Strain identifier
BacDive ID: 24107
Type strain: 
Species: Arsenicicoccus dermatophilus
Strain Designation: KM894/11
Strain history: <- V. Perreten, Univ. Berne, Inst. of Vet. Bacteriology, Switzerland <- A. Thomann
NCBI tax ID(s): 1076331 (species)
version 8.1 (current version)
General
@ref: 20314
BacDive-ID: 24107
DSM-Number: 25571
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, coccus-shaped, animal pathogen
description: Arsenicicoccus dermatophilus KM894/11 is a facultative anaerobe, mesophilic, Gram-positive animal pathogen that was isolated from foot skin of greater flamingo Phoenicopterus roseus with pododermatitis.
NCBI tax id
- NCBI tax id: 1076331
- Matching level: species
strain history
- @ref: 20314
- history: <- V. Perreten, Univ. Berne, Inst. of Vet. Bacteriology, Switzerland <- A. Thomann
doi: 10.13145/bacdive24107.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Dermatophilaceae
- genus: Arsenicicoccus
- species: Arsenicicoccus dermatophilus
- full scientific name: Arsenicicoccus dermatophilus Gobeli et al. 2013
@ref: 20314
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Dermatophilaceae
genus: Arsenicicoccus
species: Arsenicicoccus dermatophilus
full scientific name: Arsenicicoccus dermatophilus Gobeli et al. 2013
strain designation: KM894/11
type strain: yes
Morphology
cell morphology
- @ref: 30962
- gram stain: positive
- cell length: 1 µm
- cell width: 1 µm
- cell shape: coccus-shaped
- motility: no
Culture and growth conditions
culture medium
- @ref: 20314
- name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)
- growth: yes
- link: https://mediadive.dsmz.de/medium/693
- composition: Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 20314 | positive | growth | 37 | mesophilic |
| 30962 | positive | growth | 18-42 |
Physiology and metabolism
oxygen tolerance
- @ref: 30962
- oxygen tolerance: facultative anaerobe
murein
- @ref: 20314
- murein short key: A41.01
- type: A3gamma LL-Dpm-Gly
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30962 | 17234 | glucose | + | carbon source |
| 30962 | 17632 | nitrate | + | reduction |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30962 | catalase | + | 1.11.1.6 |
| 30962 | gelatinase | + | |
| 30962 | pyrazinamidase | + | 3.5.1.B15 |
Isolation, sampling and environmental information
isolation
- @ref: 20314
- sample type: foot skin of greater flamingo Phoenicopterus roseus with pododermatitis
- host species: Phoenicopterus roseus
- geographic location: Basel
- country: Switzerland
- origin.country: CHE
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Birds | |
| #Host Body-Site | #Limb | #Foot |
| #Host Body-Site | #Organ | #Skin, Nail, Hair |
Safety information
risk assessment
- @ref: 20314
- pathogenicity animal: yes
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20314
- description: Arsenicicoccus dermatophilus partial 16S rRNA gene, type strain KM8 94/11T
- accession: HE580230
- length: 1381
- database: ena
- NCBI tax ID: 1076331
Genome sequences
- @ref: 66792
- description: Arsenicicoccus dermatophilus DSM 25571
- accession: GCA_022568795
- assembly level: contig
- database: ncbi
- NCBI tax ID: 1076331
GC content
| @ref | GC-content | method |
|---|---|---|
| 20314 | 71.6 | high performance liquid chromatography (HPLC) |
| 30962 | 71.6 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 98.556 | no |
| gram-positive | yes | 94.35 | yes |
| anaerobic | no | 97.912 | yes |
| aerobic | yes | 51.293 | yes |
| halophile | no | 90.665 | no |
| spore-forming | no | 84.808 | no |
| motile | no | 95.171 | yes |
| glucose-ferment | no | 78.455 | no |
| thermophile | no | 96.288 | no |
| glucose-util | yes | 89.562 | yes |
External links
@ref: 20314
culture collection no.: DSM 25571, CCOS 690, CCUG 62181
straininfo link
- @ref: 88067
- straininfo: 403115
literature
- topic: Phylogeny
- Pubmed-ID: 23728373
- title: Arsenicicoccus dermatophilus sp. nov., a hypha-forming bacterium isolated from the skin of greater flamingos (Phoenicopterus roseus) with pododermatitis.
- authors: Gobeli S, Thomann A, Wyss F, Kuehni-Boghenbor K, Brodard I, Perreten V
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.048546-0
- year: 2013
- mesh: Actinomycetales/*classification/genetics/isolation & purification, Animals, Animals, Zoo/microbiology, Bacterial Typing Techniques, Base Composition, Bird Diseases/*microbiology, Birds/*microbiology, Cell Wall/chemistry, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Skin/*microbiology, Skin Diseases, Bacterial/microbiology/*veterinary, Switzerland, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Genetics
Reference
| @id | authors | title | doi/url | catalogue | 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 | |||
| 20314 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-25571 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25571) | |||
| 30962 | 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 | 27292 | 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 | |||
| 88067 | 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-ID403115.1 |