Strain identifier
BacDive ID: 158255
Type strain:
Species: Acidocella aquatica
Strain Designation: Ok2G
Strain history: <- R. Okamoto, Hokkaido University, Sapporo, Japan; Ok2G <- Rei Okamoto {2016}
NCBI tax ID(s): 1922313 (species)
General
@ref: 64913
BacDive-ID: 158255
DSM-Number: 104037
keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped
description: Acidocella aquatica Ok2G is an aerobe, mesophilic, Gram-negative bacterium that was isolated from water from a freshwater lake.
NCBI tax id
- NCBI tax id: 1922313
- Matching level: species
strain history
- @ref: 64913
- history: <- R. Okamoto, Hokkaido University, Sapporo, Japan; Ok2G <- Rei Okamoto {2016}
doi: 10.13145/bacdive158255.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodospirillales
- family: Acetobacteraceae
- genus: Acidocella
- species: Acidocella aquatica
- full scientific name: Acidocella aquatica Okamoto et al. 2017
@ref: 64913
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Acetobacteraceae
genus: Acidocella
species: Acidocella aquatica
full scientific name: Acidocella aquatica Okamoto et al. 2017
strain designation: Ok2G
type strain: yes
Morphology
cell morphology
- @ref: 65256
- gram stain: negative
- cell length: 1-2.8 µm
- cell width: 0.6-0.8 µm
- cell shape: rod-shaped
- motility: no
Culture and growth conditions
culture medium
- @ref: 64913
- name: ACIDITHIOBACILLUS FERRIVORANS MEDIUM (DSMZ Medium 1234)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1234
- composition: Name: ACIDITHIOBACILLUS FERRIVORANS MEDIUM (DSMZ Medium 1234; with strain-specific modifications) Composition: (NH4)2SO4 2.9703 g/l Na2SO4 1.38614 g/l D-Glucose 0.29703 g/l KCl 0.0990099 g/l K2HPO4 0.049505 g/l MgSO4 x 7 H2O 0.029703 g/l Ca(NO3)2 x 4 H2O 0.019802 g/l (NH4)2Ni(SO4)2 x 6 H2O 0.019802 g/l Nitrilotriacetic acid 0.0148515 g/l NaCl 0.00990099 g/l MnSO4 x H2O 0.00495049 g/l CoSO4 x 7 H2O 0.00178218 g/l ZnSO4 x 7 H2O 0.00178218 g/l CaCl2 x 2 H2O 0.000990099 g/l NiCl2 x 6 H2O 0.00029703 g/l AlK(SO4)2 x 12 H2O 0.00019802 g/l H3BO3 9.90099e-05 g/l CuSO4 x 5 H2O 9.90099e-05 g/l Na2MoO4 x 2 H2O 9.90099e-05 g/l Na2WO4 x 2 H2O 3.9604e-06 g/l Na2SeO3 x 5 H2O 2.9703e-06 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
64913 | positive | growth | 28 | mesophilic |
65256 | positive | growth | 4-35 | |
65256 | positive | optimum | 28 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
65256 | positive | growth | 3-6.2 | acidophile |
65256 | positive | optimum | 4.5 |
Physiology and metabolism
oxygen tolerance
- @ref: 65256
- oxygen tolerance: aerobe
spore formation
- @ref: 65256
- type of spore: endospore
- spore formation: no
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
65256 | 22599 | arabinose | - | growth |
65256 | 22743 | benzyl alcohol | + | growth |
65256 | 17057 | cellobiose | - | growth |
65256 | 16236 | ethanol | + | growth |
65256 | 28757 | fructose | + | growth |
65256 | 28260 | galactose | - | growth |
65256 | 17234 | glucose | + | growth |
65256 | 17754 | glycerol | - | growth |
65256 | 29864 | mannitol | + | growth |
65256 | 37684 | mannose | - | growth |
65256 | 17790 | methanol | - | growth |
65256 | 15882 | phenol | - | growth |
65256 | 15361 | pyruvate | + | growth |
65256 | 32954 | sodium acetate | - | growth |
65256 | 113455 | sodium benzoate | - | growth |
65256 | 53258 | sodium citrate | - | growth |
65256 | 75228 | sodium lactate | - | growth |
65256 | 132106 | sodium propionate | - | growth |
65256 | 30911 | sorbitol | + | growth |
65256 | 17992 | sucrose | + | growth |
65256 | tryptone | + | growth | |
65256 | 18222 | xylose | - | growth |
65256 | yeast extract | + | growth |
enzymes
@ref | value | activity | ec |
---|---|---|---|
65256 | catalase | + | 1.11.1.6 |
65256 | cytochrome oxidase | - | 1.9.3.1 |
fatty acid profile
fatty acids
@ref fatty acid percentage 65256 C12:0 2.4 65256 C16:0 5.3 65256 C16:0 3OH 6.2 65256 C18:0 1.5 65256 C18:0 3OH 1.8 65256 cyclo C19:0ω8c 1.1 65256 C16:1ω7c and/or C16:1ω6c 6 65256 C18:1ω7c and/or C18:1ω6c 73.4 - type of FA analysis: whole cell analysis
- incubation medium: basal medium containing fructose (1 g l-1) instead of glucose
- incubation temperature: 28
- incubation time: 5
- software version: Sherlock 6.0
- library/peak naming table: TSBA6
- system: MIS MIDI
- cutoff value:
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | enrichment culture | enrichment culture composition | enrichment culture temperature | isolation procedure |
---|---|---|---|---|---|---|---|---|---|
64913 | water from a freshwater lake | Hokkaido, Chitose, Lake Okotanpe | Japan | JPN | Asia | ||||
65256 | water sample 10 m depth from the lake surface | Freshwater lake (Lake Okotanpe) in Hokkaido | Japan | JPN | Asia | synthetic liquid medium | (l-1): 0.5 g glucose, 0.3 g MgSO4 x 7H2O, 0.1 g CaCl2 x 2H2O, 0.1 g KCl, 0.2 g NaNO3 , 0.1 g methylphosphonic acid and 1 ml trace element solution SL-10 | 15 | An aliquot of the sample (0.5 ml) was inoculated into 10 ml of a synthetic liquid medium. The culture was incubated under aerobic conditionsin the dark at 15°C. A pure culture of strain Ok2G T was obtained by repeated serial dilution in the same medium. |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Lake (large)
taxonmaps
- @ref: 69479
- File name: preview.99_37202.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_17693;97_21801;98_27371;99_37202&stattab=map
- Last taxonomy: Acidocella aquatica subclade
- 16S sequence: LC199502
- Sequence Identity:
- Total samples: 1848
- soil counts: 1392
- aquatic counts: 270
- animal counts: 47
- plant counts: 139
Safety information
risk assessment
- @ref: 64913
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 64913
- description: Acidocella aquatica gene for 16S ribosomal RNA, partial sequence
- accession: LC199502
- length: 1413
- database: ena
- NCBI tax ID: 1922313
GC content
- @ref: 64913
- GC-content: 62.6
- method: high performance liquid chromatography (HPLC)
External links
@ref: 64913
culture collection no.: DSM 104037, NBRC 112502
straininfo link
- @ref: 111074
- straininfo: 407945
literature
- topic: Phylogeny
- Pubmed-ID: 28950932
- title: Acidocella aquatica sp. nov., a novel acidophilic heterotrophic bacterium isolated from a freshwater lake.
- authors: Okamoto R, Kojima H, Fukui M
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.002376
- year: 2017
- mesh: Acetobacteraceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Japan, Lakes/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry
- topic2: Transcriptome
Reference
@id | authors | title | doi/url | catalogue | journal | pubmed |
---|---|---|---|---|---|---|
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |||
64913 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-104037 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 104037) | |||
65256 | Rei Okamoto, Hisaya Kojima, Manabu Fukui | Acidocella aquatica sp. nov., a novel acidophilic heterotrophic bacterium isolated from a freshwater lake | 10.1099/ijsem.0.002376 | IJSEM 67: 4773-4776 2017 | 28950932 | |
69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |||
111074 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID407945.1 |