Strain identifier
BacDive ID: 16677
Type strain: 
Species: Thermodesulforhabdus norvegica
Strain Designation: A8444
Strain history: <- J. Beeder; A8444 <- J. Beeder {1992}
NCBI tax ID(s): 39841 (species)
version 8.1 (current version)
General
@ref: 3770
BacDive-ID: 16677
DSM-Number: 9990
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, thermophilic, motile
description: Thermodesulforhabdus norvegica A8444 is an anaerobe, thermophilic, motile bacterium that was isolated from oil field production water, oil platform.
NCBI tax id
- NCBI tax id: 39841
- Matching level: species
strain history
- @ref: 3770
- history: <- J. Beeder; A8444 <- J. Beeder {1992}
doi: 10.13145/bacdive16677.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Syntrophobacterales
- family: Syntrophobacteraceae
- genus: Thermodesulforhabdus
- species: Thermodesulforhabdus norvegica
- full scientific name: Thermodesulforhabdus norvegica corrig. Beeder et al. 1996
synonyms
- @ref: 20215
- synonym: Thermodesulforhabdus norvegicus
@ref: 3770
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Syntrophobacterales
family: Syntrophobacteraceae
genus: Thermodesulforhabdus
species: Thermodesulforhabdus norvegica
full scientific name: Thermodesulforhabdus norvegica Beeder et al. 1996
strain designation: A8444
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 92.779 | |
| 69480 | 99.994 | negative |
colony morphology
- @ref: 3770
- incubation period: 3-7 days
Culture and growth conditions
culture medium
- @ref: 3770
- name: DESULFOSARCINA MEDIUM (BRACKISH WATER) (DSMZ Medium 198)
- growth: yes
- link: https://mediadive.dsmz.de/medium/198
- composition: Name: DESULFOSARCINA MEDIUM (BRACKISH WATER) (DSMZ Medium 198; with strain-specific modifications) Composition: NaCl 13.4596 g/l Na-acetate 6.18146 g/l Na2SO4 2.99103 g/l MgCl2 x 6 H2O 1.99402 g/l Na2CO3 1.49551 g/l KCl 0.498504 g/l Na2S x 9 H2O 0.398804 g/l NH4Cl 0.299103 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149551 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 MnCl2 x 4 H2O 9.97009e-05 g/l Pyridoxine hydrochloride 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 Calcium D-(+)-pantothenate 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Thiamine HCl 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 | confidence |
|---|---|---|---|---|---|
| 3770 | positive | growth | 60 | thermophilic | |
| 69480 | thermophilic | 99.999 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 3770 | anaerobe | |
| 69480 | anaerobe | 99.999 |
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.949
Isolation, sampling and environmental information
isolation
- @ref: 3770
- sample type: oil field production water, oil platform
- geographic location: North Sea
- country: Norway
- origin.country: NOR
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Industrial | #Oil reservoir |
| #Environmental | #Aquatic |
taxonmaps
- @ref: 69479
- File name: preview.99_142236.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_4852;96_22158;97_27679;98_94502;99_142236&stattab=map
- Last taxonomy: Thermodesulforhabdus norvegica subclade
- 16S sequence: U25627
- Sequence Identity:
- Total samples: 182
- soil counts: 5
- aquatic counts: 175
- animal counts: 2
Safety information
risk assessment
- @ref: 3770
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 3770
- description: Thermodesulforhabdus norvegicus 16S ribosomal RNA gene, partial sequence
- accession: U25627
- length: 1559
- database: ena
- NCBI tax ID: 39841
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Thermodesulforhabdus norvegica DSM 9990 | GCA_900114975 | scaffold | ncbi | 39841 |
| 66792 | Thermodesulforhabdus norvegica strain DSM 9990 | 39841.4 | wgs | patric | 39841 |
| 66792 | Thermodesulforhabdus norvegica DSM 9990 | 2599185149 | draft | img | 39841 |
GC content
- @ref: 3770
- GC-content: 51
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 56 | no |
| motile | yes | 83.643 | no |
| flagellated | no | 89.581 | no |
| gram-positive | no | 99.576 | no |
| anaerobic | yes | 99.683 | yes |
| aerobic | no | 98.408 | yes |
| halophile | no | 58.192 | no |
| spore-forming | no | 91.54 | no |
| glucose-ferment | no | 82.872 | no |
| thermophile | yes | 99.204 | no |
| glucose-util | no | 51.199 | no |
External links
@ref: 3770
culture collection no.: DSM 9990
straininfo link
- @ref: 85697
- straininfo: 48728
literature
- topic: Phylogeny
- Pubmed-ID: 8572886
- title: Thermodesulforhabdus norvegicus gen. nov., sp. nov., a novel thermophilic sulfate-reducing bacterium from oil field water.
- authors: Beeder J, Torsvik T, Lien T
- journal: Arch Microbiol
- year: 1995
- mesh: Base Composition, Gram-Negative Bacteria/chemistry/genetics/growth & development/*isolation & purification/metabolism, Hot Temperature, Molecular Sequence Data, Oxidation-Reduction, *Petroleum, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sulfates/*metabolism, Sulfites/metabolism, *Water Microbiology
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 3770 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9990) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-9990 | |||
| 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) | |||
| 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) | |||
| 85697 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID48728.1 | StrainInfo: A central database for resolving microbial strain identifiers |