Strain identifier
BacDive ID: 14363
Type strain: 
Species: Spiroplasma clarkii
Strain Designation: CN-5
Strain history: <- J. K. Davis; CN-5 {2007} <- J. G. Tully <- T. Clark
NCBI tax ID(s): 2139 (species)
version 8.1 (current version)
General
@ref: 8283
BacDive-ID: 14363
DSM-Number: 19994
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic
description: Spiroplasma clarkii CN-5 is a microaerophile, mesophilic bacterium that was isolated from green June beetle .
NCBI tax id
- NCBI tax id: 2139
- Matching level: species
strain history
- @ref: 8283
- history: <- J. K. Davis; CN-5 {2007} <- J. G. Tully <- T. Clark
doi: 10.13145/bacdive14363.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/mycoplasmatota
- domain: Bacteria
- phylum: Mycoplasmatota
- class: Mollicutes
- order: Mycoplasmatales
- family: Spiroplasmataceae
- genus: Spiroplasma
- species: Spiroplasma clarkii
- full scientific name: Spiroplasma clarkii Whitcomb et al. 1993
@ref: 8283
domain: Bacteria
phylum: Tenericutes
class: Mollicutes
order: Entomoplasmatales
family: Spiroplasmataceae
genus: Spiroplasma
species: Spiroplasma clarkii
full scientific name: Spiroplasma clarkii Whitcomb et al. 1993
strain designation: CN-5
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | no | 92.125 | |
| 69480 | 99.619 | positive |
Culture and growth conditions
culture medium
- @ref: 8283
- name: SP4-Z MEDIUM (DSMZ Medium 1076b)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1076b
- composition: Name: SP4-Z MEDIUM (DSMZ Medium 1076b) Composition: Agar 10.0 g/l Tryptone 10.0 g/l Bacto peptone 5.0 g/l PPLO broth 3.5 g/l Urea 2.0 g/l Glucose 1.0 g/l None 1.0 g/l Yeast extract 0.4 g/l DNA 0.2 g/l CMRL 1066 Fetal bovine serum Swine serum Distilled water
culture temp
- @ref: 8283
- growth: positive
- type: growth
- temperature: 26
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 8283
- oxygen tolerance: microaerophile
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.999 |
Isolation, sampling and environmental information
isolation
- @ref: 8283
- sample type: green June beetle (Cotinus nitida)
- host species: Cotinus nitida
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
- Cat1: #Host
- Cat2: #Arthropoda
- Cat3: #Insecta
taxonmaps
- @ref: 69479
- File name: preview.99_114844.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_109;96_1346;97_1598;98_68870;99_114844&stattab=map
- Last taxonomy: Spiroplasma clarkii
- 16S sequence: FR733690
- Sequence Identity:
- Total samples: 1986
- soil counts: 260
- aquatic counts: 750
- animal counts: 921
- plant counts: 55
Safety information
risk assessment
- @ref: 8283
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Spiroplasma clarkii partial 16S rRNA gene, type strain DSM19994T | FR733690 | 1507 | ena | 2139 |
| 8283 | Spiroplasma sp. CN-5 16S ribosomal RNA gene, partial sequence | M24474 | 1464 | ena | 2139 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Spiroplasma clarkii CN-5 | GCA_002795265 | complete | ncbi | 2139 |
| 66792 | Spiroplasma clarkii CN-5 | GCA_002163565 | complete | ncbi | 2139 |
| 66792 | Spiroplasma clarkii strain CN-5 | 2139.4 | complete | patric | 2139 |
| 66792 | Spiroplasma clarkii CN-5 | 2802429649 | complete | img | 2139 |
| 66792 | Spiroplasma clarkii CN-5 | 2758568019 | complete | img | 2139 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| flagellated | no | 98.35 | no |
| gram-positive | yes | 62.195 | no |
| anaerobic | no | 94.798 | yes |
| aerobic | no | 98.034 | yes |
| halophile | yes | 55.034 | no |
| spore-forming | no | 98.13 | no |
| glucose-util | yes | 92.269 | no |
| thermophile | no | 89.009 | yes |
| motile | no | 91.877 | no |
| glucose-ferment | yes | 81.316 | no |
External links
@ref: 8283
culture collection no.: DSM 19994, ATCC 33827
straininfo link
- @ref: 83506
- straininfo: 40712
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 8283 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19994) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19994 | |||
| 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) | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 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 | |||
| 83506 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID40712.1 | StrainInfo: A central database for resolving microbial strain identifiers |