Strain identifier
BacDive ID: 23785
Type strain: 
Species: Bartonella florencae
Strain Designation: R4
Strain history: <- O. Mediannikov, URMITE, 27 bd Jean Moulin, 13385 Marseille Cedex 05, France; R4
NCBI tax ID(s): 928210 (species)
version 8.1 (current version)
General
@ref: 20455
BacDive-ID: 23785
DSM-Number: 23735
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-negative, animal pathogen
description: Bartonella florencae R4 is a microaerophile, mesophilic, Gram-negative animal pathogen that was isolated from spleen of a shrew found dead without evident signs of trauma.
NCBI tax id
- NCBI tax id: 928210
- Matching level: species
strain history
- @ref: 20455
- history: <- O. Mediannikov, URMITE, 27 bd Jean Moulin, 13385 Marseille Cedex 05, France; R4
doi: 10.13145/bacdive23785.20230509.8.1
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 florencae
- full scientific name: Bartonella florencae corrig. Mediannikov et al. 2014
synonyms
- @ref: 20215
- synonym: Bartonella florenciae
@ref: 20455
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Bartonellaceae
genus: Bartonella
species: Bartonella florencae
full scientific name: Bartonella florencae Mediannikov et al. 2014
strain designation: R4
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.985
colony morphology
- @ref: 20455
- type of hemolysis: gamma
- incubation period: 2-3 days
Culture and growth conditions
culture medium
- @ref: 20455
- name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)
- growth: yes
- link: https://mediadive.dsmz.de/medium/693
- composition: Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
culture temp
- @ref: 20455
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 20455
- oxygen tolerance: microaerophile
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.998 |
Isolation, sampling and environmental information
isolation
- @ref: 20455
- sample type: spleen of a shrew (Crocidura russula) found dead without evident signs of trauma
- host species: Crocidura russula
- geographic location: Marseille suburb, calanque d’En-Vau
- country: France
- origin.country: FRA
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Other | #Decomposing animal |
| #Host | #Mammals | |
| #Host Body-Site | #Organ | #Spleen |
taxonmaps
- @ref: 69479
- File name: preview.99_1245.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_247;97_656;98_758;99_1245&stattab=map
- Last taxonomy: Bartonella
- 16S sequence: HM622139
- Sequence Identity:
- Total samples: 172
- soil counts: 29
- aquatic counts: 22
- animal counts: 118
- plant counts: 3
Safety information
risk assessment
- @ref: 20455
- pathogenicity animal: yes
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20455
- description: Bartonella florencae strain R4 from France 16S ribosomal RNA gene, partial sequence
- accession: HM622139
- length: 1411
- database: ena
- NCBI tax ID: 928210
Genome sequences
- @ref: 66792
- description: Bartonella florencae R4
- accession: GCA_000312525
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 928210
GC content
- @ref: 20455
- GC-content: 38.5
- method: sequence analysis
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 90.064 | no |
| flagellated | no | 97.9 | no |
| gram-positive | no | 98.282 | no |
| anaerobic | no | 97.84 | yes |
| aerobic | no | 95.487 | yes |
| halophile | no | 59.229 | no |
| spore-forming | no | 97.195 | no |
| glucose-util | no | 50.934 | no |
| thermophile | no | 91.487 | yes |
| glucose-ferment | no | 77.174 | no |
External links
@ref: 20455
culture collection no.: DSM 23735, CSUR B627
straininfo link
- @ref: 87817
- straininfo: 397957
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 | |
| 20455 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23735 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23735) | |
| 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 | |
| 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 | |
| 87817 | 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-ID397957.1 |