Strain identifier
BacDive ID: 24746
Type strain:
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)
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
@ref | growth | type | temperature | range |
---|---|---|---|---|
21219 | positive | growth | 15-22 | psychrophilic |
30856 | positive | growth | 0-34 | |
30856 | positive | optimum | 20 | psychrophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
30856 | positive | growth | 5.5-7.5 |
30856 | positive | optimum | 6.1 |
Physiology and metabolism
oxygen tolerance
- @ref: 30856
- oxygen tolerance: facultative anaerobe
spore formation
- @ref: 30856
- spore formation: no
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
30856 | NaCl | positive | growth | 2.0-12.0 % |
30856 | NaCl | positive | optimum | 7 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
30856 | 22599 | arabinose | + | carbon source |
30856 | 17057 | cellobiose | + | carbon source |
30856 | 16947 | citrate | + | carbon source |
30856 | 28757 | fructose | + | carbon source |
30856 | 24265 | gluconate | + | carbon source |
30856 | 17234 | glucose | + | carbon source |
30856 | 29987 | glutamate | + | carbon source |
30856 | 17754 | glycerol | + | carbon source |
30856 | 17716 | lactose | + | carbon source |
30856 | 17306 | maltose | + | carbon source |
30856 | 506227 | N-acetylglucosamine | + | carbon source |
30856 | 15361 | pyruvate | + | carbon source |
30856 | 16634 | raffinose | + | carbon source |
30856 | 30911 | sorbitol | + | carbon source |
30856 | 30031 | succinate | + | carbon source |
30856 | 17992 | sucrose | + | carbon source |
30856 | 53423 | tween 40 | + | carbon source |
30856 | 53426 | tween 80 | + | carbon source |
enzymes
@ref | value | activity | ec |
---|---|---|---|
30856 | acid phosphatase | + | 3.1.3.2 |
30856 | alkaline phosphatase | + | 3.1.3.1 |
30856 | gelatinase | + |
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
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | GC-content | method |
---|---|---|
21219 | 44.7 | thermal denaturation, midpoint method (Tm) |
30856 | 44.7 |
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
@id | authors | title | doi/url | catalogue | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |||
21219 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21888 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21888) | |||
30856 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 27186 | 28776041 | |
69479 | João 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 beta | https://microbeatlas.org/ | |||
88574 | Reimer, 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 identifiers | 10.60712/SI-ID405731.1 |