Strain identifier
BacDive ID: 17641
Type strain: 
Species: Desulfurobacterium thermolithotrophum
Strain Designation: BSA
Strain history: <- C. Jeanthon, BSA
NCBI tax ID(s): 868864 (strain), 64160 (species)
version 8.1 (current version)
General
@ref: 4450
BacDive-ID: 17641
DSM-Number: 11699
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, thermophilic, Gram-negative
description: Desulfurobacterium thermolithotrophum BSA is an anaerobe, thermophilic, Gram-negative bacterium that was isolated from deep-sea hydrothermal vent chimney, 3500 m depth.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 868864 | strain |
| 64160 | species |
strain history
- @ref: 4450
- history: <- C. Jeanthon, BSA
doi: 10.13145/bacdive17641.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/aquificota
- domain: Bacteria
- phylum: Aquificota
- class: Aquificia
- order: Desulfurobacteriales
- family: Desulfurobacteriaceae
- genus: Desulfurobacterium
- species: Desulfurobacterium thermolithotrophum
- full scientific name: Desulfurobacterium thermolithotrophum L'Haridon et al. 1998
@ref: 4450
domain: Bacteria
phylum: Aquificae
class: Aquificae
order: Aquificales
family: Desulfurobacteriaceae
genus: Desulfurobacterium
species: Desulfurobacterium thermolithotrophum
full scientific name: Desulfurobacterium thermolithotrophum L'Haridon et al. 1998
strain designation: BSA
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 100
multimedia
- @ref: 66793
- multimedia content: EM_DSM_11699_1.jpg
- caption: electron microscopic image
- intellectual property rights: © HZI/Manfred Rohde
Culture and growth conditions
culture medium
- @ref: 4450
- name: DESULFUROBACTERIUM MEDIUM (DSMZ Medium 829)
- growth: yes
- link: https://mediadive.dsmz.de/medium/829
- composition: Name: DESULFUROBACTERIUM MEDIUM (DSMZ Medium 829) Composition: Sea Salt 29.8507 g/l Sulfur 9.95025 g/l MES [2-(N-morpholino) ethane sulfonic acid] 1.9403 g/l NH4Cl 0.995025 g/l Na2CO3 0.497512 g/l KH2PO4 0.348259 g/l Na2S2O4 0.0497512 g/l NaHCO3 0.0497512 g/l Succinic acid 0.00597015 g/l Isobutyric acid 0.00497512 g/l 2-Methylbutyric acid 0.00497512 g/l Valeric acid 0.00497512 g/l 3-Methylbutyric acid 0.00497512 g/l HCl 0.00248756 g/l Caproic acid 0.00199005 g/l FeCl2 x 4 H2O 0.00149254 g/l Sodium resazurin 0.000497512 g/l NaOH 0.000497512 g/l Pyridoxine hydrochloride 0.000298507 g/l Nicotinic acid 0.000199005 g/l Thiamine-HCl x 2 H2O 0.000199005 g/l CoCl2 x 6 H2O 0.000189055 g/l MnCl2 x 4 H2O 9.95025e-05 g/l Calcium pantothenate 9.95025e-05 g/l Vitamin B12 9.95025e-05 g/l p-Aminobenzoic acid 7.9602e-05 g/l ZnCl2 6.96517e-05 g/l Na2MoO4 x 2 H2O 3.58209e-05 g/l NiCl2 x 6 H2O 2.38806e-05 g/l D-(+)-biotin 1.99005e-05 g/l H3BO3 5.97015e-06 g/l Na2WO4 x 2 H2O 3.9801e-06 g/l Na2SeO3 x 5 H2O 2.98507e-06 g/l CuCl2 x 2 H2O 1.99005e-06 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range | confidence |
|---|---|---|---|---|---|
| 4450 | positive | growth | 70 | thermophilic | |
| 69480 | thermophilic | 99.438 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 4450 | anaerobe | |
| 69480 | anaerobe | 99.474 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.971 |
Isolation, sampling and environmental information
isolation
- @ref: 4450
- sample type: deep-sea hydrothermal vent chimney, 3500 m depth
- geographic location: Mid-Atlantic Ridge, Snake Pit hydrothermal vent field
- latitude: 23.3667
- longitude: -44.9333
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Hydrothermal vent |
| #Environmental | #Aquatic | #Marine |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_10854.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_243;96_3357;97_4116;98_5266;99_10854&stattab=map
- Last taxonomy: Desulfurobacterium thermolithotrophum subclade
- 16S sequence: AJ001049
- Sequence Identity:
- Total samples: 1
- aquatic counts: 1
Safety information
risk assessment
- @ref: 4450
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 4450
- description: Desulfurobacterium thermolithotrophum 16S ribosomal RNA
- accession: AJ001049
- length: 1446
- database: ena
- NCBI tax ID: 868864
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Desulfurobacterium thermolithotrophum DSM 11699 | GCA_000191045 | complete | ncbi | 868864 |
| 66792 | Desulfurobacterium thermolithotrophum DSM 11699 | 868864.3 | complete | patric | 868864 |
| 66792 | Desulfurobacterium thermolithotrophum BSA, DSM 11699 | 649633039 | complete | img | 868864 |
GC content
- @ref: 4450
- GC-content: 35
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 81.948 | no |
| flagellated | no | 93.37 | no |
| gram-positive | no | 99.535 | no |
| anaerobic | yes | 98.439 | no |
| aerobic | no | 98.517 | no |
| halophile | no | 81.433 | no |
| spore-forming | no | 96.608 | no |
| glucose-util | no | 61.366 | no |
| glucose-ferment | no | 82.397 | no |
| thermophile | yes | 100 | yes |
External links
@ref: 4450
culture collection no.: DSM 11699
straininfo link
- @ref: 86633
- straininfo: 49157
literature
- Pubmed-ID: 25505896
- title: Genomic analyses of bacterial porin-cytochrome gene clusters.
- authors: Shi L, Fredrickson JK, Zachara JM
- journal: Front Microbiol
- DOI: 10.3389/fmicb.2014.00657
- year: 2014
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 4450 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11699) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-11699 | |||
| 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) | |||
| 66793 | Mukherjee et al. | 10.1038/nbt.3886 | GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life | 35: 676-683 2017 | 28604660 | |
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 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) | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 86633 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49157.1 | StrainInfo: A central database for resolving microbial strain identifiers |