Strain identifier
BacDive ID: 17911
Type strain: 
Species: Thiohalobacter thiocyanaticus
Strain Designation: HRh1
Strain history: <- D. Y. Sorokin, Dept. Biotechnol., Delft Univ. Technol., Netherlands; HRh1 <- D. Y. Sorokin {2005}
NCBI tax ID(s): 585455 (species)
version 8.1 (current version)
General
@ref: 15565
BacDive-ID: 17911
DSM-Number: 21152
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped
description: Thiohalobacter thiocyanaticus HRh1 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sediments from hypersaline lakes.
NCBI tax id
- NCBI tax id: 585455
- Matching level: species
strain history
- @ref: 15565
- history: <- D. Y. Sorokin, Dept. Biotechnol., Delft Univ. Technol., Netherlands; HRh1 <- D. Y. Sorokin {2005}
doi: 10.13145/bacdive17911.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Thiohalobacterales
- family: Thiohalobacteraceae
- genus: Thiohalobacter
- species: Thiohalobacter thiocyanaticus
- full scientific name: Thiohalobacter thiocyanaticus Sorokin et al. 2010
@ref: 15565
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Oceanospirillales
family: Gammaproteobacteria, not assigned to family
genus: Thiohalobacter
species: Thiohalobacter thiocyanaticus
full scientific name: Thiohalobacter thiocyanaticus Sorokin et al. 2010
strain designation: HRh1
type strain: yes
Morphology
cell morphology
- @ref: 29426
- gram stain: negative
- cell length: 1.5 µm
- cell width: 0.4 µm
- cell shape: rod-shaped
- motility: no
pigmentation
- @ref: 29426
- production: yes
Culture and growth conditions
culture medium
- @ref: 15565
- name: THIOHALOBACTER THIOCYANATICUS MEDIUM (DSMZ Medium 1058e)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1058e
- composition: Name: THIOHALOBACTER THIOCYANATICUS MEDIUM (DSMZ Medium 1058e) Composition: NaCl 59.8802 g/l Na2S2O3 x 5 H2O 4.99002 g/l NaHCO3 4.99002 g/l K2HPO4 1.49701 g/l MgSO4 x 7 H2O 0.499002 g/l NH4Cl 0.499002 g/l CaCl2 x 2 H2O 0.0499002 g/l EDTA 0.00499002 g/l FeSO4 x 7 H2O 0.00219561 g/l Pyridoxine hydrochloride 0.000299401 g/l CoCl2 x 6 H2O 0.000199601 g/l Thiamine-HCl x 2 H2O 0.000199601 g/l Nicotinic acid 0.000199601 g/l ZnSO4 x 7 H2O 9.98004e-05 g/l Calcium pantothenate 9.98004e-05 g/l Vitamin B12 9.98004e-05 g/l p-Aminobenzoic acid 7.98403e-05 g/l Na2MoO4 x 2 H2O 2.99401e-05 g/l MnCl2 x 4 H2O 2.99401e-05 g/l H3BO3 2.99401e-05 g/l CuCl2 x 2 H2O 2.99401e-05 g/l NiCl2 x 6 H2O 2.99401e-05 g/l D-(+)-biotin 1.99601e-05 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 15565 | positive | growth | 30 | mesophilic |
| 29426 | positive | growth | 20-40 | |
| 29426 | positive | optimum | 32 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 29426 | positive | growth | 6.3-8 |
| 29426 | positive | optimum | 7.4 |
Physiology and metabolism
oxygen tolerance
- @ref: 29426
- oxygen tolerance: aerobe
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 29426 | NaCl | positive | growth | 1.16-17.4 % |
| 29426 | NaCl | positive | optimum | 2.9 % |
observation
- @ref: 29426
- observation: aggregates in chains
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 29426 | catalase | + | 1.11.1.6 |
| 29426 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 15565
- sample type: sediments from hypersaline lakes
- geographic location: Altai
- country: Russia
- origin.country: RUS
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Lake (large) |
| #Environmental | #Aquatic | #Sediment |
| #Condition | #Saline |
taxonmaps
- @ref: 69479
- File name: preview.99_176489.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_276;96_29654;97_85004;98_115359;99_176489&stattab=map
- Last taxonomy: Thiohalobacter thiocyanaticus subclade
- 16S sequence: FJ482231
- Sequence Identity:
- Total samples: 2243
- soil counts: 235
- aquatic counts: 1912
- animal counts: 56
- plant counts: 40
Safety information
risk assessment
- @ref: 15565
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15565
- description: Thiohalobacter thiocyanaticus strain HRh1 16S ribosomal RNA gene, partial sequence
- accession: FJ482231
- length: 1455
- database: ena
- NCBI tax ID: 585455
Genome sequences
- @ref: 66792
- description: Thiohalobacter thiocyanaticus Hrh1
- accession: GCA_003932505
- assembly level: contig
- database: ncbi
- NCBI tax ID: 585455
GC content
| @ref | GC-content | method |
|---|---|---|
| 15565 | 63.5 | thermal denaturation, midpoint method (Tm) |
| 29426 | 63.5 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | yes | 78.933 | yes |
| flagellated | yes | 54.369 | no |
| gram-positive | no | 98.927 | yes |
| anaerobic | no | 93.739 | yes |
| aerobic | no | 61.091 | yes |
| halophile | yes | 60.672 | no |
| spore-forming | no | 96.429 | no |
| glucose-util | yes | 58.816 | no |
| thermophile | no | 93.122 | yes |
| glucose-ferment | no | 85.881 | no |
External links
@ref: 15565
culture collection no.: DSM 21152, UNIQEM U249
straininfo link
- @ref: 86900
- straininfo: 397351
literature
- topic: Phylogeny
- Pubmed-ID: 19654366
- title: Thiohalobacter thiocyanaticus gen. nov., sp. nov., a moderately halophilic, sulfur-oxidizing gammaproteobacterium from hypersaline lakes, that utilizes thiocyanate.
- authors: Sorokin DY, Kovaleva OL, Tourova TP, Muyzer G
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.012880-0
- year: 2009
- mesh: Base Sequence, Gammaproteobacteria/*classification/enzymology/genetics, Geologic Sediments/*microbiology, Molecular Sequence Data, Oxidation-Reduction, Photosynthesis/genetics, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Siberia, Sulfur/metabolism, Sulfur-Reducing Bacteria/*classification/enzymology/genetics, Thiocyanates/*metabolism, *Water Microbiology
- topic2: Enzymology
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|---|
| 15565 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21152) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21152 | ||||
| 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 | ||||
| 29426 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 25832 | 28776041 | ||
| 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 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
| 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 | ||||
| 86900 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID397351.1 | StrainInfo: A central database for resolving microbial strain identifiers |