1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 60, Issue 8

sp. nov. and sp. nov., isolated from forest soil Free

Abstract

Two bacterial strains, DNG5 and V3M1, isolated from forest soil of the Changbai mountains in China, were characterized using a polyphasic approach. Analysis of their 16S rRNA gene sequences indicated that strains DNG5 and V3M1 were phylogenetically related to members of the genus (96.0–98.4 % similarity) and (96.7–98.0 % similarity), respectively, within the order . Strains DNG5 and V3M1 were Gram-stain-positive and strictly aerobic and formed yellow colonies on LB agar. Cells of strain DNG5 were short, non-motile rods, 0.4–0.5×0.8–1.0 μm. Strain DNG5 contained MK-10 and MK-11 as the major respiratory quinones and anteiso-C (49.2 %) and iso-C (22.4 %) as the major fatty acids. The diamino acid in the peptidoglycan of strain DNG5 was 2,4-diaminobutyric acid and the murein was of the acetyl type. Cells of strain V3M1 were cocci, 0.6–0.7 μm in diameter. The cell-wall peptidoglycan of strain V3M1 contained the amino acids lysine, glutamic acid, alanine and glycine. Strain V3M1 contained MK-7, MK-7(H), MK-8 and MK-8(H) as respiratory quinones and anteiso-C (78.2 %) and iso-C (13.1 %) as the major cellular fatty acids. The DNA G+C contents of strains DNG5 and V3M1 were 75.9 and 67.2 mol%, respectively. The DNA–DNA relatedness of strain DNG5 to DSM 22002, JCM 9950, JCM 12132 and JCM 12398 was 58.3, 43.9, 36.1 and 54.1 %, respectively. The DNA–DNA relatedness of strain V3M1 to CGMCC 1.2299, CGMCC 1.2373 and CGMCC 1.2300 was 57.5, 45.4 and 39.0 %, respectively. Combining phenotypic and genotypic traits, strain DNG5 represents a novel species of the genus , for which the name sp. nov. is proposed, with DNG5 (=CGMCC 1.6960 =NBRC 104260) as the type strain. Strain V3M1 represents a novel species of the genus , for which the name sp. nov. is proposed, with V3M1 (=CGMCC 1.7054 =NBRC 104258) as the type strain.

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2010-08-01
2024-04-26
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References

  1. Altschul S. F., Gish W., Miller W., Myers E. W., Lipman D. J. 1990; Basic local alignment search tool. J Mol Biol 215:403–410 [CrossRef]
     [Google Scholar]
  2. Behrendt U., Schumann P., Ulrich A. 2008; Agrococcus versicolor sp. nov., an actinobacterium associated with the phyllosphere of potato plants. Int J Syst Evol Microbiol 58:2833–2838 [CrossRef]
     [Google Scholar]
  3. Bora N., Vancanneyt M., Gelsomino R., Swings J., Brennan N., Cogan T. M., Larpin S., Desmasures N., Lechner F. E. other authors 2007; Agrococcus casei sp. nov., isolated from the surfaces of smear-ripened cheeses. Int J Syst Evol Microbiol 57:92–97 [CrossRef]
     [Google Scholar]
  4. Cohn F. 1872; Untersuchungen über Bakterien. Beitr Biol Pflanz 1:127–244 (in German
    [Google Scholar]
  5. 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]
  6. Davis K. E., Joseph S. J., Janssen P. H. 2005; Effects of growth medium, inoculum size, and incubation time on culturability and isolation of soil bacteria. Appl Environ Microbiol 71:826–834 [CrossRef]
     [Google Scholar]
  7. De Ley J., Cattoir H., Reynaerts A. 1970; The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12:133–142 [CrossRef]
     [Google Scholar]
  8. Dittmer J. C., Lester R. L. 1964; A simple, specific spray for the detection of phospholipids on thin-layer chromatograms. J Lipid Res 15:126–127
     [Google Scholar]
  9. Dong X.-Z., Cai M.-Y. 2001 Determinative Manual for Routine Bacteriology Beijing: Scientific Press (English translation;
     [Google Scholar]
  10. Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. (editors) 1994 Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology;
     [Google Scholar]
  11. Groth I., Schumann P., Weiss N., Martin K., Rainey F. A. 1996; Agrococcus jenensis gen. nov., sp. nov. a new genus of actinomycetes with diaminobutyric acid in the cell wall. Int J Syst Bacteriol 46:234–239 [CrossRef]
     [Google Scholar]
  12. Hu H. Y., Lim B. R., Goto N., Fujie K. 2001; Analytical precision and repeatability of respiratory quinones for quantitative study of microbial community structure in environmental samples. J Microbiol Methods 47:17–24 [CrossRef]
     [Google Scholar]
  13. Hu Y.-T., Zhou P.-J., Zhou Y.-G., Liu Z.-H., Liu S.-J. 2004; Saccharothrix xingjiangensis , sp. nov., a pyrene-degrading actinomycete isolated from Tianchi Lake, Xinjiang, China. Int J Syst Evol Microbiol 54:2091–2094 [CrossRef]
     [Google Scholar]
  14. Huß V. A. R., Festl H., Schleifer K. H. 1983; Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4:184–192 [CrossRef]
     [Google Scholar]
  15. Janssen P. H., Schuhmann A., Morschel E., Rainey F. A. 1997; Novel anaerobic ultramicrobacteria belonging to the Verrucomicrobiales lineage of bacterial descent isolated by dilution culture from anoxic rice paddy soil. Appl Environ Microbiol 63:1382–1388
     [Google Scholar]
  16. Janssen P. H., Yates P. S., Grinton B. E., Taylor P. M., Sait M. 2002; Improved culturability of soil bacteria and isolation in pure culture of novel members of the divisions Acidobacteria, Actinobacteria, Proteobacteria , and Verrucomicrobia . Appl Environ Microbiol 68:2391–2396 [CrossRef]
     [Google Scholar]
  17. Kamekura M. 1993; Lipids of extreme halophiles. In The Biology of Halophilic Bacteria . pp 135–161 Edited by Vreeland R. H., Hochstein L. I. Boca Raton, FL: CRC Press;
  18. Kloos W. E., Tornabene T. G., Schleifer K. H. 1974; Isolation and characterization of micrococci from human skin, including two new species: Micrococcus lylae and Micrococcus kristinae . Int J Syst Bacteriol 24:79–101 [CrossRef]
     [Google Scholar]
  19. Kumar S., Tamura K., Nei M. 2004; mega 3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5:150–163 [CrossRef]
     [Google Scholar]
  20. Lee S. D. 2008; Agrococcus jejuensis sp. nov., isolated from dried seaweed. Int J Syst Evol Microbiol 58:2297–2300 [CrossRef]
     [Google Scholar]
  21. Liu H., Xu Y., Ma Y., Zhou P. 2000; Characterization of Micrococcus antarcticus sp. nov., a psychrophilic bacterium from Antarctica. Int J Syst Evol Microbiol 50:715–719 [CrossRef]
     [Google Scholar]
  22. Liu X. Y., Wang B. J., Jiang C. Y., Liu S. J. 2007; Micrococcus flavus sp. nov., isolated from activated sludge in a bioreactor. Int J Syst Evol Microbiol 57:66–69 [CrossRef]
     [Google Scholar]
  23. Marmur J., Doty P. 1962; Determination of the base composition of deoxyribonucleic acid from thermal denaturation temperature. J Mol Biol 5:109–118 [CrossRef]
     [Google Scholar]
  24. Mayilraj S., Suresh K., Schumann P., Kroppenstedt R. M., Saini H. S. 2006; Agrococcus lahaulensis sp. nov., isolated from a cold desert of the Indian Himalayas. Int J Syst Evol Microbiol 56:1807–1810 [CrossRef]
     [Google Scholar]
  25. Ross H. N. M., Grant W. D., Harris J. E. 1985; Lipids in archaebacterial taxonomy. In Chemical Methods in Bacterial Systematics pp 289–300 Edited by Goodfellow M., Minnikin D. E. London: Academic Press;
     [Google Scholar]
  26. Sait M., Hugenholtz P., Janssen P. H. 2002; Cultivation of globally distributed soil bacteria from phylogenetic lineages previously only detected in cultivation-independent surveys. Environ Microbiol 4:654–666 [CrossRef]
     [Google Scholar]
  27. Stackebrandt E., Koch C., Gvozdiak O., Schumann P. 1995; Taxonomic dissection of the genus Micrococcus : Kocuria gen.nov., Nesterenkonia gen. nov., Kytococcus gen. nov., Dermacoccus gen. nov., and Micrococcus Cohn 1872 gen. emend. Int J Syst Bacteriol 45:682–692 [CrossRef]
     [Google Scholar]
  28. Staneck J. L., Roberts G. D. 1974; Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28:226–231
     [Google Scholar]
  29. 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]
     [Google Scholar]
  30. Uchida K., Aida K. 1984; An improved method for the glycolate test for simple identification of acyl type of bacterial cell walls. J Gen Appl Microbiol 30:131–134 [CrossRef]
     [Google Scholar]
  31. Wieser M., Schumann P., Martin K., Altenburger P., Burghardt J., Lubitz W., Busse H.-J. 1999; Agrococcus citreus sp. nov., isolated from a medieval wall painting of the chapel of Castle Herberstein (Austria. Int J Syst Bacteriol 49:1165–1170 [CrossRef]
     [Google Scholar]
  32. Wieser M., Denner E. B. M., Kämpfer P., Schumann P., Tindall B., Steiner U., Vybiral D., Lubitz W., Maszenan A. M. other authors 2002; Emended descriptions of the genus Micrococcus , Micrococcus luteus (Cohn 1872) and Micrococcus lylae (Kloos et al. 1974. Int J Syst Evol Microbiol 52:629–637
     [Google Scholar]
  33. Wu C., Lu X., Qin M., Wang Y., Ruan J. 1989 Analysis of menaquinone compound in microbial cells by HPLC. Microbiology [English translation of Microbiology (Beijing) ] 16176–178
  34. Xin H., Itoh T., Zhou P., Suzuki K., Nakase T. 2001; Natronobacterium nitratireducens sp. nov., a haloalkaliphilic archaeon isolated from a soda lake in China. Int J Syst Evol Microbiol 51:1825–1829 [CrossRef]
     [Google Scholar]
  35. Zhang D., Yang H., Zhang W., Huang Z., Liu S.-J. 2003; Rhodocista pekingensis sp. nov., a cyst-forming phototrophic bacterium from a municipal wastewater treatment plant. Int J Syst Evol Microbiol 53:1111–1114 [CrossRef]
     [Google Scholar]
  36. Zlamala C., Schumann P., Kämpfer P., Rosselló-Mora R, Lubitz W., Busse H.-J. 2002; Agrococcus baldri sp. nov., isolated from the air in the ‘Virgilkapelle’ in Vienna. Int J Syst Evol Microbiol 52:1211–1216 [CrossRef]
     [Google Scholar]
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Agrococcus terreus sp. nov. and Micrococcus terreus sp. nov., isolated from forest soil
Int J Syst Evol Microbiol 60, 1897 (2010); https://doi.org/10.1099/ijs.0.013235-0
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