Strain identifier
BacDive ID: 16794
Type strain: 
Species: Caldanaerobacter subterraneus
Strain Designation: 7858
Strain history: <- M.-L. Fardeau, Universités de Provence et de la Méditerranée, ESIL, Marseille, France; 7858 <- M.-L. Fardeau {1996}
NCBI tax ID(s): 911092 (species)
version 8.1 (current version)
General
@ref: 4887
BacDive-ID: 16794
DSM-Number: 13054
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, thermophilic, Gram-positive
description: Caldanaerobacter subterraneus 7858 is an anaerobe, spore-forming, thermophilic bacterium that was isolated from oil field.
NCBI tax id
- NCBI tax id: 911092
- Matching level: species
strain history
- @ref: 4887
- history: <- M.-L. Fardeau, Universités de Provence et de la Méditerranée, ESIL, Marseille, France; 7858 <- M.-L. Fardeau {1996}
doi: 10.13145/bacdive16794.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Thermoanaerobacterales
- family: Thermoanaerobacteraceae
- genus: Caldanaerobacter
- species: Caldanaerobacter subterraneus
- full scientific name: Caldanaerobacter subterraneus (Fardeau et al. 2000) Fardeau et al. 2004
synonyms
- @ref: 20215
- synonym: Thermoanaerobacter subterraneus
@ref: 4887
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Thermoanaerobacterales
family: Thermoanaerobacteraceae
genus: Caldanaerobacter
species: Caldanaerobacter subterraneus
full scientific name: Caldanaerobacter subterraneus (Fardeau et al. 2000) Fardeau et al. 2004
strain designation: 7858
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 99.999
Culture and growth conditions
culture medium
- @ref: 4887
- name: THERMOANAEROBACTER SUBTERRANEUS MEDIUM (DSMZ Medium 899)
- growth: yes
- link: https://mediadive.dsmz.de/medium/899
- composition: Name: CALDANAEROBACTER MEDIUM (DSMZ Medium 899) Composition: D-Glucose 3.9604 g/l Na2S2O3 x 5 H2O 2.47525 g/l Yeast extract 1.9802 g/l NH4Cl 0.990099 g/l Na2CO3 0.990099 g/l MgCl2 x 6 H2O 0.990099 g/l L-Cysteine HCl x H2O 0.49505 g/l Na2S x 9 H2O 0.445545 g/l K2HPO4 0.29703 g/l KH2PO4 0.29703 g/l KCl 0.19802 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 CoSO4 x 7 H2O 0.00178218 g/l ZnSO4 x 7 H2O 0.00178218 g/l CaCl2 x 2 H2O 0.000990099 g/l FeSO4 x 7 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 CuSO4 x 5 H2O 9.90099e-05 g/l H3BO3 9.90099e-05 g/l Na2MoO4 x 2 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 | confidence |
|---|---|---|---|---|---|
| 4887 | positive | growth | 65 | thermophilic | |
| 69480 | thermophilic | 100 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 4887 | anaerobe | |
| 69480 | anaerobe | 99.673 |
spore formation
- @ref: 69480
- spore formation: yes
- confidence: 99.447
Isolation, sampling and environmental information
isolation
- @ref: 4887
- sample type: oil field
- geographic location: Lacq Supérieur
- country: France
- origin.country: FRA
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Industrial | #Oil reservoir |
| #Environmental | #Terrestrial | #Geologic |
Safety information
risk assessment
- @ref: 4887
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 4887 | Caldanaerobacter subterraneus partial 16S rRNA gene, type strain DSM 13054T, clone 1 | HE582758 | 1562 | ena | 911092 |
| 4887 | Caldanaerobacter subterraneus partial 16S rRNA gene, type strain DSM 13054T, clone 2 | HE582759 | 1526 | ena | 911092 |
| 4887 | Caldanaerobacter subterraneus partial 16S rRNA gene, type strain DSM 13054T, clone 3 | HE582760 | 1525 | ena | 911092 |
| 4887 | Caldanaerobacter subterraneus partial 16S rRNA gene, type strain DSM 13054T, clone 4 | HE582761 | 1531 | ena | 911092 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Caldanaerobacter subterraneus DSM 13054 | GCA_004345675 | scaffold | ncbi | 911092 |
| 66792 | Caldanaerobacter subterraneus strain DSM 13054 | 911092.6 | wgs | patric | 911092 |
| 66792 | Caldanaerobacter subterraneus DSM 13054 | 2802428857 | draft | img | 911092 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 83 | no |
| motile | yes | 84.743 | no |
| flagellated | no | 84.807 | no |
| gram-positive | no | 50 | no |
| anaerobic | yes | 98.995 | yes |
| aerobic | no | 98.188 | yes |
| halophile | no | 95.483 | no |
| spore-forming | yes | 90.363 | no |
| glucose-util | yes | 93.578 | no |
| thermophile | yes | 100 | yes |
| glucose-ferment | yes | 56.205 | no |
External links
@ref: 4887
culture collection no.: DSM 13054, CNCM I-2383
straininfo link
- @ref: 85810
- straininfo: 45452
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 11155990 | Thermoanaerobacter subterraneus sp. nov., a novel thermophile isolated from oilfield water. | Fardeau ML, Magot M, Patel BK, Thomas P, Garcia JL, Ollivier B | Int J Syst Evol Microbiol | 10.1099/00207713-50-6-2141 | 2000 | Anaerobiosis, Bacterial Typing Techniques, Genes, rRNA, Gram-Positive Bacteria/*classification/genetics/growth & development/*isolation & purification, Industry, Molecular Sequence Data, Oxidation-Reduction, *Petroleum, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Temperature, Thiosulfates/metabolism, *Water Microbiology | Genetics |
| Phylogeny | 15023962 | Isolation from oil reservoirs of novel thermophilic anaerobes phylogenetically related to Thermoanaerobacter subterraneus: reassignment of T. subterraneus, Thermoanaerobacter yonseiensis, Thermoanaerobacter tengcongensis and Carboxydibrachium pacificum to Caldanaerobacter subterraneus gen. nov., sp. nov., comb. nov. as four novel subspecies. | Fardeau ML, Salinas MB, L'Haridon S, Jeanthon C, Verhe F, Cayol JL, Patel BKC, Garcia JL, Ollivier B | Int J Syst Evol Microbiol | 10.1099/ijs.0.02711-0 | 2004 | Anaerobiosis, Australia, Bacteria, Anaerobic/*classification/isolation & purification, Base Composition, Base Sequence, Clostridium/*classification/genetics/isolation & purification, DNA Primers, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Fossil Fuels/*microbiology, France, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics | Enzymology |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 4887 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13054) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-13054 | |
| 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) | |
| 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) | |
| 85810 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID45452.1 | StrainInfo: A central database for resolving microbial strain identifiers |