Strain identifier
BacDive ID: 23768
Type strain:
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)
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
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 96.995 | |
69480 | 100 | positive |
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
@ref | growth | type | temperature | range | confidence |
---|---|---|---|---|---|
21270 | positive | growth | 50 | thermophilic | |
69480 | thermophilic | 100 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
21270 | anaerobe | |
69480 | anaerobe | 94.243 |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | yes | 100 |
69480 | yes | 100 |
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
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Tepidibacillus fermentans DSM 23802 | GCA_004342885 | scaffold | ncbi | 1281767 |
66792 | Tepidibacillus fermentans strain DSM 23802 | 1281767.3 | wgs | patric | 1281767 |
66792 | Tepidibacillus fermentans DSM 23802 | 2784746787 | draft | img | 1281767 |
GC content
- @ref: 21270
- GC-content: 34.8
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 100 | no |
flagellated | no | 51.85 | no |
gram-positive | yes | 67.15 | no |
anaerobic | yes | 92.3 | yes |
aerobic | no | 88.178 | no |
halophile | no | 94.777 | no |
spore-forming | yes | 96.164 | no |
thermophile | yes | 99.999 | yes |
glucose-util | yes | 87.638 | no |
motile | yes | 87.263 | no |
glucose-ferment | no | 75.827 | no |
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
@id | authors | title | doi/url | catalogue | journal | pubmed |
---|---|---|---|---|---|---|
20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |||
21270 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23802 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23802) | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions 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 | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
87803 | Reimer, 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 identifiers | 10.60712/SI-ID398409.1 |