Strain identifier

BacDive ID: 5957

Type strain: No

Species: Halorubrum distributum

Strain Designation: Fa-1

Strain history: S. Liu Fa-1.

NCBI tax ID(s): 409316 (species)

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General

@ref: 17240

BacDive-ID: 5957

DSM-Number: 23497

keywords: genome sequence, 16S sequence, Archaea, mesophilic

description: Halorubrum distributum Fa-1 is a mesophilic archaeon that was isolated from marine solar saltern.

NCBI tax id

  • NCBI tax id: 409316
  • Matching level: species

strain history

@refhistory
17240<- JCM <- S. Liu, State Key Lab. Microbial Resources, Inst. Microbiol., Chinese Academy of Sciences, Beijing; Fa-1
67770S. Liu Fa-1.

doi: 10.13145/bacdive5957.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/archaea
  • keyword: phylum/methanobacteriota
  • domain: Archaea
  • phylum: Methanobacteriota
  • class: Halobacteria
  • order: Haloferacales
  • family: Halorubraceae
  • genus: Halorubrum
  • species: Halorubrum distributum
  • full scientific name: Halorubrum distributum (Zvyagintseva and Tarasov 1989) Oren and Ventosa 1996

  • synonyms

    @refsynonym
    20215Halobacterium distributus
    20215Halorubrum terrestre
    20215Halorubrum arcis
    20215Halorubrum litoreum
    20215Halorubrobacterium distributum
    20215Halobacterium distributum

@ref: 17240

domain: Archaea

phylum: Euryarchaeota

class: Halobacteria

order: Halobacteriales

family: Halorubraceae

genus: Halorubrum

species: Halorubrum distributum

full scientific name: Halorubrum distributum (Zvyagintseva and Tarasov 1989) Oren and Ventosa 1996

strain designation: Fa-1

type strain: no

Culture and growth conditions

culture medium

  • @ref: 17240
  • name: HALOBACTERIA MEDIUM (DSMZ Medium 372)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/372
  • composition: 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

culture temp

@refgrowthtypetemperaturerange
17240positivegrowth37mesophilic
67770positivegrowth37mesophilic

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
17240marine solar salternFujian ProvinceChinaCHNAsia
67770Marine solar saltern in FujianChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Condition#Saline
#Engineered#Industrial#Industrial production
#Environmental#Terrestrial#Coast

taxonmaps

  • @ref: 69479
  • File name: preview.99_187361.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17655;96_68824;97_89467;98_121826;99_187361&stattab=map
  • Last taxonomy: Halorubrum
  • 16S sequence: AB663416
  • Sequence Identity:
  • Total samples: 5
  • soil counts: 1
  • aquatic counts: 4

Safety information

risk assessment

  • @ref: 17240
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Halorubrum litoreum gene for 16S rRNA, complete sequence, strain: JCM 13561AB6634161470ena409316
17240Halorubrum litoreum strain Fa-1 16S ribosomal RNA gene, complete sequenceEF0280671470ena409316

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Halorubrum litoreum JCM 135612554235508draftimg1227483
67770Halorubrum litoreum JCM 13561GCA_000337395contigncbi1227483
66792Halorubrum litoreum JCM 135611227483.3wgspatric1227483

GC content

  • @ref: 17240
  • GC-content: 64.9
  • method: thermal denaturation, midpoint method (Tm)

External links

@ref: 17240

culture collection no.: DSM 23497, CGMCC 1.5336, JCM 13561

straininfo link

  • @ref: 75446
  • straininfo: 310991

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17911283Halorubrum litoreum sp. nov., an extremely halophilic archaeon from a solar saltern.Cui HL, Lin ZY, Dong Y, Zhou PJ, Liu SJInt J Syst Evol Microbiol10.1099/ijs.0.65268-02007Base Composition, China, DNA, Archaeal/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Glycolipids/analysis, Halobacteriaceae/chemistry/*classification/genetics/*isolation & purification, Hydrogen-Ion Concentration, Magnesium/metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Archaeal/genetics, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, TemperatureMetabolism
Phylogeny29631688Isolation and identification of two extremely halophilic archaea from sebkhas in the Algerian Sahara.Khallef S, Lestini R, Myllykallio H, Houali KCell Mol Biol (Noisy-le-grand)2018Africa, Northern, Algeria, DNA, Archaeal/*genetics, Halobacteriaceae/classification/drug effects/genetics/*isolation & purification, Halorubrum/classification/drug effects/genetics/*isolation & purification, Hydrogen-Ion Concentration, Lakes/*microbiology, RNA, Ribosomal, 16S/*genetics, Salinity, Sequence Analysis, DNA, Sodium Chloride/pharmacologyEnzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17240Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23497)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23497
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
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
75446Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID310991.1StrainInfo: A central database for resolving microbial strain identifiers