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1 Department of Biological Sciences, Korea Advanced Institute of Science and Technology, Yusung, Taejeon, Korea
2 DSMZ Deutsche Sammlung von Mikroorganismen und Zellkulturen, Mascheroder Weg 1b, 38124 Braunschweig, Germany
Correspondence
Sung Taik Lee
e_stlee{at}kaist.ac.kr
| ABSTRACT |
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The GenBank/EMBL/DDBJ accession number for the 16S rDNA sequence of Gordonia sihwensis is AJ416151.
| MAIN TEXT |
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The aim of this study was to clarify the taxonomic position of an organism isolated from a sulphur-oxidizing, autotrophic denitrification reactor used for advanced treatment of wastewater from the lake of Sihwa, Korea. Sulphur particles were taken from the reactor and samples from the top layers were diluted serially in 0·85 % saline. Aliquots of each serial dilution were spread on succinate/mineral agar medium [0·04 % (w/v) NH4Cl, 0·08 % (w/v) K2HPO4, 0·03 % (w/v) KH2PO4, 0·27 % (w/v) sodium succinate hexahydrate, 0·01 % (w/v) yeast extract, 0·5 % (v/v) mineral solution, 1·5 % (w/v) Bacto Agar (Difco) (Frankel et al., 1997
)] and incubated in an anaerobic jar (Difco) at 28 °C, pH 7 for 7 days.
A pinpoint colony, designed SPR2T, was isolated and subcultured on TSB agar medium [3 % (w/v) trypticase soy broth (BBL), 1·5 % (w/v) Bacto Agar (Difco)]. For determination of colour, morphology and biochemical reactions, strain SPR2T was grown on solidified GYM agar medium [0·4 % (w/v) D-glucose, 0·4 % (w/v) yeast extract, 1 % (w/v) malt extract, 1·2 % (w/v) agar no. 1 (Oxoid)] at 28 °C. For biochemical tests, strain SPR2T was harvested from GYM agar after 24 h. Morphological studies and colour examinations were carried out after 1, 3 and 7 days. For analysis of fatty acid and mycolic acid compositions, strain SPR2T was grown on TSB agar at 28 °C for 4 days. For cell-wall and quinone analyses, cells were grown in TSB at 28 °C for 4 days on a rotary shaker, harvested by centrifugation and washed twice with distilled water. For the nitrate-reducing test, strain SPR2T was cultivated in potassium nitrate medium [0·3 % (w/v) beef extract, 0·5 % (w/v) gelatin peptone, 0·1 % (w/v) KNO3] under anaerobic conditions at 28 °C and pH 7.
Macroscopic and microscopic studies and staining procedures followed the instructions of Lefford (1980)
. Carbon source utilization and quantitative enzyme tests were performed in standard microtitration plates as described previously (Klatte, 1994
; Linos et al., 1999
). Amino acid and sugar analyses of whole-cell hydrolysates followed the procedures of Stanek & Roberts (1974)
. Murein acyl type was determined by a modification of the colorimetric method of Uchida & Aida (1977)
. In contrast to the original procedure, whole-cell hydrolysate was neutralized by passing it through an ion-exchange column (Analytichem Bond Elut SCX). Isoprenoid quinones were extracted and purified by using the small-scale integrated procedure of Minnikin et al. (1984)
. Dried preparations were dissolved in 200 µl 2-propanol and 110 µl aliquots were separated by HPLC without further purification. Menaquinones were separated by HPLC on a LiChrosorb RP-18 column at 40 °C by using acetonitrile/2-propanol (65 : 35, v/v) as solvent (Kroppenstedt, 1982
, 1985
). Polar lipids were extracted, examined by two-dimensional TLC and identified by using published procedures (Minnikin et al., 1977
). Fatty acid methyl esters and mycolic acid trimethylsilyl ethers were prepared and analysed as described previously (Klatte et al., 1994
) by using the standard Microbial Identification system (MIDI) for automated GC analyses (Sasser, 1990
; Kämpfer & Kroppenstedt, 1996
).
Formation of nitrite in potassium nitrate medium after growth for 3 days was determined by following the method of Griess (1879)
. Reduction of nitrate was determined by the development of pink to deep red colour when nitrite reacted with 0·6 % (w/v) N,N-dimethyl-
-naphthylamine and 0·8 % (w/v) sulfanilic acid that were dissolved in 30 % (w/v) glacial acetic acid.
Extraction of genomic DNA, PCR-mediated amplification of 16S rDNA and sequencing of purified PCR product were carried out according to Rainey et al. (1996)
. Sequence reaction mixtures were electrophoresed by using a model 373A automatic sequencer (Applied Biosystems). 16S rDNA sequences were aligned with published sequences from the DSMZ database by using the ae2 editor (Maidak et al., 1994
) and sequences were retrieved from EMBL. Pairwise similarities and evolutionary distances were calculated by using the methods of De Soete (1983)
and Jukes & Cantor (1969)
, respectively. Phylogenetic dendrograms were constructed according to algorithms in the PHYLIP package (Felsenstein, 1993
). Stability of branching points was evaluated by bootstrap analysis (Felsenstein, 1989
). Strain designation and 16S rDNA accession numbers of reference strains are given in Fig. 1
.
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Results of physiological tests obtained from microtitration plates revealed that strain SPR2T was able to utilize 18 of 32 carbon sources by means of the MTT [3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide] reduction test. Two of three chromogenic substrates could be hydrolysed (Table 1
).
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Aerobic, Gram-positive, nitrate-reducing, non-motile actinomycete that forms rod/coccus-like elements. Colonies are white; colonies of the type strain are rough with irregular margins. Whole-cell hydrolysates contain meso-diaminopimelic acid, arabinose and galactose. Peptidoglycan sugars are glycolated. Predominant menaquinone is MK-9(H2); a small amount of MK-8(H2) is also present. Polar lipids are comprised of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and phosphatidylinositol mannosides. Major fatty acids are C16 : 1cis-9, C16 : 0, C18 : 1 and 10-methyl C18 : 0. Principal mycolic acids have a chain-length of 50, 52 or 54 carbon atoms. Physiological properties are indicated in Table 1
.
The type strain is SPR2T (=DSM 44576T=NRRL B-24155T). Isolated from a sulphur-oxidizing autotrophic denitrification reactor used for advanced treatment of wastewater from the lake of Sihwa, Korea.
| ACKNOWLEDGEMENTS |
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