Strain identifier
BacDive ID: 2629
Type strain: 
Species: Clostridium sp.
Strain Designation: C1
Strain history: <- E. R. Leadbetter, Univ. Connecticut, Storrs CT, USA; C1 (Clostridium pasteurianum) <- C.-C. Chien {1991}
NCBI tax ID(s): 1506 (species)
version 9.3 (current version)
General
@ref: 4612
BacDive-ID: 2629
DSM-Number: 12136
keywords: genome sequence, Bacteria, anaerobe, mesophilic
description: Clostridium sp. C1 is an anaerobe, mesophilic bacterium that was isolated from soil.
NCBI tax id
- NCBI tax id: 1506
- Matching level: species
strain history
- @ref: 4612
- history: <- E. R. Leadbetter, Univ. Connecticut, Storrs CT, USA; C1 (Clostridium pasteurianum) <- C.-C. Chien {1991}
doi: 10.13145/bacdive2629.20250331.9.3
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 sp.
- full scientific name: Clostridium Prazmowski 1880 (Approved Lists 1980)
synonyms
@ref synonym 20215 Anaerobacter 20215 Inflabilis 20215 Tyzzerella 20215 Pseudoclostridium 20215 Lachnoclostridium
@ref: 4612
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium sp.
full scientific name: Clostridium sp.
strain designation: C1
type strain: no
Culture and growth conditions
culture medium
- @ref: 4612
- name: PY + X MEDIUM (DSMZ Medium 104b)
- growth: yes
- link: https://mediadive.dsmz.de/medium/104b
- composition: Name: PY + X MEDIUM (DSMZ Medium 104b) Composition: Yeast extract 10.0 g/l D-Glucose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
- @ref: 4612
- growth: positive
- type: growth
- temperature: 30
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 4612 | anaerobe | |
| 125439 | anaerobe | 98.6 |
Isolation, sampling and environmental information
isolation
- @ref: 4612
- sample type: soil
- geographic location: Univ. of Connecticut
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
- @ref: 4612
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Clostridium sp. C1 | 1155388.3 | complete | patric | 1155388 |
| 66792 | Clostridium sp. C1 | GCA_018223625 | complete | ncbi | 1155388 |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | anaerobe | 98.6 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | positive | 88.3 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 54.3 | |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 54 | |
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 83.466 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 88.388 | yes |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 98.974 | yes |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 56.55 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 93.838 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 87.593 | no |
External links
@ref: 4612
culture collection no.: DSM 12136
straininfo link
- @ref: 72160
- straininfo: 49238
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 4612 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12136) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12136 | |
| 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) | |
| 72160 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49238.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | 10.1101/2024.08.12.607695 | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | https://github.com/GenomeNet/deepG | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 |