Strain identifier

BacDive ID: 5947

Type strain: Yes

Species: Halorubrum ezzemoulense

Strain Designation: 5'1, 5.1

Strain history: <- M. Monteoliva-Sánchez, Depart. Microbiol., Facultad de Farmacia, Campus Univ. de Cartuja s/n, Spain; 5'1 <- K. Kharroub

NCBI tax ID(s): 1121945 (strain), 337243 (species)

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General

@ref: 7002

BacDive-ID: 5947

DSM-Number: 17463

keywords: genome sequence, 16S sequence, Archaea, aerobe, mesophilic, Gram-negative, motile, ovoid-shaped

description: Halorubrum ezzemoulense 5'1 is an aerobe, mesophilic, Gram-negative archaeon that was isolated from water samples from Ezzemoul sabkha.

NCBI tax id

NCBI tax idMatching level
337243species
1121945strain

strain history

  • @ref: 7002
  • history: <- M. Monteoliva-Sánchez, Depart. Microbiol., Facultad de Farmacia, Campus Univ. de Cartuja s/n, Spain; 5'1 <- K. Kharroub

doi: 10.13145/bacdive5947.20230509.8.1

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 ezzemoulense
  • full scientific name: Halorubrum ezzemoulense Kharroub et al. 2006

  • synonyms

    • @ref: 20215
    • synonym: Halorubrum chaoviator

@ref: 7002

domain: Archaea

phylum: Euryarchaeota

class: Halobacteria

order: Halobacteriales

family: Halorubraceae

genus: Halorubrum

species: Halorubrum ezzemoulense

full scientific name: Halorubrum ezzemoulense Kharroub et al. 2006 emend. Corral et al. 2018

strain designation: 5'1, 5.1

type strain: yes

Morphology

cell morphology

  • @ref: 31786
  • gram stain: negative
  • cell length: 1.5-3 µm
  • cell width: 0.6 µm
  • cell shape: ovoid-shaped
  • motility: yes

pigmentation

  • @ref: 31786
  • production: yes

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_17463_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_17463_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_17463_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_17463_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_17463_5.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_17463_6.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_17463_7.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

  • @ref: 7002
  • 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
7002positivegrowth37mesophilic
31786positivegrowth22-50
31786positiveoptimum37-40

culture pH

@refabilitytypepHPH range
31786positivegrowth6.5-9alkaliphile
31786positiveoptimum7-7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 31786
  • oxygen tolerance: aerobe

spore formation

  • @ref: 31786
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
31786NaClpositivegrowth15-25 %
31786NaClpositiveoptimum20 %

observation

  • @ref: 31786
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3178630089acetate+carbon source
3178622599arabinose+carbon source
3178616947citrate+carbon source
3178617234glucose+carbon source
3178617754glycerol+carbon source
3178625115malate+carbon source
3178617306maltose+carbon source
3178629864mannitol+carbon source
3178617992sucrose+carbon source
3178617632nitrate+reduction

enzymes

@refvalueactivityec
31786catalase+1.11.1.6
31786cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 7002
  • sample type: water samples from Ezzemoul sabkha
  • geographic location: Ezzemoul sabkha, in north-east Algeria
  • country: Algeria
  • origin.country: DZA
  • continent: Africa

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

Safety information

risk assessment

  • @ref: 7002
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Halorubrum ezzemoulense gene for 16S ribosomal RNA, partial sequenceAB5761261470ena337243
20218Halorubrum ezzemoulense gene for 16S rRNA, complete sequence, strain: CECT 7099AB6634121470ena337243
7002Halorubrum ezzemoulense strain 5.1 16S ribosomal RNA gene, partial sequenceDQ1184261405ena337243

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Halorubrum ezzemoulense DSM 17463GCA_000421805contigncbi1121945
66792Halorubrum ezzemoulense DSM 17463GCA_002114285contigncbi1121945
66792Halorubrum ezzemoulense DSM 174632524614679draftimg1121945
66792Halorubrum ezzemoulense DSM 17463 strain DSM 174631121945.5wgspatric1121945
66792Halorubrum ezzemoulense DSM 174631121945.3wgspatric1121945

GC content

  • @ref: 7002
  • GC-content: 61.9

External links

@ref: 7002

culture collection no.: DSM 17463, CECT 7099

straininfo link

  • @ref: 75436
  • straininfo: 297206

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16825633Halorubrum ezzemoulense sp. nov., a halophilic archaeon isolated from Ezzemoul sabkha, Algeria.Kharroub K, Quesada T, Ferrer R, Fuentes S, Aguilera M, Boulahrouf A, Ramos-Cormenzana A, Monteoliva-Sanchez MInt J Syst Evol Microbiol10.1099/ijs.0.64272-02006Algeria, Bacterial Typing Techniques, Base Composition, DNA, Archaeal/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Genes, rRNA, Halobacteriaceae/chemistry/*classification/*isolation & purification/physiology, Hydrogen-Ion Concentration, Lipids/chemistry/isolation & purification, Molecular Sequence Data, Movement, Phylogeny, RNA, Archaeal/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/*pharmacology, *Water MicrobiologyEnzymology
Phylogeny30215594Halorubrum chaoviator Mancinelli et al. 2009 is a later, heterotypic synonym of Halorubrum ezzemoulense Kharroub et al. 2006. Emended description of Halorubrum ezzemoulense Kharroub et al. 2006.Corral P, de la Haba RR, Infante-Dominguez C, Sanchez-Porro C, Amoozegar MA, Papke RT, Ventosa AInt J Syst Evol Microbiol10.1099/ijsem.0.0030052018Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Genes, Bacterial, Halorubrum/*classification, Lipids/chemistry, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
7002Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17463)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17463
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
31786Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604128058
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life 35: 676-683 201728604660
75436Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297206.1StrainInfo: A central database for resolving microbial strain identifiers