.-Y., Yang L.-L., Xu L.-H., Li W.-J. ( 2008 ). Haloactinospora alba gen. nov., sp. nov., a halophilic filamentous actinomycete of the family Nocardiopsaceae . . Int J Syst Evol Microbiol 58, 2075–2080. [View Article] [PubMed]
    [Google Scholar]
  47. 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]
  48. Tian X.-P., Tang S.-K., Dong J.-D., Zhang Y.-Q., Xu L.-H., Zhang S., Li W.-J. ( 2009 ). Marinactinospora thermotolerans gen. nov., sp. nov., a marine actinomycete isolated from a sediment in the northern South China Sea. . Int J Syst Evol Microbiol 59, 948–952. [View Article] [PubMed]
    [Google Scholar]
  49. Tuo L., Habden X., Guo L., Zhang Y.-Q., Tao L., Wang F.-F., Liu J.-M., Jiang Z.-K., Pan Z. & other authors ( 2012 ). Studies on diversity and bioactivity of rhizosphere actinomycetes from psammophyte in Lop Nor Region. . Chin J Antibiot 37, 21–26.
     [Google Scholar]
  50. Waksman S. A. ( 1961 ). The Actinomycetes, vol. II. Baltimore, MD:: Williams & Wilkins;.
     [Google Scholar]
  51. Williams S. T., Goodfellow M., Alderson G., Wellington E. M. H., Sneath P. H. A., Sackin M. J. ( 1983 ). Numerical classification of Streptomyces and related genera. . J Gen Microbiol 129, 1743–1813.[PubMed]
    [Google Scholar]
  52. 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]
  53. Yang R., Zhang L.-P., Guo L.-G., Shi N., Lu Z., Zhang X. ( 2008a ). Nocardiopsis valliformis sp. nov., an alkaliphilic actinomycete isolated from alkali lake soil in China. . Int J Syst Evol Microbiol 58, 1542–1546. [View Article] [PubMed]
    [Google Scholar]
  54. Yang L.-L., Tang S.-K., Zhang Y.-Q., Zhi X.-Y., Wang D., Xu L.-H., Li W.-J. ( 2008b ). Thermobifida halotolerans sp. nov., isolated from a salt mine sample, and emended description of the genus Thermobifida . . Int J Syst Evol Microbiol 58, 1821–1825. [View Article] [PubMed]
    [Google Scholar]
  55. Zhang Z., Wang Y., Ruan J. ( 1998 ). Reclassification of Thermomonospora and Microtetraspora . . Int J Syst Bacteriol 48, 411–422. [View Article] [PubMed]
    [Google Scholar]
  56. Zhang X., Zhang L.-P., Yang R., Shi N., Lu Z., Chen W. X., Jiang C.-L., Xu L.-H. ( 2008 ). Nocardiopsis ganjiahuensis sp. nov., isolated from a soil from Ganjiahu, China. . Int J Syst Evol Microbiol 58, 195–199. [View Article] [PubMed]
    [Google Scholar]
  57. Zhang D.-F., Pan H.-Q., He J., Zhang X.-M., Zhang Y.-G., Klenk H.-P., Hu J.-C., Li W.-J. ( 2013 ). Description of Streptomonospora sediminis sp. nov. and Streptomonospora nanhaiensis sp. nov., and reclassification of Nocardiopsis arabia Hozzein & Goodfellow 2008 as Streptomonospora arabica comb. nov. and emended description of the genus Streptomonospora . . Int J Syst Evol Microbiol 63, 4447–4455. [View Article] [PubMed]
    [Google Scholar]
  58. 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. [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.055160-0
Loading
Allosalinactinospora lopnorensis gen. nov., sp. nov., a new member of the family Nocardiopsaceae isolated from soil
Int J Syst Evol Microbiol 65, 206 (2015); https://doi.org/10.1099/ijs.0.055160-0
/content/journal/ijsem/10.1099/ijs.0.055160-0
/content/journal/ijsem/10.1099/ijs.0.055160-0
Loading

Data & Media loading...

Supplements

Supplementary Data

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