Strain identifier
BacDive ID: 17643
Type strain: 
Species: Desulfurobacterium atlanticum
Strain Designation: SL22
Strain history: <- S. L'Haridon, IFREMER Centre de Brest, Plouzané, France; SL22 <- S. L'Haridon {1996}
NCBI tax ID(s): 240169 (species)
version 8.1 (current version)
General
@ref: 6022
BacDive-ID: 17643
DSM-Number: 15668
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, thermophilic, motile
description: Desulfurobacterium atlanticum SL22 is an anaerobe, thermophilic, motile bacterium that was isolated from deep-sea hydrothermal vent chimney.
NCBI tax id
- NCBI tax id: 240169
- Matching level: species
strain history
- @ref: 6022
- history: <- S. L'Haridon, IFREMER Centre de Brest, Plouzané, France; SL22 <- S. L'Haridon {1996}
doi: 10.13145/bacdive17643.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/aquificota
- domain: Bacteria
- phylum: Aquificota
- class: Aquificia
- order: Desulfurobacteriales
- family: Desulfurobacteriaceae
- genus: Desulfurobacterium
- species: Desulfurobacterium atlanticum
- full scientific name: Desulfurobacterium atlanticum L'Haridon et al. 2006
@ref: 6022
domain: Bacteria
phylum: Aquificae
class: Aquificae
order: Aquificales
family: Desulfurobacteriaceae
genus: Desulfurobacterium
species: Desulfurobacterium atlanticum
full scientific name: Desulfurobacterium atlanticum L'Haridon et al. 2006
strain designation: SL22
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 90.055 | |
| 69480 | 100 | negative |
Culture and growth conditions
culture medium
- @ref: 6022
- name: DESULFUROBACTERIUM ATLANTICUM MEDIUM (DSMZ Medium 829a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/829a
- composition: Name: DESULFUROBACTERIUM ATLANTICUM MEDIUM (DSMZ Medium 829a) Composition: NaCl 29.4118 g/l MgCl2 x 6 H2O 2.94118 g/l Na2S2O3 x 5 H2O 2.45098 g/l MES [2-(N-morpholino) ethane sulfonic acid] 1.91176 g/l Na2S x 9 H2O 0.588235 g/l KCl 0.490196 g/l NH4Cl 0.490196 g/l KH2PO4 0.196078 g/l CaCl2 x 2 H2O 0.147059 g/l Sodium resazurin 0.000490196 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range | confidence |
|---|---|---|---|---|---|
| 6022 | positive | growth | 70 | thermophilic | |
| 69480 | thermophilic | 100 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 6022 | anaerobe | |
| 69480 | anaerobe | 99.998 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.987 |
Isolation, sampling and environmental information
isolation
- @ref: 6022
- sample type: deep-sea hydrothermal vent chimney
- geographic location: Mid-Atlantic Ridge (23°N)
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Hydrothermal vent |
| #Environmental | #Aquatic | #Marine |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_161295.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_243;96_2873;97_53225;98_70325;99_161295&stattab=map
- Last taxonomy: Desulfurobacterium atlanticum subclade
- 16S sequence: AY268939
- Sequence Identity:
- Total samples: 9
- aquatic counts: 9
Safety information
risk assessment
- @ref: 6022
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6022
- description: Desulfurobacterium atlanticum strain SL22 16S ribosomal RNA gene, partial sequence
- accession: AY268939
- length: 1499
- database: ena
- NCBI tax ID: 240169
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Desulfurobacterium atlanticum DSM 15668 | GCA_900188395 | scaffold | ncbi | 240169 |
| 66792 | Desulfurobacterium atlanticum strain DSM 15668 | 240169.3 | wgs | patric | 240169 |
| 66792 | Desulfurobacterium atlanticum DSM 15668 | 2724679920 | draft | img | 240169 |
GC content
- @ref: 6022
- GC-content: 41
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 84.448 | no |
| flagellated | no | 91.346 | no |
| gram-positive | no | 99.253 | no |
| anaerobic | yes | 99.217 | yes |
| aerobic | no | 98.901 | yes |
| halophile | no | 89.739 | no |
| spore-forming | no | 95.679 | no |
| thermophile | yes | 100 | no |
| glucose-util | no | 60.866 | no |
| glucose-ferment | no | 81.617 | no |
External links
@ref: 6022
culture collection no.: DSM 15668, JCM 12129
straininfo link
- @ref: 86634
- straininfo: 406329
literature
- topic: Phylogeny
- Pubmed-ID: 17158986
- title: Desulfurobacterium atlanticum sp. nov., Desulfurobacterium pacificum sp. nov. and Thermovibrio guaymasensis sp. nov., three thermophilic members of the Desulfurobacteriaceae fam. nov., a deep branching lineage within the Bacteria.
- authors: L'Haridon S, Reysenbach AL, Tindall BJ, Schonheit P, Banta A, Johnsen U, Schumann P, Gambacorta A, Stackebrandt E, Jeanthon C
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.63994-0
- year: 2006
- mesh: Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Gram-Negative Anaerobic Bacteria/*classification/genetics/isolation & purification/physiology, *Hot Temperature, Molecular Sequence Data, Oxidation-Reduction, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Sulfur/*metabolism, Thiosulfates/metabolism
- topic2: Stress
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 6022 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15668) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15668 | |
| 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) | |
| 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 | |
| 86634 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID406329.1 | StrainInfo: A central database for resolving microbial strain identifiers |