Strain identifier

BacDive ID: 158255

Type strain: Yes

Species: Acidocella aquatica

Strain Designation: Ok2G

Strain history: <- R. Okamoto, Hokkaido University, Sapporo, Japan; Ok2G <- Rei Okamoto {2016}

NCBI tax ID(s): 1922313 (species)

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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

@refgrowthtypetemperaturerange
64913positivegrowth28mesophilic
65256positivegrowth4-35
65256positiveoptimum28mesophilic

culture pH

@refabilitytypepHPH range
65256positivegrowth3-6.2acidophile
65256positiveoptimum4.5

Physiology and metabolism

oxygen tolerance

  • @ref: 65256
  • oxygen tolerance: aerobe

spore formation

  • @ref: 65256
  • type of spore: endospore
  • spore formation: no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6525622599arabinose-growth
6525622743benzyl alcohol+growth
6525617057cellobiose-growth
6525616236ethanol+growth
6525628757fructose+growth
6525628260galactose-growth
6525617234glucose+growth
6525617754glycerol-growth
6525629864mannitol+growth
6525637684mannose-growth
6525617790methanol-growth
6525615882phenol-growth
6525615361pyruvate+growth
6525632954sodium acetate-growth
65256113455sodium benzoate-growth
6525653258sodium citrate-growth
6525675228sodium lactate-growth
65256132106sodium propionate-growth
6525630911sorbitol+growth
6525617992sucrose+growth
65256tryptone+growth
6525618222xylose-growth
65256yeast extract+growth

enzymes

@refvalueactivityec
65256catalase+1.11.1.6
65256cytochrome oxidase-1.9.3.1

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65256C12:02.4
    65256C16:05.3
    65256C16:0 3OH6.2
    65256C18:01.5
    65256C18:0 3OH1.8
    65256cyclo C19:0ω8c1.1
    65256C16:1ω7c and/or C16:1ω6c6
    65256C18:1ω7c and/or C18:1ω6c73.4
  • 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

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture compositionenrichment culture temperatureisolation procedure
64913water from a freshwater lakeHokkaido, Chitose, Lake OkotanpeJapanJPNAsia
65256water sample 10 m depth from the lake surfaceFreshwater lake (Lake Okotanpe) in HokkaidoJapanJPNAsiasynthetic 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-1015An 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

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
64913Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-104037Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 104037)
65256Rei Okamoto, Hisaya Kojima, Manabu FukuiAcidocella aquatica sp. nov., a novel acidophilic heterotrophic bacterium isolated from a freshwater lake10.1099/ijsem.0.002376IJSEM 67: 4773-4776 201728950932
69479João 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 betahttps://microbeatlas.org/
111074Reimer, 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 identifiers10.60712/SI-ID407945.1