Strain identifier
BacDive ID: 11347
Type strain: 
Species: Oxalicibacterium solurbis
Strain Designation: MY14
Strain history: <- CCM <- N. Sahin <- T. Iizuka
NCBI tax ID(s): 69280 (species)
version 8.1 (current version)
General
@ref: 17809
BacDive-ID: 11347
DSM-Number: 24954
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Oxalicibacterium solurbis MY14 is a mesophilic, motile bacterium that was isolated from urban soil.
NCBI tax id
- NCBI tax id: 69280
- Matching level: species
strain history
- @ref: 17809
- history: <- CCM <- N. Sahin <- T. Iizuka
doi: 10.13145/bacdive11347.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Oxalobacteraceae
- genus: Oxalicibacterium
- species: Oxalicibacterium solurbis
- full scientific name: Oxalicibacterium solurbis Sahin et al. 2010
@ref: 17809
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Oxalobacteraceae
genus: Oxalicibacterium
species: Oxalicibacterium solurbis
full scientific name: Oxalicibacterium solurbis Sahin et al. 2010
strain designation: MY14
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 95.223 | |
| 69480 | 99.991 | negative |
Culture and growth conditions
culture medium
- @ref: 17809
- name: NUTRIENT AGAR (DSMZ Medium 1)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1
- composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
culture temp
- @ref: 17809
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.999 |
Isolation, sampling and environmental information
isolation
- @ref: 17809
- sample type: urban soil
- country: Japan
- origin.country: JPN
- continent: Asia
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
- @ref: 17809
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Oxalicibacterium solurbis gene for 16S rRNA, partial sequence, strain: NBRC 102665 | AB681897 | 1462 | ena | 69280 |
| 17809 | Oxalicibacterium solurbis gene for 16S rRNA, partial sequence, strain: MY14 | AB008503 | 1459 | ena | 69280 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Oxalicibacterium solurbis CCM 7664 | GCA_014635845 | contig | ncbi | 69280 |
| 66792 | Oxalicibacterium solurbis strain CCM 7664 | 69280.3 | wgs | patric | 69280 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 98.561 | no |
| anaerobic | no | 98.996 | no |
| halophile | no | 91.589 | no |
| spore-forming | no | 94.402 | no |
| glucose-util | no | 68.753 | no |
| thermophile | no | 97.83 | no |
| flagellated | yes | 53.424 | no |
| motile | yes | 86.592 | no |
| aerobic | yes | 83.631 | no |
| glucose-ferment | no | 89.741 | no |
External links
@ref: 17809
culture collection no.: DSM 24954, CCM 7664, NBRC 102665
straininfo link
- @ref: 80580
- straininfo: 396868
literature
- topic: Phylogeny
- Pubmed-ID: 20370834
- title: Characterization of two aerobic ultramicrobacteria isolated from urban soil and a description of Oxalicibacterium solurbis sp. nov.
- authors: Sahin N, Gonzalez JM, Iizuka T, Hill JE
- journal: FEMS Microbiol Lett
- DOI: 10.1111/j.1574-6968.2010.01954.x
- year: 2010
- mesh: Bacterial Proteins/genetics, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Chaperones/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Oxalobacteraceae/*classification/genetics/*isolation & purification/physiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 17809 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24954) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-24954 | |||
| 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) | |||
| 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 | |||
| 80580 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID396868.1 | StrainInfo: A central database for resolving microbial strain identifiers |