Strain identifier

BacDive ID: 5936

Type strain: Yes

Species: Haloferax sulfurifontis

Strain Designation: M6

Strain history: CIP <- 2004, A. Ventosa, Sevilla Univ., Sevilla, Spain: strain M6

NCBI tax ID(s): 662480 (strain), 255616 (species)

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General

@ref: 6342

BacDive-ID: 5936

DSM-Number: 16227

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

description: Haloferax sulfurifontis M6 is a mesophilic, Gram-negative archaeon that was isolated from microbial mats in a sulfur spring.

NCBI tax id

NCBI tax idMatching level
255616species
662480strain

strain history

@refhistory
6342<- M. S. Elshahed; M6
339462004, A. Ventosa, Sevilla Univ., Sevilla, Spain: strain M6
67770M. S. Elshahed M6.
123386CIP <- 2004, A. Ventosa, Sevilla Univ., Sevilla, Spain: strain M6

doi: 10.13145/bacdive5936.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/archaea
  • keyword: phylum/methanobacteriota
  • domain: Archaea
  • phylum: Methanobacteriota
  • class: Halobacteria
  • order: Haloferacales
  • family: Haloferacaceae
  • genus: Haloferax
  • species: Haloferax sulfurifontis
  • full scientific name: Haloferax sulfurifontis Elshahed et al. 2004

@ref: 6342

domain: Archaea

phylum: Euryarchaeota

class: Halobacteria

order: Halobacteriales

family: Haloferacaceae

genus: Haloferax

species: Haloferax sulfurifontis

full scientific name: Haloferax sulfurifontis Elshahed et al. 2004

strain designation: M6

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.979
123386negativeovoid-shapedno

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6342HALOFERAX SULFURIFONTIS MEDIUM (DSMZ Medium 1018)yeshttps://mediadive.dsmz.de/medium/1018Name: HALOFERAX SULFURIFONTIS MEDIUM (DSMZ Medium 1018) Composition: NaCl 150.0 g/l MgCl2 20.0 g/l Agar 20.0 g/l Yeast extract 5.0 g/l K2SO4 0.5 g/l CaCl2 0.1 g/l Distilled water
33946MEDIUM 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
123386CIP Medium 204yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=204

culture temp

@refgrowthtypetemperaturerange
6342positivegrowth37mesophilic
33946positivegrowth37mesophilic
67770positivegrowth37mesophilic
123386positivegrowth5-45

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.939

halophily

@refsaltgrowthtested relationconcentration
123386NaClnogrowth0 %
123386NaClnogrowth2 %
123386NaClnogrowth4 %
123386NaClnogrowth6 %
123386NaClnogrowth8 %
123386NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12338616947citrate-carbon source
1233864853esculin+hydrolysis
123386606565hippurate-hydrolysis
12338617632nitrate+reduction
12338616301nitrite-reduction
12338615792malonate-assimilation
12338617234glucose-degradation

metabolite production

  • @ref: 123386
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12338615688acetoin-
12338617234glucose-

enzymes

@refvalueactivityec
123386oxidase+
123386beta-galactosidase-3.2.1.23
123386alcohol dehydrogenase-1.1.1.1
123386gelatinase-
123386catalase+1.11.1.6
123386gamma-glutamyltransferase-2.3.2.2
123386lysine decarboxylase-4.1.1.18
123386ornithine decarboxylase-4.1.1.17
123386phenylalanine ammonia-lyase-4.3.1.24
123386tryptophan deaminase-
123386urease-3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
6342microbial mats in a sulfur springOklahomaUSAUSANorth America
67770Microbial mat at Zodletone Spring in southwestern OkulahomaUSAUSANorth America
123386Environment, Water sampleOklahomaUnited States of AmericaUSANorth America2003

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Spring
#Environmental#Microbial community#Microbial mat
#Condition#Sulfuric

taxonmaps

  • @ref: 69479
  • File name: preview.99_187150.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17828;96_68792;97_89434;98_121704;99_187150&stattab=map
  • Last taxonomy: Haloferax
  • 16S sequence: AB477973
  • Sequence Identity:
  • Total samples: 10
  • soil counts: 2
  • aquatic counts: 8

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
63421Risk group (German classification)
1233861Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Haloferax sulfurifontis gene for 16S ribosomal RNA, partial sequence, strain: JCM 12327AB4779731434ena662480
20218Haloferax sulfurifontis gene for 16S rRNA, complete sequence, strain: JCM 12327AB6633821474ena662480
6342Haloferax sulfurifontis 16S ribosomal RNA gene, partial sequenceAY4586011409ena662480

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Haloferax sulfurifontis CCM 7217GCA_014635105contigncbi255616
66792Haloferax sulfurifontis M62529293243draftimg662480
66792Haloferax sulfurifontis M62508501015draftimg662480
67770Haloferax sulfurifontis ATCC BAA-897GCA_000337835contigncbi662480
66792Haloferax sulfurifontis strain CCM 7217255616.6wgspatric255616

GC content

  • @ref: 67770
  • GC-content: 60.5
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

  • trait: spore-forming
  • prediction: no
  • confidence: 100
  • training_data: no

External links

@ref: 6342

culture collection no.: DSM 16227, CCM 7217, CIP 108334, JCM 12327, CGMCC 1.6100, CGMCC 1.6246

straininfo link

  • @ref: 75419
  • straininfo: 134426

literature

  • topic: Phylogeny
  • Pubmed-ID: 15545470
  • title: Haloferax sulfurifontis sp. nov., a halophilic archaeon isolated from a sulfide- and sulfur-rich spring.
  • authors: Elshahed MS, Savage KN, Oren A, Gutierrez MC, Ventosa A, Krumholz LR
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.63211-0
  • year: 2004
  • mesh: Anaerobiosis, Base Composition, DNA, Archaeal/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Fresh Water/*microbiology, Genes, rRNA, Haloferax/*classification/genetics/*isolation & purification/physiology, Lipids/analysis/isolation & purification, Magnesium Chloride/metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Oklahoma, Oxidation-Reduction, Phylogeny, Pigments, Biological/biosynthesis, RNA, Archaeal/genetics, RNA, Ribosomal, 16S/genetics, Saline Solution, Hypertonic, Sequence Analysis, DNA, Sulfides/metabolism, Sulfur/metabolism, *Water Microbiology
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6342Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16227)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16227
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
33946Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5945
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
75419Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID134426.1StrainInfo: A central database for resolving microbial strain identifiers
123386Curators of the CIPCollection of Institut Pasteur (CIP 108334)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108334