Strain identifier
BacDive ID: 24664
Type strain: 
Species: Vibrio ostreicida
Strain Designation: PP-203
Strain history: <- S. Prado Plana, Univ. Santiago de Compostela, Spain; PP-203 <- S. Prado Plana
NCBI tax ID(s): 526588 (species)
version 8.1 (current version)
General
@ref: 21070
BacDive-ID: 24664
DSM-Number: 21433
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile, animal pathogen
description: Vibrio ostreicida PP-203 is a mesophilic, motile animal pathogen that was isolated from inner surface of culture containers in bivalve nursery.
NCBI tax id
- NCBI tax id: 526588
- Matching level: species
strain history
- @ref: 21070
- history: <- S. Prado Plana, Univ. Santiago de Compostela, Spain; PP-203 <- S. Prado Plana
doi: 10.13145/bacdive24664.20230509.8.1
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 ostreicida
- full scientific name: Vibrio ostreicida Prado et al. 2014
@ref: 21070
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Vibrionales, not validated
family: Vibrionaceae
genus: Vibrio
species: Vibrio ostreicida
full scientific name: Vibrio ostreicida Prado et al. 2014
strain designation: PP-203
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 96.118 | |
| 69480 | 99.973 | negative |
Culture and growth conditions
culture medium
- @ref: 21070
- 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: 21070
- growth: positive
- type: growth
- temperature: 25
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.982 |
Isolation, sampling and environmental information
isolation
- @ref: 21070
- sample type: inner surface of culture containers in bivalve nursery
- geographic location: Galicia
- country: Spain
- origin.country: ESP
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Built environment | |
| #Engineered | #Food production | #Aquaculture |
| #Host | #Invertebrates (Other) | #Mollusca |
Safety information
risk assessment
- @ref: 21070
- pathogenicity animal: yes
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21070
- description: Vibrio ostreicida partial 16S rRNA gene, type strain PP-203T
- accession: AJ296159
- length: 1455
- database: ena
- NCBI tax ID: 526588
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Vibrio ostreicida PP-203 | GCA_013074385 | scaffold | ncbi | 526588 |
| 66792 | Vibrio ostreicida strain PP-203 | 526588.7 | wgs | patric | 526588 |
GC content
- @ref: 21070
- GC-content: 53.0
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 90.529 | no |
| motile | yes | 90.529 | no |
| flagellated | yes | 88.841 | no |
| flagellated | yes | 88.841 | no |
| gram-positive | no | 98.756 | no |
| gram-positive | no | 98.756 | no |
| anaerobic | no | 97.571 | no |
| anaerobic | no | 97.571 | no |
| aerobic | yes | 82.07 | no |
| aerobic | yes | 82.07 | no |
| halophile | yes | 54.79 | no |
| halophile | yes | 54.79 | no |
| spore-forming | no | 94.826 | no |
| spore-forming | no | 94.826 | no |
| glucose-util | yes | 86.394 | no |
| glucose-util | yes | 86.394 | no |
| thermophile | no | 99.676 | yes |
| thermophile | no | 99.676 | yes |
| glucose-ferment | yes | 81.964 | no |
| glucose-ferment | yes | 81.964 | no |
External links
@ref: 21070
culture collection no.: DSM 21433, CECT 7398
straininfo link
- @ref: 88503
- straininfo: 379915
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 24510976 | Vibrio ostreicida sp. nov., a new pathogen of bivalve larvae. | Prado S, Dubert J, Romalde JL, Toranzo AE, Barja JL | Int J Syst Evol Microbiol | 10.1099/ijs.0.051417-0 | 2014 | Animals, Bacterial Typing Techniques, Bivalvia/*microbiology, DNA, Bacterial/genetics, Genes, Bacterial, Larva/microbiology, Molecular Sequence Data, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spain, Vibrio/*classification/genetics/isolation & purification | Genetics |
| Genetics | 32855258 | Draft Genome Sequence of Vibrio ostreicida Strain PP-203, the Type Strain of a Pathogen That Infects Bivalve Larvae. | Kumar RS, Galvis F, Wasson BJ, Saw JH, Oline DK, Barja JL, Ushijima B, Koyack MJ, Prado S, Videau P | Microbiol Resour Announc | 10.1128/MRA.00913-20 | 2020 |
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 | |
| 21070 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21433 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21433) | |
| 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 | |
| 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 | |
| 88503 | 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-ID379915.1 |