Strain identifier
BacDive ID: 3029
Type strain: 
Species: Pseudorhodoferax caeni
Strain Designation: SB1
Strain history: <- N. Bruland, Univ. Münster, Inst. Mol. Microbiol. Biotechnol., Germany; SB1 <- S. Bathe
NCBI tax ID(s): 255042 (species)
version 8.1 (current version)
General
@ref: 15836
BacDive-ID: 3029
DSM-Number: 21598
keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Pseudorhodoferax caeni SB1 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from activated sludge.
NCBI tax id
- NCBI tax id: 255042
- Matching level: species
strain history
- @ref: 15836
- history: <- N. Bruland, Univ. Münster, Inst. Mol. Microbiol. Biotechnol., Germany; SB1 <- S. Bathe
doi: 10.13145/bacdive3029.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Pseudorhodoferax
- species: Pseudorhodoferax caeni
- full scientific name: Pseudorhodoferax caeni Bruland et al. 2009
@ref: 15836
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Pseudorhodoferax
species: Pseudorhodoferax caeni
full scientific name: Pseudorhodoferax caeni Bruland et al. 2009
strain designation: SB1
type strain: yes
Morphology
cell morphology
- @ref: 29123
- gram stain: negative
- cell length: 2.4 µm
- cell width: 0.95 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 29123
- production: yes
Culture and growth conditions
culture medium
- @ref: 15836
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 15836 | positive | growth | 28 | mesophilic |
| 29123 | positive | optimum | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 29123
- oxygen tolerance: aerobe
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 29123 | 30089 | acetate | + | carbon source |
| 29123 | 16947 | citrate | + | carbon source |
| 29123 | 28757 | fructose | + | carbon source |
| 29123 | 24265 | gluconate | + | carbon source |
| 29123 | 25115 | malate | + | carbon source |
| 29123 | 29864 | mannitol | + | carbon source |
| 29123 | 17272 | propionate | + | carbon source |
| 29123 | 30031 | succinate | + | carbon source |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 29123 | catalase | + | 1.11.1.6 |
| 29123 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 15836
- sample type: activated sludge
- geographic location: Bavaria, Grüneck
- country: Germany
- origin.country: DEU
- continent: Europe
isolation source categories
- Cat1: #Engineered
- Cat2: #Waste
- Cat3: #Activated sludge
taxonmaps
- @ref: 69479
- File name: preview.99_4995.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_1115;97_1307;98_1572;99_4995&stattab=map
- Last taxonomy: Pseudorhodoferax
- 16S sequence: AJ606333
- Sequence Identity:
- Total samples: 403
- soil counts: 31
- aquatic counts: 299
- animal counts: 56
- plant counts: 17
Safety information
risk assessment
- @ref: 15836
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15836
- description: Pseudorhodoferax caeni partial 16S rRNA gene, type strain SB1T
- accession: AJ606333
- length: 1453
- database: ena
- NCBI tax ID: 255042
GC content
| @ref | GC-content | method |
|---|---|---|
| 15836 | 70.1 | high performance liquid chromatography (HPLC) |
| 29123 | 70.1 |
External links
@ref: 15836
culture collection no.: DSM 21598, LMG 24543
straininfo link
- @ref: 72549
- straininfo: 343385
literature
- topic: Phylogeny
- Pubmed-ID: 19625429
- title: Pseudorhodoferax soli gen. nov., sp. nov. and Pseudorhodoferax caeni sp. nov., two members of the class Betaproteobacteria belonging to the family Comamonadaceae.
- authors: Bruland N, Bathe S, Willems A, Steinbuchel A
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.006791-0
- year: 2009
- mesh: Betaproteobacteria/classification/genetics/isolation & purification/metabolism, Comamonadaceae/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 15836 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21598) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21598 | |||
| 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 | |||
| 29123 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 25549 | 28776041 | |
| 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 | |||
| 72549 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID343385.1 | StrainInfo: A central database for resolving microbial strain identifiers |