Strain identifier

BacDive ID: 1899

Type strain: Yes

Species: Brucella pecoris

Strain Designation: 08RB2639

Strain history: <- P. Kämpfer, Justus-Liebig-Universität, Giessen, Germany; 08RB2639 <- F. Melzer

NCBI tax ID(s): 867683 (species)

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General

@ref: 17417

BacDive-ID: 1899

DSM-Number: 23868

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, rod-shaped, animal pathogen

description: Brucella pecoris 08RB2639 is a mesophilic, Gram-negative, rod-shaped animal pathogen that was isolated from genitourinary lymph node of a sheep .

NCBI tax id

  • NCBI tax id: 867683
  • Matching level: species

strain history

  • @ref: 17417
  • history: <- P. Kämpfer, Justus-Liebig-Universität, Giessen, Germany; 08RB2639 <- F. Melzer

doi: 10.13145/bacdive1899.20230509.8.1

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 pecoris
  • full scientific name: Brucella pecoris (Kämpfer et al. 2011) Hördt et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Ochrobactrum pecoris

@ref: 17417

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Brucellaceae

genus: Brucella

species: Brucella pecoris

full scientific name: Brucella pecoris (Kämpfer et al. 2011) Hördt et al. 2020

strain designation: 08RB2639

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
23345negativerod-shapedno
69480yes92.594
69480negative99.995

colony morphology

@reftype of hemolysishemolysis abilityincubation periodcolony sizecolony colorcolony shape
17417alpha/beta11-2 days
233451 day2 mmbeige, translucentcircular

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17417TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
17417CASO 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
23345MacConkeyyes
23345Nutrient agar (NA)yes
23345Reasoner's 2A agar (R2A)yes
23345Trypticase Soy Agar (TSA)yes

culture temp

@refgrowthtypetemperaturerange
17417positivegrowth30mesophilic
23345positivegrowth25-30mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
23345no
69481no100
69480no99.992

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
23345911224-nitrophenyl alpha-D-glucopyranoside-hydrolysis
233453557154-nitrophenyl beta-D-galactopyranoside-hydrolysis
23345902594-nitrophenyl beta-D-glucopyranoside-hydrolysis
23345901464-nitrophenyl beta-D-glucuronide-hydrolysis
2334555394bis-4-nitrophenyl-phosphorylcholine-hydrolysis
233454853esculin-hydrolysis
23345161933-hydroxybenzoate-
2334517128adipate-
2334518305arbutin-
2334578208azelaate-
2334516383cis-aconitate-
2334517240itaconate-
2334517295L-phenylalanine-
2334516828L-tryptophan-
2334528053melibiose-
2334536986mesaconate-
2334518401phenylacetate-
2334517148putrescine-
2334526546rhamnose-
2334517814salicin-
233459300suberic acid-
2334516865gamma-aminobutyric acid+assimilation
2334530089acetate+assimilation
2334516958beta-alanine+assimilation
2334517057cellobiose+assimilation
2334515963ribitol+assimilation
2334515824D-fructose+assimilation
2334512936D-galactose+assimilation
2334517634D-glucose+assimilation
2334516024D-mannose+assimilation
2334516988D-ribose+assimilation
2334517924D-sorbitol+assimilation
2334565327D-xylose+assimilation
2334524996lactate+assimilation
2334529806fumarate+assimilation
2334517859glutaric acid+assimilation
2334516977L-alanine+assimilation
2334530849L-arabinose+assimilation
2334529991L-aspartate+assimilation
2334515971L-histidine+assimilation
2334515603L-leucine+assimilation
2334515589L-malate+assimilation
2334517203L-proline+assimilation
2334517115L-serine+assimilation
2334517306maltose+assimilation
2334528037N-acetylgalactosamine+assimilation
23345506227N-acetylglucosamine+assimilation
2334518257ornithine+assimilation
23345309162-oxoglutarate+assimilation
2334517272propionate+assimilation
2334515361pyruvate+assimilation
2334517992sucrose+assimilation
2334527082trehalose+assimilation
23345L-alanine 4-nitroanilide+hydrolysis
2334591050p-nitrophenyl phenyl phosphonate+hydrolysis
2334516947citrate+/-assimilation
2334517268myo-inositol+/-assimilation
2334591050bis-4-nitrophenyl-phenyl phosphonate+/-hydrolysis
23345L-proline-4-nitroanilide+/-hydrolysis
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate+assimilation
6836917306maltose+assimilation
6836959640N-acetylglucosamine+assimilation
6836916899D-mannitol+assimilation
6836916024D-mannose+assimilation
6836930849L-arabinose+assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea+hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
17417catalase+1.11.1.6
17417cytochrome-c oxidase+1.9.3.1
23345cytochrome oxidase+1.9.3.1
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease+3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
17417+---++--+++++++--+--+

Isolation, sampling and environmental information

isolation

  • @ref: 17417
  • sample type: genitourinary lymph node of a sheep (Ovis aries)
  • host species: Ovis aries
  • country: Bosnia and Herzegovina
  • origin.country: BIH
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Caprinae (Sheep/Goat)
#Host Body-Site#Urogenital tract
#Host Body-Site#Organ#Lymph node

Safety information

risk assessment

  • @ref: 17417
  • pathogenicity animal: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17417
  • description: Ochrobactrum pecoris partial 16S rRNA gene, type strain 08RB2639T
  • accession: FR668302
  • length: 1386
  • database: ena
  • NCBI tax ID: 867683

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Brucella pecoris 08RB2639GCA_006376675contigncbi867683
66792Brucella pecoris DSM 23868GCA_014197065scaffoldncbi867683
66792Brucella pecoris DSM 23868GCA_012395285contigncbi867683
66792Ochrobactrum pecoris strain DSM 23868867683.4wgspatric867683
66792Ochrobactrum pecoris strain DSM 23868867683.5wgspatric867683
66792Brucella pecoris DSM 238682830083187draftimg867683

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno87.165yes
gram-positiveno98.549yes
anaerobicno97.631no
aerobicyes89.882no
halophileno93.647no
spore-formingno96.264yes
glucose-utilyes92.931yes
thermophileno99.017yes
glucose-fermentno91.671yes
motileyes79.516yes

External links

@ref: 17417

culture collection no.: DSM 23868, CCM 7822, CCUG 60088

straininfo link

  • @ref: 71543
  • straininfo: 403622

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20952542Ochrobactrum pecoris sp. nov., isolated from farm animals.Kampfer P, Huber B, Busse HJ, Scholz HC, Tomaso H, Hotzel H, Melzer FInt J Syst Evol Microbiol10.1099/ijs.0.027631-02010Animals, Animals, Domestic/microbiology, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Ochrobactrum/*classification/genetics/*isolation & purification, Phospholipids/analysis, Phylogeny, Polyamines/analysis, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rec A Recombinases/genetics, Sequence Analysis, DNA, Sheep/*microbiology, Sus scrofa/*microbiologyGenetics
Phylogeny32100690Ochrobactrum teleogrylli sp. nov., a pesticide-degrading bacterium isolated from the insect Teleogryllus occipitalis living in deserted cropland.Hu M, Li X, Li Z, Liu B, Yang Z, Tian YInt J Syst Evol Microbiol10.1099/ijsem.0.0039642020Agriculture, Animals, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gryllidae/*microbiology, Nucleic Acid Hybridization, Ochrobactrum/*classification/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17417Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23868)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23868
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
23345Peter Kämpfer, Bettina Huber, Hans-Jürgen Busse, Holger C. Scholz, Herbert Tomaso, Helmut Hotzel, Falk Melzer10.1099/ijs.0.027631-0Ochrobactrum pecoris sp. nov., isolated from farm animalsIJSEM 61: 2278-2283 201120952542
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)
68369Automatically annotated from API 20NE
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
71543Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID403622.1StrainInfo: A central database for resolving microbial strain identifiers