Strain identifier

BacDive ID: 11790

Type strain: Yes

Species: Desulfoscipio geothermicus

Strain Designation: BSD

Strain history: <- S. Daumas, BSD

NCBI tax ID(s): 39060 (species)

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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

    @refsynonym
    20215Desulfotomaculum geothermicum
    20215Desulfallas 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

@refmotilityconfidencegram stain
69480yes94.386
6948099.314positive

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

@refgrowthtypetemperaturerangeconfidence
1450positivegrowth50thermophilic
69480thermophilic99.999

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
1450anaerobe
69480anaerobe99.998

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

Cat1Cat2Cat3
#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

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218D.geothermicum 16S rRNA geneX807891497ena39060
20218D.geothermicum 16S rRNA geneY115671567ena39060
1450Desulfotomaculum geothermicum 16S rRNA gene, strain DSM 3669AJ2944281468ena1121426

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Desulfoscipio geothermicus DSM 3669GCA_900115975scaffoldncbi1121426
66792Desulfotomaculum geothermicum strain DSM 366939060.4wgspatric39060
66792Desulfallas geothermicus DSM 36692602042027draftimg1121426

GC content

  • @ref: 1450
  • GC-content: 49.9
  • method: sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes54no
motileyes76.421no
flagellatedno87.896no
gram-positiveno90.343no
anaerobicyes99.487no
aerobicno97.352no
halophileno93.028no
spore-formingyes96.882no
glucose-fermentno85.26no
thermophileyes95.828no
glucose-utilyes80.952no

External links

@ref: 1450

culture collection no.: DSM 3669, NBRC 112753

straininfo link

  • @ref: 81008
  • straininfo: 126041

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1450Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3669)https://www.dsmz.de/collection/catalogue/details/culture/DSM-3669
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
69479João 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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
81008Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID126041.1StrainInfo: A central database for resolving microbial strain identifiers