Strain identifier
BacDive ID: 1720
Type strain: 
Species: Bifidobacterium thermophilum
Strain Designation: C3/12
Strain history: <- M.E. Sharpe, C3/12
NCBI tax ID(s): 33905 (species)
version 9.3 (current version)
General
@ref: 8478
BacDive-ID: 1720
DSM-Number: 20209
keywords: genome sequence, Bacteria, anaerobe, mesophilic
description: Bifidobacterium thermophilum C3/12 is an anaerobe, mesophilic bacterium that was isolated from rumen.
NCBI tax id
- NCBI tax id: 33905
- Matching level: species
strain history
- @ref: 8478
- history: <- M.E. Sharpe, C3/12
doi: 10.13145/bacdive1720.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Bifidobacteriales
- family: Bifidobacteriaceae
- genus: Bifidobacterium
- species: Bifidobacterium thermophilum
- full scientific name: Bifidobacterium thermophilum corrig. Mitsuoka 1969 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Bifidobacterium thermophilium
@ref: 8478
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Bifidobacteriales
family: Bifidobacteriaceae
genus: Bifidobacterium
species: Bifidobacterium thermophilum
full scientific name: Bifidobacterium thermophilum Mitsuoka 1969 emend. Nouioui et al. 2018
strain designation: C3/12
type strain: no
Morphology
cell morphology
- @ref: 125438
- motility: no
- confidence: 95
Culture and growth conditions
culture medium
- @ref: 8478
- name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)
- growth: yes
- link: https://mediadive.dsmz.de/medium/58
- composition: Name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58) Composition: Glucose 10.0 g/l Casein peptone 10.0 g/l Bacto Soytone 5.0 g/l Meat extract 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l MnSO4 x H2O 0.05 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 Tween 80 Resazurin Distilled water
culture temp
- @ref: 8478
- growth: positive
- type: growth
- temperature: 37
Physiology and metabolism
oxygen tolerance
- @ref: 8478
- oxygen tolerance: anaerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 125438 | no | 91.855 |
| 125439 | no | 90.8 |
murein
- @ref: 8478
- murein short key: A21.06
- type: A4ß L-Orn(L-Lys)-D-Glu
Isolation, sampling and environmental information
isolation
- @ref: 8478
- sample type: rumen
isolation source categories
- Cat1: #Host Body-Site
- Cat2: #Organ
- Cat3: #Rumen
Safety information
risk assessment
- @ref: 8478
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
Genome sequences
- @ref: 66792
- description: Bifidobacterium thermophilum DSM 20209
- accession: GCA_028539275
- assembly level: contig
- database: ncbi
- NCBI tax ID: 33905
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 76.063 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 82.449 | yes |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 93.684 | yes |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 91.855 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 96.093 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 95 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 90.8 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | no | 62.6 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | positive | 75.5 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | facultative aerobe | 70 |
External links
@ref: 8478
culture collection no.: DSM 20209
straininfo link
- @ref: 71367
- straininfo: 9654
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 8478 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20209) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-20209 | |
| 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) | |
| 71367 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID9654.1 | 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 |