Strain identifier
BacDive ID: 4295
Type strain: 
Species: Thioalkalivibrio halophilus
Strain Designation: HL17
Strain history: <- H. Banciu, Delft University of Technology, Department of Biotechnology, Delft, Netherlands; HL17 <- D. Y. Sorokin {2003}
NCBI tax ID(s): 252474 (species)
version 9.1 (current version)
General
@ref: 6107
BacDive-ID: 4295
DSM-Number: 15791
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, motile
description: Thioalkalivibrio halophilus HL17 is an anaerobe, motile bacterium that was isolated from hypersaline alkaline "Stamp lake".
NCBI tax id
- NCBI tax id: 252474
- Matching level: species
strain history
- @ref: 6107
- history: <- H. Banciu, Delft University of Technology, Department of Biotechnology, Delft, Netherlands; HL17 <- D. Y. Sorokin {2003}
doi: 10.13145/bacdive4295.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Chromatiales
- family: Ectothiorhodospiraceae
- genus: Thioalkalivibrio
- species: Thioalkalivibrio halophilus
- full scientific name: Thioalkalivibrio halophilus corrig. Banciu et al. 2005
synonyms
- @ref: 20215
- synonym: Thialkalivibrio halophilus
@ref: 6107
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Chromatiales
family: Ectothiorhodospiraceae
genus: Thioalkalivibrio
species: Thioalkalivibrio halophilus
full scientific name: Thioalkalivibrio halophilus Banciu et al. 2005
strain designation: HL17
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 96.5
Culture and growth conditions
culture medium
- @ref: 6107
- name: THIOALKALIVIBRIO HALOPHILUS MEDIUM (DSMZ Medium 1014)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1014
- composition: Name: THIOALKALIVIBRIO HALOPHILUS MEDIUM (DSMZ Medium 1014) Composition: NaCl 174.825 g/l Na2S2O3 4.99501 g/l NaHCO3 3.996 g/l K2HPO4 1.4985 g/l NH4Cl 0.499501 g/l MgSO4 x 7 H2O 0.24975 g/l MgCl2 x 6 H2O 0.1998 g/l EDTA 0.00499501 g/l FeSO4 x 7 H2O 0.0021978 g/l CoCl2 x 6 H2O 0.0001998 g/l ZnSO4 x 7 H2O 9.99001e-05 g/l H3BO3 2.997e-05 g/l CuCl2 x 2 H2O 2.997e-05 g/l NiCl2 x 6 H2O 2.997e-05 g/l Na2MoO4 x 2 H2O 2.997e-05 g/l MnCl2 x 4 H2O 2.997e-05 g/l Distilled water
culture temp
- @ref: 6107
- growth: positive
- type: growth
- temperature: 30
Physiology and metabolism
oxygen tolerance
- @ref: 6107
- oxygen tolerance: anaerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | no | 90.448 |
| 69481 | no | 95 |
Isolation, sampling and environmental information
isolation
- @ref: 6107
- sample type: hypersaline alkaline "Stamp lake"
- geographic location: South-West Siberia
- country: Russia
- origin.country: RUS
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Lake (large) |
| #Condition | #Alkaline | |
| #Condition | #Saline |
taxonmaps
- @ref: 69479
- File name: preview.99_688.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_56;96_421;97_483;98_554;99_688&stattab=map
- Last taxonomy: Thioalkalivibrio halophilus subclade
- 16S sequence: AY346464
- Sequence Identity:
- Total samples: 961
- soil counts: 128
- aquatic counts: 660
- animal counts: 126
- plant counts: 47
Safety information
risk assessment
- @ref: 6107
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6107
- description: Thialkalivibrio halophilus 16S ribosomal RNA gene, partial sequence
- accession: AY346464
- length: 1323
- database: nuccore
- NCBI tax ID: 252474
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Thioalkalivibrio halophilus HL17 | GCA_001995255 | scaffold | ncbi | 252474 |
| 66792 | Thioalkalivibrio halophilus HL17 | 2834699438 | draft | img | 252474 |
GC content
- @ref: 6107
- GC-content: 65.1±0.5
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 95 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 96.5 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 52.901 | yes |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 51.812 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 90.448 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 91.72 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 71.706 | no |
External links
@ref: 6107
culture collection no.: DSM 15791
straininfo link
- @ref: 73787
- straininfo: 138040
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 6107 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15791) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15791 | |
| 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) | |
| 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 | |
| 73787 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID138040.1 | StrainInfo: A central database for resolving microbial strain identifiers |