Strain identifier
BacDive ID: 17361
Type strain: 
Species: Vibrio atlanticus
Strain Designation: Vb 11.11
Strain history: <- CECT <- J. L. Romalde, University of Santiago de Compostela, Spain <- R. Beaz
NCBI tax ID(s): 693153 (species)
version 8.1 (current version)
General
@ref: 18240
BacDive-ID: 17361
DSM-Number: 26479
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Vibrio atlanticus Vb 11.11 is a mesophilic bacterium that was isolated from cultured clams Ruditapes philippinarum.
NCBI tax id
- NCBI tax id: 693153
- Matching level: species
strain history
- @ref: 18240
- history: <- CECT <- J. L. Romalde, University of Santiago de Compostela, Spain <- R. Beaz
doi: 10.13145/bacdive17361.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Vibrionales
- family: Vibrionaceae
- genus: Vibrio
- species: Vibrio atlanticus
- full scientific name: Vibrio atlanticus Diéguez et al. 2011
@ref: 18240
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Vibrionales, not validated
family: Vibrionaceae
genus: Vibrio
species: Vibrio atlanticus
full scientific name: Vibrio atlanticus Diéguez et al. 2011
strain designation: Vb 11.11
type strain: yes
Culture and growth conditions
culture medium
- @ref: 18240
- name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
- growth: yes
- link: https://mediadive.dsmz.de/medium/514
- composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
culture temp
- @ref: 18240
- growth: positive
- type: growth
- temperature: 25
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 18240
- sample type: cultured clams Ruditapes philippinarum
- host species: Ruditapes philippinarum
- geographic location: Galicia, Vilaboa
- country: Spain
- origin.country: ESP
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Food production | #Aquaculture |
| #Host | #Invertebrates (Other) | #Mollusca |
taxonmaps
- @ref: 69479
- File name: preview.99_498.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_14;96_71;97_361;98_409;99_498&stattab=map
- Last taxonomy: Vibrio
- 16S sequence: EF599163
- Sequence Identity:
- Total samples: 8493
- soil counts: 235
- aquatic counts: 6823
- animal counts: 1389
- plant counts: 46
Sequence information
16S sequences
- @ref: 18240
- description: Vibrio atlanticus strain LMG 24300 16S ribosomal RNA gene, partial sequence
- accession: EF599163
- length: 1536
- database: ena
- NCBI tax ID: 693153
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Vibrio atlanticus CECT 7223 | GCA_900089855 | scaffold | ncbi | 693153 |
| 66792 | Vibrio atlanticus strain CECT 7223 | 693153.4 | wgs | patric | 693153 |
| 66792 | Vibrio atlanticus CECT 7223 | 2767802215 | draft | img | 693153 |
| 66792 | Vibrio atlanticus CECT 7223 | GCA_024347315 | complete | ncbi | 693153 |
GC content
- @ref: 18240
- GC-content: 44.2
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | yes | 85.029 | no |
| gram-positive | no | 98.756 | no |
| anaerobic | no | 96.764 | no |
| aerobic | yes | 89.786 | no |
| halophile | yes | 57.001 | no |
| spore-forming | no | 94.44 | no |
| motile | yes | 89.041 | no |
| glucose-ferment | yes | 87.091 | no |
| thermophile | no | 99.334 | no |
| glucose-util | yes | 87.321 | no |
External links
@ref: 18240
culture collection no.: DSM 26479, CECT 7223, LMG 24300
straininfo link
- @ref: 86362
- straininfo: 307625
literature
- topic: Phylogeny
- Pubmed-ID: 21075909
- title: Vibrio atlanticus sp. nov. and Vibrio artabrorum sp. nov., isolated from the clams Ruditapes philippinarum and Ruditapes decussatus.
- authors: Dieguez AL, Beaz-Hidalgo R, Cleenwerck I, Balboa S, de Vos P, Romalde JL
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.025320-0
- year: 2010
- mesh: Aerobiosis, Anaerobiosis, Animals, Bacterial Proteins/genetics, Bacterial Typing Techniques, Bivalvia/*microbiology, Cluster Analysis, DNA, Bacterial/chemistry/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Sequence Analysis, DNA, Vibrio/*classification/genetics/*isolation & purification/physiology
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 18240 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26479) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-26479 | |
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |
| 86362 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID307625.1 | StrainInfo: A central database for resolving microbial strain identifiers |