Strain identifier
BacDive ID: 2787
Type strain: 
Species: Clostridium aminophilum
Strain Designation: F
Strain history: <- ATCC <- J.B. Russell, strain F
NCBI tax ID(s): 1121296 (strain), 1526 (species)
version 8.1 (current version)
General
@ref: 4049
BacDive-ID: 2787
DSM-Number: 10710
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-positive
description: Clostridium aminophilum F is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from bovine rumen.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1526 | species |
| 1121296 | strain |
strain history
- @ref: 4049
- history: <- ATCC <- J.B. Russell, strain F
doi: 10.13145/bacdive2787.20230509.8.1
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 aminophilum
- full scientific name: Clostridium aminophilum Paster et al. 1993
@ref: 4049
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Clostridiaceae
genus: Clostridium
species: Clostridium aminophilum
full scientific name: Clostridium aminophilum Paster et al. 1993
strain designation: F
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 4049
- name: RCM MEDIUM (WITH CASAMINO ACIDS) (DSMZ Medium 634a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/634a
- composition: Name: RCM MEDIUM (with Casamino acids) (DSMZ Medium 634a) Composition: dehydrated RCM medium 38.0 g/l Casamino acids 15.0 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
- @ref: 4049
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 4049 | anaerobe | |
| 69480 | anaerobe | 98.938 |
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.981
Isolation, sampling and environmental information
isolation
- @ref: 4049
- sample type: bovine rumen
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Mammals | #Bovinae (Cow, Cattle) |
| #Host Body-Site | #Organ | #Rumen |
taxonmaps
- @ref: 69479
- File name: preview.99_91579.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5797;96_29842;97_37689;98_63114;99_91579&stattab=map
- Last taxonomy: [Clostridium] aminophilum subclade
- 16S sequence: L04165
- Sequence Identity:
- Total samples: 7008
- soil counts: 41
- aquatic counts: 31
- animal counts: 6706
- plant counts: 230
Safety information
risk assessment
- @ref: 4049
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 4049
- description: Clostridium aminophilum 16S ribosomal RNA gene, complete sequence
- accession: L04165
- length: 1477
- database: ena
- NCBI tax ID: 1526
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | [Clostridium] aminophilum DSM 10710 | GCA_000711825 | scaffold | ncbi | 1121296 |
| 66792 | [Clostridium] aminophilum DSM 10710 | 1121296.3 | wgs | patric | 1121296 |
| 66792 | Lachnoclostridium aminophilum DSM 10710 | 2565956525 | draft | img | 1121296 |
GC content
- @ref: 4049
- GC-content: 52.5
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 55 | no |
| motile | yes | 76.894 | no |
| flagellated | no | 68.175 | no |
| gram-positive | yes | 68.502 | no |
| anaerobic | yes | 99.688 | no |
| halophile | no | 93.197 | no |
| spore-forming | yes | 59.114 | no |
| thermophile | no | 94.552 | yes |
| glucose-util | yes | 82.483 | no |
| aerobic | no | 98.393 | no |
| glucose-ferment | yes | 74.631 | no |
External links
@ref: 4049
culture collection no.: DSM 10710, ATCC 49906, VPI 14602
straininfo link
- @ref: 72314
- straininfo: 42746
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 4049 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10710) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-10710 | |||
| 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 | |
| 69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 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) | |||
| 72314 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID42746.1 | StrainInfo: A central database for resolving microbial strain identifiers |