Strain identifier

BacDive ID: 133563

Type strain: Yes

Species: Natronorubrum sediminis

Strain Designation: CG-6

Strain history: A. Ventosa CG-6.

NCBI tax ID(s): 640943 (species)

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General

@ref: 29547

BacDive-ID: 133563

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

description: Natronorubrum sediminis CG-6 is an aerobe, Gram-negative, rod-shaped archaeon that was isolated from saline lake.

NCBI tax id

  • NCBI tax id: 640943
  • Matching level: species

strain history

  • @ref: 67770
  • history: A. Ventosa CG-6.

doi: 10.13145/bacdive133563.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/archaea
  • keyword: phylum/methanobacteriota
  • domain: Archaea
  • phylum: Methanobacteriota
  • class: Halobacteria
  • order: Natrialbales
  • family: Natrialbaceae
  • genus: Natronorubrum
  • species: Natronorubrum sediminis
  • full scientific name: Natronorubrum sediminis Gutiérrez et al. 2010

@ref: 29547

domain: Archaea

phylum: Euryarchaeota

class: Halobacteria

order: Natrialbales

family: Natrialbaceae

genus: Natronorubrum

species: Natronorubrum sediminis

strain designation: CG-6

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29547negative04-06 µm0.8-1 µmrod-shapedno
69480no90.347
69480negative99.922

pigmentation

  • @ref: 29547
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
29547positivegrowth25-50
29547positiveoptimum37mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
29547positivegrowth08-11alkaliphile
29547positiveoptimum9

Physiology and metabolism

oxygen tolerance

  • @ref: 29547
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.988

halophily

@refsaltgrowthtested relationconcentration
29547NaClpositivegrowth14.5-29 %
29547NaClpositiveoptimum19.72 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2954722599arabinose+carbon source
2954722653asparagine+carbon source
2954728757fructose+carbon source
2954717234glucose+carbon source
2954737684mannose+carbon source
2954718222xylose+carbon source
2954717632nitrate+reduction

enzymes

@refvalueactivityec
29547catalase+1.11.1.6
29547cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
29547saline lake
67770Sediment of the hypersaline lake Chagannor in Inner MongoliaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Lake (large)
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_193859.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17652;96_71474;97_92875;98_126327;99_193859&stattab=map
  • Last taxonomy: Natrialbaceae
  • 16S sequence: FN376859
  • Sequence Identity:
  • Total samples: 238
  • soil counts: 17
  • aquatic counts: 27
  • animal counts: 189
  • plant counts: 5

Sequence information

16S sequences

  • @ref: 29547
  • description: Natronorubrum sp. CG-6 partial 16S rRNA gene, strain CG-6
  • accession: FN376859
  • length: 1371
  • database: nuccore
  • NCBI tax ID: 640943

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Natronorubrum sediminis CGMCC 1.89812617270925draftimg640943
67770Natronorubrum sediminis CGMCC 1.8981GCA_900108095scaffoldncbi640943
66792Natronorubrum sediminis strain CGMCC 1.8981640943.3wgspatric640943

GC content

@refGC-contentmethod
2954761.9-62.5
6777062.5thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

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

External links

@ref: 29547

culture collection no.: CECT 7487, CGMCC 1.8981, JCM 15982

straininfo link

  • @ref: 91507
  • straininfo: 370400

literature

  • topic: Phylogeny
  • Pubmed-ID: 19767366
  • title: Natronorubrum sediminis sp. nov., an archaeon isolated from a saline lake.
  • authors: Gutierrez MC, Castillo AM, Corral P, Minegishi H, Ventosa A
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.015602-0
  • year: 2009
  • mesh: DNA, Archaeal/genetics, DNA, Ribosomal/genetics, Geologic Sediments/*microbiology, Halobacteriaceae/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sodium Chloride/*metabolism, *Water Microbiology
  • topic2: Metabolism

Reference

@idauthorstitledoi/urlID_cross_referencepubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
29547Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172594328776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
91507Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID370400.1