Strain identifier
BacDive ID: 158905
Type strain:
Species: Clostridium beijerinckii
Strain Designation: WB01-NA02
Strain history: <- E. Allen-Vercoe, Univ. Guelph, Ontario, Canada;
NCBI tax ID(s): 1520 (species)
General
@ref: 65727
BacDive-ID: 158905
DSM-Number: 105335
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Clostridium beijerinckii WB01-NA02 is a mesophilic bacterium that was isolated from wild boar.
NCBI tax id
- NCBI tax id: 1520
- Matching level: species
strain history
- @ref: 65727
- history: <- E. Allen-Vercoe, Univ. Guelph, Ontario, Canada;
doi: 10.13145/bacdive158905.20230509.8.1
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 beijerinckii
- full scientific name: Clostridium beijerinckii Donker 1926 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Clostridium diolis
@ref: 65727
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Eubacteriales
family: Clostridiaceae
genus: Clostridium
species: Clostridium beijerinckii
full scientific name: Clostridium beijerinckii Donker 1926 emend. Keis et al. 2001
strain designation: WB01-NA02
type strain: no
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
65727 | WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) | yes | https://mediadive.dsmz.de/medium/339 | 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 |
65727 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
culture temp
- @ref: 65727
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68380 | 16199 | urea | - | hydrolysis |
68380 | 29016 | arginine | - | hydrolysis |
68380 | 16024 | D-mannose | + | fermentation |
68380 | 16634 | raffinose | - | fermentation |
68380 | 29985 | L-glutamate | - | degradation |
68380 | 17632 | nitrate | - | reduction |
68380 | 27897 | tryptophan | - | energy source |
metabolite production
- @ref: 68380
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68380
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68380 | serine arylamidase | - | |
68380 | glutamyl-glutamate arylamidase | - | |
68380 | histidine arylamidase | - | |
68380 | glycin arylamidase | - | |
68380 | alanine arylamidase | - | 3.4.11.2 |
68380 | tyrosine arylamidase | - | |
68380 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68380 | leucine arylamidase | - | 3.4.11.1 |
68380 | phenylalanine arylamidase | - | |
68380 | leucyl glycin arylamidase | - | 3.4.11.1 |
68380 | proline-arylamidase | - | 3.4.11.5 |
68380 | L-arginine arylamidase | - | |
68380 | alkaline phosphatase | - | 3.1.3.1 |
68380 | tryptophan deaminase | - | 4.1.99.1 |
68380 | alpha-fucosidase | - | 3.2.1.51 |
68380 | glutamate decarboxylase | - | 4.1.1.15 |
68380 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68380 | beta-glucuronidase | - | 3.2.1.31 |
68380 | alpha-arabinosidase | + | 3.2.1.55 |
68380 | beta-glucosidase | + | 3.2.1.21 |
68380 | alpha-glucosidase | + | 3.2.1.20 |
68380 | alpha-galactosidase | - | 3.2.1.22 |
68380 | arginine dihydrolase | - | 3.5.3.6 |
68380 | urease | - | 3.5.1.5 |
API rID32A
@ref | URE | ADH Arg | alpha GAL | beta GAL | beta GP | alpha GLU | beta GLU | alpha ARA | beta GUR | beta NAG | MNE | RAF | GDC | alpha FUC | NIT | IND | PAL | ArgA | ProA | LGA | PheA | LeuA | PyrA | TyrA | AlaA | GlyA | HisA | GGA | SerA |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
65727 | - | - | - | +/- | +/- | + | + | + | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
- @ref: 65727
- sample type: wild boar
- geographic location: Stratford, Ontario
- country: Canada
- origin.country: CAN
- continent: North America
isolation source categories
- Cat1: #Host
- Cat2: #Mammals
- Cat3: #Suidae (Pig,Swine)
taxonmaps
- @ref: 69479
- File name: preview.99_378.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_149;97_160;98_179;99_378&stattab=map
- Last taxonomy: Clostridium
- 16S sequence: MN537489
- Sequence Identity:
- Total samples: 10335
- soil counts: 1985
- aquatic counts: 1977
- animal counts: 5931
- plant counts: 442
Safety information
risk assessment
- @ref: 65727
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 65727
- description: Clostridium sp. strain DSM 105335 16S ribosomal RNA gene, partial sequence
- accession: MN537489
- length: 1418
- database: ena
- NCBI tax ID: 1506
Genome sequences
- @ref: 66792
- description: Clostridium beijerinckii WB01_NA02
- accession: GCA_012843965
- assembly level: contig
- database: ncbi
- NCBI tax ID: 1520
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 84.404 | no |
flagellated | yes | 72.725 | no |
gram-positive | yes | 57.489 | no |
anaerobic | yes | 97.57 | no |
aerobic | no | 97.493 | no |
halophile | no | 97.535 | no |
spore-forming | yes | 96.247 | no |
thermophile | no | 99.422 | yes |
glucose-util | yes | 91.792 | no |
glucose-ferment | yes | 68.118 | no |
External links
@ref: 65727
culture collection no.: DSM 105335
straininfo link
- @ref: 111424
- straininfo: 398119
Reference
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |
65727 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-105335 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105335) | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
68380 | Automatically annotated from API rID32A | |||
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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |
111424 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID398119.1 |