Strain identifier
BacDive ID: 7489
Type strain:
Species: Salinibacterium xinjiangense
Strain Designation: 0543
Strain history: D.-C. Zhang and P.-J. Zhou 0543.
NCBI tax ID(s): 386302 (species)
General
@ref: 16248
BacDive-ID: 7489
DSM-Number: 22272
keywords: genome sequence, 16S sequence, Bacteria, aerobe, psychrophilic, Gram-positive, rod-shaped
description: Salinibacterium xinjiangense 0543 is an aerobe, psychrophilic, Gram-positive bacterium that was isolated from The China No.1 glacier.
NCBI tax id
- NCBI tax id: 386302
- Matching level: species
strain history
@ref | history |
---|---|
16248 | <- JCM/RIKEN; JCM 13926 <- D. Zhang and P. Zhou, CGMCC; 0543 |
67770 | D.-C. Zhang and P.-J. Zhou 0543. |
doi: 10.13145/bacdive7489.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Microbacteriaceae
- genus: Salinibacterium
- species: Salinibacterium xinjiangense
- full scientific name: Salinibacterium xinjiangense Zhang et al. 2008
@ref: 16248
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Microbacteriaceae
genus: Salinibacterium
species: Salinibacterium xinjiangense
full scientific name: Salinibacterium xinjiangense Zhang et al. 2008
strain designation: 0543
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
32626 | positive | 1.4-2.3 µm | 0.5-0.8 µm | rod-shaped | no | |
69480 | positive | 100 |
pigmentation
- @ref: 32626
- production: yes
Culture and growth conditions
culture medium
- @ref: 16248
- name: RICH MEDIUM (DSMZ Medium 736)
- growth: yes
- link: https://mediadive.dsmz.de/medium/736
- composition: Name: RICH MEDIUM (DSMZ Medium 736) Composition: Agar 20.0 g/l Bacto peptone 10.0 g/l Yeast extract 5.0 g/l Malt extract 5.0 g/l Casamino acids 5.0 g/l Glycerol 2.0 g/l Meat extract 2.0 g/l MgSO4 x 7 H2O 1.0 g/l Tween 80 0.05 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
16248 | positive | growth | 20 | psychrophilic |
32626 | positive | growth | 04-23 | psychrophilic |
32626 | positive | optimum | 18-19 | psychrophilic |
67770 | positive | growth | 10 | psychrophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
32626 | positive | growth | 05-09 | alkaliphile |
32626 | positive | optimum | 06-08 |
Physiology and metabolism
oxygen tolerance
- @ref: 32626
- oxygen tolerance: aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
32626 | no | |
69481 | no | 100 |
69480 | no | 99.989 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
32626 | NaCl | positive | growth | 0-14 % |
32626 | NaCl | positive | optimum | 0-14 % |
observation
@ref | observation |
---|---|
32626 | aggregates in chains |
67770 | quinones: MK-10 (54%), MK-11 (29%), MK-9 (7%), MK-12 (5%), MK-8 (4%) |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
32626 | 22599 | arabinose | + | carbon source |
32626 | 17057 | cellobiose | + | carbon source |
32626 | 28757 | fructose | + | carbon source |
32626 | 28260 | galactose | + | carbon source |
32626 | 17234 | glucose | + | carbon source |
32626 | 17306 | maltose | + | carbon source |
32626 | 37684 | mannose | + | carbon source |
32626 | 28053 | melibiose | + | carbon source |
32626 | 17992 | sucrose | + | carbon source |
32626 | 17632 | nitrate | + | reduction |
enzymes
- @ref: 32626
- value: catalase
- activity: +
- ec: 1.11.1.6
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
16248 | The China No.1 glacier | Xinjiang Uygur Autonomous Region | China | CHN | Asia |
67770 | The China No. 1 glacier | Xinjiang Uygur Autonomous Region | China | CHN | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Glacier
Safety information
risk assessment
- @ref: 16248
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16248
- description: Salinibacterium xinjiangense strain 0543 16S ribosomal RNA gene, partial sequence
- accession: DQ515964
- length: 1409
- database: ena
- NCBI tax ID: 386302
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Salinibacterium xinjiangense CGMCC 1.5381 | GCA_014645015 | scaffold | ncbi | 386302 |
66792 | Salinibacterium xinjiangense strain CGMCC 1.5381 | 386302.6 | wgs | patric | 386302 |
67770 | Salinibacterium xinjiangense CGMCC 1.05381 | GCA_900230175 | scaffold | ncbi | 386302 |
GC content
@ref | GC-content | method |
---|---|---|
16248 | 63.5 | |
67770 | 63.5 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | no | 97.688 | yes |
gram-positive | yes | 95.054 | yes |
anaerobic | no | 99.338 | yes |
aerobic | yes | 95.272 | yes |
halophile | no | 88.984 | no |
spore-forming | no | 94.008 | yes |
glucose-util | yes | 87.971 | yes |
thermophile | no | 98.87 | yes |
motile | no | 89.398 | no |
glucose-ferment | no | 92.916 | no |
External links
@ref: 16248
culture collection no.: DSM 22272, CGMCC 1.5381, JCM 13926
straininfo link
- @ref: 76935
- straininfo: 312489
literature
- topic: Phylogeny
- Pubmed-ID: 19060050
- title: Salinibacterium xinjiangense sp. nov., a psychrophilic bacterium isolated from the China No. 1 glacier.
- authors: Zhang DC, Liu HC, Xin YH, Yu Y, Zhou PJ, Zhou YG
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.65802-0
- year: 2008
- mesh: Actinomycetales/*classification/genetics/isolation & purification/*physiology, China, Ice Cover/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Species Specificity
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|---|
16248 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22272) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22272 | ||||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | ||||
32626 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 28837 | 28776041 | ||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | ||||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | ||||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | ||||
76935 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID312489.1 | StrainInfo: A central database for resolving microbial strain identifiers |