Strain identifier
BacDive ID: 164801
Type strain: 
Species: Vibrio fluvialis
Strain history: T. Shimada 305-77.
NCBI tax ID(s): 676 (species)
version 9.3 (current version)
General
@ref: 67770
BacDive-ID: 164801
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Vibrio fluvialis JCM 3739 is a mesophilic, Gram-negative bacterium of the family Vibrionaceae.
NCBI tax id
- NCBI tax id: 676
- Matching level: species
strain history
- @ref: 67770
- history: T. Shimada 305-77.
doi: 10.13145/bacdive164801.20250331.9.3
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 fluvialis
- full scientific name: Vibrio fluvialis Lee et al. 1981
synonyms
- @ref: 20215
- synonym: Allomonas enterica
@ref: 67770
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Vibrionales
family: Vibrionaceae
genus: Vibrio
species: Vibrio fluvialis
full scientific name: Vibrio fluvialis Lee et al. 1981
type strain: no
Morphology
cell morphology
| @ref | gram stain | confidence |
|---|---|---|
| 125439 | negative | 99.4 |
| 125438 | negative | 100 |
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 37
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: obligate aerobe
- confidence: 96.9
spore formation
- @ref: 125439
- spore formation: no
- confidence: 99.1
Isolation, sampling and environmental information
taxonmaps
- @ref: 69479
- File name: preview.99_418.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_14;96_71;97_312;98_347;99_418&stattab=map
- Last taxonomy: Vibrio
- 16S sequence: LC420082
- Sequence Identity:
- Total samples: 3818
- soil counts: 168
- aquatic counts: 1720
- animal counts: 1806
- plant counts: 124
Sequence information
16S sequences
- @ref: 67770
- description: Vibrio fluvialis JCM 3739 gene for 16S ribosomal RNA, partial sequence
- accession: LC420082
- length: 1475
- database: nuccore
- NCBI tax ID: 676
Genome sequences
- @ref: 66792
- description: Vibrio fluvialis JCM3739
- accession: GCA_021394325
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 676
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 | 93.912 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 68.513 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 88.524 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 99.239 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 89.528 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 99.1 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 85.1 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 99.4 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 96.9 |
External links
@ref: 67770
culture collection no.: JCM 3739
straininfo link
- @ref: 114231
- straininfo: 64152
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/ | |
| 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/ |
| 114231 | 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-ID64152.1 |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |