Strain identifier
BacDive ID: 162332
Type strain: 
Species: Vibrio sp.
Strain history: T. Kudo S4.
NCBI tax ID(s): 1298600 (species)
version 8.1 (current version)
General
@ref: 67770
BacDive-ID: 162332
keywords: genome sequence, Bacteria, mesophilic, Gram-negative
description: Vibrio sp. JCM 18905 is a mesophilic, Gram-negative bacterium that was isolated from Tetrodotoxin-bearing scavenging gastropod Nassarius glans.
NCBI tax id
- NCBI tax id: 1298600
- Matching level: species
strain history
- @ref: 67770
- history: T. Kudo S4.
doi: 10.13145/bacdive162332.20230509.8.1
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 sp.
- full scientific name: Vibrio Pacini 1854 (Approved Lists 1980)
synonyms
@ref synonym 20215 Beneckea 20215 Allomonas 20215 Lucibacterium
@ref: 67770
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Vibrionales
family: Vibrionaceae
genus: Vibrio
species: Vibrio sp.
full scientific name: Vibrio sp.
type strain: no
Morphology
cell morphology
| @ref | gram stain | confidence | motility |
|---|---|---|---|
| 69480 | negative | 99.98 | |
| 69480 | 95.307 | yes |
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | no | 99.95 |
| 69481 | no | 100 |
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Tetrodotoxin-bearing scavenging gastropod Nassarius (Alectrion) glans
- host species: Nassarius
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Vibrio sp. JCM 18905 | GCA_001315205 | contig | ncbi | 1298600 |
| 66792 | Vibrio sp. JCM 18905 | 1298600.4 | wgs | patric | 1298600 |
| 66792 | Vibrio sp. JCM 18905 | 1298600.3 | wgs | patric | 1298600 |
| 66792 | Vibrio sp. JCM 18905 | 2579778801 | draft | img | 1298600 |
| 67770 | Vibrio sp. JCM 18905 | GCA_000695055 | contig | ncbi | 1298600 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 90.914 | no |
| gram-positive | no | 98.64 | no |
| anaerobic | no | 95.463 | no |
| aerobic | yes | 81.378 | no |
| halophile | no | 51.558 | no |
| spore-forming | no | 94.089 | no |
| thermophile | no | 99.711 | no |
| glucose-util | yes | 91.098 | no |
| flagellated | yes | 88.071 | no |
| glucose-ferment | yes | 88.819 | no |
External links
@ref: 67770
culture collection no.: JCM 18905
literature
- topic: Genetics
- Pubmed-ID: 24948773
- title: Draft Genome Sequences of Vibrio sp. Strains Isolated from Tetrodotoxin-Bearing Scavenging Gastropod.
- authors: Kudo T, Kawauchi A, Nakahara T, Zhang X, Taniyama S, Takatani T, Arakawa O, Oshima K, Suda W, Kitamura K, Iida T, Iino T, Inoue T, Hongoh Y, Hattori M, Ohkuma M
- journal: Genome Announc
- DOI: 10.1128/genomeA.00623-14
- year: 2014
- topic2: Phylogeny
Reference
| @id | authors | title | doi/url |
|---|---|---|---|
| 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 |
| 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 |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |
| 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 |