Strain identifier
BacDive ID: 5868
Type strain: 
Species: Halarsenatibacter silvermanii
Strain Designation: SLAS-1
Strain history: <- J. Switzer Blum, US Geological Survey, Menlo Park, USA; SLAS-1
NCBI tax ID(s): 321763 (species)
version 8.1 (current version)
General
@ref: 15885
BacDive-ID: 5868
DSM-Number: 21684
keywords: genome sequence, 16S sequence, Bacteria, obligate anaerobe, mesophilic, Gram-negative
description: Halarsenatibacter silvermanii SLAS-1 is an obligate anaerobe, mesophilic, Gram-negative bacterium that was isolated from salt lake sediment.
NCBI tax id
- NCBI tax id: 321763
- Matching level: species
strain history
- @ref: 15885
- history: <- J. Switzer Blum, US Geological Survey, Menlo Park, USA; SLAS-1
doi: 10.13145/bacdive5868.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Halanaerobiales
- family: Halanaerobiaceae
- genus: Halarsenatibacter
- species: Halarsenatibacter silvermanii
- full scientific name: Halarsenatibacter silvermanii Switzer Blum et al. 2010
@ref: 15885
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Halanaerobiales
family: Halanaerobiaceae
genus: Halarsenatibacter
species: Halarsenatibacter silvermanii
full scientific name: Halarsenatibacter silvermanii Switzer Blum et al. 2010
strain designation: SLAS-1
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.303
Culture and growth conditions
culture medium
- @ref: 15885
- name: HALARSENATIBACTER MEDIUM (DSMZ Medium 1406)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1406
- composition: Name: HALARSENATIBACTER MEDIUM (DSMZ Medium 1406) Composition: NaCl 151.0 g/l Na2SO4 84.0 g/l Na2CO3 36.0 g/l K2SO4 25.0 g/l NaHCO3 6.0 g/l Na-lactate 1.1206 g/l Yeast extract 1.0 g/l Arsenate 0.694595 g/l Cysteine HCl 0.25 g/l K2HPO4 0.15 g/l KH2PO4 0.08 g/l Na2WO4 0.075 g/l (NH4)2SO4 0.05 g/l MgSO4 x 7 H2O 0.025 g/l HCl 0.005775 g/l FeSO4 x 7 H2O 0.0045 g/l H3BO3 0.0009 g/l CoCl2 x 6 H2O 0.00057 g/l MnCl2 x 4 H2O 0.0003 g/l ZnCl2 0.00021 g/l Na2MoO4 x 2 H2O 0.000108 g/l Pyridoxine hydrochloride 0.0001 g/l NiCl2 x 6 H2O 7.2e-05 g/l Nicotinic acid 5e-05 g/l D-Calcium pantothenate 5e-05 g/l p-Aminobenzoic acid 5e-05 g/l Riboflavin 5e-05 g/l Thiamine-HCl x 2 H2O 5e-05 g/l Lipoic acid 5e-05 g/l Biotin 2e-05 g/l Folic acid 2e-05 g/l Na2SeO4 1e-05 g/l CuCl2 x 2 H2O 6e-06 g/l Vitamin B12 1e-06 g/l Distilled water
culture temp
- @ref: 15885
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 15885 | obligate anaerobe | |
| 69480 | anaerobe | 100 |
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.493
Isolation, sampling and environmental information
isolation
- @ref: 15885
- sample type: salt lake sediment
- geographic location: California, Searles Lake
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Lake (large) |
| #Environmental | #Aquatic | #Sediment |
| #Condition | #Saline |
taxonmaps
- @ref: 69479
- File name: preview.99_181342.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_4906;96_27788;97_34985;98_45152;99_181342&stattab=map
- Last taxonomy: Halarsenatibacter silvermanii subclade
- 16S sequence: AY965613
- Sequence Identity:
- Total samples: 15
- soil counts: 2
- aquatic counts: 13
Safety information
risk assessment
- @ref: 15885
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15885
- description: Halarsenatibacter silvermanii strain SLAS-1 16S ribosomal RNA gene, partial sequence
- accession: AY965613
- length: 1546
- database: ena
- NCBI tax ID: 321763
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Halarsenatibacter silvermanii SLAS-1 | GCA_900103135 | scaffold | ncbi | 321763 |
| 66792 | Halarsenatibacter silvermanii SLAS-1 | 2639762507 | draft | img | 321763 |
GC content
- @ref: 15885
- GC-content: 45.2
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 83 | no |
| motile | yes | 78.957 | no |
| flagellated | no | 87.336 | no |
| gram-positive | no | 94.023 | no |
| anaerobic | yes | 98.425 | no |
| aerobic | no | 94.175 | yes |
| halophile | no | 61.459 | no |
| spore-forming | no | 85.27 | no |
| glucose-ferment | no | 52.756 | no |
| thermophile | yes | 70.969 | yes |
| glucose-util | yes | 87.095 | no |
External links
@ref: 15885
culture collection no.: DSM 21684, ATCC BAA 1651
straininfo link
- @ref: 75348
- straininfo: 399611
literature
- topic: Phylogeny
- Pubmed-ID: 19218420
- title: Ecophysiology of "Halarsenatibacter silvermanii" strain SLAS-1T, gen. nov., sp. nov., a facultative chemoautotrophic arsenate respirer from salt-saturated Searles Lake, California.
- authors: Blum JS, Han S, Lanoil B, Saltikov C, Witte B, Tabita FR, Langley S, Beveridge TJ, Jahnke L, Oremland RS
- journal: Appl Environ Microbiol
- DOI: 10.1128/AEM.02614-08
- year: 2009
- mesh: Anaerobiosis, Arsenates/*metabolism, California, Cell Membrane/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Gram-Positive Bacteria/*classification/genetics/*isolation & purification/metabolism, Lipids/analysis, Locomotion, Molecular Sequence Data, Multigene Family, Oxidation-Reduction, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, *Water Microbiology
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 15885 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21684) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21684 | |||
| 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) | |||
| 75348 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID399611.1 | StrainInfo: A central database for resolving microbial strain identifiers |