Strain identifier
BacDive ID: 17369
Type strain: 
Species: Vibrio alfacsensis
Strain Designation: S277
Strain history: <- B. Gomez-Gil, CAIM <- A. Roque, IRTA, Catalonia, Spain
NCBI tax ID(s): 1074311 (species)
version 8.1 (current version)
General
@ref: 17703
BacDive-ID: 17369
DSM-Number: 24595
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, motile, ovoid-shaped
description: Vibrio alfacsensis S277 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from gills of healthy sole .
NCBI tax id
- NCBI tax id: 1074311
- Matching level: species
strain history
- @ref: 17703
- history: <- B. Gomez-Gil, CAIM <- A. Roque, IRTA, Catalonia, Spain
doi: 10.13145/bacdive17369.20230509.8.1
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 alfacsensis
- full scientific name: Vibrio alfacsensis Gomez-Gil et al. 2012
@ref: 17703
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Vibrionales, not validated
family: Vibrionaceae
genus: Vibrio
species: Vibrio alfacsensis
full scientific name: Vibrio alfacsensis Gomez-Gil et al. 2012
strain designation: S277
type strain: yes
Morphology
cell morphology
- @ref: 30310
- gram stain: negative
- cell length: 2.09 µm
- cell width: 0.86 µm
- cell shape: ovoid-shaped
- motility: yes
Culture and growth conditions
culture medium
- @ref: 17703
- 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 | growth | type | temperature | range |
|---|---|---|---|---|
| 17703 | positive | growth | 28 | mesophilic |
| 30310 | positive | growth | 08-37 | |
| 30310 | positive | optimum | 33.5 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 30310 | positive | growth | 05-10 | alkaliphile |
| 30310 | positive | optimum | 8 |
Physiology and metabolism
oxygen tolerance
- @ref: 30310
- oxygen tolerance: facultative anaerobe
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 30310 | NaCl | positive | growth | 0.5-7 % |
| 30310 | NaCl | positive | optimum | 3.75 % |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30310 | 35391 | aspartate | + | carbon source |
| 30310 | 29987 | glutamate | + | carbon source |
| 30310 | 17306 | maltose | + | carbon source |
| 30310 | 15361 | pyruvate | + | carbon source |
| 30310 | 26986 | threonine | + | carbon source |
metabolite production
- @ref: 30310
- Chebi-ID: 35581
- metabolite: indole
- production: yes
metabolite tests
- @ref: 30310
- Chebi-ID: 35581
- metabolite: indole
- indole test: +
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30310 | acid phosphatase | + | 3.1.3.2 |
| 30310 | catalase | + | 1.11.1.6 |
| 30310 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 17703
- sample type: gills of healthy sole (Solea senegalensis)
- host species: Solea senegalensis
- geographic location: Catalonia, River Ebro delta, Alfacs bay, Sant Carles de la Ràpita (40° 37' 40'' N, 0° 39' 36'' W)
- country: Spain
- origin.country: ESP
- continent: Europe
- latitude: 40.6278
- longitude: -0.66
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Invertebrates (Other) | #Tunicata |
| #Host Body-Site | #Organ | #Vascular system |
taxonmaps
- @ref: 69479
- File name: preview.99_79851.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_14;96_71;97_74;98_3002;99_79851&stattab=map
- Last taxonomy: Vibrio
- 16S sequence: JF316656
- Sequence Identity:
- Total samples: 364
- soil counts: 11
- aquatic counts: 202
- animal counts: 148
- plant counts: 3
Safety information
risk assessment
- @ref: 17703
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 17703
- description: Vibrio alfacsensis strain CAIM 1831 16S ribosomal RNA gene, partial sequence
- accession: JF316656
- length: 1497
- database: ena
- NCBI tax ID: 1074311
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Vibrio alfacsensis CAIM 1831 | GCA_003544875 | complete | ncbi | 1074311 |
| 66792 | Vibrio alfacsensis strain CAIM 1831 | 1074311.9 | complete | patric | 1074311 |
| 66792 | Vibrio alfacsensis CAIM 1831 | 2860786685 | complete | img | 1074311 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 17703 | 44.5 | fluorimetric |
| 30310 | 43.5-45.1 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | yes | 91.065 | no |
| flagellated | yes | 85.227 | no |
| gram-positive | no | 98.793 | yes |
| anaerobic | no | 96.041 | yes |
| aerobic | yes | 86.182 | no |
| halophile | yes | 60.949 | no |
| spore-forming | no | 94.271 | no |
| glucose-util | yes | 90.574 | no |
| thermophile | no | 98.964 | yes |
| glucose-ferment | yes | 88.011 | no |
External links
@ref: 17703
culture collection no.: DSM 24595, CAIM 1831
straininfo link
- @ref: 86368
- straininfo: 404599
literature
- topic: Phylogeny
- Pubmed-ID: 22286904
- title: Vibrio alfacsensis sp. nov., isolated from marine organisms.
- authors: Gomez-Gil B, Roque A, Chimetto L, Moreira APB, Lang E, Thompson FL
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.033191-0
- year: 2012
- mesh: Animals, Anthozoa/microbiology, Bacterial Typing Techniques, Brazil, DNA, Bacterial/genetics, Flatfishes/microbiology, Mexico, Molecular Sequence Data, Multilocus Sequence Typing, Perciformes/microbiology, Phenotype, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spain, Vibrio/*classification/genetics/*isolation & purification
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 17703 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24595) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-24595 | |||
| 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 | |||
| 30310 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26651 | 28776041 | |
| 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 | |||
| 86368 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID404599.1 | StrainInfo: A central database for resolving microbial strain identifiers |