Strain identifier
BacDive ID: 132677
Type strain: 
Species: Desulforamulus profundi
Strain Designation: Bs107
Strain history: A. Ranchou-Peyruse; Univ. of Pau & Pays de l'Adour, France; Bs107.
NCBI tax ID(s): 1383067 (species)
version 8.1 (current version)
General
@ref: 24466
BacDive-ID: 132677
DSM-Number: 24093
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, chemolithoautotroph, spore-forming, thermophilic, Gram-positive, rod-shaped
description: Desulforamulus profundi Bs107 is an anaerobe, chemolithoautotroph, spore-forming bacterium that was isolated from deep aquifer water from an oligotrophic gas storage aquifer contaminated with BTEX at a depth of 760 m.
NCBI tax id
- NCBI tax id: 1383067
- Matching level: species
strain history
| @ref | history |
|---|---|
| 24466 | <- A. Ranchou-Peyrouse, Univ. Pau et Pays de l’Adour, UMR CNRS 5254, IPREM EEM, France; Bs107 <- Lab. Microbiol. de l'IRD/ESIL, Univ. de Provence et de la Méditerranée, Marseille, France <- J.-F. Lascourrèges and S. Berlendis, Univ. Pau et Pays de l’Adour, UMR CNRS 5254, IPREM EEM, France {2008} |
| 67770 | A. Ranchou-Peyruse; Univ. of Pau & Pays de l'Adour, France; Bs107. |
doi: 10.13145/bacdive132677.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Peptococcaceae
- genus: Desulforamulus
- species: Desulforamulus profundi
- full scientific name: Desulforamulus profundi (Berlendis et al. 2016) Watanabe et al. 2021
synonyms
- @ref: 20215
- synonym: Desulfotomaculum profundi
@ref: 24466
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Peptococcaceae
genus: Desulfotomaculum
species: Desulfotomaculum profundi
full scientific name: Desulfotomaculum profundi Berlendis et al. 2016
strain designation: Bs107
type strain: yes
Morphology
cell morphology
- @ref: 25005
- gram stain: positive
- cell length: 3 µm
- cell width: 0.5 µm
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 25005
- colony color: black
- incubation period: 8 days
Culture and growth conditions
culture medium
- @ref: 24466
- name: DESULFOVIBRIO (MV) MEDIUM (DSMZ Medium 641)
- growth: yes
- link: https://mediadive.dsmz.de/medium/641
- composition: Name: DESULFOVIBRIO (MV) MEDIUM (DSMZ Medium 641; with strain-specific modifications) Composition: Na-pyruvate 2.49252 g/l Na2SO4 1.99402 g/l Na2S2O3 x 5 H2O 0.997009 g/l MgSO4 x 7 H2O 0.997009 g/l NH4Cl 0.997009 g/l Yeast extract 0.997009 g/l Na2CO3 0.997009 g/l KH2PO4 0.498504 g/l Na2S x 9 H2O 0.0997009 g/l CaCl2 x 2 H2O 0.0997009 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 Riboflavin 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Folic acid 1.99402e-05 g/l Biotin 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
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 25005 | positive | maximum | 60 | thermophilic |
| 25005 | positive | optimum | 45 | thermophilic |
| 25005 | positive | growth | 30-60 | |
| 24466 | positive | growth | 45 | thermophilic |
| 67770 | positive | growth | 45 | thermophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 25005 | positive | growth | 6.3-7.8 |
| 25005 | positive | optimum | 7.2 |
Physiology and metabolism
oxygen tolerance
- @ref: 25005
- oxygen tolerance: anaerobe
nutrition type
- @ref: 25005
- type: chemolithoautotroph
spore formation
- @ref: 25005
- spore description: terminal-spore
- type of spore: spore
- spore formation: yes
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 25005 | NaCl | positive | growth | 0-0.5 % |
| 25005 | NaCl | optimum | 0 % |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 25005 | 30089 | acetate | + | carbon source |
| 25005 | 16000 | ethanolamine | + | carbon source |
| 25005 | 15740 | formate | + | carbon source |
| 25005 | 29806 | fumarate | + | carbon source |
| 25005 | 29806 | fumarate | + | fermentation |
| 25005 | 17754 | glycerol | + | carbon source |
| 25005 | 15361 | pyruvate | + | carbon source |
| 25005 | 15361 | pyruvate | + | fermentation |
| 25005 | 16189 | sulfate | + | electron acceptor |
| 25005 | 17359 | sulfite | + | electron acceptor |
| 25005 | 16094 | thiosulfate | + | electron acceptor |
| 25005 | 28885 | butanol | +/- | carbon source |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 24466 | deep aquifer water from an oligotrophic gas storage aquifer contaminated with BTEX (benzene, toluene, ethylbenzene and xylenes) at a depth of 760 m | Paris Basin | France | FRA | Europe |
| 67770 | Deep aquifer formation (-760 m) near Paris | France | FRA | Europe |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Contamination | |
| #Environmental | #Aquatic | #Groundwater |
taxonmaps
- @ref: 69479
- File name: preview.99_76591.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15838;96_32447;97_41081;98_53550;99_76591&stattab=map
- Last taxonomy: Desulfotomaculum profundi subclade
- 16S sequence: KF591694
- Sequence Identity:
- Total samples: 350
- soil counts: 54
- aquatic counts: 170
- animal counts: 105
- plant counts: 21
Safety information
risk assessment
- @ref: 24466
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 24466 | Desulfotomaculum profundi strain Bs107 16S ribosomal RNA gene, partial sequence | KF591694 | 1456 | ena | 1383067 |
| 24466 | Desulfotomaculum profundi strain Bs107 16S ribosomal RNA gene, partial sequence | KF591692 | 1384 | ena | 1383067 |
Genome sequences
- @ref: 67770
- description: Desulforamulus profundi Bs107
- accession: GCA_002607855
- assembly level: contig
- database: ncbi
- NCBI tax ID: 1383067
GC content
- @ref: 24466
- GC-content: 48.7
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 88.695 | yes |
| gram-positive | no | 82.022 | yes |
| anaerobic | yes | 99.74 | yes |
| aerobic | no | 98.322 | no |
| halophile | no | 94.517 | yes |
| spore-forming | yes | 94.462 | yes |
| glucose-util | yes | 74.313 | no |
| thermophile | yes | 98.038 | yes |
| glucose-ferment | no | 75.942 | no |
| motile | yes | 87.71 | no |
External links
@ref: 24466
culture collection no.: DSM 24093, JCM 31387
straininfo link
- @ref: 90985
- straininfo: 397132
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 | |||
| 24466 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-24093 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24093) | |||
| 25005 | S. R.-P. Berlendis, M.,Fardeau, M. L.,Lascourrèges, J. F.,Joseph, M.,Ollivier, B.,Aüllo, T.,Dequidt, D.,Magot, M.,Ranchou-Peyruse, A. | Desulfotomaculum aquiferis sp. nov. and Desulfotomaculum profundi sp. nov., isolated from a deep natural gas storage aquifer | 10.1099/ijsem.0.001352 | IJSEM 66: 4329-4338 2016 | 27473224 | |
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |||
| 90985 | 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-ID397132.1 |