Strain identifier
BacDive ID: 159089
Type strain: 
Species: Agathobaculum ammoniilyticum
Strain Designation: Sanger_34
Strain history: <- H. Browne, Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, United Kingdom; Sanger_34 <- H. Browne {2014}
NCBI tax ID(s): 1869227 (species)
version 8.1 (current version)
General
@ref: 65912
BacDive-ID: 159089
DSM-Number: 102882
keywords: genome sequence, Bacteria, mesophilic
description: Agathobaculum ammoniilyticum Sanger_34 is a mesophilic bacterium that was isolated from Faeces from healthy human.
NCBI tax id
- NCBI tax id: 1869227
- Matching level: species
strain history
- @ref: 65912
- history: <- H. Browne, Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, United Kingdom; Sanger_34 <- H. Browne {2014}
doi: 10.13145/bacdive159089.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Oscillospiraceae
- genus: Agathobaculum
- species: Agathobaculum ammoniilyticum
- full scientific name: Agathobaculum ammoniilyticum Hitch et al. 2022
@ref: 65912
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Eubacteriales
family: Oscillospiraceae
genus: Agathobaculum
species: Agathobaculum ammoniilyticum
full scientific name: Agathobaculum ammoniilyticum
strain designation: Sanger_34
type strain: yes
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 65912 | CMC MEDIUM (N2/CO2) (DSMZ Medium 110a) | yes | https://mediadive.dsmz.de/medium/110a | Name: CMC MEDIUM (N2/CO2) (DSMZ Medium 110a) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Yeast extract 5.0 g/l K2HPO4 5.0 g/l D-Glucose 4.0 g/l Na2CO3 1.5 g/l Cellobiose 1.0 g/l Maltose 1.0 g/l Starch 1.0 g/l L-Cysteine HCl x H2O 0.5 g/l Sodium resazurin 0.0005 g/l NaOH Distilled water |
| 65912 | PY + X MEDIUM (N2/CO2) (DSMZ Medium 104c) | yes | https://mediadive.dsmz.de/medium/104c | Name: PY + X MEDIUM (N2/CO2) (DSMZ Medium 104c) Composition: Yeast extract 10.0 g/l D-Glucose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l Na2CO3 1.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 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 Sodium resazurin 0.0005 g/l Distilled water |
culture temp
- @ref: 65912
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 65912
- sample type: Faeces from healthy human
- geographic location: Cambridgeshire, Hinxton
- country: United Kingdom
- origin.country: GBR
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Human | |
| #Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
Safety information
risk assessment
- @ref: 65912
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
Genome sequences
- @ref: 66792
- description: Agathobaculum ammoniilyticum Sanger_34
- accession: GCA_025567315
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 2981778
GC content
- @ref: 65912
- GC-content: 57.0
- method: sequence analysis
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | yes | 70.631 | no |
| flagellated | no | 71.417 | no |
| gram-positive | yes | 83.502 | no |
| anaerobic | yes | 99.119 | no |
| aerobic | no | 96.527 | no |
| halophile | no | 93.076 | no |
| spore-forming | yes | 56.511 | no |
| glucose-ferment | yes | 71.084 | no |
| thermophile | no | 96.885 | yes |
| glucose-util | yes | 89.95 | no |
External links
@ref: 65912
culture collection no.: DSM 102882, JCM 34985
straininfo link
- @ref: 111599
- straininfo: 403356
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 | |
| 65912 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-102882 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102882) | |
| 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 | |
| 111599 | 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-ID403356.1 |