Strain identifier
BacDive ID: 11790
Type strain:
Species: Desulfoscipio geothermicus
Strain Designation: BSD
Strain history: <- S. Daumas, BSD
NCBI tax ID(s): 39060 (species)
General
@ref: 1450
BacDive-ID: 11790
DSM-Number: 3669
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, thermophilic, motile
description: Desulfoscipio geothermicus BSD is an anaerobe, spore-forming, thermophilic bacterium that was isolated from anoxic geothermal ground-water.
NCBI tax id
- NCBI tax id: 39060
- Matching level: species
strain history
- @ref: 1450
- history: <- S. Daumas, BSD
doi: 10.13145/bacdive11790.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Peptococcaceae
- genus: Desulfoscipio
- species: Desulfoscipio geothermicus
- full scientific name: Desulfoscipio geothermicus (Daumas et al. 1990) Watanabe et al. 2021
synonyms
@ref synonym 20215 Desulfotomaculum geothermicum 20215 Desulfallas geothermicus
@ref: 1450
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Peptococcaceae
genus: Desulfallas
species: Desulfallas geothermicus
full scientific name: Desulfallas geothermicus (Daumas et al. 1990) Watanabe et al. 2018
strain designation: BSD
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 94.386 | |
69480 | 99.314 | positive |
Culture and growth conditions
culture medium
- @ref: 1450
- name: DESULFOBACTER SP. MEDIUM (LACTATE) (DSMZ Medium 195c)
- growth: yes
- link: https://mediadive.dsmz.de/medium/195c
- composition: Name: DESULFOBACTER SP. MEDIUM (LACTATE) (DSMZ Medium 195c) Composition: NaCl 20.9372 g/l Na2SO4 2.99103 g/l MgCl2 x 6 H2O 2.99103 g/l Na-L-lactate 2.49252 g/l Na2CO3 1.49551 g/l KCl 0.498504 g/l Na2S x 9 H2O 0.398804 g/l NH4Cl 0.299103 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149551 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Biotin 1.99402e-05 g/l Folic acid 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water
culture temp
@ref | growth | type | temperature | range | confidence |
---|---|---|---|---|---|
1450 | positive | growth | 50 | thermophilic | |
69480 | thermophilic | 99.999 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
1450 | anaerobe | |
69480 | anaerobe | 99.998 |
spore formation
- @ref: 69480
- spore formation: yes
- confidence: 99.999
Isolation, sampling and environmental information
isolation
- @ref: 1450
- sample type: anoxic geothermal ground-water
- geographic location: Paris Basin
- country: France
- origin.country: FRA
- continent: Europe
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Groundwater |
#Condition | #Anoxic (anaerobic) |
taxonmaps
- @ref: 69479
- File name: preview.99_77376.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_377;96_32708;97_41423;98_54061;99_77376&stattab=map
- Last taxonomy: Desulfallas geothermicus subclade
- 16S sequence: Y11567
- Sequence Identity:
- Total samples: 228
- soil counts: 15
- aquatic counts: 170
- animal counts: 43
Safety information
risk assessment
- @ref: 1450
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | D.geothermicum 16S rRNA gene | X80789 | 1497 | ena | 39060 |
20218 | D.geothermicum 16S rRNA gene | Y11567 | 1567 | ena | 39060 |
1450 | Desulfotomaculum geothermicum 16S rRNA gene, strain DSM 3669 | AJ294428 | 1468 | ena | 1121426 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Desulfoscipio geothermicus DSM 3669 | GCA_900115975 | scaffold | ncbi | 1121426 |
66792 | Desulfotomaculum geothermicum strain DSM 3669 | 39060.4 | wgs | patric | 39060 |
66792 | Desulfallas geothermicus DSM 3669 | 2602042027 | draft | img | 1121426 |
GC content
- @ref: 1450
- GC-content: 49.9
- method: sequence analysis
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 54 | no |
motile | yes | 76.421 | no |
flagellated | no | 87.896 | no |
gram-positive | no | 90.343 | no |
anaerobic | yes | 99.487 | no |
aerobic | no | 97.352 | no |
halophile | no | 93.028 | no |
spore-forming | yes | 96.882 | no |
glucose-ferment | no | 85.26 | no |
thermophile | yes | 95.828 | no |
glucose-util | yes | 80.952 | no |
External links
@ref: 1450
culture collection no.: DSM 3669, NBRC 112753
straininfo link
- @ref: 81008
- straininfo: 126041
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
1450 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3669) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-3669 | |||
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) | |||
81008 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID126041.1 | StrainInfo: A central database for resolving microbial strain identifiers |