Strain identifier
BacDive ID: 5986
Type strain: 
Species: Halonatronum saccharophilum
Strain Designation: Z-7986
Strain history: <- T. N. Zhilina; Z-7986
NCBI tax ID(s): 926692 (strain), 150060 (species)
version 9.1 (current version)
General
@ref: 5181
BacDive-ID: 5986
DSM-Number: 13868
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming
description: Halonatronum saccharophilum Z-7986 is an anaerobe, spore-forming bacterium that was isolated from coastal lagoon mud.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 926692 | strain |
| 150060 | species |
strain history
- @ref: 5181
- history: <- T. N. Zhilina; Z-7986
doi: 10.13145/bacdive5986.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Halanaerobiales
- family: Halobacteroidaceae
- genus: Halonatronum
- species: Halonatronum saccharophilum
- full scientific name: Halonatronum saccharophilum Zhilina et al. 2001
@ref: 5181
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Halanaerobiales
family: Halobacteroidaceae
genus: Halonatronum
species: Halonatronum saccharophilum
full scientific name: Halonatronum saccharophilum Zhilina et al. 2001
strain designation: Z-7986
type strain: yes
Culture and growth conditions
culture medium
- @ref: 5181
- name: HALONATRONUM SACCHAROPHILUM MEDIUM (DSMZ Medium 932)
- growth: yes
- link: https://mediadive.dsmz.de/medium/932
- composition: Name: HALONATRONUM SACCHAROPHILUM MEDIUM (DSMZ Medium 932) Composition: Na2CO3 68.0 g/l NaHCO3 38.0 g/l Sucrose 5.0 g/l Na2S x 9 H2O 0.7 g/l NH4Cl 0.5 g/l KH2PO4 0.2 g/l KCl 0.2 g/l Yeast extract 0.2 g/l MgCl2 0.1 g/l MgSO4 x 7 H2O 0.03 g/l Nitrilotriacetic acid 0.015 g/l NaCl 0.01 g/l MnSO4 x H2O 0.005 g/l ZnSO4 x 7 H2O 0.0018 g/l CoSO4 x 7 H2O 0.0018 g/l CaCl2 x 2 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Resazurin 0.001 g/l NiCl2 x 6 H2O 0.0003 g/l AlK(SO4)2 x 12 H2O 0.0002 g/l H3BO3 0.0001 g/l Na2MoO4 x 2 H2O 0.0001 g/l CuSO4 x 5 H2O 0.0001 g/l Na2WO4 x 2 H2O 4e-06 g/l Na2SeO3 x 5 H2O 3e-06 g/l Distilled water
culture temp
- @ref: 5181
- growth: positive
- type: growth
- temperature: 40
Physiology and metabolism
oxygen tolerance
- @ref: 5181
- oxygen tolerance: anaerobe
spore formation
- @ref: 69481
- spore formation: yes
- confidence: 100
Isolation, sampling and environmental information
isolation
- @ref: 5181
- sample type: coastal lagoon mud
- geographic location: Lake Magadi
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Mud (Sludge)
Safety information
risk assessment
- @ref: 5181
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 5181
- description: Halonatronum saccharophilum 16S ribosomal RNA gene, partial sequence
- accession: AY014858
- length: 1414
- database: nuccore
- NCBI tax ID: 150060
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Halonatronum saccharophilum DSM 13868 | GCA_000517025 | scaffold | ncbi | 926692 |
| 66792 | Halonatronum saccharophilum DSM 13868 | 926692.3 | wgs | patric | 926692 |
| 66792 | Halonatronum saccharophilum Z-7986, DSM 13868 | 2509887032 | draft | img | 926692 |
GC content
- @ref: 5181
- GC-content: 34.4
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 77.394 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 84.595 | yes |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 93.937 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 56.921 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 81.715 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 76.073 | no |
External links
@ref: 5181
culture collection no.: DSM 13868, UNIQUEM 211
straininfo link
- @ref: 75475
- straininfo: 100677
literature
- topic: Phylogeny
- Pubmed-ID: 11338841
- title: [Halonatronum saccharophilum gen. nov. sp. nov--a new haloalkalophilic bacteria from the order Haloanaerobiales from Lake Magadi].
- authors: Zhilina TN, Garnova ES, Turova TP, Kostrikina NA, Zavarzin GA
- journal: Mikrobiologiia
- year: 2001
- mesh: Bacillus/classification/genetics/*isolation & purification/ultrastructure, Fermentation, Fresh Water, Hydrogen-Ion Concentration, Microscopy, Electron, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Temperature, *Water Microbiology
- topic2: Enzymology
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 5181 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13868) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-13868 | |
| 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) | |
| 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 | |
| 75475 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID100677.1 | StrainInfo: A central database for resolving microbial strain identifiers |