Strain identifier
BacDive ID: 159529
Type strain: 
Species: Alistipes shahii
Strain Designation: BL-389-WT-23F
Strain history: <- T. Clavel , TU Munich, Freising-Weihenstephan, Germany; BL-389-WT-23F
NCBI tax ID(s): 328814 (species)
version 8.1 (current version)
General
@ref: 66355
BacDive-ID: 159529
DSM-Number: 107272
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, human pathogen
description: Alistipes shahii BL-389-WT-23F is a mesophilic human pathogen that was isolated from feces; pig, 8 weeks old, wild type.
NCBI tax id
- NCBI tax id: 328814
- Matching level: species
strain history
- @ref: 66355
- history: <- T. Clavel , TU Munich, Freising-Weihenstephan, Germany; BL-389-WT-23F
doi: 10.13145/bacdive159529.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Bacteroidia
- order: Bacteroidales
- family: Rikenellaceae
- genus: Alistipes
- species: Alistipes shahii
- full scientific name: Alistipes shahii Song et al. 2006
@ref: 66355
domain: Bacteria
phylum: Bacteroidetes
class: Bacteroidia
order: Bacteroidales
family: Rikenellaceae
genus: Alistipes
species: Alistipes shahii
full scientific name: Alistipes shahii Song et al. 2006 emend. Hahnke et al. 2016
strain designation: BL-389-WT-23F
type strain: no
Culture and growth conditions
culture medium
- @ref: 66355
- name: GAM Broth (Gifu Anaerobic Medium Broth) (DSMZ Medium 1713)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1713
- composition: Name: GAM Broth (Gifu Anaerobic Medium Broth) (DSMZ Medium 1713) Composition: GAM Broth powder 59.0 g/l Distilled water
culture temp
- @ref: 66355
- 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 | 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-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 66355 | - | - | + | + | - | +/- | +/- | - | - | + | - | - | + | +/- | - | - | + | - | - | + | - | - | - | - | + | - | - | + | - |
Isolation, sampling and environmental information
isolation
- @ref: 66355
- sample type: feces; pig, 8 weeks old, wild type
- geographic location: Kranzberg (Bavaria)
- country: Germany
- origin.country: DEU
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
| #Host | #Mammals | #Suidae (Pig,Swine) |
taxonmaps
- @ref: 69479
- File name: preview.99_783.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_110;96_474;97_542;98_625;99_783&stattab=map
- Last taxonomy: Alistipes shahii subclade
- 16S sequence: MN537530
- Sequence Identity:
- Total samples: 193058
- soil counts: 1190
- aquatic counts: 3715
- animal counts: 187778
- plant counts: 375
Safety information
risk assessment
- @ref: 66355
- pathogenicity human: yes, in single cases
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 66355
- description: Alistipes shahii strain DSM 107272 16S ribosomal RNA gene, partial sequence
- accession: MN537530
- length: 1457
- database: ena
- NCBI tax ID: 328814
Genome sequences
- @ref: 66792
- description: Alistipes shahii BL-389-WT-23F
- accession: GCA_012844205
- assembly level: contig
- database: ncbi
- NCBI tax ID: 328814
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 92.79 | no |
| flagellated | no | 97.721 | no |
| gram-positive | no | 98.379 | no |
| anaerobic | yes | 97.243 | no |
| aerobic | no | 95.489 | no |
| halophile | no | 88.498 | no |
| spore-forming | no | 96.328 | no |
| thermophile | no | 96.488 | no |
| glucose-util | yes | 85.72 | no |
| glucose-ferment | yes | 52.355 | no |
External links
@ref: 66355
culture collection no.: DSM 107272
straininfo link
- @ref: 112010
- straininfo: 404995
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 | |
| 66355 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-107272 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 107272) | |
| 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/ | |
| 112010 | 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-ID404995.1 |