Strain identifier
BacDive ID: 5909
Type strain: 
Species: Halobacterium salinarum
Strain Designation: 63-R2
Strain history: NCIMB 2259 <-- B. J. Tindall <-- DSM 669 <-- D. Keradjopoulos <-- NRC <-- A. G. Lochhead.
NCBI tax ID(s): 2886895 (strain), 2242 (species)
version 9.3 (current version)
General
@ref: 352
BacDive-ID: 5909
DSM-Number: 669
keywords: genome sequence, 16S sequence, Archaea, mesophilic
description: Halobacterium salinarum 63-R2 is a mesophilic archaeon that was isolated from salted buffalo hide.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 2886895 | strain |
| 2242 | species |
strain history
| @ref | history |
|---|---|
| 352 | <- D. Keradjopoulos <- NRC <- A.G. Lochhead, 63-R2 |
| 67770 | NCIMB 2259 <-- B. J. Tindall <-- DSM 669 <-- D. Keradjopoulos <-- NRC <-- A. G. Lochhead. |
doi: 10.13145/bacdive5909.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Halobacteria
- order: Halobacteriales
- family: Halobacteriaceae
- genus: Halobacterium
- species: Halobacterium salinarum
- full scientific name: Halobacterium salinarum corrig. (Harrison and Kennedy 1922) Elazari-Volcani 1957 (Approved Lists 1980)
synonyms
@ref synonym 20215 Halobacterium piscisalsi 20215 Halobacter cutirubrum 20215 Serratia cutirubra 20215 Pseudomonas salinaria 20215 Halobacter salinaria 20215 Halobacterium cutirubrum 20215 Halobacterium halobium 20215 Bacterium halobium 20215 Halobacterium salinarium
@ref: 352
domain: Archaea
phylum: Euryarchaeota
class: Halobacteria
order: Halobacteriales
family: Halobacteriaceae
genus: Halobacterium
species: Halobacterium salinarum
full scientific name: Halobacterium salinarum (Harrison and Kennedy 1922) Elazari-Volcani 1957 emend. Gruber et al. 2004
strain designation: 63-R2
type strain: no
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 352 | HALOBACTERIA MEDIUM (DSMZ Medium 372) | yes | https://mediadive.dsmz.de/medium/372 | Name: HALOBACTERIA MEDIUM (DSMZ Medium 372) Composition: NaCl 200.0 g/l MgSO4 x 7 H2O 20.0 g/l Agar 20.0 g/l Yeast extract 5.0 g/l Casamino acids 5.0 g/l Na3-citrate 3.0 g/l KCl 2.0 g/l Na glutamate 1.0 g/l FeCl2 x 4 H2O 0.036 g/l MnCl2 x 4 H2O 0.00036 g/l Distilled water |
| 352 | HALOBACTERIUM MEDIUM (DSMZ Medium 97) | yes | https://mediadive.dsmz.de/medium/97 | Name: HALOBACTERIUM MEDIUM (DSMZ Medium 97) Composition: NaCl 250.0 g/l Agar 20.0 g/l MgSO4 x 7 H2O 20.0 g/l Yeast extract 10.0 g/l Casamino acids 7.5 g/l Na3-citrate 3.0 g/l KCl 2.0 g/l FeSO4 x 7 H2O 0.05 g/l MnSO4 x H2O 0.0002 g/l Distilled water |
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 352 | positive | growth | 37 |
| 67770 | positive | growth | 37 |
Physiology and metabolism
spore formation
- @ref: 125439
- spore formation: no
- confidence: 93.8
compound production
- @ref: 352
- compound: L alanine dehydrogenase
Isolation, sampling and environmental information
isolation
| @ref | sample type |
|---|---|
| 352 | salted buffalo hide |
| 67770 | Salted buffalo hide |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Mammals | #Bovinae (Cow, Cattle) |
| #Condition | #Saline |
Safety information
risk assessment
- @ref: 352
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 124043
- description: Halobacterium salinarum NBRC 14715 gene for 16S rRNA, partial sequence.
- accession: LC556329
- length: 1439
- database: nuccore
- NCBI tax ID: 2242
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Halobacterium salinarum DSM 669 | GCA_014202515 | contig | ncbi | 2242 |
| 66792 | Halobacterium cutirubrum DSM 669 | 2861557587 | draft | img | 2242 |
GC content
- @ref: 67770
- GC-content: 67.9
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence |
|---|---|---|---|---|---|
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 93.8 |
| 125439 | BacteriaNet | motility | Ability to perform movement | no | 61.4 |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | positive | 78.8 |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | facultative aerobe | 71.8 |
External links
@ref: 352
culture collection no.: DSM 669, ATCC 33170, NRC 34001, JCM 8981, IFO 14715, NBRC 14715, NCIMB 2259, VKM B-1808
straininfo link
- @ref: 75390
- straininfo: 40374
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phenotype | 4019414 | Evidence for two restriction-modification systems in Halobacterium cutirubrum. | Patterson NH, Pauling C | J Bacteriol | 10.1128/jb.163.2.783-784.1985 | 1985 | *Genes, Bacterial, Halobacterium/*genetics/growth & development, Phenotype, Species Specificity | Phylogeny |
| 6733144 | Photoreactivation in pigmented and non-pigmented extreme halophiles. | Sharma N, Hepburn D, Fitt PS | Biochim Biophys Acta | 10.1016/0304-4165(84)90287-3 | 1984 | DNA Repair, DNA, Bacterial/radiation effects, Dose-Response Relationship, Radiation, Halobacterium/genetics/growth & development/*radiation effects, *Light, Mutation, *Pigmentation, *Ultraviolet Rays | ||
| Enzymology | 8297356 | Cyclosporin A sensitive peptidyl-prolyl cis-trans isomerase in a halophilic archaeum, Halobacterium cutirubrum. | Nagashima K, Mitsuhashi S, Kamino K, Maruyama T | Biochem Biophys Res Commun | 10.1006/bbrc.1994.1068 | 1994 | Amino Acid Isomerases/*drug effects/*isolation & purification, Amino Acid Sequence, Carrier Proteins/*drug effects/*isolation & purification, Cyclosporine/*pharmacology, Dose-Response Relationship, Drug, Halobacterium/*enzymology, Molecular Sequence Data, Molecular Weight, Peptidylprolyl Isomerase, Potassium Chloride/pharmacology, Sequence Analysis, Sequence Homology, Amino Acid, Sodium Chloride/pharmacology | Phylogeny |
| Enzymology | 9434176 | Gene for a cyclophilin-type peptidyl-prolyl cis-trans isomerase from a halophilic archaeum, Halobacterium cutirubrum. | Iida T, Furutani M, Iwabuchi T, Maruyama T | Gene | 10.1016/s0378-1119(97)00534-9 | 1997 | Amino Acid Sequence, Archaeal Proteins/*genetics/metabolism, Base Sequence, Cloning, Molecular, DNA, Archaeal, Escherichia coli, Genes, Archaeal, Halobacterium/*enzymology/genetics, Humans, Molecular Sequence Data, Peptidylprolyl Isomerase/*genetics/metabolism, Sequence Homology, Amino Acid | Metabolism |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 352 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 669) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-669 | |
| 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) | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 75390 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID40374.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
| 124043 | Isabel Schober, Julia Koblitz | Data extracted from sequence databases, automatically matched based on designation and taxonomy | ||
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | https://github.com/GenomeNet/deepG | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 |