Strain identifier
BacDive ID: 13018
Type strain: 
Species: Halovibrio variabilis
Strain Designation: Frendich II, II
Strain history: <- C. Fendrich
NCBI tax ID(s): 31910 (species)
version 8.1 (current version)
General
@ref: 1285
BacDive-ID: 13018
DSM-Number: 3050
keywords: 16S sequence, Bacteria, mesophilic
description: Halovibrio variabilis Frendich II is a mesophilic bacterium that was isolated from surface water.
NCBI tax id
- NCBI tax id: 31910
- Matching level: species
strain history
- @ref: 1285
- history: <- C. Fendrich
doi: 10.13145/bacdive13018.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Oceanospirillales
- family: Halomonadaceae
- genus: Halovibrio
- species: Halovibrio variabilis
- full scientific name: Halovibrio variabilis Fendrich 1989
synonyms
- @ref: 20215
- synonym: Halomonas variabilis
@ref: 1285
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Oceanospirillales
family: Halomonadaceae
genus: Halovibrio
species: Halovibrio variabilis
full scientific name: Halovibrio variabilis Fendrich 1989
strain designation: Frendich II, II
type strain: yes
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 1285 | PSEUDOMONAS HALOPHILA MEDIUM (DSMZ Medium 470) | yes | https://mediadive.dsmz.de/medium/470 | Name: PSEUDOMONAS HALOPHILA MEDIUM (DSMZ Medium 470) Composition: NaCl 46.7533 g/l MgSO4 x 7 H2O 39.3606 g/l Glycerol 4.99501 g/l NH4Cl 0.999003 g/l KH2PO4 0.999001 g/l HCl 0.0024975 g/l FeCl2 x 4 H2O 0.0014985 g/l CoCl2 x 6 H2O 0.00018981 g/l MnCl2 x 4 H2O 9.99001e-05 g/l Pyridoxine hydrochloride 9.99001e-05 g/l ZnCl2 6.99301e-05 g/l Calcium pantothenate 4.995e-05 g/l Nicotinic acid 4.995e-05 g/l Riboflavin 4.995e-05 g/l Thiamine-HCl x 2 H2O 4.995e-05 g/l Na2MoO4 x 2 H2O 3.5964e-05 g/l NiCl2 x 6 H2O 2.3976e-05 g/l Folic acid 1.998e-05 g/l Biotin 1.998e-05 g/l p-Aminobenzoic acid 9.99001e-06 g/l H3BO3 5.99401e-06 g/l CuCl2 x 2 H2O 1.998e-06 g/l Vitamin B12 9.99001e-08 g/l Distilled water |
| 1285 | HALOVIBRIO MEDIUM (DSMZ Medium 1176) | yes | https://mediadive.dsmz.de/medium/1176 | Name: HALOVIBRIO MEDIUM (DSMZ Medium 1176) Composition: NaCl 120.0 g/l K2HPO4 3.0 g/l HEPES 2.38 g/l Sodium acetate 1.6406 g/l NH4Cl 0.5 g/l MgSO4 x 7 H2O 0.492952 g/l Yeast extract 0.2 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.0022 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l MnCl2 x 4 H2O 3e-05 g/l H3BO3 3e-05 g/l NiCl2 x 6 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l CuCl2 x 2 H2O 3e-05 g/l Distilled water |
culture temp
- @ref: 1285
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 1285
- sample type: surface water
- geographic location: Utah, Great Salt Lake
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Surface water
taxonmaps
- @ref: 69479
- File name: preview.99_2213.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15842;96_1202;97_1418;98_1726;99_2213&stattab=map
- Last taxonomy: Halomonadaceae
- 16S sequence: FR746108
- Sequence Identity:
- Total samples: 1182
- soil counts: 89
- aquatic counts: 833
- animal counts: 218
- plant counts: 42
Safety information
risk assessment
- @ref: 1285
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Pseudomonas halophila partial 16S rRNA gene, type strain DSM 3050T | FR746108 | 1517 | ena | 86177 |
| 1285 | Pseudomonas halophila gene for 16S rRNA, strain: DSM 3050 | AB021383 | 1497 | ena | 86177 |
GC content
- @ref: 1285
- GC-content: 61.6
- method: thermal denaturation, midpoint method (Tm)
External links
@ref: 1285
culture collection no.: DSM 3050
straininfo link
- @ref: 82229
- straininfo: 47690
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 16449444 | Extremely halophilic denitrifying bacteria from hypersaline inland lakes, Halovibrio denitrificans sp. nov. and Halospina denitrificans gen. nov., sp. nov., and evidence that the genus name Halovibrio Fendrich 1989 with the type species Halovibrio variabilis should be associated with DSM 3050. | Sorokin DY, Tourova TP, Galinski EA, Belloch C, Tindall BJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.63964-0 | 2006 | Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fresh Water/*microbiology, Gammaproteobacteria/*classification/genetics/isolation & purification/physiology, Genes, rRNA, Geologic Sediments/*microbiology, Halomonas/*classification/genetics/isolation & purification/physiology, Molecular Sequence Data, Nitrates/*metabolism, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium Chloride, Species Specificity | Enzymology |
| Phylogeny | 16449462 | The status of the genus name Halovibrio Fendrich 1989 and the identity of the strains Pseudomonas halophila DSM 3050 and Halomonas variabilis DSM 3051. Request for an opinion. | Sorokin DY, Tindall BJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.63965-0 | 2006 | Base Composition, Fresh Water/microbiology, Halomonas/*classification/genetics/physiology, Phenotype, Pseudomonas/*classification/genetics/physiology, *Sodium Chloride, Utah | Phenotype |
| Phylogeny | 25288663 | The designated type strain of Pseudomonas halophila Fendrich 1989 is DSM 3051, the designated type strain of Halovibrio variabilis Fendrich 1989 is DSM 3050, the new name Halomonas utahensis (Fendrich 1989) Sorokin and Tindall 2006 is created for the species represented by DSM 3051 when treated as a member of the genus Halomonas, the combination Halomonas variabilis (Fendrich 1989) Dobson and Franzmann 1996 is rejected, and the combination Halovibrio denitrificans Sorokin et al. 2006 is validly published with an emendation of the description of the genus Halovibrio Fendrich 1989 emend. Sorokin et al. 2006. Opinion 93. Judicial Commission of the International Committee on Systematics of Prokaryotes. | Tindall BJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.069195-0 | 2014 | Halomonas/*classification, Phylogeny, Pseudomonas/*classification, *Terminology as Topic | |
| Phylogeny | 33219431 | Halovibrio salipaludis sp. nov., Isolated from Saline-Alkaline Soil. | Tang L, Liu H, Sun W, Zhao J, Miao S, Gong Q, Ma L, Zhang G | Curr Microbiol | 10.1007/s00284-020-02282-y | 2020 | Bacterial Typing Techniques, China, DNA, Bacterial/genetics, Fatty Acids, Halomonadaceae, Nucleic Acid Hybridization, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil, *Soil Microbiology | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 1285 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3050) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-3050 | |||
| 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 | |
| 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 | |||
| 82229 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID47690.1 | StrainInfo: A central database for resolving microbial strain identifiers |