Strain identifier

BacDive ID: 24746

Type strain: Yes

Species: Celerinatantimonas yamalensis

Strain Designation: C7

Strain history: <- V. A. Shcherbakova, Inst. Biochem. Physiol. Microorg., RAS, Pushchino, Russia; C7

NCBI tax ID(s): 559956 (species)

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General

@ref: 21219

BacDive-ID: 24746

DSM-Number: 21888

keywords: 16S sequence, Bacteria, facultative anaerobe, psychrophilic, Gram-negative, motile, rod-shaped

description: Celerinatantimonas yamalensis C7 is a facultative anaerobe, psychrophilic, Gram-negative bacterium that was isolated from brine from a permafrost cryopeg.

NCBI tax id

  • NCBI tax id: 559956
  • Matching level: species

strain history

  • @ref: 21219
  • history: <- V. A. Shcherbakova, Inst. Biochem. Physiol. Microorg., RAS, Pushchino, Russia; C7

doi: 10.13145/bacdive24746.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Alteromonadales
  • family: Celerinatantimonadaceae
  • genus: Celerinatantimonas
  • species: Celerinatantimonas yamalensis
  • full scientific name: Celerinatantimonas yamalensis Shcherbakova et al. 2013

@ref: 21219

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Celerinatantimonadaceae

genus: Celerinatantimonas

species: Celerinatantimonas yamalensis

full scientific name: Celerinatantimonas yamalensis Shcherbakova et al. 2013

strain designation: C7

type strain: yes

Morphology

cell morphology

  • @ref: 30856
  • gram stain: negative
  • cell length: 3 µm
  • cell width: 0.75 µm
  • cell shape: rod-shaped
  • motility: yes

pigmentation

  • @ref: 30856
  • production: no

Culture and growth conditions

culture medium

  • @ref: 21219
  • name: MEDIUM 514 PLUS ADDITIONAL SALT (DSMZ Medium 514b)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514b
  • composition: Name: MEDIUM 514 plus additional salt (DSMZ Medium 514b; with strain-specific modifications) Composition: NaCl 60.0 g/l Agar 17.5 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
21219positivegrowth15-22psychrophilic
30856positivegrowth0-34
30856positiveoptimum20psychrophilic

culture pH

@refabilitytypepH
30856positivegrowth5.5-7.5
30856positiveoptimum6.1

Physiology and metabolism

oxygen tolerance

  • @ref: 30856
  • oxygen tolerance: facultative anaerobe

spore formation

  • @ref: 30856
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
30856NaClpositivegrowth2.0-12.0 %
30856NaClpositiveoptimum7 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3085622599arabinose+carbon source
3085617057cellobiose+carbon source
3085616947citrate+carbon source
3085628757fructose+carbon source
3085624265gluconate+carbon source
3085617234glucose+carbon source
3085629987glutamate+carbon source
3085617754glycerol+carbon source
3085617716lactose+carbon source
3085617306maltose+carbon source
30856506227N-acetylglucosamine+carbon source
3085615361pyruvate+carbon source
3085616634raffinose+carbon source
3085630911sorbitol+carbon source
3085630031succinate+carbon source
3085617992sucrose+carbon source
3085653423tween 40+carbon source
3085653426tween 80+carbon source

enzymes

@refvalueactivityec
30856acid phosphatase+3.1.3.2
30856alkaline phosphatase+3.1.3.1
30856gelatinase+

Isolation, sampling and environmental information

isolation

  • @ref: 21219
  • sample type: brine from a permafrost cryopeg
  • geographic location: Yamal Peninsula area, northern Siberia (69° 50' N 159° 30' E)
  • country: Russia
  • origin.country: RUS
  • continent: Asia
  • latitude: 69.8333
  • longitude: 159.5

isolation source categories

Cat1Cat2Cat3
#Environmental#Microbial community
#Environmental#Terrestrial#Permafrost
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_105509.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_361;96_42442;97_54287;98_71784;99_105509&stattab=map
  • Last taxonomy: Celerinatantimonas yamalensis subclade
  • 16S sequence: FJ039852
  • Sequence Identity:
  • Total samples: 744
  • soil counts: 2
  • aquatic counts: 690
  • animal counts: 43
  • plant counts: 9

Safety information

risk assessment

  • @ref: 21219
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21219
  • description: Celerinatantimonas yamalensis strain C7 16S ribosomal RNA gene, partial sequence
  • accession: FJ039852
  • length: 1433
  • database: ena
  • NCBI tax ID: 559956

GC content

@refGC-contentmethod
2121944.7thermal denaturation, midpoint method (Tm)
3085644.7

External links

@ref: 21219

culture collection no.: DSM 21888, VKM B-2511

straininfo link

  • @ref: 88574
  • straininfo: 405731

literature

  • topic: Phylogeny
  • Pubmed-ID: 23852153
  • title: Celerinatantimonas yamalensis sp. nov., a cold-adapted diazotrophic bacterium from a cold permafrost brine.
  • authors: Shcherbakova V, Chuvilskaya N, Rivkina E, Demidov N, Uchaeva V, Suetin S, Suzina N, Gilichinsky D
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.045997-0
  • year: 2013
  • mesh: Bacterial Typing Techniques, Base Composition, Cold Temperature, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/genetics/isolation & purification, Glycolipids/chemistry, Molecular Sequence Data, *Nitrogen Fixation, Oxidoreductases/genetics, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Russia, *Salts, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry
  • topic2: Enzymology

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
21219Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-21888Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21888)
30856Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172718628776041
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/
88574Reimer, 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-ID405731.1