Strain identifier
BacDive ID: 131098
Type strain: 
Species: Bacteroides acidifaciens
Strain Designation: JJM0207_2
Strain history: <- T. Clavel, TU Munich, Freising-Weihenstephan, Germany; JJM0207_2 <- J.F. Baines, Max Planck Institute for Evolutionary Biology, Plön, Germany; JJM0207_2
NCBI tax ID(s): 85831 (species)
version 8.1 (current version)
General
@ref: 22390
BacDive-ID: 131098
DSM-Number: 100502
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic
description: Bacteroides acidifaciens JJM0207_2 is an anaerobe, mesophilic bacterium that was isolated from wild mouse.
NCBI tax id
- NCBI tax id: 85831
- Matching level: species
strain history
- @ref: 22390
- history: <- T. Clavel, TU Munich, Freising-Weihenstephan, Germany; JJM0207_2 <- J.F. Baines, Max Planck Institute for Evolutionary Biology, Plön, Germany; JJM0207_2
doi: 10.13145/bacdive131098.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Bacteroidia
- order: Bacteroidales
- family: Bacteroidaceae
- genus: Bacteroides
- species: Bacteroides acidifaciens
- full scientific name: Bacteroides acidifaciens Miyamoto and Itoh 2000
@ref: 22390
domain: Bacteria
phylum: Bacteroidetes
class: Bacteroidia
order: Bacteroidales
family: Bacteroidaceae
genus: Bacteroides
species: Bacteroides acidifaciens
full scientific name: Bacteroides acidifaciens Miyamoto and Itoh 2000
strain designation: JJM0207_2
type strain: no
Morphology
colony morphology
- @ref: 22390
- incubation period: 1-2 days
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 22390 | FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203) | yes | https://mediadive.dsmz.de/medium/1203 | Name: FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203) Composition: Horse blood 100.0 g/l Fastidious Anaerobe Agar 45.7 g/l Distilled water |
| 22390 | CHOPPED MEAT MEDIUM (DSMZ Medium 78) | yes | https://mediadive.dsmz.de/medium/78 | Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water |
culture temp
- @ref: 22390
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 22390
- oxygen tolerance: anaerobe
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 68380 | 16199 | urea | - | hydrolysis |
| 68380 | 29016 | arginine | - | hydrolysis |
| 68380 | 29985 | L-glutamate | - | degradation |
| 68380 | 17632 | nitrate | - | reduction |
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 | phenylalanine arylamidase | - | |
| 68380 | leucyl glycin arylamidase | + | 3.4.11.1 |
| 68380 | proline-arylamidase | - | 3.4.11.5 |
| 68380 | alkaline phosphatase | + | 3.1.3.1 |
| 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 | alpha-glucosidase | + | 3.2.1.20 |
| 68380 | beta-Galactosidase 6-phosphate | - | |
| 68380 | beta-galactosidase | + | 3.2.1.23 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 22390 | - | - | + | + | - | + | - | + | - | + | - | - | - | + | - | + | + | - | - | + | - | + | - | - | + | - | - | + | - |
| 22390 | - | - | + | + | - | + | +/- | + | - | + | + | + | - | + | - | +/- | + | +/- | - | + | - | +/- | - | - | + | - | - | + | - |
Isolation, sampling and environmental information
isolation
- @ref: 22390
- sample type: wild mouse
- geographic location: Plön
- country: Germany
- origin.country: DEU
- continent: Europe
isolation source categories
- Cat1: #Host
- Cat2: #Mammals
- Cat3: #Muridae (Mouse/Rat)
taxonmaps
- @ref: 69479
- File name: preview.99_13342.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_21;96_2991;97_8226;98_10097;99_13342&stattab=map
- Last taxonomy: Bacteroides acidifaciens subclade
- 16S sequence: KR364740
- Sequence Identity:
- Total samples: 171816
- soil counts: 1207
- aquatic counts: 1548
- animal counts: 168578
- plant counts: 483
Safety information
risk assessment
- @ref: 22390
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22390
- description: Bacteroides acidifaciens strain JJM0207-2 16S ribosomal RNA gene, partial sequence
- accession: KR364740
- length: 1467
- database: ena
- NCBI tax ID: 85831
Genome sequences
- @ref: 66792
- description: Bacteroides acidifaciens DSM 100502
- accession: GCA_024623115
- assembly level: contig
- database: ncbi
- NCBI tax ID: 85831
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 96.859 | no |
| gram-positive | no | 97.599 | no |
| anaerobic | yes | 98.793 | no |
| aerobic | no | 97.97 | no |
| halophile | no | 89.122 | no |
| spore-forming | no | 95.2 | no |
| glucose-ferment | yes | 69.217 | no |
| thermophile | no | 99.074 | yes |
| glucose-util | yes | 88.729 | no |
| motile | no | 91.724 | no |
External links
@ref: 22390
culture collection no.: DSM 100502
straininfo link
- @ref: 89559
- straininfo: 406808
Reference
| @id | authors | title | doi/url | catalogue | journal | pubmed |
|---|---|---|---|---|---|---|
| 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 | |||
| 22390 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-100502 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100502) | |||
| 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 | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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/ | |||
| 89559 | 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-ID406808.1 |