Strain identifier
BacDive ID: 5880
Type strain: 
Species: Haloquadratum walsbyi
Strain Designation: C23
Strain history: M. Dyall-Smith C23.
NCBI tax ID(s): 768065 (strain), 293091 (species)
version 8.1 (current version)
General
@ref: 6636
BacDive-ID: 5880
DSM-Number: 16854
keywords: genome sequence, 16S sequence, Archaea, mesophilic, Gram-negative
description: Haloquadratum walsbyi C23 is a mesophilic, Gram-negative archaeon that was isolated from saltern crystallizer pond.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 768065 | strain |
| 293091 | species |
strain history
| @ref | history |
|---|---|
| 6636 | <- D. G. Burns |
| 67770 | M. Dyall-Smith C23. |
doi: 10.13145/bacdive5880.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Halobacteria
- order: Haloferacales
- family: Haloferacaceae
- genus: Haloquadratum
- species: Haloquadratum walsbyi
- full scientific name: Haloquadratum walsbyi Burns et al. 2007
@ref: 6636
domain: Archaea
phylum: Euryarchaeota
class: Halobacteria
order: Halobacteriales
family: Haloferacaceae
genus: Haloquadratum
species: Haloquadratum walsbyi
full scientific name: Haloquadratum walsbyi Burns et al. 2007
strain designation: C23
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.806
Culture and growth conditions
culture medium
- @ref: 6636
- name: HALOQUADRATUM WALSBYI MEDIUM (DSMZ Medium 1091)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1091
- composition: Name: HALOQUADRATUM WALSBYI MEDIUM (DSMZ Medium 1091) Composition: NaCl 195.0 g/l MgSO4 x 7 H2O 50.0 g/l MgCl2 x 6 H2O 35.0 g/l KCl 5.0 g/l Tris buffer 2.4228 g/l Sodium pyruvate 1.0 g/l NaNO3 1.0 g/l CaCl2 x 2 H2O 0.5 g/l NaHCO3 0.25 g/l KH2PO4 0.05 g/l Yeast extract 0.05 g/l NH4Cl 0.03 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 6636 | positive | growth | 37 | mesophilic |
| 67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.98 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 6636 | saltern crystallizer pond | Geelong, Victoria | Australia | AUS | Australia and Oceania |
| 67770 | Crystallizer pond water from the Cheetham Salt Works | Geelong, Victoria | Australia | AUS | Australia and Oceania |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Pond (small) |
| #Condition | #Saline |
taxonmaps
- @ref: 69479
- File name: preview.99_187128.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17912;96_68810;97_89452;98_121725;99_187128&stattab=map
- Last taxonomy: Haloquadratum walsbyi subclade
- 16S sequence: HM165235
- Sequence Identity:
- Total samples: 199
- soil counts: 16
- aquatic counts: 167
- animal counts: 12
- plant counts: 4
Safety information
risk assessment
- @ref: 6636
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Haloquadratum walsbyi strain C23 16S ribosomal RNA gene, partial sequence | AY676200 | 1439 | ena | 768065 |
| 20218 | Haloquadratum walsbyi C23 16S ribosomal RNA gene, complete sequence | HM165235 | 1472 | ena | 768065 |
| 20218 | Haloquadratum walsbyi gene for 16S rRNA, complete sequence, strain: JCM 12705 | AB663398 | 1472 | ena | 293091 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Haloquadratum walsbyi C23 DSM 16854 = C23 | GCA_000237865 | complete | ncbi | 768065 |
| 66792 | Haloquadratum walsbyi C23, DSM 16854 | 651053028 | complete | img | 768065 |
| 66792 | Haloquadratum walsbyi C23 strain DSM 16854 strain DSM 16854 = C23 | 768065.14 | plasmid | patric | 768065 |
| 66792 | Haloquadratum walsbyi C23 strain DSM 16854 strain DSM 16854 = C23 | 768065.13 | plasmid | patric | 768065 |
| 66792 | Haloquadratum walsbyi C23 | 768065.8 | complete | patric | 768065 |
| 66792 | Haloquadratum walsbyi C23 strain DSM 16854 = C23 | 768065.12 | plasmid | patric | 768065 |
GC content
- @ref: 67770
- GC-content: 46.9
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 71.708 | no |
| flagellated | no | 95.196 | no |
| gram-positive | no | 97.407 | no |
| anaerobic | no | 94.545 | no |
| aerobic | yes | 78.684 | no |
| halophile | yes | 87.835 | no |
| spore-forming | no | 95.929 | no |
| thermophile | no | 83.976 | yes |
| glucose-util | yes | 86.673 | no |
| glucose-ferment | no | 77.129 | no |
External links
@ref: 6636
culture collection no.: DSM 16854, JCM 12705
straininfo link
- @ref: 75359
- straininfo: 297199
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 17267984 | Haloquadratum walsbyi gen. nov., sp. nov., the square haloarchaeon of Walsby, isolated from saltern crystallizers in Australia and Spain. | Burns DG, Janssen PH, Itoh T, Kamekura M, Li Z, Jensen G, Rodriguez-Valera F, Bolhuis H, Dyall-Smith ML | Int J Syst Evol Microbiol | 10.1099/ijs.0.64690-0 | 2007 | Aerobiosis, Australia, Base Composition, Cell Wall/ultrastructure, Cytoplasm/ultrastructure, DNA, Archaeal/chemistry/isolation & purification, Genes, rRNA, Halobacteriaceae/*classification/cytology/*isolation & purification/physiology, Hydrogen-Ion Concentration, Magnesium/metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Organelles/ultrastructure, Phospholipids/analysis/chemistry, Phylogeny, RNA, Archaeal/genetics, RNA, Ribosomal, 16S/genetics, Salts, Seawater/*microbiology, Sequence Analysis, DNA, Spain, Water Microbiology | Enzymology |
| Enzymology | 26122310 | A novel nucleic lateral flow assay for screening of PHA-producing haloarchaea. | Muangsuwan W, Ruangsuj P, Chaichanachaicharn P, Yasawong M | J Microbiol Methods | 10.1016/j.mimet.2015.06.012 | 2015 | Acyltransferases/biosynthesis/*genetics, Amino Acid Sequence, Biosensing Techniques/economics/*methods, Cloning, Molecular, Euryarchaeota/*enzymology/*genetics, Genes, Bacterial, Polyhydroxyalkanoates/*metabolism, Polymerase Chain Reaction/*methods, Sensitivity and Specificity, Sequence Analysis, DNA | Transcriptome |
| 27822563 | Development of an immunoFET biosensor for the detection of biotinylated PCR product. | Muangsuwan W, Promptmas C, Jeamsaksiri W, Bunjongpru W, Srisuwan A, Hruanun C, Poyai A, Wongchitrat P, Yasawong M | Heliyon | 10.1016/j.heliyon.2016.e00188 | 2016 |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 6636 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16854) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16854 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 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/ | ||||
| 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 | |||
| 75359 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID297199.1 | StrainInfo: A central database for resolving microbial strain identifiers |