Strain identifier

BacDive ID: 23768

Type strain: Yes

Species: Tepidibacillus fermentans

Strain Designation: STGH

Strain history: <- G. Slobodkina, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; STGH <- G. Slobodkina and A. Slobodkin {2009}

NCBI tax ID(s): 1281767 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 21270

BacDive-ID: 23768

DSM-Number: 23802

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, thermophilic, motile

description: Tepidibacillus fermentans STGH is an anaerobe, spore-forming, thermophilic bacterium that was isolated from water from the observation well of an underground gas storage.

NCBI tax id

  • NCBI tax id: 1281767
  • Matching level: species

strain history

  • @ref: 21270
  • history: <- G. Slobodkina, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; STGH <- G. Slobodkina and A. Slobodkin {2009}

doi: 10.13145/bacdive23768.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Tepidibacillus
  • species: Tepidibacillus fermentans
  • full scientific name: Tepidibacillus fermentans Slobodkina et al. 2014

@ref: 21270

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Tepidibacillus

species: Tepidibacillus fermentans

full scientific name: Tepidibacillus fermentans Slobodkina et al. 2014

strain designation: STGH

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes96.995
69480100positive

Culture and growth conditions

culture medium

  • @ref: 21270
  • name: VULCANIBACILLUS MEDIUM (DSMZ Medium 1042)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1042
  • composition: Name: VULCANIBACILLUS MEDIUM (DSMZ Medium 1042; with strain-specific modifications) Composition: Sea Salt 29.8507 g/l D-Glucose 2.48756 g/l NaNO3 0.995025 g/l NaHCO3 0.995025 g/l Yeast extract 0.497512 g/l FeSO4 x 7 H2O 0.0995025 g/l MgSO4 x 7 H2O 0.0597015 g/l NaCl 0.0199005 g/l MnSO4 x H2O 0.00995025 g/l (NH4)2Ni(SO4)2 x 6 H2O 0.00557214 g/l CoCl2 x 6 H2O 0.00358209 g/l ZnSO4 x 7 H2O 0.00358209 g/l CaCl2 x 2 H2O 0.00199005 g/l Sodium resazurin 0.000497512 g/l AlK(SO4)2 x 12 H2O 0.000358209 g/l CuSO4 x 5 H2O 0.000199005 g/l H3BO3 0.000199005 g/l Na2MoO4 x 2 H2O 0.000199005 g/l Pyridoxine hydrochloride 0.000199005 g/l Na2SeO4 0.000199005 g/l Na2WO4 x 2 H2O 0.000199005 g/l Riboflavin 9.95025e-05 g/l Calcium D-(+)-pantothenate 9.95025e-05 g/l Nicotinic acid 9.95025e-05 g/l (DL)-alpha-Lipoic acid 9.95025e-05 g/l Thiamine HCl 9.95025e-05 g/l p-Aminobenzoic acid 9.95025e-05 g/l VOSO4 x 5 H2O 4.97512e-05 g/l Folic acid 3.9801e-05 g/l Biotin 3.9801e-05 g/l Vitamin B12 1.99005e-06 g/l Distilled water

culture temp

@refgrowthtypetemperaturerangeconfidence
21270positivegrowth50thermophilic
69480thermophilic100

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
21270anaerobe
69480anaerobe94.243

spore formation

@refspore formationconfidence
69481yes100
69480yes100

Isolation, sampling and environmental information

isolation

  • @ref: 21270
  • sample type: water from the observation well of an underground gas storage
  • geographic location: North Caucasus Region, Severo-Stavropolskoye
  • country: Russia
  • origin.country: RUS
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial#Engineered product
#Environmental#Aquatic

taxonmaps

  • @ref: 69479
  • File name: preview.99_31785.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3297;96_15464;97_18926;98_23598;99_31785&stattab=map
  • Last taxonomy: Tepidibacillus fermentans subclade
  • 16S sequence: KC242245
  • Sequence Identity:
  • Total samples: 246
  • soil counts: 71
  • aquatic counts: 103
  • animal counts: 24
  • plant counts: 48

Safety information

risk assessment

  • @ref: 21270
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21270
  • description: Tepidibacillus fermentans strain STGH 16S ribosomal RNA gene, partial sequence
  • accession: KC242245
  • length: 1589
  • database: ena
  • NCBI tax ID: 1281767

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Tepidibacillus fermentans DSM 23802GCA_004342885scaffoldncbi1281767
66792Tepidibacillus fermentans strain DSM 238021281767.3wgspatric1281767
66792Tepidibacillus fermentans DSM 238022784746787draftimg1281767

GC content

  • @ref: 21270
  • GC-content: 34.8
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno51.85no
gram-positiveyes67.15no
anaerobicyes92.3yes
aerobicno88.178no
halophileno94.777no
spore-formingyes96.164no
thermophileyes99.999yes
glucose-utilyes87.638no
motileyes87.263no
glucose-fermentno75.827no

External links

@ref: 21270

culture collection no.: DSM 23802, VKM B-2671

straininfo link

  • @ref: 87803
  • straininfo: 398409

literature

  • topic: Metabolism
  • Pubmed-ID: 23881258
  • title: Tepidibacillus fermentans gen. nov., sp. nov.: a moderately thermophilic anaerobic and microaerophilic bacterium from an underground gas storage.
  • authors: Slobodkina GB, Panteleeva AN, Kostrikina NA, Kopitsyn DS, Bonch-Osmolovskaya EA, Slobodkin AI
  • journal: Extremophiles
  • DOI: 10.1007/s00792-013-0564-2
  • year: 2013
  • mesh: Bacillales/classification/genetics/*isolation & purification/metabolism, Fermentation, Groundwater/microbiology, Hexoses/metabolism, Nitrates/metabolism, Oxygen/metabolism, Pyruvates/metabolism, RNA, Ribosomal, 16S/genetics, Temperature, Thiosulfates/metabolism
  • topic2: Phylogeny

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
21270Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-23802Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23802)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic 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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
87803Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID398409.1