Strain identifier
BacDive ID: 2470
Type strain: 
Species: Thiorhodococcus minor
Strain Designation: CE 2203
Strain history: <- P. Caumette <- R. Guyoneaud <- R. Matheron
NCBI tax ID(s): 57489 (species)
version 8.1 (current version)
General
@ref: 4398
BacDive-ID: 2470
DSM-Number: 11518
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, motile
description: Thiorhodococcus minor CE 2203 is an anaerobe, mesophilic, motile bacterium that was isolated from brackish coastal lagoon sediment.
NCBI tax id
- NCBI tax id: 57489
- Matching level: species
strain history
- @ref: 4398
- history: <- P. Caumette <- R. Guyoneaud <- R. Matheron
doi: 10.13145/bacdive2470.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Chromatiales
- family: Chromatiaceae
- genus: Thiorhodococcus
- species: Thiorhodococcus minor
- full scientific name: Thiorhodococcus minor corrig. Guyoneaud et al. 1998
synonyms
- @ref: 20215
- synonym: Thiorhodococcus minus
@ref: 4398
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Chromatiales
family: Chromatiaceae
genus: Thiorhodococcus
species: Thiorhodococcus minor
full scientific name: Thiorhodococcus minor Guyoneaud et al. 1998
strain designation: CE 2203
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 92.293 | |
| 69480 | 99.997 | negative |
Culture and growth conditions
culture medium
- @ref: 4398
- name: THIORHODOCOCCUS MEDIUM (DSMZ Medium 28a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/28a
- composition: Name: THIORHODOCOCCUS MEDIUM (DSMZ Medium 28a) Composition: NaCl 20.0 g/l NaHCO3 1.5 g/l MgCl2 x 6 H2O 1.0 g/l Na2S x 9 H2O 0.592592 g/l MgSO4 x 7 H2O 0.500001 g/l Sodium Thiosulfate 0.5 g/l Ammonium chloride 0.349999 g/l KCl 0.349999 g/l KH2PO4 0.349999 g/l CaCl2 x 2 H2O 0.25 g/l Yeast extract 0.25 g/l Ammonium acetate 0.25 g/l Pyruvic acid sodium salt 0.25 g/l Dextrose 0.25 g/l Na2-EDTA 0.003 g/l Resazurin 0.00225 g/l FeSO4 x 7 H2O 0.0011 g/l Vitamin B12 0.001 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 2 H2O 5e-05 g/l ZnCl2 4.2e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l Na2MoO4 x 2 H2O 1.8e-05 g/l CuCl2 x 2 H2O 2e-06 g/l Distilled water
culture temp
- @ref: 4398
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 4398 | anaerobe | |
| 69480 | anaerobe | 93.229 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.93 |
Isolation, sampling and environmental information
isolation
- @ref: 4398
- sample type: brackish coastal lagoon sediment
- geographic location: French Atlantic coast, Arcachon Bay
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Brackish |
| #Environmental | #Aquatic | #Marine |
| #Environmental | #Terrestrial | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_133212.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_169;96_50712;97_65310;98_87186;99_133212&stattab=map
- Last taxonomy: Thiorhodococcus minor subclade
- 16S sequence: Y11316
- Sequence Identity:
- Total samples: 46
- aquatic counts: 44
- animal counts: 2
Safety information
risk assessment
- @ref: 4398
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Thiorhodococcus minor partial 16S rRNA gene, strain CE2203 | Y11316 | 1450 | ena | 57489 |
| 20218 | Thiorhodococcus minor partial 16S rRNA gene, type strain DSM 11518T | FN293057 | 1451 | ena | 57489 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Thiorhodococcus minor DSM 11518 | GCA_010820565 | contig | ncbi | 57489 |
| 66792 | Thiorhodococcus minor strain DSM 11518 | 57489.4 | wgs | patric | 57489 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 99.092 | no |
| anaerobic | yes | 95.454 | yes |
| halophile | no | 84.932 | no |
| spore-forming | no | 92.639 | no |
| glucose-util | yes | 77.785 | no |
| thermophile | no | 98.275 | yes |
| motile | yes | 90.97 | no |
| flagellated | yes | 59.585 | no |
| aerobic | no | 92.576 | yes |
| glucose-ferment | no | 82.049 | no |
External links
@ref: 4398
culture collection no.: DSM 11518, ATCC 700259
straininfo link
- @ref: 72013
- straininfo: 49130
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 4398 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11518) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-11518 | |||
| 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) | |||
| 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 | |||
| 72013 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49130.1 | StrainInfo: A central database for resolving microbial strain identifiers |