Strain identifier
BacDive ID: 17356
Type strain: 
Species: Vibrio celticus
Strain Designation: Rd 8.15
Strain history: <- CECT <- J. L. Romalde, University of Santiago de Compostela, Spain <- R. Beaz
NCBI tax ID(s): 446372 (species)
version 9.3 (current version)
General
@ref: 18177
BacDive-ID: 17356
DSM-Number: 26172
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, animal pathogen
description: Vibrio celticus Rd 8.15 is a mesophilic, Gram-negative animal pathogen that was isolated from cultured clams Ruditapes philippinarum.
NCBI tax id
- NCBI tax id: 446372
- Matching level: species
strain history
- @ref: 18177
- history: <- CECT <- J. L. Romalde, University of Santiago de Compostela, Spain <- R. Beaz
doi: 10.13145/bacdive17356.20250331.9.3
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 celticus
- full scientific name: Vibrio celticus Beaz-Hidalgo et al. 2011
@ref: 18177
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Vibrionales, not validated
family: Vibrionaceae
genus: Vibrio
species: Vibrio celticus
full scientific name: Vibrio celticus Beaz-Hidalgo et al. 2011
strain designation: Rd 8.15
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence |
|---|---|---|
| 125439 | negative | 93.8 |
| 125438 | negative | 100 |
multimedia
- @ref: 18177
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_26172.jpg
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 18177
- 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: 18177
- growth: positive
- type: growth
- temperature: 28
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: obligate aerobe
- confidence: 95.3
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 125439 | no | 94.8 |
| 125438 | no | 93.178 |
Isolation, sampling and environmental information
isolation
- @ref: 18177
- sample type: cultured clams Ruditapes philippinarum
- host species: Ruditapes philippinarum
- geographic location: Galicia, Redondela
- 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_929.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_14;96_71;97_361;98_409;99_929&stattab=map
- Last taxonomy: Vibrio
- 16S sequence: EF599162
- Sequence Identity:
- Total samples: 6265
- soil counts: 160
- aquatic counts: 5115
- animal counts: 960
- plant counts: 30
Safety information
risk assessment
- @ref: 18177
- pathogenicity animal: yes
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 18177
- description: Vibrio celticus strain LMG 23850 16S ribosomal RNA gene, partial sequence
- accession: EF599162
- length: 1542
- database: nuccore
- NCBI tax ID: 446372
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Vibrio celticus CECT 7224 | GCA_900089965 | scaffold | ncbi | 446372 |
| 66792 | Vibrio celticus strain CECT 7224 | 446372.11 | wgs | patric | 446372 |
| 66792 | Vibrio celticus CECT 7224 | 2767802214 | draft | img | 446372 |
| 66792 | Vibrio celticus Rd 8.15 | GCA_002156525 | contig | ncbi | 446372 |
| 66792 | Vibrio celticus CECT 7224 | GCA_024347335 | complete | ncbi | 446372 |
GC content
- @ref: 18177
- GC-content: 44.6
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 100 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 96.208 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 67.208 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 93.178 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 100 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 86.77 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 94.8 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 67 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 93.8 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 95.3 |
External links
@ref: 18177
culture collection no.: DSM 26172, CECT 7224, LMG 23850
straininfo link
- @ref: 86357
- straininfo: 307624
literature
- topic: Phylogeny
- Pubmed-ID: 20724091
- title: Vibrio celticus sp. nov., a new Vibrio species belonging to the Splendidus clade with pathogenic potential for clams.
- authors: Beaz-Hidalgo R, Dieguez AL, Cleenwerck I, Balboa S, Doce A, de Vos P, Romalde JL
- journal: Syst Appl Microbiol
- DOI: 10.1016/j.syapm.2010.06.007
- year: 2010
- mesh: Animals, Bacterial Proteins/genetics, Bacterial Typing Techniques, Bivalvia/*microbiology, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spain, Vibrio/*classification/genetics/*isolation & purification/physiology
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 18177 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26172) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-26172 | |
| 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 | |
| 86357 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID307624.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | 10.1101/2024.08.12.607695 | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | https://github.com/GenomeNet/deepG | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 |