Strain identifier
BacDive ID: 1894
Type strain:
Species: Brucella rhizosphaerae
Strain Designation: PR17
Strain history: <- P. Kämpfer; PR17 <- H. Scholz;
NCBI tax ID(s): 571254 (species)
General
@ref: 8336
BacDive-ID: 1894
DSM-Number: 19824
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, motile, rod-shaped, colony-forming
description: Brucella rhizosphaerae PR17 is a mesophilic, Gram-negative, motile bacterium that forms circular colonies and was isolated from rhizosphere .
NCBI tax id
- NCBI tax id: 571254
- Matching level: species
strain history
- @ref: 8336
- history: <- P. Kämpfer; PR17 <- H. Scholz;
doi: 10.13145/bacdive1894.20230509.8.1
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 rhizosphaerae
- full scientific name: Brucella rhizosphaerae (Kämpfer et al. 2008) Hördt et al. 2020
synonyms
- @ref: 20215
- synonym: Ochrobactrum rhizosphaerae
@ref: 8336
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Brucellaceae
genus: Brucella
species: Brucella rhizosphaerae
full scientific name: Brucella rhizosphaerae (Kämpfer et al. 2008) Hördt et al. 2020
strain designation: PR17
type strain: yes
Morphology
cell morphology
- @ref: 23342
- gram stain: negative
- cell length: 2 µm
- cell shape: rod-shaped
- motility: yes
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
@ref | name | growth | link | composition |
---|---|---|---|---|
8336 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
23342 | MacConkey | yes | ||
23342 | Nutrient agar (NA) | yes | ||
23342 | PYE agar | yes | ||
23342 | Reasoner's 2A agar (R2A) | yes | ||
23342 | Trypticase Soy Agar (TSA) | yes |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8336 | positive | growth | 28 | mesophilic |
23342 | growth | 25-30 | mesophilic |
Physiology and metabolism
spore formation
- @ref: 23342
- spore formation: no
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
23342 | 17879 | 4-hydroxybenzoate | - | assimilation |
23342 | 8391 | D-gluconate | - | assimilation |
23342 | 9300 | suberic acid | - | assimilation |
23342 | gamma-L-glutamate-4-nitroanilide | - | hydrolysis | |
23342 | 16865 | gamma-aminobutyric acid | + | assimilation |
23342 | 15963 | ribitol | + | assimilation |
23342 | 16958 | beta-alanine | + | assimilation |
23342 | 17057 | cellobiose | + | assimilation |
23342 | 16383 | cis-aconitate | + | assimilation |
23342 | 16947 | citrate | + | assimilation |
23342 | 15824 | D-fructose | + | assimilation |
23342 | 17924 | D-sorbitol | + | assimilation |
23342 | 37054 | 3-hydroxybutyrate | + | assimilation |
23342 | 29991 | L-aspartate | + | assimilation |
23342 | 15971 | L-histidine | + | assimilation |
23342 | 15603 | L-leucine | + | assimilation |
23342 | 62345 | L-rhamnose | + | assimilation |
23342 | 68428 | maltitol | + | assimilation |
23342 | 17306 | maltose | + | assimilation |
23342 | 17268 | myo-inositol | + | assimilation |
23342 | 28037 | N-acetylgalactosamine | + | assimilation |
23342 | 17992 | sucrose | + | assimilation |
23342 | 15708 | trans-aconitate | + | assimilation |
23342 | 27082 | trehalose | + | assimilation |
23342 | L-proline-4-nitroanilide | + | hydrolysis | |
23342 | 91050 | p-nitrophenyl phenyl phosphonate | + | hydrolysis |
23342 | 506227 | N-acetylglucosamine | +/- | assimilation |
68369 | 25115 | malate | + | assimilation |
68369 | 17128 | adipate | - | assimilation |
68369 | 17306 | maltose | + | assimilation |
68369 | 59640 | N-acetylglucosamine | + | assimilation |
68369 | 16899 | D-mannitol | + | assimilation |
68369 | 16024 | D-mannose | + | assimilation |
68369 | 30849 | L-arabinose | + | assimilation |
68369 | 17634 | D-glucose | + | assimilation |
68369 | 5291 | gelatin | - | hydrolysis |
68369 | 4853 | esculin | - | hydrolysis |
68369 | 16199 | urea | - | hydrolysis |
68369 | 29016 | arginine | - | hydrolysis |
68369 | 17634 | D-glucose | - | fermentation |
68369 | 27897 | tryptophan | - | energy source |
68369 | 17632 | nitrate | - | reduction |
metabolite production
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
23342 | cytochrome oxidase | + | 1.9.3.1 |
68369 | cytochrome oxidase | + | 1.9.3.1 |
68369 | gelatinase | - | |
68369 | beta-glucosidase | - | 3.2.1.21 |
68369 | urease | - | 3.5.1.5 |
68369 | arginine dihydrolase | - | 3.5.3.6 |
API 20NE
@ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC | OX |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8336 | - | - | - | - | - | - | - | - | + | + | + | + | + | + | +/- | +/- | - | + | + | - | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | sampling date |
---|---|---|---|---|---|
8336 | rhizosphere (potato) | Austria | AUT | Europe | |
60577 | Potato rhizosphere | Austria | AUT | Europe | 2000 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | ||
#Host Body-Site | #Plant | #Rhizosphere |
taxonmaps
- @ref: 69479
- File name: preview.99_5582.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_45;97_1426;98_4165;99_5582&stattab=map
- Last taxonomy: Ochrobactrum
- 16S sequence: AM490632
- Sequence Identity:
- Total samples: 892
- soil counts: 290
- aquatic counts: 117
- animal counts: 411
- plant counts: 74
Safety information
risk assessment
- @ref: 8336
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 8336
- description: Ochrobactrum rhizosphaerae partial 16S rRNA gene, type strain PR17
- accession: AM490632
- length: 1387
- database: ena
- NCBI tax ID: 571254
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Brucella rhizosphaerae PR17 | GCA_002252475 | contig | ncbi | 571254 |
66792 | Brucella rhizosphaerae PR17 | 2854869019 | draft | img | 571254 |
External links
@ref: 8336
culture collection no.: DSM 19824, CCM 7493, CCUG 55411
straininfo link
- @ref: 71538
- straininfo: 402054
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
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8336 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19824) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19824 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
23342 | Peter Kämpfer, Angela Sessitsch, Michael Schloter, Birgit Huber,Hans-Jürgen Busse, Holger C. Scholz | 10.1099/ijs.0.65407-0 | Ochrobactrum rhizosphaerae sp. nov. and Ochrobactrum thiophenivorans sp. nov., isolated from the environment | IJSEM 58: 1426-1431 2008 | 18523190 | |
60577 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 55411) | https://www.ccug.se/strain?id=55411 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
68369 | Automatically annotated from API 20NE | |||||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
71538 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID402054.1 | StrainInfo: A central database for resolving microbial strain identifiers |