Strain identifier
BacDive ID: 24001
Type strain: 
Species: Vagococcus entomophilus
Strain Designation: VOSTP2
Strain history: <- J. Killer, Inst. Animal Physiol. and Genetics, Czech Acad. Sci., Prague; VOSTP2
NCBI tax ID(s): 1160095 (species)
version 8.1 (current version)
General
@ref: 20907
BacDive-ID: 24001
DSM-Number: 24756
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-positive
description: Vagococcus entomophilus VOSTP2 is a spore-forming, mesophilic, Gram-positive bacterium that was isolated from digestive tract of wasp .
NCBI tax id
- NCBI tax id: 1160095
- Matching level: species
strain history
- @ref: 20907
- history: <- J. Killer, Inst. Animal Physiol. and Genetics, Czech Acad. Sci., Prague; VOSTP2
doi: 10.13145/bacdive24001.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Lactobacillales
- family: Enterococcaceae
- genus: Vagococcus
- species: Vagococcus entomophilus
- full scientific name: Vagococcus entomophilus Killer et al. 2014
@ref: 20907
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Lactobacillales
family: Enterococcaceae
genus: Vagococcus
species: Vagococcus entomophilus
full scientific name: Vagococcus entomophilus Killer et al. 2014
strain designation: VOSTP2
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
- @ref: 20907
- name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
- growth: yes
- link: https://mediadive.dsmz.de/medium/92
- composition: Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
culture temp
- @ref: 20907
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 98 |
| 69480 | no | 99.91 |
Isolation, sampling and environmental information
isolation
- @ref: 20907
- sample type: digestive tract of wasp (Vespula vulgaris)
- host species: Vespula vulgaris
- geographic location: Modrany, Prague
- country: Czech Republic
- origin.country: CZE
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Arthropoda | #Insecta |
| #Host Body-Site | #Gastrointestinal tract |
taxonmaps
- @ref: 69479
- File name: preview.99_62971.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_13;96_13545;97_34571;98_44578;99_62971&stattab=map
- Last taxonomy: Vagococcus
- 16S sequence: JQ363620
- Sequence Identity:
- Total samples: 153
- soil counts: 3
- aquatic counts: 15
- animal counts: 130
- plant counts: 5
Safety information
risk assessment
- @ref: 20907
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20907
- description: Vagococcus entomophilus strain VOSTP2 16S ribosomal RNA gene, partial sequence
- accession: JQ363620
- length: 1430
- database: ena
- NCBI tax ID: 1160095
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Vagococcus entomophilus DSM 24756 | GCA_003987595 | contig | ncbi | 1160095 |
| 66792 | Vagococcus entomophilus strain DSM 24756 | 1160095.3 | wgs | patric | 1160095 |
| 66792 | Vagococcus entomophilus DSM 24756 | 2881375749 | draft | img | 1160095 |
GC content
- @ref: 20907
- GC-content: 39.7
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 98 | no |
| motile | no | 95.008 | no |
| gram-positive | yes | 95.778 | no |
| anaerobic | no | 93.541 | no |
| aerobic | no | 97.485 | no |
| halophile | yes | 86.09 | no |
| spore-forming | no | 90.156 | no |
| flagellated | no | 97.222 | no |
| thermophile | no | 99.496 | yes |
| glucose-util | yes | 87.141 | no |
| glucose-ferment | yes | 84.656 | no |
External links
@ref: 20907
culture collection no.: DSM 24756, CCM 7946
straininfo link
- @ref: 87976
- straininfo: 401190
literature
- topic: Phylogeny
- Pubmed-ID: 24174220
- title: Vagococcus entomophilus sp. nov., from the digestive tract of a wasp (Vespula vulgaris).
- authors: Killer J, Svec P, Sedlacek I, Cernohlavkova J, Benada O, Hroncova Z, Havlik J, Vlkova E, Rada V, Kopecny J, Kofronova O
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.054940-0
- year: 2013
- mesh: Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Enterococcaceae/*classification/genetics/isolation & purification, Fatty Acids/chemistry, Gastrointestinal Tract/*microbiology, Genes, Bacterial, Molecular Sequence Data, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Wasps/*microbiology
- topic2: Genetics
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 | |||
| 20907 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-24756 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24756) | |||
| 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 | |
| 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/ | |||
| 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 | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
| 87976 | 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-ID401190.1 |