Strain identifier
BacDive ID: 4296
Type strain: 
Species: Thioalkalivibrio nitratireducens
Strain history: <- D. Y. Sorokin; ALEN2
NCBI tax ID(s): 1255043 (strain), 186931 (species)
version 9.1 (current version)
General
@ref: 5541
BacDive-ID: 4296
DSM-Number: 14787
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, Gram-negative
description: Thioalkalivibrio nitratireducens DSM 14787 is a spore-forming, Gram-negative bacterium that was isolated from soda lake Fazdah.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1255043 | strain |
| 186931 | species |
strain history
- @ref: 5541
- history: <- D. Y. Sorokin; ALEN2
doi: 10.13145/bacdive4296.20240916.9.1
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 nitratireducens
- full scientific name: Thioalkalivibrio nitratireducens corrig. Sorokin et al. 2003
synonyms
- @ref: 20215
- synonym: Thialkalivibrio nitratireducens
@ref: 5541
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Chromatiales
family: Ectothiorhodospiraceae
genus: Thioalkalivibrio
species: Thioalkalivibrio nitratireducens
full scientific name: Thioalkalivibrio nitratireducens Sorokin et al. 2003
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 97.5
Culture and growth conditions
culture medium
- @ref: 5541
- name: ALKALIPHILIC SULPHUR RESPIRING STRAINS MEDIUM (DSMZ Medium 925)
- growth: yes
- link: https://mediadive.dsmz.de/medium/925
- composition: Name: ALKALIPHILIC SULPHUR RESPIRING STRAINS MEDIUM (DSMZ Medium 925) Composition: Na2CO3 20.0 g/l NaHCO3 10.0 g/l NaCl 5.0 g/l K2HPO4 1.0 g/l MgCl2 x 6 H2O 0.2 g/l H3BO3 0.0006 g/l CoCl2 x 6 H2O 0.0004 g/l ZnSO4 x 7 H2O 0.0002 g/l Na2MoO4 x 2 H2O 6e-05 g/l MnCl2 x 4 H2O 6e-05 g/l NiCl2 x 6 H2O 4e-05 g/l CuCl2 x 2 H2O 2e-05 g/l EDTA 1e-05 g/l FeSO4 x 7 H2O 4e-06 g/l Distilled water
culture temp
- @ref: 5541
- growth: positive
- type: growth
- temperature: 30
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | no | 93.333 |
| 69481 | yes | 91 |
Isolation, sampling and environmental information
isolation
- @ref: 5541
- sample type: soda lake Fazdah
- country: Egypt
- origin.country: EGY
- continent: Africa
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Lake (large) |
| #Condition | #Alkaline |
taxonmaps
- @ref: 69479
- File name: preview.99_36564.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_56;96_3371;97_4140;98_5296;99_36564&stattab=map
- Last taxonomy: Thioalkalivibrio
- 16S sequence: AY079010
- Sequence Identity:
- Total samples: 2
- aquatic counts: 2
Safety information
risk assessment
- @ref: 5541
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 5541
- description: Thialkalivibrio nitratreducens 16S ribosomal RNA gene, partial sequence
- accession: AY079010
- length: 1420
- database: nuccore
- NCBI tax ID: 1255043
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Thioalkalivibrio nitratireducens DSM 14787 | GCA_000321415 | complete | ncbi | 1255043 |
| 66792 | Thioalkalivibrio nitratireducens DSM 14787 | 1255043.3 | complete | patric | 1255043 |
| 66792 | Thioalkalivibrio nitratireducens DSM 14787 | 2521172692 | complete | img | 1255043 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 91 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 97.5 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 70.944 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 54.571 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 93.333 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 92.895 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 66.126 | no |
External links
@ref: 5541
culture collection no.: DSM 14787, UNIQEM 213, ALEN 2
straininfo link
- @ref: 73788
- straininfo: 401264
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Enzymology | 12238951 | New enzyme belonging to the family of molybdenum-free nitrate reductases. | Antipov AN, Sorokin DY, L'Vov NP, Kuenen JG | Biochem J | 10.1042/BJ20021193 | 2003 | Electrophoresis, Polyacrylamide Gel, Molybdenum/*metabolism, Nitrate Reductases/chemistry/*metabolism, Vibrio/enzymology | Metabolism |
| Phylogeny | 14657104 | Thialkalivibrio nitratireducens sp. nov., a nitrate-reducing member of an autotrophic denitrifying consortium from a soda lake. | Sorokin DY, Tourova TP, Sjollema KA, Kuenen JG | Int J Syst Evol Microbiol | 10.1099/ijs.0.02615-0 | 2003 | Chromatiaceae/*classification/cytology/isolation & purification/metabolism, Egypt, Geologic Sediments/microbiology, Hydrogen-Ion Concentration, Molecular Sequence Data, Nitrates/*metabolism, Oxidation-Reduction, Oxygen Consumption, *Phylogeny, Sulfates/metabolism, Sulfur/metabolism, *Water Microbiology | Metabolism |
| Enzymology | 16500161 | Molecular and catalytic properties of a novel cytochrome c nitrite reductase from nitrate-reducing haloalkaliphilic sulfur-oxidizing bacterium Thioalkalivibrio nitratireducens. | Tikhonova TV, Slutsky A, Antipov AN, Boyko KM, Polyakov KM, Sorokin DY, Zvyagilskaya RA, Popov VO | Biochim Biophys Acta | 10.1016/j.bbapap.2005.12.021 | 2006 | Amino Acid Sequence, Cytochromes a1/*chemistry/*metabolism, Cytochromes c1/*chemistry/*metabolism, Ectothiorhodospiraceae/enzymology, Heme/analysis, Kinetics, Molecular Sequence Data, Nitrate Reductases/*chemistry/*metabolism, Protein Structure, Quaternary, Sequence Alignment, Spectrophotometry | Metabolism |
| Enzymology | 20636266 | Isolation and characterization of nitrate reductase from the halophilic sulfur-oxidizing bacterium Thioalkalivibrio nitratireducens. | Filimonenkov AA, Zvyagilskaya RA, Tikhonova TV, Popov VO | Biochemistry (Mosc) | 10.1134/s000629791006009x | 2010 | Catalytic Domain, Ectothiorhodospiraceae/*enzymology, Hydrogen-Ion Concentration, Kinetics, Mass Spectrometry, Nitrate Reductases/*chemistry/isolation & purification | Phylogeny |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 5541 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14787) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14787 | |||
| 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) | |||
| 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 | |||
| 73788 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID401264.1 | StrainInfo: A central database for resolving microbial strain identifiers |