Strain identifier

BacDive ID: 24083

Type strain: Yes

Species: Natronobacterium texcoconense

Strain Designation: B23

Strain history: L. Dendooven and E. R. Romero B23.

NCBI tax ID(s): 1095778 (species)

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General

@ref: 21026

BacDive-ID: 24083

DSM-Number: 24767

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

description: Natronobacterium texcoconense B23 is an aerobe, mesophilic, Gram-negative archaeon that was isolated from saline-alkaline soil.

NCBI tax id

  • NCBI tax id: 1095778
  • Matching level: species

strain history

@refhistory
21026<- L. Dendooven, Cinvestav, Dept. Biotechnology and Bioengineer; B23 <- E. Ruiz-Romero (the NCBI entry JN571120 gives the strain designation as 23B)
67770L. Dendooven and E. R. Romero B23.

doi: 10.13145/bacdive24083.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/archaea
  • keyword: phylum/methanobacteriota
  • domain: Archaea
  • phylum: Methanobacteriota
  • class: Halobacteria
  • order: Natrialbales
  • family: Natrialbaceae
  • genus: Natronobacterium
  • species: Natronobacterium texcoconense
  • full scientific name: Natronobacterium texcoconense Ruiz-Romero et al. 2013

@ref: 21026

domain: Archaea

phylum: Euryarchaeota

class: Halobacteria

order: Halobacteriales

family: Natrialbaceae

genus: Natronobacterium

species: Natronobacterium texcoconense

full scientific name: Natronobacterium texcoconense Ruiz-Romero et al. 2013

strain designation: B23

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapeconfidence
31150negative8.5 µm0.9 µmovoid-shaped
69480negative99.949

colony morphology

  • @ref: 21026
  • incubation period: >14 days

pigmentation

  • @ref: 31150
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 21026
  • name: NATRONOBACTERIA MEDIUM (DSMZ Medium 371)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/371
  • composition: Name: NATRONOBACTERIA MEDIUM (DSMZ Medium 371) Composition: NaCl 200.0 g/l Agar 20.0 g/l Casamino acids 5.0 g/l Yeast extract 5.0 g/l Na2CO3 5.0 g/l Na2-glutamate 1.0 g/l KH2PO4 1.0 g/l KCl 1.0 g/l NH4Cl 1.0 g/l MgSO4 x 7 H2O 0.24 g/l CaSO4 x 2 H2O 0.17 g/l HCl 0.0025 g/l FeCl2 x 4 H2O 0.0015 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 7e-05 g/l Na2MoO4 x 2 H2O 3.6e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l H3BO3 6e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
21026positivegrowth37mesophilic
31150positivegrowth25-45
31150positiveoptimum37mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
31150positivegrowth6.5-9.5alkaliphile
31150positiveoptimum8

Physiology and metabolism

oxygen tolerance

  • @ref: 31150
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.977

halophily

@refsaltgrowthtested relationconcentration
31150NaClpositivegrowth9.9-24.9 %
31150NaClpositiveoptimum17.4 %

observation

  • @ref: 31150
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3115017234glucose+carbon source
3115017716lactose+carbon source
3115037684mannose+carbon source
3115017992sucrose+carbon source
311504853esculin+hydrolysis

enzymes

  • @ref: 31150
  • value: catalase
  • activity: +
  • ec: 1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
21026saline-alkaline soilformer lake Texcoco (19° 30' 52'' N 98° 59' 24'' W)MexicoMEXNorth America19.5144-98.99
67770Soil of the former lake TexcocoMexicoMEXNorth America

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Condition#Alkaline
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_192157.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17652;96_70946;97_92156;98_125257;99_192157&stattab=map
  • Last taxonomy: Natronobacterium
  • 16S sequence: JN571120
  • Sequence Identity:
  • Total samples: 1
  • aquatic counts: 1

Safety information

risk assessment

  • @ref: 21026
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21026
  • description: Natronobacterium texcoconense strain B23 16S ribosomal RNA gene, partial sequence
  • accession: JN571120
  • length: 1355
  • database: ena
  • NCBI tax ID: 1095778

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Natronobacterium texcoconense DSM 247672636416047draftimg1095778
67770Natronobacterium texcoconense DSM 24767GCA_900104065scaffoldncbi1095778
66792Natronobacterium texcoconense strain DSM 247671095778.3wgspatric1095778

GC content

@refGC-contentmethod
2102662.5high performance liquid chromatography (HPLC)
3115062.5

Genome-based predictions

predictions

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

External links

@ref: 21026

culture collection no.: DSM 24767, CECT 8068, JCM 17655

straininfo link

  • @ref: 88048
  • straininfo: 391304

literature

  • topic: Phylogeny
  • Pubmed-ID: 23749283
  • title: Natronobacterium texcoconense sp. nov., a haloalkaliphilic archaeon isolated from soil of a former lake.
  • authors: Ruiz-Romero E, Sanchez-Lopez KB, Coutino-Coutino MLA, Gonzalez-Pozos S, Bello-Lopez JM, Lopez-Ramirez MP, Ramirez-Villanueva DA, Dendooven L
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.053629-0
  • year: 2013
  • mesh: Base Composition, DNA, Archaeal/genetics, Hydrogen-Ion Concentration, Lakes, Mexico, Molecular Sequence Data, Natronobacterium/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Salinity, *Soil Microbiology
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogueID_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
21026Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-24767Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24767)
31150Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172747828776041
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
88048Reimer, 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-ID391304.1