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School of Life Sciences, Arizona State University, Main Campus, Tempe, AZ 85287-4501, USA
Correspondence
Ferran Garcia-Pichel
ferran{at}asu.edu
| ABSTRACT |
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7c and C14 : 0 2-OH as the predominant cellular fatty acids, ubiquinone-10 as the isoprenoid quinone and sphingoglycolipid. Based on the above characteristics, the isolates were assigned to the family Sphingomonadaceae; 16 rRNA gene signature nucleotides placed them within the genus Sphingomonas. Strains CP173-2T and CP1DT had a 16S rRNA gene sequence similarity of 96.7 % with each other and 91.698.9 % sequence similarity with other species in the genus, indicating that they represent two separate, and possibly novel, species. The closest species to strains CP173-2T and CP1DT were, respectively, Sphingomonas dokdonensis (98.9 % gene sequence similarity) and Sphingomonas panni (97.9 %). However, strain CP173-2T exhibited a DNADNA relatedness of only 32.5 % with the type strain of S. dokdonensis. Similarly, the DNADNA relatedness between strain CP1DT and the type strain of S. panni was only 18 %. Phenotypic characterization supported this low relatedness. On the basis of this evidence, we propose that the new strains represent two novel species, for which the names Sphingomonas mucosissima sp. nov. (with type strain CP173-2T=ATCC BAA-1239T=DSM 17494T) and Sphingomonas desiccabilis sp. nov. (with type strain CP1DT=ATCC BAA-1041T=DSM 16792T) are proposed.
The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequences of strains CP173-2T and CP1DT are AM229669 and AJ871435, respectively.
A supplementary table detailing 16S rRNA gene sequence similarities between strains CP173-2T and CP1DT and other species of the genus Sphingomonas is available in IJSEM Online.
| MAIN TEXT |
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The original genus Sphingomonas, as proposed by Yabuuchi et al. (1990)
and emended by Takeuchi et al. (1993)
, was re-evaluated based on phylogenetic analysis, polyamine patterns, fatty acid profiling and nucleotide signature sequences (Pal et al., 2005
, 2006
; Takeuchi et al., 2001
) and is now subdivided into four separate genera: Sphingomonas sensu stricto, Sphingobium, Novosphingobium and Sphingopyxis. Members of the genus Sphingomonas are yellow-pigmented, non-fermentative, Gram-negative, non-motile or motile rods with a single polar flagellum and are characterized by the presence of a unique sphingoglycolipid with the long-chain base dihydrosphingosin, ubiquinone 10 (Q-10), 2-hydroxymyristic acid (2-OH C14 : 0) and the absence of 3-hydroxy fatty acids. Species of the genus Sphingomonas have great potential for biotechnological applications (Denner et al., 2001
; Pollock, 1993
).
Strains CP1DT and CP173-2T were isolated from biological soil crust samples collected from sandy arid soils in the Colorado Plateau, USA (38° 38' 557'' N 109° 38' 910'' W and 38° 09' 905'' N 109° 44' 509'' W), as described earlier (Reddy & Garcia-Pichel, 2005
). Orange (CP173-2T) and yellow (CP1DT) colonies of pigmented bacteria were picked up from BG11-PGY agar-solidified plates, purified by restreaking and maintained on 10x BG11-PGY plates. Morphological, biochemical characteristics and fatty acid methyl esters were analysed according to previously described methods (Reddy & Garcia-Pichel, 2005
; Reddy et al., 2006
). Lipids were extracted and analysed as described by Suresh et al. (2004)
. Quinones were extracted according to the method of Collins et al. (1977)
and separated by HPLC using the isocratic solvent system methanol/iso-propylether (3 : 1) (Tamaoka et al., 1983
; Tamaoka, 1986
). Sphingomonas asaccharolytica ATCC 51839T, Sphingomonas panni DSM 15761T and Sphingomonas dokdonensis DS-4T were used as standards for identifying the lipids and quinones. These strains were also used for DNADNA hybridization with the two novel strains using the filter hybridization method described by Pandey et al. (2002)
. 16S rRNA gene sequencing and phylogenetic analysis were performed as described previously (Kimura, 1980
; Kumar et al., 2001
; Reddy & Garcia-Pichel, 2005
; Thompson et al., 1994
).
Cells of strains CP173-2T and CP1DT are Gram-negative, rod-shaped (Fig. 1
), non-motile, mucoid and pigmented and contain C16 : 0, C18 : 1
7c and C14 : 0 2-OH as the major cellular fatty acids, as well as ubiquinone-10 as the isoprenoid quinone. A comparison of the lipid profiles of strains CP1DT and CP173-2T with those of S. asaccharolytica ATCC 51839T indicated that they contain, among other lipids, abundant sphingoglycolipid. These traits would place both novel isolates within the family Sphingomonadaceae. BLAST similarity analysis based on 16S rRNA gene sequences placed both novel strains clearly within the genus Sphingomonas. In addition, their gene sequences contained the signature sequences C-G, G, G, G-C, U-G, U, U, U, U, A, C, G and C at positions 52359 (based on the Escherichia coli numbering system), 134, 593, 9871218, 9901215, 412, 562, 748, 823, 877, 841, 1438 and 1463, respectively, which are characteristic of the genus (Maruyama et al., 2006
; Takeuchi et al., 2001
). The two novel strains shared a 16S rRNA gene sequence similarity of 96.7 % (see Supplementary Table S1 in IJSEM Online), confirming that they represent separate species belonging to the genus Sphingomonas (Stackebrandt & Goebel, 1994
). In addition, strain CP1DT is conspicuously different from strain CP173-2T in that it is yellow-pigmented, whereas strain CP173-2T is orange-pigmented; other differentiating characteristics are listed in Table 1
.
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6c and C18 : 1
5c and significantly lower amounts of the major fatty acid C18 : 1
7c. Therefore, based on the above characteristics, strain CP1DT was assigned as the type strain of a novel species, Sphingomonas desiccabilis sp. nov.
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-galactosidase and has high proportion of C14 : 0 and C16 : 0 2-OH. Thus, based on the cumulative differences that strain CP173-2T exhibited when compared with the recognized species of the genus Sphingomonas, we suggest that strain CP173-2T represents a novel species, for which the name Sphingomonas mucosissima sp. nov. is proposed.
It appears that the strains CP1DT and CP173-2T could impart some stability to the BSCs they inhabit as they produce very abundant extrapolysaccharides, as evidenced in their mucous appearance in transmission electron micrographs (Fig. 1
). Given their extreme environment of origin, these strains are likely to be able to withstand repeated and severe desiccation as well as exposure to temperature extremes and solar radiation. This may make them valuable in biotechnology or bioremediation applications tailored to extreme conditions.
Description of Sphingomonas mucosissima sp. nov.
Sphingomonas mucosissima (mu.co.sis'si.ma. L. fem. superlative adj. mucosissima slimiest, referring to the appearance of the strains).
Colonies are orange-pigmented, extremely mucoid, convex, round and smooth. Cells are Gram-negative, non-motile rods of 0.75 µm diameter and 1.7 µm in length. Grows at 1530 °C, but not at 37 °C, with an optimum growth temperature of 25 °C and a pH of 7. Can tolerate up to 2.5 % NaCl. Cells are positive for catalase, oxidase, phosphatase and do not grow on test media plates of lipase and urease. Negative result in tests for
-galactosidase, gelatinase, lysine decarboxylase, ornithine decarboxylase, phenylalanine deaminase and arginine dihydrolase activities. Can hydrolyse starch, but not aesculin. Does not reduce nitrate to nitrite and cannot produce H2S gas. Negative results in methyl red, VogesProskauer, indole and Simmons' citrate tests. Can utilize acetate, L-arabinose, D-cellobiose, glucose, D-fructose, D-galactose, D-glucose, glycerol, inulin, D-melibiose, pyruvate, D-ribose, sucrose, sorbose, sucrose, D-xylose, L-alanine as sole carbon source but not adonitol, citrate, dulcitol, dextran, ethanolamine, fumaric acid, glucuronic acid, myo-inositol, lactose, lactic acid, D-levulose, D-maltose, D-mannitol, D-mannose, myristic acid, oxalic acid, raffinose, D-rhamnose, L-sorbose, sorbitol, succinate, trehalose, L-arginine, L-aspartic acid, L-aspargine, L-cysteine, L-glycine, L-glutamine, L-glutamic acid, L-histidine, L-leucine, L-lysine, L-methionine, L-phenylalanine and L-proline. Cells are sensitive to (per disc): azithromycin (30 µg), bacitracin (10 U), ceftriaxone (30 µg), chloramphenicol (30 µg), ciprofloxacin (5 µg), doxycycline (30 µg), gentamicin (10 µg), novobiocin (30 µg), rifampicin (30 µg), tetracycline (30 µg) and vancomycin (30 µg), but resistant to aztreonam (30 µg), carbenicillin (100 µg), cephalothin (30 µg), colistin (10 µg), erythromycin (2 µg), ethambutol (50 µg), ethionamide (30 µg), nitrofurantoin (150 µg), penicillin (10 µg), polymyxin B (300 µg), streptomycin (10 µg), sulfisoxazole (300 µg), sulfathiazole (300 µg) and trimethoprim (5 µg). The fatty acids and their contribution to the total fatty acid content are listed in Table 2
. The major lipids present are phosphatidylglycerol (PG), cardiolipin (DPG), phosphatidyldimethyl ethanolamine (PDE) and sphingoglycolipid (SGL).
The type strain, strain CP173-2T (=ATCC BAA-1239T=DSM 17494T), was isolated from a biological soil crust from the Colorado Plateau, USA.
Description of Sphingomonas desiccabilis sp. nov.
Sphingomonas desiccabilis (de.sic.ca'bi.lis. L. v. desiccare to dry up; L. suffix -abilis adjectival suffix expressing passive qualities; N.L. fem. adj. desiccabilis able to be dried, desiccable).
Colonies are yellow-pigmented, extremely mucoid, convex, round and smooth. Cells are Gram-negative, non-motile, small rods of 0.25 µm in diameter and 0.5 µm in length. Grows at 1537 °C, with an optimum growth temperature of 25 °C and pH of 7. Can tolerate up to 4 % NaCl. The fatty acids and their contribution to the total fatty acid content are listed in Table 2
. Major fatty acids and other metabolic characteristics are the same as those for Sphingomonas mucosissima CP173-2T, except the following: tests positive for lipase, gelatinase and
-galactosidase, negative in tests for urease and can reduce nitrate to nitrite. Can utilize glucuronic acid, D-maltose, D-mannose, raffinose, D-rhamnose and L-proline as sole carbon source, but not acetate, D-fructose, glycerol or L-alanine. Cells are resistant to gentamicin (10 µg/disc).
The type strain, strain CP1DT (=ATCC BAA-1041T=DSM 16792T), was isolated from a biological soil crust from the Colorado Plateau, USA.
| ACKNOWLEDGEMENTS |
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