Symbiobacterium toebii Sp. nov., Commensal Thermophile Isolated from Korean Compost

  • Sung, Moon-Hee (Laboratory of Microbial Function, Korea Research Institute of Bioscience and Biotechnology (KRIBB), BioLeaders Corp., Department of Bio & Nanochemistry, College of National Sciences, Kookmin University) ;
  • Bae, Jin-Woo (Laboratory of Microbial Function, Korea Research Institute of Bioscience and Biotechnology (KRIBB)) ;
  • Kim, Joong-Jae (Laboratory of Microbial Function, Korea Research Institute of Bioscience and Biotechnology (KRIBB)) ;
  • Kim, Kwang (Laboratory of Microbial Function, Korea Research Institute of Bioscience and Biotechnology (KRIBB)) ;
  • Song, Jae-Jun (Laboratory of Microbial Function, Korea Research Institute of Bioscience and Biotechnology (KRIBB)) ;
  • Rhee, Sung-Keun (Laboratory of Microbial Function, Korea Research Institute of Bioscience and Biotechnology (KRIBB)) ;
  • Jeon, Che-Ok (Laboratory of Microbial Function, Korea Research Institute of Bioscience and Biotechnology (KRIBB)) ;
  • Choi, Yoon-Ho (BioLeaders Corp.) ;
  • Hong, Seung-Pyo (BioLeaders Corp.) ;
  • Lee, Seung-Goo (Laboratory of Microbial Function, Korea Research Institute of Bioscience and Biotechnology (KRIBB)) ;
  • Ha, Jae-Suk (Laboratory of Microbial Function, Korea Research Institute of Bioscience and Biotechnology (KRIBB)) ;
  • Kang, Gwan-Tae (Laboratory of Microbial Function, Korea Research Institute of Bioscience and Biotechnology (KRIBB))
  • Published : 2003.12.01

Abstract

A thermophilic nonspore-forming rod isolated from hay compost in Korea was subjected to a taxonomic study. The microorganism, designated as $SC-1^T$, was identified as a nitrate-reducing and nonmotile bacterium. Although the strain was negatively Gram-stained, a KOH test showed that the strain $SC-1^T$ belonged to a Gram-positive species. Growth was observed between 45 and $70^{\circ}C$. The optimal growth temperature and pH were $60^{\circ}C$ and pH 7.5, respectively. The G+C content of the genomic DNA was 65 mol% and the major quinone types were MK-6 and MK-7. A phylogenetic analysis based on 16S rDNA sequences revealed that the strain $SC-1^T$ was most closely related to Symbiobacterium thermophilum. However, the level of DNA-DNA relatedness between strain $SC-1^T$ and the type strain for Symbiobacterium thermophilum was approximately 30%. Accordingly, on the basis of the phenotypic traits and molecular systematic data, the strain $SC-1^T$ would appear to represent a new species within the genus Symbiobacterium. The type strain for the new species is named $SC-1^T$ ($=KCTC\;0307BP^T;\;DSM15906^T$).

Keywords

References

  1. Appl. Microbiol. Biotechnol. v.44 Identification of new enzyme activities of several strains of Thermus species Berger,J.L.;B.H.Lee;C.Lacroix https://doi.org/10.1007/BF00164484
  2. Int. J. Syst. Bacteriol. v.39 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 Ezaki,T.;Y.Hashimoto;E.Yabuchi https://doi.org/10.1099/00207713-39-3-224
  3. Manual of Methods for General Bacteriology Chemical composition Hanson,R.S.;J.A.Phillips;P.Gehardt(ed.);R.G.E.Murray(ed.);R.N.Costilow(ed.);E.W.Nester(ed.);W.A.Wood(ed.);N.R.Krieg(ed.);G.B.Phillips(ed.)
  4. Microbiological Application: Complete Version Lab Manual(7th edition.) Harold,J.B.
  5. Mycopathologia v.143 A study of the enzymatic profile of soil isolates of Nocardia asteroids Khan,Z.U.;T.D.Chugh;R.Chandy;F.Provost;P.Boiron https://doi.org/10.1023/A:1006901230367
  6. Methods Microbiol. v.19 Lipids and cell-wall analysis in bacterial systematics Komagata,K.;K.Suzuki
  7. Protein Expression Purif. v.11 Thermostable tyrosine phenol-lyase of Symbiobacterium sp. SC-1: Gene cloning, sequence determination, and overproduction in Escherichia coli Lee,S.G.;S.P.Hong;Y.H.Choi;Y.J.Chung;M.H.Sung https://doi.org/10.1006/prep.1997.0792
  8. J. Microbiol. Biotechnol. v.6 Production of L-DOPA by thermostable tryosine phenol-lyase of a thermophilic Symbiobacterium species overexpressed in recombinant Escherichia Lee,S.G.;H.S.Ro;S.P.Hong;E.H.Kim;M.H.Sung
  9. J. Microbiol. Biotechnol. v.12 Isolation of Streptomyces sp. YU100 producing extracellular phospholipase D Lim,S.K.;J.W.Choi;E.T.Lee;Y.H.Khang;S.D.Kim;D.H.Nam
  10. Int. J. Syst. Evol. Microbiol. v.50 Symbiobacterium thermophilum gen. nov., sp nov., a symbiotic thermophile that depends on co-culture with a Bacillus strain for growth Ohno,M.;H.Shiratori;M.J.Park;Y.Saitoh;Y.Kumon;N.Yamashita;A.Hirata;H.Nishida;K.Ueda;T.Beppu https://doi.org/10.1099/00207713-50-5-1829
  11. Appl. Environ. Microbiol. v.61 Efficacy of the Ryu nonstaining KOH technique for rapidly determining Gram reactions of food-borne and waterborne bacteria and yeasts Powers,E.M.
  12. Extremophiles v.6 Characterization of Symbiobacterium toebii, an obligate commensal thermophile isolated from compost Rhee,S.K.;C.O.Jeon;J.W.Bae;K.Kim;J.J.Song;J.J.Kim;S.G.Lee;H.I.Kim;S.P.Hong;Y.H.Choi;S.M.Kim;M.H.Sung https://doi.org/10.1007/s007920100233
  13. Extremophiles v.4 A novel microbial interaction: Obligate commensalism between a new gram-negative thermophile and a thermophilic Bacillus strain Rhee,S.K.;S.G.Lee;S.P.Hong;Y.H.Choi;J.H.Park;C.J.Kim;M.H.Sung https://doi.org/10.1007/s007920070027
  14. J. Microbiol. Biotechnol. v.11 Estimation of distribution of commensal thermophile in soil by competitive quantitative PCR and terminal restriction fragment length polymorphism anaysis Rhee,S.K.;S.P.Hong;JW.Bae;C.O.Jeon;S.G.Lee;J.J.Song;H.Poo;M.H.Sung
  15. Technical Note 101 Identification of bacteria by gas chromatography of cellular fatty acids Sasser,M.
  16. Int. J. Syst. Evol. Microbiol. v.52 Geobacillus toebii sp. nov., a novel thermophilic bacterium isolated from hay compost Sung,M.H.;H.Kim;J.W.Bae;S.K.Rhee;C.O.Jeon;K,Kim;J.J.Kim;S.P.Hong;S.G.Lee;J.H.Yoon;Y.H.Park;D.H.Baek https://doi.org/10.1099/ijs.0.02181-0
  17. J. Gen. Microbiol. v.134 Growth of a trypotophanase-producing thermophile, Symbiobacterium thermophilum gen. nov., sp. nov., is dependent on co-culture with a Bacillus sp Suzuki,S.;S.Horinouchi;T.Beppu
  18. FEMS Microbiol. Lett. v.25 Determination of DNA base composition by reverse-phase high-performance liquid chromatography Tamaoka,J.;K.Komagata https://doi.org/10.1111/j.1574-6968.1984.tb01388.x
  19. Nucleic Acids Res. v.22 CLUSTAl W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice Thomson,J.D.;D.G.Higgins;T.J.Gibson https://doi.org/10.1093/nar/22.22.4673
  20. Int. J. Syst. Bacteriol. v.37 International committee on systematic bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics Wayne,L.G.;D.J.Brenner;R.R.Clowell(9 other others) https://doi.org/10.1099/00207713-37-4-463
  21. Int. J. Syst. Bacteriol. v.46 Identification of Saccharomonspora strains by the use of genomic DNA fragments and rRNA gene probes Yoon,J.H.;S.B.Kim;H.J.Kim;W.Y.Kim;S.T.Lee;M.Goodfellow;Y.H.Park https://doi.org/10.1099/00207713-46-2-502
  22. Int. J. Syst. Bacteriol. v.48 Inter- and intraspecific phylogenetic analysis of the genus Nocardioides and related taxa based on 16S rDNA sequences Yoon,J.H.;S.T.Lee;Y.H.Park https://doi.org/10.1099/00207713-48-1-187