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Abstract

A Gram-stain-positive, strictly aerobic, short-rod-shaped, non-motile strain (designated MJ32) was isolated from a sludge sample of the Daejeon sewage disposal plant in South Korea. A polyphasic approach was applied to study the taxonomic position of strain MJ32. Strain MJ32 showed highest 16S rRNA gene sequence similarity to DSM 44140 (98.1 %) and DSM 44015 (97.0 %); levels of sequence similarity to the type strains of other recognized species were less than 97.0 %. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain MJ32 belonged to the clade formed by members of the genus in the family . The G+C content of the genomic DNA of strain MJ32 was 69.2 mol%. Chemotaxonomically, strain MJ32 showed features typical of the genus . The predominant respiratory quinone was MK-9(H), the mycolic acids present had C–C carbon atoms, and the major fatty acids were C (34.6 %), tuberculostearic acid (21.8 %), Cω7 (19.5 %) and Cω9 (12.7 %). The peptidoglycan type was based on -2,6-diaminopimelic acid as the diagnostic diamino acid with glycolated sugars. On the basis of phylogenetic inference, fatty acid profile and other phenotypic properties, strain MJ32 is considered to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is MJ32 ( = KCTC 19771 = JCM 16923).

Funding
This study was supported by the:
  • , 21C Frontier Microbial Genomics and Application Center Program, Ministry of Science and Technology , (Award MG08-0101-2-0)
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2012-11-01
2021-02-25
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References

  1. Atlas R. M. 1993 Handbook of Microbiological Media Edited by Parks L. C. Boca Raton, FL: CRC Press;
    [Google Scholar]
  2. Brinkman F. S., Wan I., Hancock R. E., Rose A. M., Jones S. J. 2001; Phyloblast: facilitating phylogenetic analysis of blast results. Bioinformatics 17:385–387 [CrossRef][PubMed]
    [Google Scholar]
  3. Buck J. D. 1982; Nonstaining (KOH) method for determination of gram reactions of marine bacteria. Appl Environ Microbiol 44:992–993[PubMed]
    [Google Scholar]
  4. Cappuccino J. G., Sherman N. 2002 Microbiology: a Laboratory Manual, 6th edn. San Francisco: Benjamin Cummings;
    [Google Scholar]
  5. Choi J. H., Jung H. Y., Kim H. S., Cho H. G. 2000; PhyloDraw: a phylogenetic tree drawing system. Bioinformatics 16:1056–1058 [CrossRef][PubMed]
    [Google Scholar]
  6. De Ley J., Cattoir H., Reynaerts A. 1970; The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12:133–142 [CrossRef][PubMed]
    [Google Scholar]
  7. Felsenstein J. 1985; Confidence limit on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [CrossRef]
    [Google Scholar]
  8. 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]
  9. Gonzalez J. M., Saiz-Jimenez C. 2005; A simple fluorimetric method for the estimation of DNA–DNA relatedness between closely related microorganisms by thermal denaturation temperatures. Extremophiles 9:75–79 [CrossRef][PubMed]
    [Google Scholar]
  10. Goodfellow M., Alderson G., Chun J. 1998; Rhodococcal systematics: problems and developments. Antonie van Leeuwenhoek 74:3–20 [CrossRef][PubMed]
    [Google Scholar]
  11. Hall T. A. 1999; BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 4195–98
    [Google Scholar]
  12. Hiraishi A., Ueda Y., Ishihara J., Mori T. 1996; Comparative lipoquinone analysis of influent sewage and activated sludge by high performance liquid chromatography and photodiode array detection. J Gen Appl Microbiol 42:457–469 [CrossRef]
    [Google Scholar]
  13. Kämpfer P., Young C. C., Chu J. N., Frischmann A., Busse H. J., Arun A. B., Shen F. T., Rekha P. D. 2010; Gordonia humi sp. nov., isolated from soil in Taiwan. Int J Syst Evol Microbiol 60:824–827 [CrossRef]
    [Google Scholar]
  14. Kim M. K., Im W.-T., Ohta H., Lee M., Lee S.-T. 2005; Sphingopyxis granuli sp. nov., a β-glucosidase-producing bacterium in the family Sphingomonadaceae in α-4 subclass of the Proteobacteria . J Microbiol 43:152–157[PubMed]
    [Google Scholar]
  15. Kimura M. 1983 The Neutral Theory of Molecular Evolution Cambridge: Cambridge University Press; [CrossRef]
    [Google Scholar]
  16. Kumar S., Tamura K., Nei M. 2004; mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5:150–163 [CrossRef][PubMed]
    [Google Scholar]
  17. Kuykendall L. D., Roy M. A., 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 [CrossRef]
    [Google Scholar]
  18. 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]
  19. Minnikin D. E., Alshamaony L., Goodfellow M. 1975; Differentiation of Mycobacterium, Nocardia, and related taxa by thin-layer chromatographic analysis of whole-organism methanolysates. J Gen Microbiol 88:200–204 [CrossRef][PubMed]
    [Google Scholar]
  20. Minnikin D. E., Patel P. V., Alshamaony L., Goodfellow M. 1977; Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 27:104–117 [CrossRef]
    [Google Scholar]
  21. Park S., Kang S. J., Kim W., Yoon J. H. 2009; Gordonia hankookensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 59:3172–3175 [CrossRef][PubMed]
    [Google Scholar]
  22. 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]
  23. Sasser M. 1990 Identification of bacteria by gas chromatography of cellular fatty acids, Technical Note 101 Newark, DE: MIDI Inc;
    [Google Scholar]
  24. Schleifer K. H., Kandler O. 1972; Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36:407–477[PubMed]
    [Google Scholar]
  25. Stackebrandt E., Smida J., Collins M. D. 1988; Evidence of phylogenetic heterogeneity within the genus Rhodococcus: revival of the genus Gordona (Tsukamura). J Gen Appl Microbiol 34:341–348 [CrossRef]
    [Google Scholar]
  26. 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 [CrossRef]
    [Google Scholar]
  27. Stackebrandt E., Frederiksen W., Garrity G. M., Grimont P. A., Kämpfer P., Maiden M. C., Nesme X., Rosselló-Mora R., Swings J. other authors 2002; Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. Int J Syst Evol Microbiol 52:1043–1047 [CrossRef][PubMed]
    [Google Scholar]
  28. Tamaoka J., Komagata K. 1984; Determination of DNA base composition by reversed phase high-performance liquid chromatography. FEMS Microbiol Lett 25:125–128 [CrossRef]
    [Google Scholar]
  29. Ten L. N., Im W.-T., Kim M.-K., Kang M. S., Lee S.-T. 2004; Development of a plate technique for screening of polysaccharide-degrading microorganisms by using a mixture of insoluble chromogenic substrates. J Microbiol Methods 56:375–382 [CrossRef][PubMed]
    [Google Scholar]
  30. 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]
  31. Tsukamura M. 1971; Proposal of a new genus, Gordona, for slightly acid-fast organisms occurring in sputa of patients with pulmonary disease and in soil. J Gen Microbiol 68:15–26 [CrossRef][PubMed]
    [Google Scholar]
  32. Uchida K., Kudo T., Suzuki K. I., Nakase T. 1999; A new rapid method of glycolate test by diethyl ether extraction, which is applicable to a small amount of bacterial cells of less than one milligram. J Gen Appl Microbiol 45:49–56 [CrossRef][PubMed]
    [Google Scholar]
  33. 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 [CrossRef]
    [Google Scholar]
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