Strain identifier
BacDive ID: 1555
Type strain: 
Species: Sediminibacillus halophilus
Strain Designation: EN8d
Strain history: <- A. Ventosa; EN8d
NCBI tax ID(s): 482461 (species)
version 9.1 (current version)
General
@ref: 7389
BacDive-ID: 1555
DSM-Number: 18088
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, Gram-positive, motile, rod-shaped
description: Sediminibacillus halophilus EN8d is a facultative anaerobe, Gram-positive, motile bacterium that was isolated from sediment, Lake Erliannor.
NCBI tax id
- NCBI tax id: 482461
- Matching level: species
strain history
- @ref: 7389
- history: <- A. Ventosa; EN8d
doi: 10.13145/bacdive1555.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Bacillaceae
- genus: Sediminibacillus
- species: Sediminibacillus halophilus
- full scientific name: Sediminibacillus halophilus Carrasco et al. 2008
@ref: 7389
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Bacillaceae
genus: Sediminibacillus
species: Sediminibacillus halophilus
full scientific name: Sediminibacillus halophilus Carrasco et al. 2008
strain designation: EN8d
type strain: yes
Morphology
cell morphology
- @ref: 32621
- gram stain: positive
- cell length: 1.5-7 µm
- cell width: 0.9 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 32621
- production: yes
Culture and growth conditions
culture medium
- @ref: 7389
- name: 10% MH MEDIUM (DSMZ Medium 593)
- growth: yes
- link: https://mediadive.dsmz.de/medium/593
- composition: Name: 10% MH MEDIUM (DSMZ Medium 593) Composition: NaCl 81.0 g/l Agar 15.0 g/l Yeast extract 10.0 g/l MgSO4 9.6 g/l MgCl2 7.0 g/l Proteose peptone no. 3 5.0 g/l KCl 2.0 g/l Glucose 1.0 g/l CaCl2 0.36 g/l NaHCO3 0.06 g/l NaBr 0.026 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 7389 | positive | growth | 30 |
| 32621 | positive | growth | 15-55 |
| 32621 | positive | optimum | 37 |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 32621 | positive | growth | 5-9.5 | alkaliphile |
| 32621 | positive | optimum | 7.5 |
Physiology and metabolism
oxygen tolerance
- @ref: 32621
- oxygen tolerance: facultative anaerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 32621 | no | |
| 69480 | yes | 90.915 |
| 69481 | no | 99 |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 32621 | NaCl | positive | growth | 0-20 % |
| 32621 | NaCl | positive | optimum | 5-7.5 % |
observation
- @ref: 32621
- observation: aggregates in chains
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 32621 | 22599 | arabinose | + | carbon source |
| 32621 | 17057 | cellobiose | + | carbon source |
| 32621 | 28260 | galactose | + | carbon source |
| 32621 | 17716 | lactose | + | carbon source |
| 32621 | 4853 | esculin | + | hydrolysis |
| 32621 | 17632 | nitrate | + | reduction |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 32621 | acid phosphatase | + | 3.1.3.2 |
| 32621 | alkaline phosphatase | + | 3.1.3.1 |
| 32621 | catalase | + | 1.11.1.6 |
| 32621 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 7389
- sample type: sediment, Lake Erliannor
- geographic location: Inner Mongolia
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Lake (large) |
| #Environmental | #Aquatic | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_4329.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_2171;97_2627;98_3257;99_4329&stattab=map
- Last taxonomy: Bacillaceae
- 16S sequence: AM905297
- Sequence Identity:
- Total samples: 181
- soil counts: 57
- aquatic counts: 25
- animal counts: 92
- plant counts: 7
Safety information
risk assessment
- @ref: 7389
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 7389
- description: Sediminibacillus halophilus 16S rRNA gene, type strain EN8dT
- accession: AM905297
- length: 1453
- database: nuccore
- NCBI tax ID: 482461
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Sediminibacillus halophilus CGMCC 1.6199 | GCA_900103695 | scaffold | ncbi | 482461 |
| 66792 | Sediminibacillus halophilus strain CGMCC 1.6199 | 482461.3 | wgs | patric | 482461 |
| 66792 | Sediminibacillus halophilus CGMCC 1.6199 | 2675902964 | draft | img | 482461 |
GC content
- @ref: 7389
- GC-content: 47.5
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 99 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 83.332 | yes |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 97.153 | yes |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 71.463 | yes |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 90.915 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 95.363 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 84.691 | no |
External links
@ref: 7389
culture collection no.: DSM 18088, CCM 7364, CECT 7148, CGMCC 1.6199
straininfo link
- @ref: 71200
- straininfo: 312513
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 18676487 | Sediminibacillus halophilus gen. nov., sp. nov., a moderately halophilic, Gram-positive bacterium from a hypersaline lake. | Carrasco IJ, Marquez MC, Xue Y, Ma Y, Cowan DA, Jones BE, Grant WD, Ventosa A | Int J Syst Evol Microbiol | 10.1099/ijs.0.65790-0 | 2008 | Bacillaceae/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Fresh Water/*microbiology, Genes, rRNA, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium Chloride, Species Specificity | Genetics |
| Phylogeny | 19542144 | Sediminibacillus albus sp. nov., a moderately halophilic, Gram-positive bacterium isolated from a hypersaline lake, and emended description of the genus Sediminibacillus Carrasco et al. 2008. | Wang X, Xue Y, Ma Y | Int J Syst Evol Microbiol | 10.1099/ijs.0.004234-0 | 2009 | Bacillaceae/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/analysis, Fatty Acids/analysis, Fresh Water/chemistry/microbiology, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium Chloride, Species Specificity, Spores, Bacterial/physiology | Genetics |
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 7389 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18088) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18088 | |||
| 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 | |||
| 32621 | 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 | 28832 | 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) | |||
| 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 | |||
| 71200 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID312513.1 | StrainInfo: A central database for resolving microbial strain identifiers |