Strain identifier
BacDive ID: 4219
Type strain: 
Species: Pelobacter propionicus
Strain Designation: OttBd1
Strain history: <- B. Schink, Universität Konstanz, Fakultät für Biologie, Konstanz, Germany; OttBd1 <- B. Schink {1981}
NCBI tax ID(s): 338966 (strain), 29543 (species)
version 8.1 (current version)
General
@ref: 1061
BacDive-ID: 4219
DSM-Number: 2379
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative
description: Pelobacter propionicus OttBd1 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from creek mud.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 29543 | species |
| 338966 | strain |
strain history
- @ref: 1061
- history: <- B. Schink, Universität Konstanz, Fakultät für Biologie, Konstanz, Germany; OttBd1 <- B. Schink {1981}
doi: 10.13145/bacdive4219.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Desulfuromonadales
- family: Desulfuromonadaceae
- genus: Pelobacter
- species: Pelobacter propionicus
- full scientific name: Pelobacter propionicus Schink 1984
synonyms
- @ref: 20215
- synonym: Pseudopelobacter propionicus
@ref: 1061
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Desulfuromonadales
family: Desulfuromonadaceae
genus: Pelobacter
species: Pelobacter propionicus
full scientific name: Pelobacter propionicus Schink 1984
strain designation: OttBd1
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.997
Culture and growth conditions
culture medium
- @ref: 1061
- name: PELOBACTER PROPIONICUS MEDIUM (FRESHWATER) (DSMZ Medium 298)
- growth: yes
- link: https://mediadive.dsmz.de/medium/298
- composition: Name: PELOBACTER PROPIONICUS MEDIUM (FRESHWATER) (DSMZ Medium 298) Composition: Na2CO3 1.5 g/l NaCl 1.0 g/l 2,3-butanediol 0.9 g/l KCl 0.5 g/l MgCl2 x 6 H2O 0.4 g/l Na2S x 9 H2O 0.36 g/l NH4Cl 0.25 g/l KH2PO4 0.2 g/l CaCl2 x 2 H2O 0.15 g/l HCl 0.0025 g/l FeCl2 x 4 H2O 0.0015 g/l Sodium resazurin 0.0005 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 7e-05 g/l Na2MoO4 x 2 H2O 3.6e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l H3BO3 6e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Distilled water
culture temp
- @ref: 1061
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 1061 | anaerobe | |
| 69480 | anaerobe | 99.426 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 90 |
| 69480 | no | 99.984 |
Isolation, sampling and environmental information
isolation
- @ref: 1061
- sample type: creek mud
- geographic location: Ottensen near Hannover
- country: Germany
- origin.country: DEU
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #River (Creek) |
| #Environmental | #Terrestrial | #Mud (Sludge) |
Safety information
risk assessment
- @ref: 1061
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: P.propionicus 16S rRNA
- accession: X70954
- length: 1553
- database: ena
- NCBI tax ID: 29543
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Pelobacter propionicus DSM 2379 | GCA_000015045 | complete | ncbi | 338966 |
| 66792 | Pelobacter propionicus DSM 2379 | 338966.9 | complete | patric | 338966 |
| 66792 | Pelobacter propionicus DSM 2379 | 338966.18 | plasmid | patric | 338966 |
| 66792 | Pelobacter propionicus DSM 2379 | 338966.17 | plasmid | patric | 338966 |
| 66792 | Pelobacter propionicus DSM 2379 | 639633050 | complete | img | 338966 |
GC content
- @ref: 1061
- GC-content: 57.4
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 90 | no |
| motile | yes | 82.647 | no |
| flagellated | no | 77.611 | no |
| gram-positive | no | 97.825 | no |
| anaerobic | yes | 99.004 | no |
| halophile | no | 89.274 | no |
| spore-forming | no | 86.327 | no |
| thermophile | no | 95.53 | yes |
| glucose-util | no | 55.151 | no |
| aerobic | no | 96.408 | yes |
| glucose-ferment | no | 85.971 | no |
External links
@ref: 1061
culture collection no.: DSM 2379, NBRC 103807
straininfo link
- @ref: 73719
- straininfo: 47604
literature
- topic: Metabolism
- Pubmed-ID: 33990298
- title: Propionate Production from Carbon Monoxide by Synthetic Cocultures of Acetobacterium wieringae and Propionigenic Bacteria.
- authors: Moreira JPC, Diender M, Arantes AL, Boeren S, Stams AJM, Alves MM, Alves JI, Sousa DZ
- journal: Appl Environ Microbiol
- DOI: 10.1128/AEM.02839-20
- year: 2021
- mesh: Acetobacterium/drug effects/*metabolism, Bacterial Proteins/genetics/metabolism, Carbon Monoxide/*metabolism, Coculture Techniques, Deltaproteobacteria/drug effects/*metabolism, Fermentation, Propionates/*metabolism, Proteome/metabolism, Sodium Acetate/pharmacology
- topic2: Pathogenicity
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 1061 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2379) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-2379 | |||
| 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 | |
| 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 | |
| 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 | |||
| 73719 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID47604.1 | StrainInfo: A central database for resolving microbial strain identifiers |