Strain identifier
BacDive ID: 17934
Type strain: 
Species: Rubrivivax gelatinosus
Strain Designation: 2150
Strain history: <- N. Pfennig, 2150
NCBI tax ID(s): 28068 (species)
version 8.1 (current version)
General
@ref: 2119
BacDive-ID: 17934
DSM-Number: 149
keywords: genome sequence, Bacteria, anaerobe, mesophilic, motile
description: Rubrivivax gelatinosus 2150 is an anaerobe, mesophilic, motile bacterium that was isolated from greenhouse basin.
NCBI tax id
- NCBI tax id: 28068
- Matching level: species
strain history
- @ref: 2119
- history: <- N. Pfennig, 2150
doi: 10.13145/bacdive17934.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Rubrivivax
- species: Rubrivivax gelatinosus
- full scientific name: Rubrivivax gelatinosus (Molisch 1907) Willems et al. 1991
synonyms
@ref synonym 20215 Rhodocyclus gelatinosus 20215 Rhodopseudomonas gelatinosa 20215 Rhodocystis gelatinosa
@ref: 2119
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Rubrivivax
species: Rubrivivax gelatinosus
full scientific name: Rubrivivax gelatinosus (Molisch 1907) Willems et al. 1991
strain designation: 2150
type strain: no
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 97.425 | |
| 69480 | 99.999 | negative |
Culture and growth conditions
culture medium
- @ref: 2119
- name: RHODOSPIRILLACEAE MEDIUM (modified) (DSMZ Medium 27)
- growth: yes
- link: https://mediadive.dsmz.de/medium/27
- composition: Name: RHODOSPIRILLACEAE MEDIUM (modified) (DSMZ Medium 27) Composition: Disodium succinate 1.0 g/l KH2PO4 0.5 g/l Ammonium acetate 0.5 g/l NaCl 0.4 g/l NH4Cl 0.4 g/l MgSO4 x 7 H2O 0.4 g/l Yeast extract 0.3 g/l L-Cysteine HCl 0.3 g/l CaCl2 x 2 H2O 0.05 g/l Fe(III) citrate 0.005 g/l Resazurin 0.005 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l MnCl2 x 4 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Vitamin B12 Distilled water
culture temp
- @ref: 2119
- growth: positive
- type: growth
- temperature: 25
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 2119
- oxygen tolerance: anaerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.873 |
compound production
- @ref: 2119
- compound: citrate lyase
Isolation, sampling and environmental information
isolation
- @ref: 2119
- sample type: greenhouse basin
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Agriculture | #Greenhouse |
| #Environmental | #Aquatic |
Safety information
risk assessment
- @ref: 2119
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Rubrivivax gelatinosus DSM 149 | GCA_016583725 | scaffold | ncbi | 28068 |
| 66792 | Rubrivivax gelatinosus strain DSM 149 | 28068.14 | wgs | patric | 28068 |
GC content
- @ref: 2119
- GC-content: 71.4
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 89.325 | no |
| flagellated | yes | 76.858 | no |
| gram-positive | no | 99.141 | no |
| anaerobic | no | 50.601 | yes |
| aerobic | no | 66.218 | no |
| halophile | no | 96.098 | no |
| spore-forming | no | 93.571 | no |
| thermophile | no | 99.143 | yes |
| glucose-util | yes | 68.244 | no |
| glucose-ferment | no | 85.53 | no |
External links
@ref: 2119
culture collection no.: DSM 149, Pfennig 2150
straininfo link
- @ref: 86923
- straininfo: 4933
literature
- topic: Genetics
- Pubmed-ID: 8020505
- title: Structural and spectral characterisation of the antenna complexes of Rhodocyclus gelatinosus. Indications of a hairpin-like-arranged antenna apoprotein with an unusually high alanine content.
- authors: Brunisholz RA, Suter F, Zuber H
- journal: Eur J Biochem
- DOI: 10.1111/j.1432-1033.1994.tb18911.x
- year: 1994
- mesh: *Alanine, Amino Acid Sequence, Apoproteins/*chemistry, Bacterial Proteins/*chemistry/isolation & purification, Centrifugation, Density Gradient, Chromatography, High Pressure Liquid, Detergents, Light-Harvesting Protein Complexes, Mass Spectrometry, Molecular Sequence Data, *Protein Conformation, *Protein Structure, Secondary, Rhodospirillales/*chemistry, Sequence Homology, Amino Acid
- topic2: Enzymology
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 2119 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 149) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-149 | |
| 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 | |
| 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) | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
| 86923 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID4933.1 | StrainInfo: A central database for resolving microbial strain identifiers |