Strain identifier

BacDive ID: 23779

Type strain: Yes

Species: Bartonella tribocorum

Strain history: CIP <- 1998, R. Heller, ULP, Strasbourg, France: strain IBS 506

NCBI tax ID(s): 382640 (strain), 85701 (species)

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General

@ref: 20449

BacDive-ID: 23779

DSM-Number: 28219

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

description: Bartonella tribocorum DSM 28219 is a mesophilic, Gram-negative animal pathogen that was isolated from blood of wild rats .

NCBI tax id

NCBI tax idMatching level
382640strain
85701species

strain history

@refhistory
20449<- CIP <- R. Heller; IBS 506
358251998, R. Heller, ULP, Strasbourg, France: strain IBS 506
123582CIP <- 1998, R. Heller, ULP, Strasbourg, France: strain IBS 506

doi: 10.13145/bacdive23779.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Bartonellaceae
  • genus: Bartonella
  • species: Bartonella tribocorum
  • full scientific name: Bartonella tribocorum Heller et al. 1998

@ref: 20449

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Bartonellaceae

genus: Bartonella

species: Bartonella tribocorum

full scientific name: Bartonella tribocorum Heller et al. 1998

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.983
123582negativerod-shapedno

colony morphology

@reftype of hemolysisincubation period
20449gamma1-2 days
123582

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
20449COLUMBIA BLOOD AGAR (DSMZ Medium 429)yeshttps://mediadive.dsmz.de/medium/429Name: COLUMBIA BLOOD AGAR (DSMZ Medium 429; with strain-specific modifications) Composition: Horse blood 100.0 g/l Columbia agar base
35825MEDIUM 45 - for Columbia agar with sheep bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Sheepblood (100.000 ml)
123582CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45

culture temp

@refgrowthtypetemperaturerange
20449positivegrowth37mesophilic
35825positivegrowth37mesophilic
123582positivegrowth25-37mesophilic
123582nogrowth10psychrophilic
123582nogrowth15psychrophilic
123582nogrowth41thermophilic
123582nogrowth45thermophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.994

halophily

@refsaltgrowthtested relationconcentration
123582NaClpositivegrowth0-8 %
123582NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1235824853esculin-hydrolysis
123582606565hippurate-hydrolysis
12358217632nitrate-reduction
12358216301nitrite-reduction

antibiotic resistance

  • @ref: 123582
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 123582
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12358215688acetoin-
12358217234glucose-

enzymes

@refvalueactivityec
20449catalase-1.11.1.6
20449cytochrome-c oxidase-1.9.3.1
123582oxidase-
123582beta-galactosidase-3.2.1.23
123582alcohol dehydrogenase-1.1.1.1
123582gelatinase-
123582catalase-1.11.1.6
123582gamma-glutamyltransferase-2.3.2.2
123582lysine decarboxylase-4.1.1.18
123582ornithine decarboxylase-4.1.1.17
123582phenylalanine ammonia-lyase-4.3.1.24
123582tryptophan deaminase-
123582urease-3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123582--++-+----++---+----

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinent
20449blood of wild rats (Rattus norvegicus)Rattus norvegicusFranceFRAEurope
56920Wild rat bloodFranceFRAEurope
123582Wild rat, bloodFranceFRAEurope

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Muridae (Mouse/Rat)
#Host Body Product#Fluids#Blood

taxonmaps

  • @ref: 69479
  • File name: preview.99_972.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_247;97_656;98_758;99_972&stattab=map
  • Last taxonomy: Bartonella
  • 16S sequence: AM260525
  • Sequence Identity:
  • Total samples: 1497
  • soil counts: 187
  • aquatic counts: 669
  • animal counts: 589
  • plant counts: 52

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
20449yes2Risk group (German classification)
1235822Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20449
  • description: Bartonella tribocorum CIP 105476 complete genome, type strain CIP 105476
  • accession: AM260525
  • length: 2619061
  • database: ena
  • NCBI tax ID: 382640

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bartonella tribocorum CIP 105476 type strain:506 = CIP 105476GCA_000196435completencbi382640
66792Bartonella tribocorum CIP 105476382640.5completepatric382640
66792Bartonella tribocorum CIP 105476 strain type strain:506 = CIP105476 strain type strain:506 = CIP 105476382640.9plasmidpatric382640
66792Bartonella tribocorum CIP 105476641228478completeimg382640

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno91.15no
flagellatedno97.992no
gram-positiveno98.242no
anaerobicno97.401no
aerobicno95.646no
halophileno59.994no
spore-formingno97.512no
thermophileno91.498yes
glucose-utilno51.226no
glucose-fermentno75.556no

External links

@ref: 20449

culture collection no.: DSM 28219, CCUG 45778, CIP 105476, IBS 506

straininfo link

  • @ref: 87811
  • straininfo: 67572

literature

  • topic: Phylogeny
  • Pubmed-ID: 9828434
  • title: Bartonella tribocorum sp. nov., a new Bartonella species isolated from the blood of wild rats.
  • authors: Heller R, Riegel P, Hansmann Y, Delacour G, Bermond D, Dehio C, Lamarque F, Monteil H, Chomel B, Piemont Y
  • journal: Int J Syst Bacteriol
  • DOI: 10.1099/00207713-48-4-1333
  • year: 1998
  • mesh: Animals, Animals, Wild, Bacteremia/microbiology/veterinary, Bartonella/*classification/genetics/*isolation & purification/physiology, Bartonella Infections/microbiology/*veterinary, Base Composition, Citrate (si)-Synthase/genetics, DNA, Bacterial/chemistry, Genes, rRNA, Humans, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, RNA, Ribosomal, 16S/genetics, *Rats, Rodent Diseases/*microbiology, Sequence Analysis, DNA, Terminology as Topic, Zoonoses
  • topic2: Pathogenicity

Reference

@idauthorstitledoi/urlcatalogue
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
20449Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28219Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28219)
35825Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17499
56920Curators of the CCUGhttps://www.ccug.se/strain?id=45778Culture Collection University of Gothenburg (CCUG) (CCUG 45778)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68382Automatically annotated from API zym
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/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
87811Reimer, 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-ID67572.1
123582Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105476Collection of Institut Pasteur (CIP 105476)