Strain identifier
BacDive ID: 11345
Type strain:
Species: Oxalicibacterium faecigallinarum
Strain Designation: YOx
Strain history: <- N. Sahin, Univ. Mugla, Turkey <- CCM <- T. S. Chandra; YOx (Pseudomonas sp.)
NCBI tax ID(s): 573741 (species)
General
@ref: 15855
BacDive-ID: 11345
DSM-Number: 21641
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Oxalicibacterium faecigallinarum YOx is a mesophilic, motile bacterium that was isolated from chicken dung.
NCBI tax id
- NCBI tax id: 573741
- Matching level: species
strain history
- @ref: 15855
- history: <- N. Sahin, Univ. Mugla, Turkey <- CCM <- T. S. Chandra; YOx (Pseudomonas sp.)
doi: 10.13145/bacdive11345.20230509.8.1
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 faecigallinarum
- full scientific name: Oxalicibacterium faecigallinarum Sahin et al. 2009
@ref: 15855
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Oxalobacteraceae
genus: Oxalicibacterium
species: Oxalicibacterium faecigallinarum
full scientific name: Oxalicibacterium faecigallinarum Sahin et al. 2009
strain designation: YOx
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 95.479 | |
69480 | 99.973 | negative |
Culture and growth conditions
culture medium
- @ref: 15855
- name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1a
- composition: Name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
culture temp
- @ref: 15855
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 100 |
Isolation, sampling and environmental information
isolation
- @ref: 15855
- sample type: chicken dung
- country: India
- origin.country: IND
- continent: Asia
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Birds | #Chicken |
#Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
Safety information
risk assessment
- @ref: 15855
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15855
- description: Oxalicibacterium faecigallinarum gene for 16S rRNA, partial sequence
- accession: AB469788
- length: 1489
- database: ena
- NCBI tax ID: 573741
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Oxalicibacterium faecigallinarum CCM 2767 | GCA_014635705 | scaffold | ncbi | 573741 |
66792 | Oxalicibacterium faecigallinarum strain CCM 2767 | 573741.3 | wgs | patric | 573741 |
GC content
- @ref: 15855
- GC-content: 55.6
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | yes | 58.116 | no |
gram-positive | no | 98.643 | no |
anaerobic | no | 97.956 | no |
aerobic | yes | 87.503 | no |
halophile | no | 92.749 | no |
spore-forming | no | 94.334 | no |
thermophile | no | 98.963 | no |
glucose-util | no | 64.816 | no |
motile | yes | 88.09 | no |
glucose-ferment | no | 91.836 | no |
External links
@ref: 15855
culture collection no.: DSM 21641, CCM 2767
straininfo link
- @ref: 80578
- straininfo: 66667
literature
- topic: Phylogeny
- Pubmed-ID: 19459944
- title: Description of Oxalicibacterium horti sp. nov. and Oxalicibacterium faecigallinarum sp. nov., new aerobic, yellow-pigmented, oxalotrophic bacteria.
- authors: Sahin N, Portillo MC, Kato Y, Schumann P
- journal: FEMS Microbiol Lett
- DOI: 10.1111/j.1574-6968.2009.01636.x
- year: 2009
- mesh: Aerobiosis, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Oxaloacetates/*metabolism, Oxalobacteraceae/*classification/genetics/isolation & purification/*physiology, Phylogeny, Pigments, Biological/biosynthesis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
15855 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21641) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21641 | |
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 | |
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 | |
80578 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID66667.1 | StrainInfo: A central database for resolving microbial strain identifiers |