Strain identifier
BacDive ID: 1574
Type strain: 
Species: Bacteriovorax stolpii
Strain Designation: UKi2
Strain history: <- ATCC <- M. P. Starr, ICPB <- S. F. Conti; UKi2
NCBI tax ID(s): 960 (species)
version 8.1 (current version)
General
@ref: 4813
BacDive-ID: 1574
DSM-Number: 12778
keywords: genome sequence, 16S sequence, Bacteria, Gram-negative
description: Bacteriovorax stolpii UKi2 is a Gram-negative bacterium of the family Bacteriovoracaceae.
NCBI tax id
- NCBI tax id: 960
- Matching level: species
strain history
- @ref: 4813
- history: <- ATCC <- M. P. Starr, ICPB <- S. F. Conti; UKi2
doi: 10.13145/bacdive1574.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Oligoflexia
- order: Bacteriovoracales
- family: Bacteriovoracaceae
- genus: Bacteriovorax
- species: Bacteriovorax stolpii
- full scientific name: Bacteriovorax stolpii (Seidler et al. 1972) Baer et al. 2000
synonyms
@ref synonym 20215 Bdellovibrio stolpii 20215 Bacteriolyticum stolpii
@ref: 4813
domain: Bacteria
phylum: Proteobacteria
class: Oligoflexia
order: Bdellovibrionales
family: Bacteriovoracaceae
genus: Bacteriovorax
species: Bacteriovorax stolpii
full scientific name: Bacteriovorax stolpii (Seidler et al. 1972) Baer et al. 2000
strain designation: UKi2
type strain: yes
Morphology
cell morphology
- @ref: 23067
- gram stain: negative
Culture and growth conditions
culture medium
- @ref: 4813
- name: BDELLOVIBRIO BACTERIOVORUS MEDIUM (DSMZ Medium 844)
- growth: yes
- link: https://mediadive.dsmz.de/medium/844
- composition: Name: BDELLOVIBRIO BACTERIOVORUS MEDIUM (DSMZ Medium 844) Composition: Agar 12.0 g/l Proteose peptone no. 3 1.0 g/l MgCl2 x 6 H2O 0.6 g/l CaCl2 x 2 H2O 0.3 g/l Yeast extract 0.3 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 23067 | positive | optimum | 15.0-35.0 | |
| 4813 | positive | growth | 30 | mesophilic |
Physiology and metabolism
antibiotic resistance
| @ref | ChEBI | metabolite | is antibiotic | is sensitive |
|---|---|---|---|---|
| 23067 | 17833 | gentamicin | yes | yes |
| 23067 | 6104 | kanamycin | yes | yes |
| 23067 | 6827 | methicillin | yes | yes |
| 23067 | 100147 | nalidixic acid | yes | yes |
| 23067 | 7507 | neomycin | yes | yes |
| 23067 | 17334 | penicillin | yes | yes |
| 23067 | 17076 | streptomycin | yes | yes |
| 23067 | 28001 | vancomycin | yes | yes |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 23067 | catalase | + | 1.11.1.6 |
| 23067 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
taxonmaps
- @ref: 69479
- File name: preview.99_98257.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15795;96_40015;97_51031;98_67254;99_98257&stattab=map
- Last taxonomy: Bacteriovorax stolpii subclade
- 16S sequence: AJ288899
- Sequence Identity:
- Total samples: 219
- soil counts: 7
- aquatic counts: 39
- animal counts: 168
- plant counts: 5
Safety information
risk assessment
- @ref: 4813
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Bdellovibrio bacteriovorus 16S rRNA gene, partial cds | M61239 | 752 | ena | 960 |
| 4813 | Bdellovibrio stolpii 16S rRNA gene, strain DSM 12778 | AJ288899 | 1371 | ena | 960 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Bacteriovorax stolpii DSM 12778 | GCA_002872415 | complete | ncbi | 960 |
| 66792 | Bacteriovorax stolpii DSM 12778 | GCA_004362635 | scaffold | ncbi | 960 |
| 66792 | Bacteriovorax stolpii strain DSM 12778 | 960.3 | patric | 960 | |
| 66792 | Bacteriovorax stolpii strain DSM 12778 | 960.4 | wgs | patric | 960 |
| 66792 | Bacteriovorax stolpii DSM 12778 | 2756170350 | draft | img | 960 |
| 66792 | Bacteriovorax stolpii UKi2 | 2802429278 | complete | img | 960 |
GC content
- @ref: 23067
- GC-content: 41.8
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 62.768 | no |
| gram-positive | no | 99.28 | yes |
| anaerobic | no | 95.313 | no |
| aerobic | yes | 69.971 | no |
| halophile | no | 92.425 | no |
| spore-forming | no | 92.245 | no |
| glucose-util | yes | 64.079 | no |
| thermophile | no | 97.747 | no |
| motile | yes | 91.197 | no |
| glucose-ferment | no | 92.77 | no |
External links
@ref: 4813
culture collection no.: DSM 12778, ATCC 27052, DSM 50722, ICPB 3291
straininfo link
- @ref: 71219
- straininfo: 45782
literature
| Pubmed-ID | title | authors | journal | DOI | year | mesh | topic | topic2 |
|---|---|---|---|---|---|---|---|---|
| 20094810 | Chemical structure of Bacteriovorax stolpii lipid A. | Beck S, Muller FD, Strauch E, Brecker L, Linscheid MW | Lipids | 10.1007/s11745-010-3383-6 | 2010 | Deltaproteobacteria/*chemistry, Fatty Acids/analysis, Lipid A/*chemistry, Nuclear Magnetic Resonance, Biomolecular, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization | ||
| 21984111 | Bacterial predators possess unique membrane lipid structures. | Muller FD, Beck S, Strauch E, Linscheid MW | Lipids | 10.1007/s11745-011-3614-5 | 2011 | Antibiosis/physiology, Bdellovibrio/*chemistry, Cell Wall/*chemistry, Chromatography, High Pressure Liquid, Chromatography, Thin Layer, Deltaproteobacteria/*chemistry, Glutamates/metabolism, Glycerophospholipids/analysis, Membrane Lipids/*analysis, Phosphatidylethanolamines/analysis, Sphingolipids/analysis, Tandem Mass Spectrometry, Threonine/analogs & derivatives/analysis | Proteome | Metabolism |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 4813 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12778) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12778 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 23067 | M. L. Baer,J. Ravel,J. Chun,R. T. Hill,H. N. Williams | 10.1099/00207713-50-1-219 | A proposal for the reclassification of Bdellovibrio stolpii and Bdellovibrio starrii into a new genus, Bacteriovorax gen. nov. as Bacteriovorax stolpii comb. nov. and Bacteriovorax starrii comb. nov., respectively. | IJSEM 50: 219-224 2000 | 10826807 | |
| 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) | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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 | |||
| 71219 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID45782.1 | StrainInfo: A central database for resolving microbial strain identifiers |