Strain identifier
BacDive ID: 18079
Type strain: 
Species: Thermovorax subterraneus
Strain Designation: 70B
Strain history: A. Mäkinen 70B.
NCBI tax ID(s): 496831 (species)
version 8.1 (current version)
General
@ref: 15663
BacDive-ID: 18079
DSM-Number: 21563
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, thermophilic
description: Thermovorax subterraneus 70B is an anaerobe, thermophilic bacterium that was isolated from geothermally active underground mine.
NCBI tax id
- NCBI tax id: 496831
- Matching level: species
strain history
| @ref | history |
|---|---|
| 15663 | <- A. Mäkinen, Tampere Univ. Technol., Finland; 70B |
| 67770 | A. Mäkinen 70B. |
doi: 10.13145/bacdive18079.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Thermosediminibacterales
- family: Thermosediminibacteraceae
- genus: Thermovorax
- species: Thermovorax subterraneus
- full scientific name: Thermovorax subterraneus Mäkinen et al. 2012
@ref: 15663
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Thermoanaerobacterales
family: Thermosediminibacteraceae
genus: Thermovorax
species: Thermovorax subterraneus
full scientific name: Thermovorax subterraneus Mäkinen et al. 2012
strain designation: 70B
type strain: yes
Culture and growth conditions
culture medium
- @ref: 15663
- name: THERMOTOGA ELFII MEDIUM (DSMZ Medium 664)
- growth: yes
- link: https://mediadive.dsmz.de/medium/664
- composition: Name: PSEUDOTHERMOTOGA ELFII MEDIUM (DSMZ Medium 664) Composition: Na2S2O3 x 5 H2O 4.9505 g/l Trypticase peptone 4.9505 g/l Yeast extract 4.9505 g/l D-Glucose 3.9604 g/l Na2CO3 1.48515 g/l NH4Cl 0.990099 g/l L-Cysteine HCl x H2O 0.49505 g/l Na2S x 9 H2O 0.49505 g/l Na-acetate 0.49505 g/l K2HPO4 0.29703 g/l KH2PO4 0.29703 g/l MgCl2 x 6 H2O 0.19802 g/l KCl 0.0990099 g/l MgSO4 x 7 H2O 0.029703 g/l Nitrilotriacetic acid 0.0148515 g/l NaCl 0.00990099 g/l MnSO4 x H2O 0.00495049 g/l ZnSO4 x 7 H2O 0.00178218 g/l CoSO4 x 7 H2O 0.00178218 g/l FeSO4 x 7 H2O 0.000990099 g/l CaCl2 x 2 H2O 0.000990099 g/l Sodium resazurin 0.00049505 g/l NiCl2 x 6 H2O 0.00029703 g/l AlK(SO4)2 x 12 H2O 0.00019802 g/l Na2MoO4 x 2 H2O 9.90099e-05 g/l H3BO3 9.90099e-05 g/l CuSO4 x 5 H2O 9.90099e-05 g/l Na2WO4 x 2 H2O 3.9604e-06 g/l Na2SeO3 x 5 H2O 2.9703e-06 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 15663 | positive | growth | 70 | thermophilic |
| 67770 | positive | growth | 70 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 15663
- oxygen tolerance: anaerobe
compound production
- @ref: 15663
- compound: hydrogen
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 15663 | geothermally active underground mine | Japan | JPN | Asia |
| 67770 | Geothermally active underground mine | Japan | JPN | Asia |
isolation source categories
- Cat1: #Engineered
- Cat2: #Other
- Cat3: #Mine
taxonmaps
- @ref: 69479
- File name: preview.99_51207.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_499;96_18500;97_22870;98_36771;99_51207&stattab=map
- Last taxonomy: Thermovorax subterraneus subclade
- 16S sequence: EU370564
- Sequence Identity:
- Total samples: 23
- soil counts: 3
- aquatic counts: 19
- animal counts: 1
Safety information
risk assessment
- @ref: 15663
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15663
- description: Thermovorax subterraneus strain 70B 16S ribosomal RNA gene, partial sequence
- accession: EU370564
- length: 1469
- database: ena
- NCBI tax ID: 496831
Genome sequences
- @ref: 66792
- description: Thermovorax subterraneus DSM 21563
- accession: GCA_021608145
- assembly level: contig
- database: ncbi
- NCBI tax ID: 496831
GC content
- @ref: 15663
- GC-content: 44.2
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 90.274 | no |
| gram-positive | no | 84.666 | no |
| anaerobic | yes | 99.481 | yes |
| aerobic | no | 96.59 | no |
| halophile | no | 92.99 | no |
| spore-forming | yes | 57.563 | no |
| motile | yes | 88.56 | no |
| glucose-ferment | yes | 50.586 | no |
| thermophile | yes | 100 | yes |
| glucose-util | yes | 87.236 | no |
External links
@ref: 15663
culture collection no.: DSM 21563, JCM 15541
straininfo link
- @ref: 87067
- straininfo: 398407
literature
- topic: Phylogeny
- Pubmed-ID: 19305944
- title: Thermovorax subterraneus, gen. nov., sp. nov., a thermophilic hydrogen-producing bacterium isolated from geothermally active underground mine.
- authors: Makinen AE, Kaksonen AH, Puhakka JA
- journal: Extremophiles
- DOI: 10.1007/s00792-009-0235-5
- year: 2009
- mesh: Bacteria/classification/genetics/*isolation & purification/metabolism, Base Sequence, DNA Primers, Genes, Bacterial, Hydrogen/*metabolism, *Mining, Phylogeny, RNA, Ribosomal, 16S/genetics, Spectrophotometry, Ultraviolet
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 15663 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21563) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21563 | |
| 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) | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 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 | |
| 87067 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID398407.1 | StrainInfo: A central database for resolving microbial strain identifiers |