Strain identifier
BacDive ID: 134224
Type strain: 
Species: Shewanella algidipiscicola
Strain Designation: S13
NCBI tax ID(s): 614070 (species)
version 8.1 (current version)
General
@ref: 31955
BacDive-ID: 134224
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, motile, rod-shaped
description: Shewanella algidipiscicola S13 is an aerobe, Gram-negative, motile bacterium that was isolated from marine fish.
NCBI tax id
- NCBI tax id: 614070
- Matching level: species
doi: 10.13145/bacdive134224.20230509.8.1
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 algidipiscicola
- full scientific name: Shewanella algidipiscicola Satomi et al. 2007
@ref: 31955
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Alteromonadales
family: Shewanellaceae
genus: Shewanella
species: Shewanella algidipiscicola
strain designation: S13
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 31955 | negative | 1.1 µm | 0.6 µm | rod-shaped | yes | |
| 69480 | yes | 98.442 | ||||
| 69480 | negative | 99.991 |
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 31955 | positive | growth | 04-37 | |
| 31955 | positive | optimum | 25 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 31955
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.979 |
halophily
- @ref: 31955
- salt: NaCl
- growth: positive
- tested relation: optimum
- concentration: 6 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 31955 | 22599 | arabinose | + | carbon source |
| 31955 | 24996 | lactate | + | carbon source |
| 31955 | 25115 | malate | + | carbon source |
| 31955 | 506227 | N-acetylglucosamine | + | carbon source |
| 31955 | 18257 | ornithine | + | carbon source |
| 31955 | 4853 | esculin | + | hydrolysis |
| 31955 | 17632 | nitrate | + | reduction |
metabolite production
- @ref: 31955
- Chebi-ID: 16136
- metabolite: hydrogen sulfide
- production: yes
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 31955 | catalase | + | 1.11.1.6 |
| 31955 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 31955
- sample type: marine fish
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Marine |
| #Host | #Fishes |
taxonmaps
- @ref: 69479
- File name: preview.99_1786.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_59;96_759;97_1181;98_1412;99_1786&stattab=map
- Last taxonomy: Shewanella
- 16S sequence: AB205570
- Sequence Identity:
- Total samples: 11071
- soil counts: 374
- aquatic counts: 8485
- animal counts: 2144
- plant counts: 68
Sequence information
16S sequences
- @ref: 31955
- description: Shewanella algidipiscicola gene for 16S rRNA, partial sequence, strain: S13
- accession: AB205570
- length: 1413
- database: nuccore
- NCBI tax ID: 614070
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Shewanella algidipiscicola LMG 23746 | GCA_003605125 | contig | ncbi | 614070 |
| 66792 | Shewanella algidipiscicola LMG 23746 | GCA_019655175 | contig | ncbi | 614070 |
| 66792 | Shewanella algidipiscicola strain LMG 23746 | 614070.10 | wgs | patric | 614070 |
| 66792 | Shewanella algidipiscicola strain LMG 23746 | 614070.4 | wgs | patric | 614070 |
| 66792 | Shewanella algidipiscicola LMG 23746 | 2834769631 | draft | img | 614070 |
GC content
- @ref: 31955
- GC-content: 47
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 99.312 | yes |
| anaerobic | no | 96.748 | yes |
| halophile | yes | 73.209 | yes |
| spore-forming | no | 96.024 | no |
| glucose-util | yes | 81.333 | no |
| thermophile | no | 99.211 | yes |
| flagellated | yes | 89.468 | no |
| aerobic | yes | 55.791 | yes |
| motile | yes | 92.995 | no |
| glucose-ferment | no | 60.928 | no |
External links
@ref: 31955
culture collection no.: LMG 23746, NBRC 102032
straininfo link
- @ref: 91818
- straininfo: 291627
literature
- topic: Phylogeny
- Pubmed-ID: 17267977
- title: Description of Shewanella glacialipiscicola sp. nov. and Shewanella algidipiscicola sp. nov., isolated from marine fish of the Danish Baltic Sea, and proposal that Shewanella affinis is a later heterotypic synonym of Shewanella colwelliana.
- authors: Satomi M, Vogel BF, Venkateswaran K, Gram L
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.64708-0
- year: 2007
- mesh: Acetylglucosamine/metabolism, Animals, Bacterial Typing Techniques, Base Composition, DNA Gyrase/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Denmark, Fishes/*microbiology, Genes, rRNA, Hydrogen Sulfide/metabolism, Lactic Acid/metabolism, Malates/metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Shewanella/*classification/cytology/*isolation & purification/physiology
- topic2: Metabolism
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 | ||
| 31955 | 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 | 28211 | 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/ | ||
| 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 | ||
| 91818 | 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-ID291627.1 |