Strain identifier

BacDive ID: 5944

Type strain: Yes

Species: Halorubrum coriense

Strain Designation: Ch2

Strain history: CIP <- 1997, JCM <- S.D. Nuttall: strain CH2, Halobacterium sp.

NCBI tax ID(s): 1227466 (strain), 64713 (species)

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General

@ref: 3880

BacDive-ID: 5944

DSM-Number: 10284

keywords: genome sequence, 16S sequence, Archaea, mesophilic, Gram-negative, rod-shaped

description: Halorubrum coriense Ch2 is a mesophilic, Gram-negative, rod-shaped archaeon of the family Halorubraceae.

NCBI tax id

NCBI tax idMatching level
1227466strain
64713species

strain history

@refhistory
3880<- ACM
67770S. D. Nuttall CH2.
118752CIP <- 1997, JCM <- S.D. Nuttall: strain CH2, Halobacterium sp.

doi: 10.13145/bacdive5944.20230509.8.1

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 coriense
  • full scientific name: Halorubrum coriense (Kamekura and Dyall-Smith 1996) Oren and Ventosa 1996

  • synonyms

    @refsynonym
    20215Halorubrobacterium coriensis
    20215Halorubrobacterium coriense

@ref: 3880

domain: Archaea

phylum: Euryarchaeota

class: Halobacteria

order: Halobacteriales

family: Halorubraceae

genus: Halorubrum

species: Halorubrum coriense

full scientific name: Halorubrum coriense (Kamekura and Dyall-Smith 1996) Oren and Ventosa 1996

strain designation: Ch2

type strain: yes

Morphology

cell morphology

  • @ref: 118752
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3880HALOBACTERIA MEDIUM (DSMZ Medium 372)yeshttps://mediadive.dsmz.de/medium/372Name: 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
39266MEDIUM 204 - for Halorubrum, Marinococcus and NatrialbayesDistilled water make up to (1000.000 ml);Sodium chloride (200.000 g);Potassium chloride (2.000 g);ManganeseII chloride tetrahydrate (0.360 mg);Magnesium sulphate heptahydrate (20.000 g);Agar (20.000 g);Yeast extract (5.000 g);Ferrous chloride tetrahydrate
118752CIP Medium 204yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=204
118752CIP Medium 240yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=240

culture temp

@refgrowthtypetemperaturerange
3880positivegrowth37mesophilic
39266positivegrowth37mesophilic
67770positivegrowth37mesophilic
118752positivegrowth30-45
118752nogrowth5psychrophilic
118752nogrowth15psychrophilic
118752nogrowth22psychrophilic
118752nogrowth25mesophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
118752606565hippurate-hydrolysis
11875217632nitrate-reduction
11875216301nitrite-reduction
11875235020tributyrin-hydrolysis

metabolite production

  • @ref: 118752
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11875215688acetoin-
11875217234glucose-

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin+3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
118752oxidase-
118752beta-galactosidase-3.2.1.23
118752gelatinase-
118752catalase-1.11.1.6
118752gamma-glutamyltransferase-2.3.2.2
118752phenylalanine ammonia-lyase-4.3.1.24
118752tryptophan deaminase-
118752urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
118752-+++-+---+----------

Isolation, sampling and environmental information

isolation

@refgeographic locationcountryorigin.countrycontinentsample type
39266GeelongAustraliaAUSAustralia and Oceania
67770AustraliaAUSAustralia and OceaniaMarine solar saltern in Geelong
118752GeelongAustraliaAUSAustralia and OceaniaMarine solar saltern

taxonmaps

  • @ref: 69479
  • File name: preview.99_187255.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17655;96_68824;97_89467;98_121826;99_187255&stattab=map
  • Last taxonomy: Halorubrum
  • 16S sequence: L00922
  • Sequence Identity:
  • Total samples: 1
  • aquatic counts: 1

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
38801Risk group (German classification)
1187521Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Halorubrum coriense 16S ribosomal RNA gene, partial sequenceS708391469ena64713
20218Halorubrum coriense gene for 16S rRNA, complete sequence, strain: JCM 9275AB6634091470ena64713
3880Halorubrum coriense isolate Ch2 16S ribosomal RNA gene, complete sequenceL009221469ena64713

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Halorubrum coriense ACM 3911, Ch22554235473draftimg1227466
67770Halorubrum coriense DSM 10284GCA_000337035contigncbi1227466
66792Halorubrum coriense DSM 102841227466.3wgspatric1227466

External links

@ref: 3880

culture collection no.: DSM 10284, ACM 3911, JCM 9275, CGMCC 1.2929, CGMCC 1.3492, CIP 105331

straininfo link

@refstraininfo
7543148792
75432312082
75433312179

literature

  • topic: Phylogeny
  • Pubmed-ID: 35037851
  • title: Halorubrum salinarum sp. nov., an extremely halophilic archaeon isolated from a saturated brine pond of a saltern.
  • authors: Han HL, Danganan RE, Li Z, Shin NR, Bennett RM, Dedeles GR, Kim SG
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.005231
  • year: 2022
  • mesh: Base Composition, DNA, Archaeal/genetics, Fatty Acids/chemistry, *Halorubrum/classification/isolation & purification, Philippines, *Phylogeny, Ponds/*microbiology, RNA, Ribosomal, 16S/genetics, *Salts, Sequence Analysis, DNA
  • topic2: Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3880Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10284)https://www.dsmz.de/collection/catalogue/details/culture/DSM-10284
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
39266Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17339
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/
68382Automatically annotated from API zym
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
75431Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID48792.1StrainInfo: A central database for resolving microbial strain identifiers
75432Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID312082.1StrainInfo: A central database for resolving microbial strain identifiers
75433Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID312179.1StrainInfo: A central database for resolving microbial strain identifiers
118752Curators of the CIPCollection of Institut Pasteur (CIP 105331)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105331