Strain identifier
BacDive ID: 159319
Type strain: 
Species: Bifidobacterium simiarum
Strain history: P. Mattarelli; Dept. of Agric. Sci., Bologna Univ., Italy; TRI 7.
NCBI tax ID(s): 2045441 (species)
version 9.1 (current version)
General
@ref: 66142
BacDive-ID: 159319
DSM-Number: 103153
keywords: genome sequence, Bacteria, anaerobe
description: Bifidobacterium simiarum DSM 103153 is an anaerobe bacterium that was isolated from faeces of Saguinus imperator.
NCBI tax id
- NCBI tax id: 2045441
- Matching level: species
strain history
| @ref | history |
|---|---|
| 66142 | <- P. Mattarelli, Univ. Bologna, Italy; TRI 7 <- M. Modesto and S. Michelini |
| 67770 | P. Mattarelli; Dept. of Agric. Sci., Bologna Univ., Italy; TRI 7. |
doi: 10.13145/bacdive159319.20240916.9.1
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 simiarum
- full scientific name: Bifidobacterium simiarum Modesto et al. 2020
@ref: 66142
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Bifidobacteriales
family: Bifidobacteriaceae
genus: Bifidobacterium
species: Bifidobacterium simiarum
full scientific name: Bifidobacterium simiarum Modesto et al. 2020
type strain: yes
Morphology
cell morphology
- @ref: 69480
- motility: no
- confidence: 92
Culture and growth conditions
culture medium
- @ref: 66142
- 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 | growth | type | temperature |
|---|---|---|---|
| 66142 | positive | growth | 37 |
| 67770 | positive | growth | 37 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | host species |
|---|---|---|---|---|---|---|
| 66142 | faeces of Saguinus imperator | Bussolengo (Verona) | Italy | ITA | Europe | |
| 67770 | Feces of an adult subject of the emperor tamarin (Saguinus imperator) housed under semi-naturalconditions in Parco Natura Viva - Garda Zoological Park | Bussolengo, Verona | Italy | ITA | Europe | Saguinus imperator |
Sequence information
Genome sequences
- @ref: 67770
- description: Bifidobacterium simiarum TRI 7
- accession: GCA_002802905
- assembly level: contig
- database: ncbi
- NCBI tax ID: 2045441
GC content
- @ref: 67770
- GC-content: 63.2
- method: genome sequence analysis
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 89.246 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 79.841 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 90.036 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 87.682 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 92.5 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 92 | no |
External links
@ref: 66142
culture collection no.: DSM 103153, JCM 31793, TRI 7
straininfo link
- @ref: 111818
- straininfo: 403787
literature
- topic: Phylogeny
- Pubmed-ID: 30150092
- title: Bifidobacterium primatium sp. nov., Bifidobacterium scaligerum sp. nov., Bifidobacterium felsineum sp. nov. and Bifidobacterium simiarum sp. nov.: Four novel taxa isolated from the faeces of the cotton top tamarin (Saguinus oedipus) and the emperor tamarin (Saguinus imperator).
- authors: Modesto M, Puglisi E, Bonetti A, Michelini S, Spiezio C, Sandri C, Sgorbati B, Morelli L, Mattarelli P
- journal: Syst Appl Microbiol
- DOI: 10.1016/j.syapm.2018.07.005
- year: 2018
- mesh: Aldehyde-Lyases/genetics, Animals, Animals, Zoo/microbiology, Bacterial Typing Techniques, Bifidobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Feces/*microbiology, Italy, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Saguinus/*microbiology, Sequence Analysis, DNA
- topic2: Transcriptome
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 | |
| 66142 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-103153 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103153) | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 111818 | 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-ID403787.1 |