Strain identifier
BacDive ID: 2796
Type strain: 
Species: Clostridium uliginosum
Strain Designation: CK55
Strain history: <- C. Matthies and C. H. Kuhner, Universität Bayreuth, Bayreuth, Germany; CK55 <- C. H. Kuhner {1994}
NCBI tax ID(s): 1121343 (strain), 119641 (species)
version 8.1 (current version)
General
@ref: 4870
BacDive-ID: 2796
DSM-Number: 12992
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, psychrophilic, motile
description: Clostridium uliginosum CK55 is an anaerobe, spore-forming, psychrophilic bacterium that was isolated from acidic peat bog.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1121343 | strain |
| 119641 | species |
strain history
- @ref: 4870
- history: <- C. Matthies and C. H. Kuhner, Universität Bayreuth, Bayreuth, Germany; CK55 <- C. H. Kuhner {1994}
doi: 10.13145/bacdive2796.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Clostridiaceae
- genus: Clostridium
- species: Clostridium uliginosum
- full scientific name: Clostridium uliginosum Matthies et al. 2001
@ref: 4870
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium uliginosum
full scientific name: Clostridium uliginosum Matthies et al. 2001
strain designation: CK55
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 94.554 | |
| 69480 | 100 | positive |
Culture and growth conditions
culture medium
- @ref: 4870
- name: ANAEROBIC TRYPTIC SOY BROTH MEDIUM (DSMZ Medium 869)
- growth: yes
- link: https://mediadive.dsmz.de/medium/869
- composition: Name: ANAEROBIC TRYPTIC SOY BROTH MEDIUM (DSMZ Medium 869) Composition: Trypticase soy broth 5.5 g/l D-Glucose 2.0 g/l Resazurin 0.0005 g/l Distilled water
culture temp
- @ref: 4870
- growth: positive
- type: growth
- temperature: 20
- range: psychrophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 4870 | anaerobe | |
| 69480 | anaerobe | 99.999 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 100 |
| 69480 | yes | 100 |
Isolation, sampling and environmental information
isolation
- @ref: 4870
- sample type: acidic peat bog
- geographic location: East-central Germany, Fichtelgebirge near Bayreuth
- country: Germany
- origin.country: DEU
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Wetland (Swamp) |
| #Condition | #Acidic |
Safety information
risk assessment
- @ref: 4870
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 4870
- description: Clostridium uliginosum partial 16S rRNA gene, strain CK55
- accession: AJ276992
- length: 1437
- database: ena
- NCBI tax ID: 119641
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Clostridium uliginosum DSM 12992 | GCA_900112485 | scaffold | ncbi | 119641 |
| 66792 | Clostridium uliginosum strain DSM 12992 | 119641.3 | wgs | patric | 119641 |
| 66792 | Clostridium uliginosum DSM 12992 | 2675903229 | draft | img | 119641 |
GC content
- @ref: 4870
- GC-content: 28
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| motile | yes | 82.036 | no |
| flagellated | yes | 53.509 | no |
| gram-positive | yes | 74.714 | no |
| anaerobic | yes | 98.91 | yes |
| aerobic | no | 98.223 | no |
| halophile | no | 93.88 | no |
| spore-forming | yes | 94.515 | no |
| glucose-ferment | yes | 75.913 | no |
| thermophile | no | 99.33 | yes |
| glucose-util | yes | 90.296 | no |
External links
@ref: 4870
culture collection no.: DSM 12992, ATCC BAA 53
straininfo link
- @ref: 72322
- straininfo: 49385
literature
- topic: Phylogeny
- Pubmed-ID: 11411680
- title: Clostridium uliginosum sp. nov., a novel acid-tolerant, anaerobic bacterium with connecting filaments.
- authors: Matthies C, Kuhner CH, Acker G, Drake HL
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/00207713-51-3-1119
- year: 2001
- mesh: Anaerobiosis, Base Sequence, Carbohydrate Metabolism, Clostridium/*classification/genetics/physiology/ultrastructure, DNA, Ribosomal/genetics, Enzymes/analysis, Microscopy, Electron, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Soil Microbiology
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 4870 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12992) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12992 | |||
| 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) | |||
| 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 | |||
| 72322 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49385.1 | StrainInfo: A central database for resolving microbial strain identifiers |