1887

Abstract

An aerobic, Gram-stain-negative, rod-shaped, DDT-resistant bacterium, designated strain CC-ALB-2, was isolated from the rhizosphere. Strain CC-ALB-2 was able to grow at 25–37 °C, at pH 5.0–8.0, with 1.0 % (w/v) NaCl and tolerate up to 200 mg l DDT. 16S rRNA gene sequence analysis of strain CC-ALB-2 showed highest sequence similarity to KCTC 2891 (97.1 %) and DSM 22821 (96.8 %), and lower levels of similarity (<97.0 %) to other species of the genus . The major fatty acid profile consisted of C 2-OH (13.1 %), C (10.0 %), C iso 3-OH (5.8 %), Cω7/Cω6 (summed feature 3, 24.7 %) and Cω7/Cω6 (summed feature 8, 42.4 %). The polar lipid profile constitutes sphingoglycolipid, glycolipid, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidyldimethylethanolamine, phosphatidylglycerol and phosphatidylcholine. The polyamine pattern showed a predominance of spermidine as the major polyamine. The predominant quinone system was ubiquinone (Q-10). The DNA G+C content was 68.9±0.1 mol%. Based on the phylogenetic, phenotypic and chemotaxonomic features, strain CC-ALB-2 is proposed to represent a novel species of the genus for which the name sp. nov. is proposed. The type strain is CC-ALB-2 ( = BCRC 80571 = JCM 18896).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.054460-0
2014-02-01
2019-10-19
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/2/594.html?itemId=/content/journal/ijsem/10.1099/ijs.0.054460-0&mimeType=html&fmt=ahah

References

  1. Balkwill D. L., Drake G. R., Reeves R. H., Fredrickson J. K., White D. C., Ringelberg D. B., Chandler D. P., Romine M. F., Kennedy D. W., Spadoni C. M.. ( 1997;). Taxonomic study of aromatic-degrading bacteria from deep-terrestrial-subsurface sediments and description of Sphingomonas aromaticivorans sp. nov., Sphingomonas subterranea sp. nov., and Sphingomonas stygia sp. nov.. Int J Syst Bacteriol 47:, 191–201. [CrossRef][PubMed]
    [Google Scholar]
  2. Collins M. D.. ( 1985;). Isoprenoid quinone analysis in classification and identification. . In Chemical Methods in Bacterial Systematics, pp. 267–287. Edited by Goodfellow M., Minnikin D. E... London:: Academic Press;.
    [Google Scholar]
  3. Edwards U., Rogall T., Blöcker H., Emde M., Böttger E. C.. ( 1989;). Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA. . Nucleic Acids Res 17:, 7843–7853. [CrossRef][PubMed]
    [Google Scholar]
  4. Felsenstein J.. ( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17:, 368–376. [CrossRef][PubMed]
    [Google Scholar]
  5. Felsenstein J.. ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39:, 783–791. [CrossRef]
    [Google Scholar]
  6. 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]
  7. Fujii K., Satomi M., Morita N., Motomura T., Tanaka T., Kikuchi S.. ( 2003;). Novosphingobium tardaugens sp. nov., an oestradiol-degrading bacterium isolated from activated sludge of a sewage treatment plant in Tokyo. . Int J Syst Evol Microbiol 53:, 47–52. [CrossRef][PubMed]
    [Google Scholar]
  8. GCG ( 1995;). Wisconsin Package Version 8.1 Program Manual. Madison, WI:: Genetics Computer Group;.
    [Google Scholar]
  9. Heiner C. R., Hunkapiller K. L., Chen S. M., Glass J. I., Chen E. Y.. ( 1998;). Sequencing multimegabase-template DNA with BigDye terminator chemistry. . Genome Res 8:, 557–561.[PubMed]
    [Google Scholar]
  10. Kämpfer P., Young C.-C., Busse H.-J, Lin S.-Y., Rekha P. D., Arun A. B., Chen W.-M., Shen F.-T., Wu Y.-H.. ( 2011;). Novosphingobium soli sp. nov., isolated from soil. . Int J Syst Evol Microbiol 61:, 259–263. [CrossRef][PubMed]
    [Google Scholar]
  11. 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]
  12. Liu Z.-P., Wang B.-J., Liu Y.-H., Liu S.-J.. ( 2005;). Novosphingobium taihuense sp. nov., a novel aromatic-compound-degrading bacterium isolated from Taihu Lake, China. . Int J Syst Evol Microbiol 55:, 1229–1232. [CrossRef][PubMed]
    [Google Scholar]
  13. Maruyama T., Park H.-D., Ozawa K., Tanaka Y., Sumino T., Hamana K., Hiraishi A., Kato K.. ( 2006;). Sphingosinicella microcystinivorans gen. nov., sp. nov., a microcystin-degrading bacterium. . Int J Syst Evol Microbiol 56:, 85–89. [CrossRef][PubMed]
    [Google Scholar]
  14. 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]
  15. 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]
  16. Minnikin D. E., O’Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal K., Parlett J. H.. ( 1984;). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. . J Microbiol Methods 2:, 233–241. [CrossRef]
    [Google Scholar]
  17. Murray R. G. E., Doetsch R. N., Robinow C. F.. ( 1994;). Determinative and cytological light microscopy. . In Methods for General and Molecular Bacteriology, pp. 21–42. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R... Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  18. Neef A., Witzenberger R., Kämpfer P.. ( 1999;). Detection of sphingomonads and in situ identification in activated sludge using 16S rRNA-targeted oligonucleotide probes. . J Ind Microbiol Biotechnol 23:, 261–267. [CrossRef][PubMed]
    [Google Scholar]
  19. Paisley R.. ( 1996;). MIS Whole Cell Fatty Acid Analysis by Gas Chromatography Training Manual. Newark, DE:: MIDI;.
    [Google Scholar]
  20. 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]
  21. Sasser M.. ( 1990;). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE:: MIDI Inc;.
    [Google Scholar]
  22. Scherer P., Kneifel H.. ( 1983;). Distribution of polyamines in methanogenic bacteria. . J Bacteriol 154:, 1315–1322.[PubMed]
    [Google Scholar]
  23. Sohn J. H., Kwon K. K., Kang J. H., Jung H. B., Kim S. J.. ( 2004;). Novosphingobium pentaromativorans sp. nov., a high-molecular-mass polycyclic aromatic hydrocarbon-degrading bacterium isolated from estuarine sediment. . Int J Syst Evol Microbiol 54:, 1483–1487. [CrossRef][PubMed]
    [Google Scholar]
  24. 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. [CrossRef]
    [Google Scholar]
  25. Takeuchi M., Hamana K., Hiraishi A.. ( 2001;). Proposal of the genus Sphingomonas sensu stricto and three new genera, Sphingobium, Novosphingobium and Sphingopyxis, on the basis of phylogenetic and chemotaxonomic analyses. . Int J Syst Evol Microbiol 51:, 1405–1417.[PubMed]
    [Google Scholar]
  26. 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]
  27. 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]
  28. Tiirola M. A., Männistö M. K., Puhakka J. A., Kulomaa M. S.. ( 2002;). Isolation and characterization of Novosphingobium sp. strain MT1, a dominant polychlorophenol-degrading strain in a groundwater bioremediation system. . Appl Environ Microbiol 68:, 173–180. [CrossRef][PubMed]
    [Google Scholar]
  29. Watts D., MacBeath J. R.. ( 2001;). Automated fluorescent DNA sequencing on the ABI PRISM 310 Genetic Analyzer. . Methods Mol Biol 167:, 153–170.[PubMed]
    [Google Scholar]
  30. Yabuuchi E., Yano I., Oyaizu H., Hashimoto Y., Ezaki T., Yamamoto H.. ( 1990;). Proposals of Sphingomonas paucimobilis gen. nov. and comb. nov., Sphingomonas parapaucimobilis sp. nov., Sphingomonas yanoikuyae sp. nov., Sphingomonas adhaesiva sp. nov., Sphingomonas capsulata comb. nov., and two genospecies of the genus Sphingomonas. . Microbiol Immunol 34:, 99–119. [CrossRef][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.054460-0
Loading
/content/journal/ijsem/10.1099/ijs.0.054460-0
Loading

Data & Media loading...

Supplements

Supplementary material 

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