Strain identifier
BacDive ID: 17254
Type strain: 
Species: Aliivibrio finisterrensis
Strain history: <- CECT <- J. L. Romalde, University of Santiago de Compostela, Spain
NCBI tax ID(s): 511998 (species)
version 8.1 (current version)
General
@ref: 17196
BacDive-ID: 17254
DSM-Number: 23419
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Aliivibrio finisterrensis DSM 23419 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from cultured Manila clamp Ruditapes philippinarum.
NCBI tax id
- NCBI tax id: 511998
- Matching level: species
strain history
- @ref: 17196
- history: <- CECT <- J. L. Romalde, University of Santiago de Compostela, Spain
doi: 10.13145/bacdive17254.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Vibrionales
- family: Vibrionaceae
- genus: Aliivibrio
- species: Aliivibrio finisterrensis
- full scientific name: Aliivibrio finisterrensis Beaz-Hidalgo et al. 2010
@ref: 17196
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Vibrionales, not validated
family: Vibrionaceae
genus: Aliivibrio
species: Aliivibrio finisterrensis
full scientific name: Aliivibrio finisterrensis Beaz-Hidalgo et al. 2010
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell shape | motility | confidence |
|---|---|---|---|---|
| 29312 | negative | rod-shaped | yes | |
| 69480 | yes | 97.936 | ||
| 69480 | negative | 99.991 |
pigmentation
- @ref: 29312
- production: yes
multimedia
- @ref: 17196
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_23419.jpg
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 17196
- name: REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c)
- growth: yes
- link: https://mediadive.dsmz.de/medium/514c
- composition: Name: REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c) Composition: NaCl 19.45 g/l Agar 18.0 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 Na2CO3 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 |
|---|---|---|---|---|
| 17196 | positive | growth | 28 | mesophilic |
| 29312 | positive | growth | 4 | psychrophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 29312
- oxygen tolerance: facultative anaerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.991 |
halophily
- @ref: 29312
- salt: NaCl
- growth: positive
- tested relation: optimum
- concentration: 2 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 29312 | 17057 | cellobiose | + | carbon source |
| 29312 | 28757 | fructose | + | carbon source |
| 29312 | 28260 | galactose | + | carbon source |
| 29312 | 17234 | glucose | + | carbon source |
| 29312 | 17754 | glycerol | + | carbon source |
| 29312 | 17716 | lactose | + | carbon source |
| 29312 | 17306 | maltose | + | carbon source |
| 29312 | 37684 | mannose | + | carbon source |
| 29312 | 506227 | N-acetylglucosamine | + | carbon source |
| 29312 | 33942 | ribose | + | carbon source |
| 29312 | 17814 | salicin | + | carbon source |
| 29312 | 4853 | esculin | + | hydrolysis |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 29312 | alkaline phosphatase | + | 3.1.3.1 |
| 29312 | catalase | + | 1.11.1.6 |
| 29312 | cytochrome oxidase | + | 1.9.3.1 |
| 29312 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
- @ref: 17196
- sample type: cultured Manila clamp Ruditapes philippinarum
- host species: Ruditapes philippinarum
- geographic location: north western coast
- country: Spain
- origin.country: ESP
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Food production | #Aquaculture |
| #Host | #Invertebrates (Other) | #Mollusca |
Safety information
risk assessment
- @ref: 17196
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 17196
- description: Aliivibrio finisterrensis strain CECT 7228 16S ribosomal RNA gene, partial sequence
- accession: EU541604
- length: 1524
- database: ena
- NCBI tax ID: 511998
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Aliivibrio finisterrensis LMG 23869 | GCA_008933155 | contig | ncbi | 511998 |
| 66792 | Aliivibrio finisterrensis strain LMG 23869 | 511998.14 | wgs | patric | 511998 |
GC content
- @ref: 29312
- GC-content: 38-42
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 98.941 | yes |
| anaerobic | no | 97.62 | yes |
| halophile | yes | 75.893 | no |
| spore-forming | no | 94.377 | no |
| glucose-util | yes | 89.404 | yes |
| aerobic | yes | 83.508 | no |
| thermophile | no | 99.061 | yes |
| motile | yes | 90.875 | yes |
| flagellated | yes | 85.207 | no |
| glucose-ferment | yes | 85.262 | no |
External links
@ref: 17196
culture collection no.: DSM 23419, CECT 7228, LMG 23869, CMJ 11.1
straininfo link
- @ref: 86252
- straininfo: 360631
literature
- topic: Phylogeny
- Pubmed-ID: 19648323
- title: Aliivibrio finisterrensis sp. nov., isolated from Manila clam, Ruditapes philippinarum and emended description of the genus Aliivibrio.
- authors: Beaz-Hidalgo R, Doce A, Balboa S, Barja JL, Romalde JL
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.010710-0
- year: 2009
- mesh: Animals, Bacterial Proteins/genetics, Bivalvia/*microbiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, DNA-Directed RNA Polymerases/genetics, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Rec A Recombinases/genetics, Vibrionaceae/*classification/enzymology/genetics/*isolation & purification
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 17196 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23419) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23419 | |||
| 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 | |||
| 29312 | 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 | 25725 | 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) | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 86252 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID360631.1 | StrainInfo: A central database for resolving microbial strain identifiers |