Strain identifier
BacDive ID: 2576
Type strain:
Species: Clostridium collagenovorans
Strain history: <- M.K. Jain and J.G. Zeikus, SG
NCBI tax ID(s): 1121306 (strain), 29357 (species)
General
@ref: 1295
BacDive-ID: 2576
DSM-Number: 3089
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-positive
description: Clostridium collagenovorans DSM 3089 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from sewage sludge digester.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1121306 | strain |
29357 | species |
strain history
- @ref: 1295
- history: <- M.K. Jain and J.G. Zeikus, SG
doi: 10.13145/bacdive2576.20230509.8.1
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 collagenovorans
- full scientific name: Clostridium collagenovorans Jain and Zeikus 1988
@ref: 1295
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium collagenovorans
full scientific name: Clostridium collagenovorans Jain and Zeikus 1988
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 1295
- name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339)
- growth: yes
- link: https://mediadive.dsmz.de/medium/339
- composition: Name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) Composition: dehydrated Wilkins-Chalgren medium 33.0 g/l L-Cysteine HCl 0.3 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
- @ref: 1295
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
1295 | anaerobe | |
69480 | anaerobe | 98.65 |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | yes | 100 |
69480 | yes | 99.447 |
Isolation, sampling and environmental information
isolation
- @ref: 1295
- sample type: sewage sludge digester
- geographic location: Wisconsin, Madison
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Biodegradation | |
#Engineered | #Waste | #Sewage sludge |
Safety information
risk assessment
- @ref: 1295
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 1295
- description: Clostridium collagenovorans 16S rRNA gene, strain DSM 3089
- accession: X73439
- length: 1506
- database: ena
- NCBI tax ID: 29357
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Clostridium collagenovorans DSM 3089 | GCA_900130005 | scaffold | ncbi | 1121306 |
66792 | Clostridium collagenovorans DSM 3089 | 1121306.4 | wgs | patric | 1121306 |
66792 | Clostridium collagenovorans DSM 3089 | 2585428078 | draft | img | 1121306 |
GC content
- @ref: 1295
- GC-content: 24.2
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
motile | yes | 73.936 | no |
flagellated | no | 61.239 | no |
gram-positive | yes | 87.433 | no |
anaerobic | yes | 98.33 | yes |
aerobic | no | 97.679 | no |
halophile | no | 78.706 | no |
spore-forming | yes | 95.835 | no |
thermophile | no | 99.398 | no |
glucose-util | yes | 84.254 | no |
glucose-ferment | yes | 54.114 | no |
External links
@ref: 1295
culture collection no.: DSM 3089, ATCC 49001
straininfo link
- @ref: 72109
- straininfo: 11831
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
1295 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3089) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-3089 | |||
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 | |||
72109 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID11831.1 | StrainInfo: A central database for resolving microbial strain identifiers |