Strain identifier
BacDive ID: 158984
Type strain: 
Species: Ligilactobacillus agilis
Strain Designation: WCA-389-WT-5H1
Strain history: <- D. Wylensek, TU Munich, Freising-Weihenstephan, Germany; WCA-389-WT-5H1
NCBI tax ID(s): 1601 (species)
version 9.3 (current version)
General
@ref: 65807
BacDive-ID: 158984
DSM-Number: 102821
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-positive
description: Ligilactobacillus agilis WCA-389-WT-5H1 is a mesophilic, Gram-positive bacterium that was isolated from feces; pig, 3.5 month old, wild type.
NCBI tax id
- NCBI tax id: 1601
- Matching level: species
strain history
- @ref: 65807
- history: <- D. Wylensek, TU Munich, Freising-Weihenstephan, Germany; WCA-389-WT-5H1
doi: 10.13145/bacdive158984.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Lactobacillales
- family: Lactobacillaceae
- genus: Ligilactobacillus
- species: Ligilactobacillus agilis
- full scientific name: Ligilactobacillus agilis (Weiss et al. 1982) Zheng et al. 2020
synonyms
- @ref: 20215
- synonym: Lactobacillus agilis
@ref: 65807
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Lactobacillales
family: Lactobacillaceae
genus: Ligilactobacillus
species: Ligilactobacillus agilis
full scientific name: Ligilactobacillus agilis (Weiss et al. 1982) Zheng et al. 2020
strain designation: WCA-389-WT-5H1
type strain: no
Morphology
cell morphology
- @ref: 125438
- gram stain: positive
- confidence: 90.01
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 65807 | MRS MEDIUM (DSMZ Medium 11) | yes | https://mediadive.dsmz.de/medium/11 | Name: MRS MEDIUM (DSMZ Medium 11) Composition: Glucose 20.0 g/l Casein peptone 10.0 g/l Meat extract 10.0 g/l Na-acetate 5.0 g/l Yeast extract 5.0 g/l (NH4)3 citrate 2.0 g/l K2HPO4 2.0 g/l Tween 80 1.0 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Distilled water |
| 65807 | WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) | yes | https://mediadive.dsmz.de/medium/339 | Name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) Composition: dehydrated Wilkins-Chalgren medium 33.0 g/l L-Cysteine HCl 0.3 g/l Sodium resazurin 0.0005 g/l Distilled water |
culture temp
- @ref: 65807
- growth: positive
- type: growth
- temperature: 37
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: anaerobe
- confidence: 97.4
Isolation, sampling and environmental information
isolation
- @ref: 65807
- sample type: feces; pig, 3.5 month 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_6918.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_3250;97_3988;98_5089;99_6918&stattab=map
- Last taxonomy: Ligilactobacillus agilis subclade
- 16S sequence: MN537457
- Sequence Identity:
- Total samples: 41290
- soil counts: 1642
- aquatic counts: 1961
- animal counts: 36795
- plant counts: 892
Safety information
risk assessment
- @ref: 65807
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 65807
- description: Ligilactobacillus agilis strain DSM 102821 16S ribosomal RNA gene, partial sequence
- accession: MN537457
- length: 1511
- database: nuccore
- NCBI tax ID: 1601
Genome sequences
- @ref: 66792
- description: Ligilactobacillus agilis WCA-389-WT-5H1
- accession: GCA_012843665
- assembly level: contig
- database: ncbi
- NCBI tax ID: 1601
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 90.01 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 82.477 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 98 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 79.38 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 94.333 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 59.833 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 58.5 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | no | 58.4 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | variable | 68.2 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | anaerobe | 97.4 |
External links
@ref: 65807
culture collection no.: DSM 102821
straininfo link
- @ref: 111500
- straininfo: 400520
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 | |
| 65807 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-102821 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102821) | |
| 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 | |
| 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/ | |
| 111500 | 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-ID400520.1 | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 | |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |