Strain identifier
BacDive ID: 11900
Type strain: 
Species: Picrophilus oshimae
Strain history: DSM 9789 <-- W. Zillig KAW2/2.
NCBI tax ID(s): 1122961 (strain), 46632 (species)
version 8.1 (current version)
General
@ref: 3735
BacDive-ID: 11900
DSM-Number: 9789
keywords: genome sequence, 16S sequence, Archaea, thermophilic
description: Picrophilus oshimae DSM 9789 is a thermophilic archaeon that was isolated from solfataric field.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 46632 | species |
| 1122961 | strain |
strain history
| @ref | history |
|---|---|
| 3735 | <- W. Zillig; KAW 2/2 <- C. Schleper and G. Pühler {1994} |
| 67770 | DSM 9789 <-- W. Zillig KAW2/2. |
doi: 10.13145/bacdive11900.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Thermoplasmata
- order: Thermoplasmatales
- family: Picrophilaceae
- genus: Picrophilus
- species: Picrophilus oshimae
- full scientific name: Picrophilus oshimae Schleper et al. 1996
synonyms
- @ref: 20215
- synonym: Picrophilus torridus
@ref: 3735
domain: Archaea
phylum: Euryarchaeota
class: Thermoplasmata
order: Thermoplasmatales
family: Picrophilaceae
genus: Picrophilus
species: Picrophilus oshimae
full scientific name: Picrophilus oshimae Schleper et al. 1996
type strain: yes
Culture and growth conditions
culture medium
- @ref: 3735
- name: SULFOLOBUS MEDIUM (DSMZ Medium 88)
- growth: yes
- link: https://mediadive.dsmz.de/medium/88
- composition: Name: SULFOLOBUS MEDIUM (DSMZ Medium 88; with strain-specific modifications) Composition: Yeast extract 1.9802 g/l (NH4)2SO4 1.28713 g/l KH2PO4 0.277228 g/l MgSO4 x 7 H2O 0.247525 g/l CaCl2 x 2 H2O 0.0693069 g/l FeCl3 x 6 H2O 0.019802 g/l Na2B4O7 x 10 H2O 0.00445545 g/l MnCl2 x 4 H2O 0.00178218 g/l ZnSO4 x 7 H2O 0.000217822 g/l CuCl2 x 2 H2O 4.95049e-05 g/l Na2MoO4 x 2 H2O 2.9703e-05 g/l VOSO4 x 2 H2O 2.9703e-05 g/l CoSO4 x 7 H2O 9.90099e-06 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 3735 | positive | growth | 55 | thermophilic |
| 67770 | positive | growth | 55 | thermophilic |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 3735 | solfataric field | Hokkaido, Kawayu | Japan | JPN | Asia |
| 67770 | Dry, hot soil in the vicinity of Kawayu | Hokkaido | Japan | JPN | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Volcanic
taxonmaps
- @ref: 69479
- File name: preview.99_187095.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_18356;96_68783;97_89425;98_121694;99_187095&stattab=map
- Last taxonomy: Picrophilus
- 16S sequence: X84901
- Sequence Identity:
- Total samples: 40
- soil counts: 1
- aquatic counts: 38
- plant counts: 1
Safety information
risk assessment
- @ref: 3735
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 3735
- description: P.oshimae 16S rRNA gene
- accession: X84901
- length: 1470
- database: ena
- NCBI tax ID: 46632
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Picrophilus oshimae DSM 9789 | 2579779151 | draft | img | 1122961 |
| 67770 | Picrophilus oshimae DSM 9789 | GCA_900176435 | contig | ncbi | 1122961 |
| 66792 | Picrophilus oshimae DSM 9789 strain DSM 9789 | 1122961.3 | wgs | patric | 1122961 |
GC content
- @ref: 3735
- GC-content: 36
- method: high performance liquid chromatography (HPLC)
External links
@ref: 3735
culture collection no.: DSM 9789, JCM 10054, KAW 2/2, ATCC 700036
straininfo link
- @ref: 81115
- straininfo: 45393
literature
- topic: Phylogeny
- Pubmed-ID: 19628615
- title: Acidiplasma aeolicum gen. nov., sp. nov., a euryarchaeon of the family Ferroplasmaceae isolated from a hydrothermal pool, and transfer of Ferroplasma cupricumulans to Acidiplasma cupricumulans comb. nov.
- authors: Golyshina OV, Yakimov MM, Lunsdorf H, Ferrer M, Nimtz M, Timmis KN, Wray V, Tindall BJ, Golyshin PN
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.009639-0
- year: 2009
- mesh: DNA, Archaeal/genetics, DNA, Ribosomal/genetics, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Thermoplasmales/*classification/genetics/*isolation & purification, *Water Microbiology
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 3735 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9789) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-9789 | |
| 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/ | ||
| 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 | |
| 81115 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID45393.1 | StrainInfo: A central database for resolving microbial strain identifiers |