Strain identifier
BacDive ID: 24187
Type strain: 
Species: Cryobacterium levicorallinum
Strain Designation: Hh34
Strain history: <- NBRC; NBRC 107883 <- CGMCC <- Y. Xin; Hh34
NCBI tax ID(s): 995038 (species)
version 7.1 (current version)
General
@ref: 20519
BacDive-ID: 24187
DSM-Number: 28143
keywords: genome sequence, 16S sequence, Bacteria, aerobe, psychrophilic, Gram-positive, rod-shaped
description: Cryobacterium levicorallinum Hh34 is an aerobe, psychrophilic, Gram-positive bacterium that was isolated from ice in glacier.
NCBI tax id
- NCBI tax id: 995038
- Matching level: species
strain history: <- NBRC; NBRC 107883 <- CGMCC <- Y. Xin; Hh34
doi: 10.13145/bacdive24187.20221219.7.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Microbacteriaceae
- genus: Cryobacterium
- species: Cryobacterium levicorallinum
- full scientific name: Cryobacterium levicorallinum Liu et al. 2013
@ref: 20519
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Microbacteriaceae
genus: Cryobacterium
species: Cryobacterium levicorallinum
full scientific name: Cryobacterium levicorallinum Liu et al. 2013
strain designation: Hh34
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | confidence |
|---|---|---|---|---|---|
| 30890 | positive | 0.93 µm | 0.43 µm | rod-shaped | |
| 69480 | positive | 99.09 |
colony morphology
- @ref: 20519
- incubation period: 3-7 days
pigmentation
- @ref: 30890
- production: yes
Culture and growth conditions
culture medium
- @ref: 20519
- name: PP-MEDIUM (DSMZ Medium 513)
- growth: yes
- link: https://mediadive.dsmz.de/medium/513
- composition: Name: PP-MEDIUM (DSMZ Medium 513) Composition: Agar 15.0 g/l Polypeptone 10.0 g/l Yeast extract 2.0 g/l MgSO4 x 7 H2O 1.0 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 20519 | positive | growth | 10 | psychrophilic |
| 30890 | positive | growth | 0-18 | psychrophilic |
| 30890 | positive | optimum | 11 | psychrophilic |
culture pH
- @ref: 30890
- ability: positive
- type: growth
- pH: 6.0-12.0
- PH range: alkaliphile
Physiology and metabolism
oxygen tolerance
- @ref: 30890
- oxygen tolerance: aerobe
spore formation
- @ref: 69480
- spore formation: no
- confidence: 96.407
halophily
| @ref | salt | growth | tested relation | concentration | halophily level | confidence |
|---|---|---|---|---|---|---|
| 30890 | NaCl | positive | growth | 0-3 % | ||
| 69480 | non-halophilic | 91.461 |
observation
- @ref: 30890
- observation: aggregates in clumps
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 30890 | 30089 | acetate | + | carbon source |
| 30890 | 22599 | arabinose | + | carbon source |
| 30890 | 17057 | cellobiose | + | carbon source |
| 30890 | 28757 | fructose | + | carbon source |
| 30890 | 28260 | galactose | + | carbon source |
| 30890 | 24265 | gluconate | + | carbon source |
| 30890 | 17234 | glucose | + | carbon source |
| 30890 | 17754 | glycerol | + | carbon source |
| 30890 | 25115 | malate | + | carbon source |
| 30890 | 17306 | maltose | + | carbon source |
| 30890 | 29864 | mannitol | + | carbon source |
| 30890 | 37684 | mannose | + | carbon source |
| 30890 | 33942 | ribose | + | carbon source |
| 30890 | 30911 | sorbitol | + | carbon source |
| 30890 | 17992 | sucrose | + | carbon source |
| 30890 | 27082 | trehalose | + | carbon source |
| 30890 | 18222 | xylose | + | carbon source |
| 30890 | 17632 | nitrate | + | reduction |
enzymes
- @ref: 30890
- value: catalase
- activity: +
- ec: 1.11.1.6
Isolation, sampling and environmental information
isolation
- @ref: 20519
- sample type: ice in glacier
- geographic location: No.1 Glacier in Xingjiang Uygur Autonomous Region, north-west China
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Glacier |
| #Environmental | #Aquatic | #Ice |
Safety information
risk assessment
- @ref: 20519
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20519
- description: Cryobacterium levicorallinum strain Hh34 16S ribosomal RNA gene, partial sequence
- accession: JF267312
- length: 1478
- database: ena
- NCBI tax ID: 995038
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Cryobacterium levicorallinum NBRC 107883 | GCA_007992355 | contig | ncbi | 995038 |
| 66792 | Cryobacterium levicorallinum Hh34 | GCA_004402405 | contig | ncbi | 995038 |
| 66792 | Cryobacterium levicorallinum strain Hh34 | 995038.5 | wgs | patric | 995038 |
| 66792 | Cryobacterium levicorallinum strain NBRC 107883 | 995038.7 | wgs | patric | 995038 |
| 66792 | Cryobacterium levicorallinum CGMCC 1.11211 | 2663762754 | draft | img | 995038 |
| 66792 | Pediococcus acidilactici AS1.2696 | GCA_001436795 | contig | patric | 1254 |
| 66792 | [Clostridium] innocuum MSK.13.34 | GCA_019131515 | contig | patric | 1522 |
GC content
- @ref: 20519
- GC-content: 63.7
External links
@ref: 20519
culture collection no.: DSM 28143, CGMCC 1.11211, NBRC 107883
straininfo link
| @ref | passport |
|---|---|
| 20218 | http://www.straininfo.net/strains/890425 |
| 20218 | http://www.straininfo.net/strains/890424 |
literature
- topic: Phylogeny
- Pubmed-ID: 23315411
- title: Cryobacterium levicorallinum sp. nov., a psychrophilic bacterium isolated from glacier ice.
- authors: Liu Q, Liu H, Zhang J, Zhou Y, Xin Y
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.046896-0
- year: 2013
- mesh: Actinomycetales/*classification/genetics/metabolism, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Ice, Ice Cover/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
- topic2: Genetics
Reference
| @id | authors | title | doi/url | journal | pubmed | catalogue | ID_cross_reference |
|---|---|---|---|---|---|---|---|
| 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 | ||||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | StrainInfo introduces electronic passports for microorganisms. | 10.1016/j.syapm.2013.11.002 | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | ||
| 20519 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-28143 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28143) | ||||
| 27220 | 10.1099/ijs.0.046896-0 | 23315411 | |||||
| 30890 | 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 | 28776041 | 27220 | ||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | ||||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | ||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions 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 |