Strain identifier

BacDive ID: 1895

Type strain: Yes

Species: Brucella thiophenivorans

Strain Designation: AK220

Strain history: <- J.R. Andreesen <- A. Kretzer, AK 220

NCBI tax ID(s): 571255 (species)

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General

@ref: 3055

BacDive-ID: 1895

DSM-Number: 7216

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, rod-shaped, colony-forming

description: Brucella thiophenivorans AK220 is a mesophilic, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from waste water.

NCBI tax id

  • NCBI tax id: 571255
  • Matching level: species

strain history

  • @ref: 3055
  • history: <- J.R. Andreesen <- A. Kretzer, AK 220

doi: 10.13145/bacdive1895.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Brucellaceae
  • genus: Brucella
  • species: Brucella thiophenivorans
  • full scientific name: Brucella thiophenivorans (Kämpfer et al. 2008) Hördt et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Ochrobactrum thiophenivorans

@ref: 3055

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Brucellaceae

genus: Brucella

species: Brucella thiophenivorans

full scientific name: Brucella thiophenivorans (Kämpfer et al. 2008) Hördt et al. 2020

strain designation: AK220

type strain: yes

Morphology

cell morphology

  • @ref: 23342
  • gram stain: negative
  • cell length: 2 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 23342
  • colony size: 2 mm
  • colony color: beige, translucent
  • colony shape: circular
  • incubation period: 1 day

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3055CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
3055MINERAL MEDIUM (NAGEL AND ANDREESEN) (DSMZ Medium 461)yeshttps://mediadive.dsmz.de/medium/461Name: MINERAL MEDIUM (NAGEL AND ANDREESEN) (DSMZ Medium 461) Composition: Na2HPO4 x 2 H2O 1.44135 g/l MgSO4 x 7 H2O 0.497018 g/l NH4Cl 0.298211 g/l KH2PO4 0.248509 g/l NaCl 0.0497018 g/l MnSO4 0.00994036 g/l CaCl2 0.00994036 g/l HCl 0.00248509 g/l FeCl2 x 4 H2O 0.00149105 g/l Thiamine-HCl x 2 H2O 0.000248509 g/l p-Aminobenzoic acid 0.000248509 g/l Vitamin B12 0.000248509 g/l Pantothenic acid 0.000248509 g/l Riboflavin 0.000248509 g/l alpha-lipoic acid 0.000248509 g/l CoCl2 x 6 H2O 0.000188867 g/l Nicotine amide 0.000124254 g/l Nicotinic acid 0.000124254 g/l Folic acid 9.94036e-05 g/l Biotin 9.94036e-05 g/l MnCl2 x 4 H2O 9.94036e-05 g/l ZnCl2 6.95825e-05 g/l Pyridoxamine hydrochloride 4.97018e-05 g/l Na2MoO4 x 2 H2O 3.57853e-05 g/l NiCl2 x 6 H2O 2.38569e-05 g/l H3BO3 5.96421e-06 g/l CuCl2 x 2 H2O 1.98807e-06 g/l Distilled water
23342MacConkeyyes
23342Nutrient agar (NA)yes
23342PYE agaryes
23342Reasoner's 2A agar (R2A)yes
23342Trypticase Soy Agar (TSA)yes

culture temp

@refgrowthtypetemperaturerange
3055positivegrowth30mesophilic
23342positivegrowth25-30mesophilic

Physiology and metabolism

spore formation

  • @ref: 23342
  • spore formation: no

compound production

  • @ref: 3055
  • compound: thiophene-2-carboxylate CoA esterase

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
23342178794-hydroxybenzoate-assimilation
2334215963ribitol-assimilation
2334217057cellobiose-assimilation
2334216383cis-aconitate-assimilation
2334216947citrate-assimilation
2334215971L-histidine-assimilation
2334215603L-leucine-assimilation
2334262345L-rhamnose-assimilation
2334268428maltitol-assimilation
2334217306maltose-assimilation
233429300suberic acid-assimilation
2334217992sucrose-assimilation
2334215708trans-aconitate-assimilation
2334227082trehalose-assimilation
23342gamma-L-glutamate-4-nitroanilide-hydrolysis
2334216865gamma-aminobutyric acid+assimilation
2334216958beta-alanine+assimilation
2334215824D-fructose+assimilation
233428391D-gluconate+assimilation
2334217924D-sorbitol+assimilation
23342370543-hydroxybutyrate+assimilation
2334229991L-aspartate+assimilation
2334217268myo-inositol+assimilation
2334228037N-acetylgalactosamine+assimilation
23342L-proline-4-nitroanilide+hydrolysis
23342506227N-acetylglucosamine+/-assimilation
2334291050p-nitrophenyl phenyl phosphonate+/-hydrolysis

enzymes

  • @ref: 23342
  • value: cytochrome oxidase
  • activity: +
  • ec: 1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
3055waste waterGöttingenGermanyDEUEurope
60578Waste waterGermanyDEUEurope2000

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Waste
  • Cat3: #Wastewater

taxonmaps

  • @ref: 69479
  • File name: preview.99_20039.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_45;97_1426;98_1736;99_20039&stattab=map
  • Last taxonomy: Ochrobactrum
  • 16S sequence: AM490617
  • Sequence Identity:
  • Total samples: 310
  • soil counts: 35
  • aquatic counts: 61
  • animal counts: 183
  • plant counts: 31

Safety information

risk assessment

  • @ref: 3055
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 3055
  • description: Ochrobactrum thiophenivorans partial 16S rRNA gene, type strain DSM 7216
  • accession: AM490617
  • length: 1387
  • database: ena
  • NCBI tax ID: 571255

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Brucella thiophenivorans DSM 7216GCA_002252445contigncbi571255
66792Ochrobactrum thiophenivorans strain DSM 7216571255.8wgspatric571255
66792Brucella thiophenivorans DSM 72162854902268draftimg571255

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno98.216yes
anaerobicno98.508no
halophileno90.287no
spore-formingno97.007no
glucose-utilyes91.975no
thermophileno98.836no
flagellatedno90.457yes
aerobicyes89.247no
motileno63.843yes
glucose-fermentno90.385no

External links

@ref: 3055

culture collection no.: DSM 7216, CCM 7492, CCUG 55412

straininfo link

  • @ref: 71539
  • straininfo: 48387

literature

  • topic: Phylogeny
  • Pubmed-ID: 18523190
  • title: Ochrobactrum rhizosphaerae sp. nov. and Ochrobactrum thiophenivorans sp. nov., isolated from the environment.
  • authors: Kampfer P, Sessitsch A, Schloter M, Huber B, Busse HJ, Scholz HC
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.65407-0
  • year: 2008
  • mesh: Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Fresh Water/*microbiology, Genes, rRNA, Genotype, Molecular Sequence Data, Nucleic Acid Hybridization, Ochrobactrum/*classification/genetics/isolation & purification/physiology, Phenotype, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Solanum tuberosum/*microbiology, Species Specificity, Waste Disposal, Fluid/*methods
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3055Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 7216)https://www.dsmz.de/collection/catalogue/details/culture/DSM-7216
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
23342Peter Kämpfer, Angela Sessitsch, Michael Schloter, Birgit Huber,Hans-Jürgen Busse, Holger C. Scholz10.1099/ijs.0.65407-0Ochrobactrum rhizosphaerae sp. nov. and Ochrobactrum thiophenivorans sp. nov., isolated from the environmentIJSEM 58: 1426-1431 200818523190
60578Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 55412)https://www.ccug.se/strain?id=55412
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
71539Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID48387.1StrainInfo: A central database for resolving microbial strain identifiers