1887

Abstract

The taxonomic status of a carbendazim-degrading strain, mbc-2, isolated from soil under the long-term application of carbendazim in China was determined by means of a polyphasic study. The cells were Gram-stain-positive, motile and rod-shaped. Strain mbc-2 grew optimally at pH 7.0, 30–35 °C and in the presence of 1 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain mbc-2 fell within the genus , forming a coherent cluster with the type strain of , with which it exhibited 16S rRNA gene sequence similarity values of 97.9 %. The chemotaxonomic properties of strain mbc-2 were consistent with those of the genus : the cell-wall peptidoglycan type was based on -2,6-diaminopimelic acid, the predominant menaquinone was MK-8 (H) and the major fatty acid was iso-C. The major polar lipids were phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol, unknown phospholipids and an unknown aminolipid. The DNA G+C content was 72 mol%. Strain mbc-2 exhibited DNA–DNA relatedness values of 12.5±1.5 %, 23.7±2.7 % and 26.3±3.2 % with respect to DS-30, GW-9 and OS4. On the basis of the data obtained, strain mbc-2 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is mbc-2 ( = KACC 17152 = CCTCC AB 2012934).

Funding
This study was supported by the:
  • , Chinese National Natural Science Fund , (Award 31370155)
  • , Project for Science and Technology of Jiangsu Province , (Award BE2012749)
  • , National High Technology Research and Development Program of China , (Award 2013AA102804C, 2012AA101403 and 2011AA100806)
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.057935-0
2014-06-01
2020-07-12
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/6/2047.html?itemId=/content/journal/ijsem/10.1099/ijs.0.057935-0&mimeType=html&fmt=ahah

References

  1. Alias-Villegas C., Jurado V., Laiz L., Miller A. Z., Saiz-Jimenez C. ( 2013 ). Nocardioides albertanoniae sp. nov., isolated from Roman catacombs. . Int J Syst Evol Microbiol 63, 12801284. [CrossRef] [PubMed]
    [Google Scholar]
  2. Breznak J. A., Costilow R. N. ( 1994 ). Physicochemical factors in growth. . In Methods for General and Molecular Bacteriology, pp. 137154. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  3. Buck J. D. ( 1982 ). Nonstaining (KOH) method for determination of gram reactions of marine bacteria. . Appl Environ Microbiol 44, 992993.[PubMed]
    [Google Scholar]
  4. Cho Y., Jang G. I., Cho B. C. ( 2013 ). Nocardioides marinquilinus sp. nov., isolated from coastal seawater. . Int J Syst Evol Microbiol 63, 25942599. [CrossRef] [PubMed]
    [Google Scholar]
  5. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. ( 1977 ). Distribution of menaquinones in actinomycetes and corynebacteria. . J Gen Microbiol 100, 221230. [CrossRef] [PubMed]
    [Google Scholar]
  6. Du H. J., Wei Y. Z., Su J., Liu H. Y., Ma B. P., Guo B. L., Zhang Y. Q., Yu L. Y. ( 2013 ). Nocardioides perillae sp. nov., isolated from surface-sterilized roots of Perilla frutescens . . Int J Syst Evol Microbiol 63, 10681072. [CrossRef] [PubMed]
    [Google Scholar]
  7. Ebersole L. L. ( 1992 ). Acid-fast stain procedures. . In Clinical Microbiology Procedures Handbook, pp. 3.5.13.5.11. Edited by Isenberg H. D. . Washington, DC:: American Society for Microbiology; .
    [Google Scholar]
  8. Ezaki T., Hashimoto Y., Yabuuchi E. ( 1989 ). Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. . Int J Syst Bacteriol 39, 224229. [CrossRef]
    [Google Scholar]
  9. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368376. [CrossRef] [PubMed]
    [Google Scholar]
  10. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783791. [CrossRef]
    [Google Scholar]
  11. Kimura M. ( 1980 ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16, 111120. [CrossRef] [PubMed]
    [Google Scholar]
  12. Komagata K., Suzuki K. ( 1987 ). Lipid and cell-wall analysis in bacterial systematics. . Methods Microbiol 19, 161207. [CrossRef]
    [Google Scholar]
  13. Lane D. L. ( 1991 ). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115175. Edited by Stackebrandt E. R., Goodfellow M. . Chichester:: Wiley;.
    [Google Scholar]
  14. Liu Q., Xin Y. H., Liu H. C., Zhou Y. G., Wen Y. ( 2013 ). Nocardioides szechwanensis sp. nov. and Nocardioides psychrotolerans sp. nov., isolated from a glacier. . Int J Syst Evol Microbiol 63, 129133. [CrossRef] [PubMed]
    [Google Scholar]
  15. McCarthy A. J., Cross T. ( 1984 ). A taxonomic study of Thermomonospora and other monosporic actinomycetes. . J Gen Microbiol 130, 525. [CrossRef]
    [Google Scholar]
  16. 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 Microbiol 47, 8795.
    [Google Scholar]
  17. Prauser H. ( 1976 ). Nocardioides, a new genus of the order Actinomycetales . . Int J Syst Bacteriol 26, 5865. [CrossRef]
    [Google Scholar]
  18. Prauser H. ( 1989 ). Genus Nocardioides Prauser 1976. . In Bergey’s Manual of Systematic Bacteriology, vol. 4, pp. 23712375. Edited by Williams S. T., Sharpe M. E., Holt J. G. . Baltimore:: Williams & Wilkins;.
    [Google Scholar]
  19. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406425.[PubMed]
    [Google Scholar]
  20. Sambrook J., Russell D. W. ( 2001 ). Molecular Cloning: a Laboratory Manual, , 3rd edn.. Cold Spring Harbor, NY:: Cold Spring Harbor Laboratory;.
    [Google Scholar]
  21. Sasser M. ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. . Newark, DE:: MIDI Inc;.
  22. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  23. Suzuki M., Nakagawa Y., Harayama S., Yamamoto S. ( 2001 ). Phylogenetic analysis and taxonomic study of marine Cytophaga-like bacteria: proposal for Tenacibaculum gen. nov. with Tenacibaculum maritimum comb. nov. and Tenacibaculum ovolyticum comb. nov., and description of Tenacibaculum mesophilum sp. nov. and Tenacibaculum amylolyticum sp. nov.. Int J Syst Evol Microbiol 51, 16391652. [CrossRef] [PubMed]
    [Google Scholar]
  24. Tamaoka J., Katayama-Fujimura Y., Kuraishi H. ( 1983 ). Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. . J Appl Bacteriol 54, 3136. [CrossRef]
    [Google Scholar]
  25. 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, 27312739. [CrossRef] [PubMed]
    [Google Scholar]
  26. 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, 48764882. [CrossRef] [PubMed]
    [Google Scholar]
  27. 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 ). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. . Int J Syst Bacteriol 37, 463464. [CrossRef]
    [Google Scholar]
  28. Xu J.-L., Gu X.-Y., Shen B., Wang Z.-C., Wang K., Li S.-P. ( 2006a ). Isolation and characterization of a carbendazim-degrading Rhodococcus sp. djl-6. . Curr Microbiol 53, 7276. [CrossRef] [PubMed]
    [Google Scholar]
  29. Xu J.-L., Wang Z.-C., Wang K., Li S.-P. ( 2006b ). The isolation, identification and degradation characters of an efficient carbendazim-degrading bacterium. . China Environ Sci 26, 307310 (in Chinese).
    [Google Scholar]
  30. Xu J.-L., He J., Wang Z.-C., Wang K., Li W.-J., Tang S.-K., Li S.-P. ( 2007 ). Rhodococcus qingshengii sp. nov., a carbendazim-degrading bacterium. . Int J Syst Evol Microbiol 57, 27542757. [CrossRef] [PubMed]
    [Google Scholar]
  31. Yoon J.-H., Rhee S.-K., Lee J.-S., Park Y.-H., Lee S. T. ( 1997 ). Nocardioides pyridinolyticus sp. nov., a pyridine-degrading bacterium isolated from the oxic zone of an oil shale column. . Int J Syst Bacteriol 47, 933938. [CrossRef] [PubMed]
    [Google Scholar]
  32. Yoon J.-H., Kim I.-G., Kang K. H., Oh T.-K., Park Y.-H. ( 2004 ). Nocardioides aquiterrae sp. nov., isolated from groundwater in Korea. . Int J Syst Evol Microbiol 54, 7175. [CrossRef] [PubMed]
    [Google Scholar]
  33. Yoon J.-H., Kang S.-J., Lee M.-H., Oh T.-K. ( 2008 ). Nocardioides hankookensis sp. nov., isolated from soil. . Int J Syst Evol Microbiol 58, 434437. [CrossRef] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.057935-0
Loading
/content/journal/ijsem/10.1099/ijs.0.057935-0
Loading

Data & Media loading...

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