Strain identifier
BacDive ID: 14061
Type strain: 
Species: Shewanella benthica
Strain Designation: UM 145, W 145
Strain history: <- ATCC <- R. M. Weiner; UM 145 <- R. R. Colwell
NCBI tax ID(s): 43661 (species)
version 8.1 (current version)
General
@ref: 3412
BacDive-ID: 14061
DSM-Number: 8812
keywords: genome sequence, 16S sequence, Bacteria, psychrophilic
description: Shewanella benthica UM 145 is a psychrophilic bacterium that was isolated from intestinal scrapings of holothurian Psychropotes longicauda.
NCBI tax id
- NCBI tax id: 43661
- Matching level: species
strain history
- @ref: 3412
- history: <- ATCC <- R. M. Weiner; UM 145 <- R. R. Colwell
doi: 10.13145/bacdive14061.20230509.8.1
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 benthica
- full scientific name: Shewanella benthica MacDonell and Colwell 1986
@ref: 3412
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Alteromonadales
family: Shewanellaceae
genus: Shewanella
species: Shewanella benthica
full scientific name: Shewanella benthica MacDonell and Colwell 1986
strain designation: UM 145, W 145
type strain: yes
Culture and growth conditions
culture medium
- @ref: 3412
- 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: 3412
- growth: positive
- type: growth
- temperature: 4
- range: psychrophilic
Isolation, sampling and environmental information
isolation
- @ref: 3412
- sample type: intestinal scrapings of holothurian Psychropotes longicauda
- host species: Psychropotes longicauda
- geographic location: Walvis Ridge
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Invertebrates (Other) | #Echinodermata |
| #Host Body-Site | #Gastrointestinal tract |
Safety information
risk assessment
- @ref: 3412
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: S.benthica 16S rRNA gene (ATCC 43992)
- accession: X82131
- length: 1438
- database: ena
- NCBI tax ID: 43661
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Shewanella benthica DSM 8812 | GCA_015069875 | scaffold | ncbi | 43661 |
| 66792 | Shewanella benthica strain DSM 8812 | 43661.7 | wgs | patric | 43661 |
| 66792 | Shewanella benthica DSM 8812 | GCA_023284085 | contig | ncbi | 43661 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | yes | 89.863 | no |
| flagellated | yes | 74.94 | no |
| gram-positive | no | 98.099 | no |
| anaerobic | no | 92.363 | no |
| aerobic | no | 63.495 | no |
| halophile | yes | 51.29 | no |
| spore-forming | no | 95.211 | no |
| glucose-util | yes | 84.314 | no |
| thermophile | no | 97.064 | yes |
| glucose-ferment | no | 75.082 | no |
External links
@ref: 3412
culture collection no.: DSM 8812, ATCC 43992
straininfo link
- @ref: 83230
- straininfo: 87683
literature
- topic: Phylogeny
- Pubmed-ID: 17220442
- title: Shewanella psychrophila sp. nov. and Shewanella piezotolerans sp. nov., isolated from west Pacific deep-sea sediment.
- authors: Xiao X, Wang P, Zeng X, Bartlett DH, Wang F
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.64500-0
- year: 2007
- mesh: Bacterial Typing Techniques, China, Cold Temperature, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Shewanella/*classification/genetics/isolation & purification/physiology
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 3412 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 8812) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-8812 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 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) | |||
| 83230 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID87683.1 | StrainInfo: A central database for resolving microbial strain identifiers |