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1 Institute of Life Science, Ajinomoto Co. Inc., 1-1 Suzuki-cho, Kawasaki 210-8681, Japan
2 AminoScience Laboratories, Ajinomoto, 1-1 Suzuki-cho, Kawasaki 210-8681, Japan
3 Faculty of Textile Science and Technology, Shinshu University, Ueda 386-8567, Japan
Correspondence
Ryosuke Fudou
ryosuke_fudou{at}ajinomoto.com
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ABSTRACT |
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-Proteobacteria. The characteristics of the three isolates were as follows: (i) their predominant quinone was Q-10; (ii) their cellular fatty acid profile contained major amounts of 2-hydroxy acids and an unsaturated straight-chain acid (C18 : 1
7c); and (iii) their DNA G+C contents were in the range 51·9–52·3 mol%, which is around the lower limit of the reported range for the genera of acetic acid bacteria. The negligible or very weak productivity of acetic acid from ethanol and the osmophilic growth properties distinguished these strains from other acetic acid bacteria. The unique phylogenetic and phenotypic characteristics suggest that the three isolates should be classified within a novel genus and species with the proposed name Saccharibacter floricola gen. nov., sp. nov. The type strain is strain S-877T (=AJ 13480T=JCM 12116T=DSM 15669T).
The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of strain S-877T is AB110421.
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MAIN TEXT |
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; Lisdiyanti et al., 2002). On the basis of 16S rRNA gene sequence analysis, these bacteria are affiliated to a group of acidophilic bacteria in the -subclass of the Proteobacteria (Sievers et al., 1994). The acetic acid bacteria are known to be well adapted to sugary and alcoholized fluid, their main habitats being vinegar, fruit juice, sap water, alcoholic beverages and flowers.
During the course of a screening programme for microbial producers of xylitol, which is a promising low-calorie sweetener with anti-dental caries properties, we isolated several potent producing strains from flower samples (our unpublished results). Although these strains were found to be in the family Acetobacteraceae (Lisdiyanti et al., 2002), they had rather unusual characteristics for this group of bacteria, such as negligible or weak capacities to produce acetic acid from ethanol and an osmophilic growth profile. In this paper, we report a detailed description of the taxonomic characteristics of these isolates and propose a novel genus and species, Saccharibacter floricola gen. nov., sp. nov., based on physiological and phylogenetic studies.
Three bacterial strains (S-877T, S-1009 and S-1019) were isolated from an enrichment culture with a high glucose concentration. The medium used (YUG medium) comprised 1·0 % (w/v) yeast extract (Difco), 0·1 % (w/v) urea and 20 % (w/v) glucose. After incubation with shaking at 28 °C for 7 days, the enrichment cultures with flower samples were appropriately diluted and then plated on YUG agar medium [containing 1·5 % (w/v) agar]. For phenotypic characterization and collection of biomass, the strains were cultivated aerobically at 28 °C using YPG medium [1 % (w/v) yeast extract (Difco), 1 % (w/v) peptone (Difco) and 7 % (w/v) glucose, adjusted to pH 6·0 with HCl] unless otherwise specified. Solid media were prepared by adding 1·5 % (w/v) agar (Difco).
Cells of all isolates were Gram-negative, strictly aerobic, non-motile rods measuring 0·8–1·0x2·5–4·0 µm. Colonies of the three isolates on YPG agar were circular, entire and pale in colour. Endospores were not produced. The bacterial colonies produced neither soluble pigments, mucous substances nor cellulosic pellicles.
The 16S rRNA gene was amplified by a PCR using crude cell lysates, as described by Iizuka et al. (1998). Amplified products were sequenced with a SequiTherm Long-Read cycle sequencing kit (Epicentre Technologies); this was followed by detection with a Pharmacia DNA sequencer according to the manufacturer's instructions. Almost complete 16S rRNA gene sequences of the three isolates were determined and the sequences were aligned with sequences of reference strains in the Acetobacteraceae obtained from the GenBank/EMBL/DDBJ databases. Gaps at the 5' and 3' ends of the alignment were omitted and the sequence at positions 46–1506, based on the Escherichia coli numbering system (Weisburg et al., 1991), was used for the final analysis. Nucleotide substitution rates (Knuc values) were calculated using Kimura's method (Kimura, 1980). The phylogenetic tree was constructed by the neighbour-joining method (Saitou & Nei, 1987) with the CLUSTAL W program (Thompson et al., 1994). The robustness of the topology of the neighbour-joining tree was estimated by means of a bootstrapped analysis with 1000 replicates (Felsenstein, 1985). The three isolates shared the same sequences, and a representative isolate (S-877T) constituted a distinct cluster separate from any existing genera in the family Acetobacteraceae (Fig. 1). The tree topology was also supported by maximum-parsimony analysis (data not shown). The sequence similarity levels between isolate S-877T and its closest relatives, Gluconobacter cerinus and Gluconobacter oxidans, were 94·0 and 93·9 %, respectively. These relatively low similarities warrant the allocation of the novel isolates to a novel genus of acetic acid bacteria.
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. The respiratory quinone type of the three isolates was Q-10. Chromosomal DNA was extracted from bacterial cells according to the method of Saito & Miura (1963) and further purified using a Qiagen Genomic-tip kit. The DNA G+C content was determined by HPLC using the method of Tamaoka & Komagata (1984). The G+C contents of isolates S-877T, S-1009 and S-1019 were 52·3, 52·3 and 51·9 mol%, respectively. These values are around the lower limit of those of the genera in the family Acetobacteraceae (De Ley et al., 1984; Lisdiyanti et al., 2002). The cellular fatty acid compositions of the isolates were determined using the Microbial Identification System MIDI (Hewlett Packard).
The major fatty acids of the new isolates were a 2-hydroxy acid (C16 : 0 2-OH) and a straight-chain unsaturated acid (C18 : 17c), which accounted for 31·1–41·0 and 22·0–29·8 % of total fatty acids, respectively. The other fatty acids were C14 : 0 (1·4–2·1 %), C16 : 0 (10·0–11·1 %), C19 : 08c cyclo (2·7–3·4 %), C14 : 0 2-OH (2·2–2·5 %), C18 : 1 2-OH (0·8–1·0 %), C14 : 0 3-OH (4·4–7·6 %) and C16 : 0 3-OH (6·4–6·9 %). Although these fatty acid profiles were roughly in agreement with reported data for the other genera of acetic acid bacteria (Yamada et al., 1981; Franke et al., 1999), the novel isolates contained unusually high levels of 2-hydroxy fatty acids.
DNA–DNA relatedness was measured according to the dot-blot hybridization method (Hiraishi et al., 1991), using a Biodyne A membrane (Gibco-BRL). Labelling of DNA and detection of hybridized DNA were performed using the AlkPhos Direct system for chemifluorescence (Amersham Pharmacia Biotech) according to the manufacturer's directions. Quantification of dots was performed using a fluoroimage analyser (FLA3000; Fuji Film). DNA isolated from S-877T hybridized strongly with that from the other two isolates, the similarity values being 71·8 and 99·6 % for strains S-1009 and S-1019, respectively. These results indicate that these three isolates belong to a single species. On the other hand, DNA from Gluconobacter oxydans and Acetobacter aceti, which are representatives of the acetic acid bacteria, showed less than 5 % relatedness with S877T.
Phenotypic characteristics were examined principally according to Asai et al. (1964) and Yamada et al. (1976, 2000). The three isolates showed rather acidophilic growth, the pH range for growth of all three strains being 4·0–7·5 with an optimum between pH 5·0 and 7·0. The temperature range for growth was 20–33 °C with an optimum around 25–30 °C. The catalase test was positive and the oxidase and indole tests were negative for all three isolates. The isolates showed growth on mannitol agar and glutamate agar supplemented with 7 % (w/v) glutamate, but they did not grow on normal glutamate agar supplemented with 1 % (w/v) glutamate. Other phenotypic characteristics are summarized in Table 1.
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) with glucose or mannitol.
Another unique property of the three isolates is their osmophilic growth characteristics. To investigate the effect of osmophilic pressure on the growth of the isolates, growth rates at various glucose levels were determined by monitoring optical density at 600 nm using an automatic growth analyser (Bioscreen C; Labsystems), as shown in Fig. 2. The novel isolate, strain S-877T, showed not only high osmotolerance but also a requirement for very high glucose levels, growing in the range 5–40 % (w/v), with an optimum at 10 % (w/v) glucose. In contrast, growth of the known ‘osmotolerant’ species such as Gluconacetobacter diazotrophicus and Asaia bogorensis was inhibited by increased glucose concentrations, although both species were able to grow in the presence of 30 % (w/v) glucose (Gillis et al., 1989; Yamada et al., 2000). The other isolates (S-1009 and S-1019) showed growth profiles similar to that of strain S-877T (data not shown).
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Description of Saccharibacter gen. nov.
Saccharibacter (Sac.cha.ri.bac'ter. L. neut. n. saccharum or saccharon sugar; N.L. masc. n. bacter from Gr. n. baktron rod; N.L. masc. n. Saccharibacter a rod that grows well in a sugar-rich environment).
Cells are Gram-negative, non-motile, straight rods measuring 0·8–1·0x2·5–4·0 µm. Chemo-organotrophic and strictly aerobic. Catalase-positive. Oxidase-negative. Non-pigmented. Produces neither cellulosic pellicles nor water-soluble mucous substances. The optimum pH for growth is around 5·0–7·0; there is no growth above pH 8·0 or below pH 4·0. Growth occurs in the glucose range 2–40 % (w/v), with an optimum around 10 % (w/v). Grows on mannitol and 7 % (w/v) glutamate agar but not on 1 % (w/v) glutamate agar. Forms negligible or very little acetic acid from ethanol. Produces gluconic acid, 2-keto-D-gluconic acid and 5-keto-D-gluconic acid from glucose. Prefers high glucose concentration for growth [e.g. 10 % (w/v) glucose]. Does not oxidize acetate to CO2 and water. Oxidation of lactate is weak. Ammonia is not assimilated on Hoyer–Frateur medium with glucose, mannitol or ethanol. Does not utilize methanol. Does not produce dihydroxyacetone from glycerol. Acid is produced from L-arabinose, D-xylose, D-glucose, D-galactose, D-mannose, melibiose, sucrose and mannitol, but not from D-arabinose, L-rhamnose, L-sorbose, raffinose, D-sorbitol, dulcitol, glycerol or ethanol. Production of acid from L-sorbose is variable. The DNA G+C content is about 52–53 mol%. The major quinone type is Q-10. The major cellular fatty acids are a 2-hydroxy acid (C16 : 0 2-OH; 31·1–41·0 %) and a straight-chain unsaturated acid (C18 : 17c; 22·0–29·8 %). The type species is Saccharibacter floricola.
Description of Saccharibacter floricola sp. nov.
Saccharibacter floricola (flo.ri.co'la. L. n. flos -oris a flower; L. suff. -cola derived from L. n. incola a dweller; N.L. n. floricola flower-dweller).
Has all the characteristics that define the genus. Strains have been isolated from Japanese flowers.
The type strain is strain S-877T (=AJ 13480T=JCM 12116T=DSM 15669T), which was isolated from pollen collected in Kanagawa Prefecture, Japan. The DNA G+C content of strain S-877T is 52·3 mol%.
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ACKNOWLEDGEMENTS |
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REFERENCES |
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TOPABSTRACTMAIN TEXTREFERENCES |
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De Ley, J. & Frateur, J. (1974). Genus Acetobacter Beijerinck 1898, 215AL. In Bergey's Manual of Determinative Bacteriology, 8th edn, pp. 276–278. Edited by R. E. Buchanan & N. E. Gibbons. Baltimore: Williams & Wilkins.
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Gillis, M., Kersters, K., Hoste, B., Janssens, D., Kroppenstedt, R. M., Stephan, M. P., Teixeira, K. R. S., Döbereiner, J. & De Ley, J. (1989). Acetobacter diazotrophicus sp. nov., a nitrogen-fixing acetic acid bacterium associated with sugarcane. Int J Syst Bacteriol 39, 361–364.
Hiraishi, A., Hoshino, Y. & Kitamura, H. (1984). Isoprenoid quinone composition in the classification of Rhodospirillaceae. J Gen Appl Microbiol 30, 197–210.
Hiraishi, A., Hoshino, Y. & Satoh, T. (1991). Rhodoferax fermentans gen. nov., sp. nov., a phototrophic purple nonsulfur bacterium previously referred to as the "Rhodocyclus gelatinosus-like" group. Arch Microbiol 155, 330–336.
Iizuka, T., Yamanaka, S., Nishiyama, T. & Hiraishi, A. (1998). Isolation and phylogenetic analysis of aerobic copiotrophic ultramicrobacteria from urban soil. J Gen Appl Microbiol 44, 75–84.
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), Gluconacetobacter diazotrophicus DSM 5601T (
), Asaia bogorensis JCM 10569T (
) and Acetobacter aceti NCIB 8621T (
). One hundred per-cent growth corresponds to the maximum specific growth rate (h–1) under optimum conditions.