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1 Scottish Association for Marine Science, Dunstaffnage Marine Laboratory, Oban, Argyll PA37 1QA, UK
2 Australian Food Safety Centre, University of Tasmania, Hobart, Australia
3 Fisheries Research Services Marine Laboratory, Aberdeen AB11 9DB, UK
4 School of Aquaculture, University of Tasmania, Launceston, Australia
Correspondence
David H. Green
david.green{at}sams.ac.uk
| ABSTRACT |
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42 %, while DNADNA reassociation values among DG893T, DG1136 and ATAM407-13 were
83 %. The DNA G+C content was 5455 mol% and the major isoprenoid quinone was ubiquinone-9. On the basis of phenotypic, chemotaxonomic, DNADNA hybridization and phylogenetic analysis, it is proposed that these three strains represent a novel species, Marinobacter algicola sp. nov. The type strain is DG893T (=DSM 16394T=NCIMB 14009T).
Published online ahead of print on 28 October 2005 as DOI 10.1099/ijs.0.63447-0.
The GenBank/EMBL/DDBJ accession numbers for the 16S rRNA gene sequences of strains DG893T, DG1136 and ATAM407-13 are AY258110, AY258116 and AJ294359, respectively.
A transmission electron micrograph of cells of DG893T and a table detailing the cellular fatty acid composition of the three novel strains and the type strains of other Marinobacter species are available as supplementary material in IJSEM Online.
| MAIN TEXT |
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The bacterial flora associated with the dinoflagellates Gymnodinium catenatum Graham and Alexandrium tamarense (Lebour) Balech have been proposed to be involved in producing a potent suite of neurotoxins, the paralytic shellfish toxins (PSTs), produced by these algae (Gallacher et al., 1997
; Kodama et al., 1990
). As a part of the work to understand the relationship between the bacterial flora of PST-producing dinoflagellates and PST production, we identified bacterial isolates with a phylogenetic affiliation to M. hydrocarbonoclasticus in laboratory cultures of these dinoflagellates that formed a discrete phylogenetic cluster (Green et al., 2004
; Hold et al., 2001
). The phylogenetic clustering and frequency of occurrence in laboratory cultures was suggestive of a specific association between the dinoflagellate and the M. hydrocarbonoclasticus-like isolates (Green et al., 2004
; Hold et al., 2001
). Bacterial isolates DG893T and DG1136 were isolated from G. catenatum YC499B15 (recovered from the Yellow Sea, Korea) and G. catenatum GC21V (recovered from the Ria de Vigo, Spain), respectively, by serial dilution on a low-concentration marine agar (ZM/10; Green et al., 2004
). ATAM407-13 was isolated from Alexandrium tamarense NEPCC 407 (recovered from Jericho Beach, Vancouver, Canada) by culture on marine 2216 agar (Difco). The isolates were grown aerobically at 1820 °C for 13 weeks and then stored frozen at 80 °C in marine broth (Difco) supplemented with 20 % glycerol (v/v).
Phenotypic examination of the isolates typically used colonies grown for 4872 h on marine 2216 agar at 30 °C, streaked from ZM/10 marine agar slopes. M. hydrocarbonoclasticus NCIMB 1967 (=ATCC 27132), Marinobacter aquaeolei NCIMB 13596T, Marinobacter flavimaris DSM 16070T and Marinobacter lipolyticus NCIMB 13907T were used for comparison, all maintained as above. Gram reaction and cell morphology of the strains were observed by light microscopy, and negatively stained whole cells were viewed by transmission electron microscopy on a JEOL-100SX (Beveridge et al., 1994
). Catalase and oxidase activity, utilization of Tweens 40 and 80 and casein and starch hydrolysis were also determined as described by Smibert & Krieg (1994)
. Nitrate reduction, indole production, arginine dihydrolase, urease, gelatin liquefaction,
-glucosidase and
-galactosidase activity were examined using API 20NE strips (Vitek-bioMérieux) inoculated with colonies suspended in 3 % NaCl (w/v). The ability of the isolates to utilize a range of organic substrates was determined using 96-well Biolog GN MicroPlates as described by Smith et al. (2002)
. The ability of the strains to utilize aliphatic hydrocarbons was determined by growing the strains on a synthetic sea-water agar (SM1; Yakimov et al., 1998
), varying only in that NH4NO3 was used as the nitrogen source. Bacteria were streaked onto the agar, and hydrocarbon was supplied in the vapour phase by adding 200 µl of either n-tetradecane (Sigma) or n-hexadecane (Sigma) as the sole carbon source to a sterile piece of Whatman Qualitative 1 filter paper placed in the lid of the Petri dish. Growth was assessed after 3 weeks incubation at 25 °C. Utilization of hydrocarbon was assessed based on the amount of growth relative to cells streaked onto the same agar but without any added carbon source.
Strains DG893T, DG1136 and ATAM407-13 were all similar in terms of their cell morphology, growth and phenotypic characteristics (see the species description, Table 1
and Supplementary Fig. S1 available in IJSEM Online). The three novel strains all demonstrated an ability to utilize a comparatively wide range of organic compounds as their sole carbon and energy source compared with those utilized by the other Marinobacter type strains examined. Discriminatory phenotypic characteristics are given in Table 1
. DG893T, DG1136 and ATAM407-13 were all positive for the utilization of Tweens 40 and 80, glycerol, dextrin, glycogen, glucose, methyl pyruvate, acetate, citrate,
-hydroxybutyrate,
-hydroxybutyrate, DL-lactate, propionate, succinate, bromosuccinate, D-alanine, L-glutamate, L-leucine, L-proline and L-pyroglutamate. All strains were negative for the utilization of
-cyclodextrin, N-acetyl-D-galactosamine, N-acetyl-D-glucosamine, adonitol, L-arabinose, D-arabitol, cellobiose, erythritol, L-fucose, D-galactose, gentiobiose, myo-inositol,
-lactose,
-D-lactose lactulose, D-mannose, D-melibiose, methyl
-D-glucoside, psicose, D-raffinose, L-rhamnose, D-sorbitol, sucrose, D-trehalose, turanose, xylitol, formic acid, D-galactonic acid lactone, D-galacturonic acid, D-glucosaminic acid, D-glucuronic acid, p-hydroxyphenylacetic acid, itaconic acid, malonic acid, quinic acid, D-saccharic acid, sebacic acid, succinamic acid, glucuronamide, alaninamide, L-alanyl glycine, L-aspartic acid, glycyl L-aspartic acid, glycyl L-glutamic acid, L-histidine, hydroxy-L-proline, L-ornithine, DL-serine, L-threonine, DL-carnitine,
-aminobutyric acid, urocanic acid, inosine, uridine, thymidine, phenyl ethylamine, putrescine,
-DL-glycerol phosphate, glucose 1-phosphate and glucose 6-phosphate.
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1 % NaCl (w/v), and at up to 9 % for DG1136 and ATAM407-13, and up to 12 % for DG893T. The range of pH over which all strains grew was consistent with other Marinobacter species. Growth was observed between pH 5 and 10 with an observed optimum of pH 7·5 for all strains. Anaerobic growth was observed to occur in all strains in the presence of nitrate and acetate, but not glucose. The temperatures examined for growth were 5, 10, 18, 25, 30, 37, 40 and 45 °C. The upper temperature at which growth was observed was 40 °C, while growth, albeit slow, occurred at 5 °C (Table 1Strains DG893T, DG1136 and ATAM407-13 were capable of growth on n-tetradecane and n-hexadecane as their sole carbon source. Growth of ATAM407-13 on these two hydrocarbon sources was weaker than that of DG893T and DG1136, and all three strains showed a preference for n-tetradecane. All strains showed an ability to grow on synthetic sea-water agar without any added carbon source, and formed shallow (<1 mm), colony-sized depressions in the agar; subsurface growth could be seen radiating out from beneath each colony. However, there was no evidence of softening of the agar surrounding the colony. This observation indicates the capacity for oligotrophic growth and/or the ability to utilize agar as a carbon source. Agarolytic activity was not otherwise observed in any of the strains when grown on more complex media, marine 2216 agar or the more dilute version, ZM/10 agar.
The 16S rRNA genes were sequenced as described by Green et al. (2004)
and Hold et al. (2001)
. Taxonomic assignment based on the 16S rRNA gene sequences was initially performed using the Sequence Match facility of the Ribosomal Database Project II (Cole et al., 2003
). Multiple alignments were performed using CLUSTAL_X (Thompson et al., 1997
). Alignments were manually corrected and ambiguous regions were masked from the analysis. The program PAUP4.0* (Swofford, 2001
) was used to construct the distance tree based on the neighbour-joining algorithm (Saitou & Nei, 1987
) according to the maximum-likelihood model, and bootstrap support for the inferred tree was established by resampling 1000 datasets by the neighbour-joining method (Saitou & Nei, 1987
). Alcanivorax borkumensis SK2T (GenBank accession no. Y12579) and Alcanivorax venustensis ISO4T (GenBank accession no. AF328762) were used as the outgroup.
16S rRNA gene sequence analysis showed that DG893T, DG1136 and ATAM407-13 were most closely related to M. flavimaris SW-145T (97·8, 97·5 and 97·5 %, respectively) and M. lipolyticus SM19T (97·1, 97·2 and 97·3, respectively); lower similarities were observed to the type strains of other Marinobacter species, such as Marinobacter sediminum R65T (96·496·6 %), M. hydrocarbonoclasticus ATCC 27132 (94·294·3 %) and M. aquaeolei VT8T (94·294·4 %). 16S rRNA gene sequence similarity of DG893T to DG1136 and ATAM407-13 was 99·3 and 99·7 %, respectively, while DG1136 and ATAM407-13 had a sequence similarity of 99·9 %. As the sequence divergence of DG893T, DG1136 and ATAM407-13 from the closest phylogenetically related Marinobacter species (M. flavimaris) was >2 %, this supports the proposal that they may represent a novel species, and as DG893T, DG1136 and ATAM407-13 were all
99·3 % similar to one another, this is consistent with these strains belonging to a single species (Stackebrandt & Goebel, 1994
). Phylogenetic analysis (Fig. 1
) shows that DG893T, DG1136 and ATAM407-13 form a distinct and supported phylogenetic cluster separate from M. flavimaris SW-145T and M. lipolyticus SM19T, the two closest phylogenetic relatives. It also shows that the three strains comprise a coherent phylogenetic cluster within the genus Marinobacter.
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Cellular fatty acid and isoprenoid quinone content were determined for cell mass grown on marine 2216 agar and broth, respectively, for 48 h at 30 °C. Fatty acid methyl esters were extracted and prepared according to standard protocols as described for the MIDI Microbial Identification System (Sasser, 1990
). Cellular fatty acid content was analysed with the MIDI Microbial Identification system. Results are available as Supplementary Table S1 in IJSEM Online. The fatty acid composition was generally consistent with that of other Marinobacter type strains, although DG893T, DG1136 and ATAM407-13 differed in having increased abundances of C16 : 1
7c/iso-C15 : 0 2-OH (summed feature MIDI fatty acid methyl ester analysis), C16 : 0 10-methyl and C18 : 1
7c and a reduced abundance of C16 : 1
9c (Supplementary Table S1). The isoprenoid quinone content of the three novel strains, with M. hydrocarbonoclasticus NCIMB 1967 and M. flavimaris DSM 16070T as reference strains, was determined by reversed-phase HPLC using an Eclipse XDB-C18 column (Agilent Technologies), essentially as described by Komagata & Suzuki (1987)
. The principal isoprenoid quinone was shown to be ubiquinone-9 (Q-9), consistent with other Marinobacter type strains except Marinobacter lutaoensis, which contains ubiquinone-8 (Shieh et al., 2003
).
On the basis of 16S rRNA gene sequence analysis, DNADNA hybridization, phenotypic characteristics and chemotaxonomic properties, DG893T, DG1136 and ATAM407-13 are proposed as three related strains of a novel species within the genus Marinobacter, for which the name Marinobacter algicola sp. nov. is proposed.
Description of Marinobacter algicola sp. nov.
Marinobacter algicola [al.gi'co.la. L. n. alga -ae an alga (seaweed, dinoflagellate etc.); L. suff. -cola from L. n. incola an inhabitant; N.L. fem. n. algicola an inhabitant of algae].
Gram-negative, oxidase- and catalase-positive, non-spore-forming rods, 1·62·5x0·450·55 µm, occurring as single cells, in pairs or as short chains of cells. Motile by means of a single, non-sheathed, polar flagellum. Colonies on marine 2216 agar at 2530 °C after 72 h are cream, circular (12 mm), smooth, convex and shiny with entire edges. Older colonies change in shape from convex to umbonate and become light beige in the centre with pale margins. Growth requires Na+ and occurs across a range of total NaCl (w/v) of 19 % for DG1136 and ATAM407-13 and 112 % for DG893T; optimal growth is between 3 and 6 % (w/v) NaCl. Growth occurs at 540 °C, with an optimal temperature of 2530 °C, and over a pH range of 510, with an optimum of pH 7·5. Nitrate and nitrite are not reduced. Growth is aerobic, but anaerobic growth in the presence of nitrate and acetate, but not glucose, is observed. Tweens 40 and 80 and starch are hydrolysed, but gelatin and casein are not. Strains DG893T and DG1136 are urease-positive, but ATAM407-13 is not. All strains identified to date are positive for arginine dihydrolase activity, but negative for indole,
-glucosidase and
-galactosidase activity. All strains utilize n-hexadecane and n-tetradecane and other carbon sources as sole carbon and energy sources, as indicated in Table 1
and the main text. The predominant cellular fatty acids are C16 : 0 (22·025·5 %), C16 : 1
7c/iso-C15 : 0 2-OH (19·520·5 %), C18 : 1
9c (9·711·5 %) and C12 : 0 3-OH (8·710·0 %). Q-9 is the principal isoprenoid quinone.
The type strain is DG893T (=DSM 16394T=NCIMB 14009T). The DNA G+C content of the type strain is 55 mol%. Strains DG893T and DG1136 were isolated from laboratory cultures of the dinoflagellate Gymnodinium catenatum (from Korea and Spain, respectively) and ATAM407-13 from the dinoflagellate Alexandrium tamarense (from Canada).
| ACKNOWLEDGEMENTS |
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