Strain identifier
BacDive ID: 23778
Type strain:
Species: Bartonella vinsonii subsp. berkhoffii
Strain Designation: 93-CO1, 93-C01
Strain history: CIP <- 1996, E.B. Breitschwerdt, Coll. Vet. Med., Raleigh, NC, USA: strain 93-C01
NCBI tax ID(s): 1408318 (strain), 40933 (subspecies)
General
@ref: 20448
BacDive-ID: 23778
DSM-Number: 28220
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-negative
description: Bartonella vinsonii subsp. berkhoffii 93-CO1 is a microaerophile, mesophilic, Gram-negative bacterium that was isolated from canine blood.
NCBI tax id
NCBI tax id | Matching level |
---|---|
40933 | subspecies |
1408318 | strain |
strain history
@ref | history |
---|---|
20448 | <- CIP <- E. B. Breitschwerdt; 93-CO1 |
123849 | CIP <- 1996, E.B. Breitschwerdt, Coll. Vet. Med., Raleigh, NC, USA: strain 93-C01 |
doi: 10.13145/bacdive23778.20230509.8.1
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 vinsonii subsp. berkhoffii
- full scientific name: Bartonella vinsonii subsp. berkhoffii Kordick et al. 1996
@ref: 20448
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Bartonellaceae
genus: Bartonella
species: Bartonella vinsonii subsp. berkhoffii
full scientific name: Bartonella vinsonii subsp. berkhoffii Kordick et al. 1996
strain designation: 93-CO1, 93-C01
type strain: yes
Morphology
cell morphology
@ref | gram stain | confidence | cell shape | motility |
---|---|---|---|---|
69480 | negative | 99.978 | ||
123849 | negative | rod-shaped | no |
colony morphology
@ref | incubation period |
---|---|
20448 | 1-2 days |
56921 | 3 days |
123849 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
20448 | COLUMBIA BLOOD AGAR (DSMZ Medium 429) | yes | https://mediadive.dsmz.de/medium/429 | Name: COLUMBIA BLOOD AGAR (DSMZ Medium 429; with strain-specific modifications) Composition: Horse blood 100.0 g/l Columbia agar base |
34222 | MEDIUM 45 - for Columbia agar with sheep blood | yes | Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Sheepblood (100.000 ml) | |
123849 | CIP Medium 45 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
20448 | positive | growth | 37 | mesophilic |
34222 | positive | growth | 37 | mesophilic |
56921 | positive | growth | 37 | mesophilic |
123849 | positive | growth | 30-37 | mesophilic |
123849 | no | growth | 25 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 56921
- oxygen tolerance: microaerophile
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.998 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
123849 | NaCl | positive | growth | 0 % |
123849 | NaCl | no | growth | 2 % |
123849 | NaCl | no | growth | 4 % |
123849 | NaCl | no | growth | 6 % |
123849 | NaCl | no | growth | 8 % |
123849 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | L-fucose | - | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | - | builds acid from | 32528 |
68371 | gentiobiose | - | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | raffinose | - | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | - | builds acid from | 27082 |
68371 | sucrose | - | builds acid from | 17992 |
68371 | melibiose | - | builds acid from | 28053 |
68371 | lactose | - | builds acid from | 17716 |
68371 | maltose | - | builds acid from | 17306 |
68371 | cellobiose | - | builds acid from | 17057 |
68371 | salicin | - | builds acid from | 17814 |
68371 | esculin | - | builds acid from | 4853 |
68371 | arbutin | - | builds acid from | 18305 |
68371 | amygdalin | - | builds acid from | 27613 |
68371 | N-acetylglucosamine | - | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | - | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-rhamnose | - | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-mannose | - | builds acid from | 16024 |
68371 | D-fructose | - | builds acid from | 15824 |
68371 | D-glucose | - | builds acid from | 17634 |
68371 | D-galactose | - | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | - | builds acid from | 65327 |
68371 | D-ribose | - | builds acid from | 16988 |
68371 | L-arabinose | - | builds acid from | 30849 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | - | builds acid from | 17754 |
123849 | esculin | - | hydrolysis | 4853 |
123849 | hippurate | + | hydrolysis | 606565 |
123849 | nitrate | - | reduction | 17632 |
123849 | nitrite | - | reduction | 16301 |
metabolite production
- @ref: 123849
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | methylred-test |
---|---|---|---|---|
123849 | 15688 | acetoin | - | |
123849 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
123849 | oxidase | - | |
123849 | beta-galactosidase | + | 3.2.1.23 |
123849 | alcohol dehydrogenase | - | 1.1.1.1 |
123849 | gelatinase | - | |
123849 | gamma-glutamyltransferase | + | 2.3.2.2 |
123849 | lysine decarboxylase | - | 4.1.1.18 |
123849 | ornithine decarboxylase | - | 4.1.1.17 |
123849 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
123849 | tryptophan deaminase | - | |
123849 | urease | - | 3.5.1.5 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | - | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123849 | - | + | + | + | - | + | - | - | - | - | - | + | - | - | - | + | - | - | - | - |
API 50CHac
@ref | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
123849 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | sampling date | country | origin.country | continent | geographic location | isolation date |
---|---|---|---|---|---|---|---|
20448 | canine blood | ||||||
56921 | Canine blood | 1993 | USA | USA | North America | ||
123849 | Animal, Canine, blood | United States of America | USA | North America | North Carolina | 1993 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Mammals | #Canidae (Dog) |
#Host Body Product | #Fluids | #Blood |
taxonmaps
- @ref: 69479
- File name: preview.99_1581.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_247;97_656;98_1248;99_1581&stattab=map
- Last taxonomy: Bartonella
- 16S sequence: L35052
- Sequence Identity:
- Total samples: 72
- soil counts: 3
- aquatic counts: 2
- animal counts: 67
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
20448 | 2 | Risk group (German classification) |
123849 | 2 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 20448
- description: Bartonella vinsonii subsp. berkhoffii 16S ribosomal RNA gene, partial sequence
- accession: L35052
- length: 1432
- database: ena
- NCBI tax ID: 40933
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Bartonella vinsonii subsp. berkhoffii ATCC 51672 CIP 104960 | GCA_902825225 | scaffold | ncbi | 1408318 |
66792 | Bartonella vinsonii subsp. berkhoffii ATCC 51672 | GCA_000518105 | scaffold | ncbi | 1408318 |
66792 | Bartonella vinsonii subsp. berkhoffii ATCC 51672 | 1408318.3 | wgs | patric | 1408318 |
66792 | Bartonella vinsonii subsp. berkhoffii ATCC 51672 strain CIP 104960 | 1408318.6 | wgs | patric | 1408318 |
66792 | Bartonella vinsonii berkhoffii ATCC 51672 | 2545555862 | draft | img | 1408318 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | no | 97.626 | no |
gram-positive | no | 98.306 | no |
anaerobic | no | 97.6 | yes |
aerobic | no | 95.461 | no |
halophile | no | 61.426 | no |
spore-forming | no | 97.385 | no |
thermophile | no | 87.781 | yes |
glucose-util | no | 52.137 | no |
motile | no | 88.297 | no |
glucose-ferment | no | 75.247 | no |
External links
@ref: 20448
culture collection no.: DSM 28220, ATCC 51672, CCUG 45779, CIP 104960
straininfo link
- @ref: 87810
- straininfo: 43111
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 8782679 | Bartonella vinsonii subsp. berkhoffii subsp. nov., isolated from dogs; Bartonella vinsonii subsp. vinsonii; and emended description of Bartonella vinsonii. | Kordick DL, Swaminathan B, Greene CE, Wilson KH, Whitney AM, O'Connor S, Hollis DG, Matar GM, Steigerwalt AG, Malcolm GB, Hayes PS, Hadfield TL, Breitschwerdt EB, Brenner DJ | Int J Syst Bacteriol | 10.1099/00207713-46-3-704 | 1996 | Animals, Bartonella/*classification/genetics/isolation & purification/metabolism, Bartonella Infections/microbiology/*veterinary, Base Sequence, DNA, Bacterial, Dog Diseases/*microbiology, Dogs, Endocarditis, Bacterial/microbiology/*veterinary, Fatty Acids/analysis, Molecular Sequence Data, Polymerase Chain Reaction/veterinary, Polymorphism, Restriction Fragment Length, RNA, Bacterial, RNA, Ribosomal, 16S | Genetics |
Enzymology | 11060089 | Coyotes (Canis latrans) as the reservoir for a human pathogenic Bartonella sp.: molecular epidemiology of Bartonella vinsonii subsp. berkhoffii infection in coyotes from central coastal California. | Chang CC, Kasten RW, Chomel BB, Simpson DC, Hew CM, Kordick DL, Heller R, Piemont Y, Breitschwerdt EB | J Clin Microbiol | 10.1128/JCM.38.11.4193-4200.2000 | 2000 | Animals, Antibodies, Bacterial/blood, Bacteremia/microbiology/veterinary, Bacterial Typing Techniques/methods, Bartonella/classification/genetics/*isolation & purification, Bartonella Infections/epidemiology/microbiology/*veterinary, California/epidemiology, Carnivora/*microbiology, Child, *Disease Reservoirs, Dogs, Electrophoresis, Gel, Pulsed-Field/methods, Humans, Molecular Epidemiology, Polymerase Chain Reaction/methods, Polymorphism, Restriction Fragment Length, Zoonoses | Phylogeny |
Reference
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |
20448 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-28220 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28220) | |
34222 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/16926 | ||
56921 | Curators of the CCUG | https://www.ccug.se/strain?id=45779 | Culture Collection University of Gothenburg (CCUG) (CCUG 45779) | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
68371 | Automatically annotated from API 50CH acid | |||
68382 | Automatically annotated from API zym | |||
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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions 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 | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |
87810 | Reimer, 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 identifiers | 10.60712/SI-ID43111.1 | |
123849 | Curators of the CIP | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104960 | Collection of Institut Pasteur (CIP 104960) |