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1 Korea Research Institute of Bioscience and Biotechnology, 52 Oeundong, Yusong, Daejeon 305-333, Republic of Korea
2 Division of Applied Life Science, EB-NCRC, PMBBRC, Gyeongsang National University, Jinju 660-701, Republic of Korea
Correspondence
Chang-Jin Kim
changjin{at}kribb.re.kr
| ABSTRACT |
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The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of strain BH030017T is AY603978.
A transmission electron micrograph of a cell of strain BH030017T and a thin-layer chromatogram of the polar lipids of the novel strain are available as supplementary figures in IJSEM Online.
These authors contributed equally to this work. ![]()
| MAIN TEXT |
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Strain BH030017T was isolated from surface soil from a solar saltern. The soil samples were diluted serially using saline solution (0.9 %, w/v), spread on marine agar 2216 (MA; Difco) with the addition of 5 % (w/v) NaCl (final concentration 6.94 % NaCl, w/v) and incubated for 2 days at 35 °C. NaCl tolerance was investigated using nutrient broth (NB) (3.0 g beef extract and 5.0 g peptone l1; Difco) medium containing artificial seawater (ASW) (l1: 5.94 g MgSO4.7H2O, 4.53 g MgCl2.6H2O, 0.64 g KCl and 1.3 g CaCl2,) and various concentrations of NaCl (025 %, w/v). The optimum temperature for growth was tested in the range 455 °C on MA and at different pH values (pH 5.011.0) in NB supplemented with ASW containing 3 % (w/v) NaCl. Media with different pH values were prepared using the appropriate biological buffers, Na2HPO4/NaH2PO4 (below pH 8.0), Na2CO3/NaHCO3 (pH 8.010.0) and Na2HPO4/NaOH (pH 11.0), as described previously (Gomori, 1955
). Anaerobic growth was determined by incubation in an anaerobic chamber at 35 °C for 5 days on MA.
Gram staining was determined using the bioMérieux Gram-stain kit according to the manufacturer's instructions. Catalase activity was determined by means of bubble production in a 3 % (v/v) aqueous hydrogen peroxide solution. Oxidase activity was tested using a strip containing tetramethyl-p-phenylenediamine (Merck). Nitrate reduction and the hydrolysis of starch, tyrosine, aesculin, urea, casein, Tween 80, hypoxanthine, gelatin, glycerol and xanthine were determined according to methods described previously (Lanyi, 1987
; Gerhardt et al., 1994
). Acid production from carbohydrates was determined as described by Leifson (1963)
; all suspension media were supplemented with ASW containing 3 % (w/v) NaCl. Cell morphology was studied using light microscopy (HFX-DX Labophot-2; Nikon) and transmission electron microscopy (JEM-1010; JEOL). Each agar-coated wet mount used for motility observations was prepared as described by Lee et al. (2005)
. For visualization of flagella, cells were mounted on Formvar-coated copper grids (Electron Microscopy Science), negatively stained with 2 % (w/v) uranyl acetate for 15 s and then subjected to transmission electron microscopy at 60 kV. Endospores were stained using the SchaefferFulton method (Smibert & Krieg, 1981
).
For quantitative analysis of the whole-cell fatty acids, strain BH030017T was cultivated on MA and on MA with the addition of 3 % (w/v) NaCl, for 2 days at 35 °C. GC analysis of the fatty acid methyl esters was performed according to the instructions supplied with the Microbial Identification System (MIDI; Microbial ID). Analyses of the peptidoglycan and the isoprenoid quinones were carried out using the methods described by Komagata & Suzuki (1987)
. Polar lipid analyses were carried out by the Identification Service and Dr B. J. Tindall of the Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (Braunschweig, Germany). The DNA G+C content of strain BH030017T was determined by reversed-phase HPLC (series II 1090; Hewlett Packard) using the method of Tamaoka & Komagata (1984)
. DNADNA hybridization was carried out to evaluate the genomic DNA relatedness between the isolate and closely related species. The cells were grown aerobically on MA for 2 days at 35 °C and the genomic DNA was isolated and purified according to the method described by Yoon et al. (1996)
. Serial dilution of the purified genomic DNA, DNADNA hybridization and the detection of hybrids by enzyme immunoassay were performed according to the methods described by Lim et al. (2005b)
.
PCR amplification, sequencing and assembly of the 16S rRNA gene were carried out as described previously (DeLong, 1992
). To determine the approximate phylogenetic affiliation of strain BH030017T, the 16S rRNA gene sequence (1370 nt) was compared with those available from GenBank, using the BLAST program in GenBank (National Center for Biotechnology Information; http://www.ncbi.nlm.nih.gov/blast/), and was aligned with closely related 16S rRNA gene sequences by using CLUSTAL W software (Thompson et al., 1994
). Unmatched regions of the 5'- and 3'-ends from the alignment, which were caused by the different lengths of the 16S rRNA gene sequence data, were deleted. Phylogenetic trees were constructed using three different methods, the neighbour-joining, maximum-likelihood and maximum-parsimony algorithms available in PHYLIP, version 3.6 (Felsenstein, 2002
). Evolutionary distance matrices were calculated according to the algorithm of the Kimura two-parameter model (Kimura, 1980
) for the neighbour-joining method. Similarity calculations were obtained from comparisons of the 16S rRNA gene sequences of the novel strain and members of the family Bacillaceae, performed using the FASTA3 program (http://www.ebi.co.uk/fasta33). To evaluate the stability of the phylogenetic tree, a bootstrap analysis (1000 replications) was performed using the SEQBOOT, DNADIST, NEIGHBOR and CONSENSE programs in the PHYLIP package.
The cells of the isolate were strictly aerobic, motile, short rods (0.51.2 µm wide and 1.21.9 µm long) bearing single polar flagella after 2 days incubation at 35 °C on MA (see Supplementary Fig. S1 available in IJSEM Online). The strain grew in NB with the addition of 012 % (w/v) NaCl and showed optimum growth in NB containing 25 % (w/v) NaCl. The cells produced ellipsoidal terminal endospores within swollen sporangia, like the phylogenetically closely related relatives in the family Bacillaceae. Strain BH030017T showed obvious Gram-, catalase- and oxidase-positive reactions and reduced nitrate to nitrite.
Analysis of the cell-wall peptidoglycan showed that strain BH030017T possessed the A1
type, i.e. with meso-diaminopimelic acid as the diagnostic diamino acid, in common with the great majority of endospore-forming, Gram-positive, rod-shaped bacteria. The major isoprenoid quinone was MK-7 and the G+C content of the genomic DNA was 36 mol%. The cellular fatty acid profile of strain BH030017T was characterized as containing branched fatty acids such as anteiso-C15 : 0 (
32.2 %), iso-C15 : 0 (
29.4 %) and iso-C14 : 0 (
10.0 %) as the major fatty acids on MA; these branched fatty acids (members of the 14- to 17-carbon iso and anteiso series) are typical of the fatty acids found in the cell membranes of Bacillus species (Table 1
) (Albert et al., 2005
). The strain contained phosphatidylglycerol (PG), diphosphatidylglycerol (DPG) and phosphatidylethanolamine (PE) as the major polar lipids (see Supplementary Fig. S2 available in IJSEM Online). The major fatty acid profile, the major lipoquinone and the major polar lipids of strain BH030017T were typical of those found in members of the genus Bacillus (Priest et al., 1988
; Heyrman et al., 2004
, 2005
; Wieser et al., 2005
; Lim et al., 2006
). The typical phenotypic and chemotaxonomic properties of strain BH030017T are compared with those of phylogenetically related relatives in Table 2
.
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Cells are Gram-positive, spore-forming, strictly aerobic rods. Cells are approximately 0.51.2 µm wide and 1.21.9 µm long and motile by means of single polar flagella. Colonies are cream, smooth, slightly raised and circular on MA. Catalase-positive and oxidase-positive. Nitrate is reduced to nitrite. An ellipsoidal endospore is formed terminally in a swollen sporangium. Growth occurs at 1550 °C (optimum, 35 °C), pH 5.59.0 (optimum, pH 7.5) and 012 % (w/v) NaCl (optimum, 25 %). The peptidoglycan type is A1
, with meso-diaminopimelic acid as the diagnostic diamino acid. The major isoprenoid quinone is MK-7. Starch, tyrosine, aesculin and urea are hydrolysed. Hydrolysis of casein, L-hypoxanthine, Tween 80, xanthine and gelatin is not observed. Acids are produced from D-glucose, sucrose, D-melibiose, trehalose, maltose, D-raffinose, D-fructose, D-xylose, D-mannitol, D-mannose and inositol, but not from D-ribose, glycerol, L-arabinose, L-rhamnose,
-D-lactose or adonitol. The predominant cellular fatty acids are anteiso-C15 : 0 (
32.2 %), iso-C15 : 0 (
29.4 %) and iso-C14 : 0 (
10.0 %) on MA. Contains PG, DPG and PE as the major polar lipids. The DNA G+C content is 36 mol% (HPLC).
The type strain, BH030017T (=KCTC 3918T=DSM 16466T), was isolated from a solar saltern in the Tae-An area of Korea.
| ACKNOWLEDGEMENTS |
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