Strain identifier
BacDive ID: 3242
Type strain: 
Species: Corynebacterium deserti
Strain Designation: GIMN1.010
Strain history: <- J. Sweezy, NRRL; NRRL B-59552
NCBI tax ID(s): 1408191 (species)
version 9.1 (current version)
General
@ref: 18077
BacDive-ID: 3242
DSM-Number: 45689
keywords: genome sequence, 16S sequence, Bacteria, Gram-positive
description: Corynebacterium deserti GIMN1.010 is a Gram-positive bacterium that was isolated from desert sand.
NCBI tax id
- NCBI tax id: 1408191
- Matching level: species
strain history
- @ref: 18077
- history: <- J. Sweezy, NRRL; NRRL B-59552
doi: 10.13145/bacdive3242.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Mycobacteriales
- family: Corynebacteriaceae
- genus: Corynebacterium
- species: Corynebacterium deserti
- full scientific name: Corynebacterium deserti Zhou et al. 2012
@ref: 18077
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Corynebacteriaceae
genus: Corynebacterium
species: Corynebacterium deserti
full scientific name: Corynebacterium deserti Zhou et al. 2012 emend. Nouioui et al. 2018
strain designation: GIMN1.010
type strain: yes
Morphology
cell morphology
- @ref: 69480
- motility: no
- confidence: 91
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 18077 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
| 18077 | TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a) | yes | https://mediadive.dsmz.de/medium/535a | Name: TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a) Composition: None 50.0 g/l Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
culture temp
- @ref: 18077
- growth: positive
- type: growth
- temperature: 37
Physiology and metabolism
spore formation
- @ref: 69481
- spore formation: no
- confidence: 99
Isolation, sampling and environmental information
isolation
- @ref: 18077
- sample type: desert sand
- geographic location: western China
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Desert |
| #Environmental | #Terrestrial | #Sandy |
| #Condition | #Xerophilic |
Safety information
risk assessment
- @ref: 18077
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 18077
- description: Corynebacterium deserti strain GIMN1.010 16S ribosomal RNA gene, partial sequence
- accession: HQ612241
- length: 1478
- database: nuccore
- NCBI tax ID: 931089
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Corynebacterium deserti GIMN1.010 | GCA_001277995 | complete | ncbi | 931089 |
| 66792 | Corynebacterium deserti GIMN1.010 | 931089.4 | complete | patric | 931089 |
| 66792 | Corynebacterium deserti GIMN1.010 | 931089.7 | plasmid | patric | 931089 |
| 66792 | Corynebacterium deserti GIMN1.010 | 931089.6 | plasmid | patric | 931089 |
| 66792 | Corynebacterium deserti GIMN1.010 | 2654588031 | complete | img | 931089 |
GC content
- @ref: 18077
- GC-content: 61.7
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 99 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 89.043 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 95.147 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 76.392 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 77.899 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 94.5 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 91 | no |
External links
@ref: 18077
culture collection no.: DSM 45689, CCTCC AB 2010341, NRRL B-59552
straininfo link
- @ref: 72755
- straininfo: 402439
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 21571935 | Corynebacterium deserti sp. nov., isolated from desert sand. | Zhou Z, Yuan M, Tang R, Chen M, Lin M, Zhang W | Int J Syst Evol Microbiol | 10.1099/ijs.0.030429-0 | 2011 | Base Composition, China, Corynebacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Desert Climate, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Silicon Dioxide, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 27666312 | Corynebacterium crudilactis sp. nov., isolated from raw cow's milk. | Zimmermann J, Ruckert C, Kalinowski J, Lipski A | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001509 | 2016 | Animals, Bacterial Typing Techniques, Base Composition, Cattle, Corynebacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Germany, Milk/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/chemistry | Transcriptome |
| Phylogeny | 28429167 | Corynebacterium defluvii sp. nov., isolated from Sewage. | Yu QL, Yan ZF, He X, Tian FH, Jia CW, Li CT | J Microbiol | 10.1007/s12275-017-6592-3 | 2017 | Base Composition, China, *Corynebacterium/classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/analysis, Peptidoglycan/analysis, Phospholipids/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 18077 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45689) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45689 | |
| 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 | |
| 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) | |
| 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 | |
| 72755 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID402439.1 | StrainInfo: A central database for resolving microbial strain identifiers |