Strain identifier

BacDive ID: 11900

Type strain: Yes

Species: Picrophilus oshimae

Strain history: DSM 9789 <-- W. Zillig KAW2/2.

NCBI tax ID(s): 1122961 (strain), 46632 (species)

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General

@ref: 3735

BacDive-ID: 11900

DSM-Number: 9789

keywords: genome sequence, 16S sequence, Archaea

description: Picrophilus oshimae DSM 9789 is an archaeon that was isolated from solfataric field.

NCBI tax id

NCBI tax idMatching level
46632species
1122961strain

strain history

@refhistory
3735<- W. Zillig; KAW 2/2 <- C. Schleper and G. Pühler {1994}
67770DSM 9789 <-- W. Zillig KAW2/2.

doi: 10.13145/bacdive11900.20240510.9

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

@refgrowthtypetemperature
3735positivegrowth55
67770positivegrowth55

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
3735solfataric fieldHokkaido, KawayuJapanJPNAsia
67770Dry, hot soil in the vicinity of KawayuHokkaidoJapanJPNAsia

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: nuccore
  • NCBI tax ID: 46632

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Picrophilus oshimae DSM 97892579779151draftimg1122961
67770Picrophilus oshimae DSM 9789GCA_900176435contigncbi1122961
66792Picrophilus oshimae DSM 9789 strain DSM 97891122961.3wgspatric1122961

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

@idauthorscataloguedoi/urltitle
3735Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9789)https://www.dsmz.de/collection/catalogue/details/culture/DSM-9789
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69479João 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
81115Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID45393.1StrainInfo: A central database for resolving microbial strain identifiers