Strain identifier
BacDive ID: 133424
Type strain: 
Species: Shewanella vesiculosa
Strain Designation: M7
NCBI tax ID(s): 518738 (species)
version 9.3 (current version)
General
@ref: 28894
BacDive-ID: 133424
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, psychrophilic, Gram-negative, motile, rod-shaped
description: Shewanella vesiculosa M7 is a facultative anaerobe, psychrophilic, Gram-negative bacterium that was isolated from marine sediment.
NCBI tax id
- NCBI tax id: 518738
- Matching level: species
doi: 10.13145/bacdive133424.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Alteromonadales
- family: Shewanellaceae
- genus: Shewanella
- species: Shewanella vesiculosa
- full scientific name: Shewanella vesiculosa Bozal et al. 2009
@ref: 28894
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Alteromonadales
family: Shewanellaceae
genus: Shewanella
species: Shewanella vesiculosa
strain designation: M7
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 28894 | negative | 2.25 µm | 0.5 µm | rod-shaped | yes | |
| 125438 | negative | 98.5 |
pigmentation
- @ref: 28894
- production: no
Culture and growth conditions
culture temp
- @ref: 28894
- growth: positive
- type: optimum
- temperature: 17.5
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 28894 | positive | growth | 6.0-8.5 | alkaliphile |
| 28894 | positive | optimum | 7.5 |
Physiology and metabolism
oxygen tolerance
- @ref: 28894
- oxygen tolerance: facultative anaerobe
spore formation
- @ref: 28894
- spore formation: no
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 28894 | NaCl | positive | growth | <7 % |
| 28894 | NaCl | positive | optimum | 2 % |
observation
- @ref: 28894
- observation: aggregates in clumps
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 28894 | 17057 | cellobiose | + | carbon source |
| 28894 | 28260 | galactose | + | carbon source |
| 28894 | 17234 | glucose | + | carbon source |
| 28894 | 25115 | malate | + | carbon source |
| 28894 | 17306 | maltose | + | carbon source |
| 28894 | 29864 | mannitol | + | carbon source |
| 28894 | 28053 | melibiose | + | carbon source |
| 28894 | 17992 | sucrose | + | carbon source |
| 28894 | 4853 | esculin | + | hydrolysis |
metabolite production
- @ref: 28894
- Chebi-ID: 16136
- metabolite: hydrogen sulfide
- production: yes
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 28894 | alkaline phosphatase | + | 3.1.3.1 |
| 28894 | catalase | + | 1.11.1.6 |
| 28894 | gelatinase | + | |
| 28894 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 28894
- sample type: marine sediment
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Environmental | #Aquatic | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_2178.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_59;96_126;97_1400;98_1701;99_2178&stattab=map
- Last taxonomy: Shewanella
- 16S sequence: AM980877
- Sequence Identity:
- Total samples: 11713
- soil counts: 472
- aquatic counts: 8506
- animal counts: 2645
- plant counts: 90
Sequence information
16S sequences
- @ref: 28894
- description: Shewanella vesiculosa partial 16S rRNA gene, type strain M7T
- accession: AM980877
- length: 1495
- database: nuccore
- NCBI tax ID: 518738
Genome sequences
- @ref: 66792
- description: Shewanella vesiculosa M7
- accession: GCA_021560015
- assembly level: complete
- database: ncbi
- NCBI tax ID: 518738
GC content
- @ref: 28894
- GC-content: 42
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 98.5 | yes |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 92.92 | yes |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 51.807 | yes |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 89.836 | yes |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 98.45 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 89.026 | no |
External links
@ref: 28894
culture collection no.: LMG 244245, CECT 7339
straininfo link
- @ref: 91429
- straininfo: 323228
literature
- topic: Phylogeny
- Pubmed-ID: 19196774
- title: Shewanella vesiculosa sp. nov., a psychrotolerant bacterium isolated from an Antarctic coastal area.
- authors: Bozal N, Montes MJ, Minana-Galbis D, Manresa A, Mercade E
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.000737-0
- year: 2009
- mesh: Antarctic Regions, DNA Gyrase/genetics, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Shewanella/*classification/genetics/isolation & purification, Species Specificity
- topic2: Genetics
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed |
|---|---|---|---|---|---|
| 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 | ||
| 28894 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 25334 | 28776041 |
| 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 | ||
| 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/ | ||
| 91429 | 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-ID323228.1 | ||
| 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 |