Strain identifier
BacDive ID: 24060
Type strain:
Species: Geodermatophilus tzadiensis
Strain Designation: CF5/2
Strain history: <- A. Gorbushina, Bundesanstalt für Materialforschung und -prüfung, Berlin; CF5/2
NCBI tax ID(s): 1137988 (species)
General
@ref: 20585
BacDive-ID: 24060
DSM-Number: 45416
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic
description: Geodermatophilus tzadiensis CF5/2 is an aerobe, mesophilic bacterium that was isolated from desert sand.
NCBI tax id
- NCBI tax id: 1137988
- Matching level: species
strain history
- @ref: 20585
- history: <- A. Gorbushina, Bundesanstalt für Materialforschung und -prüfung, Berlin; CF5/2
doi: 10.13145/bacdive24060.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Geodermatophilales
- family: Geodermatophilaceae
- genus: Geodermatophilus
- species: Geodermatophilus tzadiensis
- full scientific name: Geodermatophilus tzadiensis Montero-Calasanz et al. 2013
@ref: 20585
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Geodermatophilaceae
genus: Geodermatophilus
species: Geodermatophilus tzadiensis
full scientific name: Geodermatophilus tzadiensis Montero-Calasanz et al. 2013
strain designation: CF5/2
type strain: yes
Morphology
colony morphology
- @ref: 62895
- incubation period: 3-4 days
multimedia
@ref | multimedia content | caption | intellectual property rights |
---|---|---|---|
66793 | EM_DSM_45416_1.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_45416_2.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_45416_3.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_45416_4.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_45416_5.jpg | electron microscopic image | © HZI/Manfred Rohde |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
20585 | R2A MEDIUM (DSMZ Medium 830) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium830.pdf | |
20585 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
20585 | positive | growth | 28 | mesophilic |
62895 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 62895
- oxygen tolerance: aerobe
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | sampling date |
---|---|---|---|---|---|---|
20585 | desert sand | Sahara, near to Ouré Cassoni | Chad | TCD | Africa | |
62895 | Sand,desert | near Ourba | Chad | TCD | Africa | 2007 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Desert |
#Environmental | #Terrestrial | #Sandy |
#Condition | #Xerophilic |
taxonmaps
- @ref: 69479
- File name: preview.99_42219.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_2039;97_2459;98_3041;99_42219&stattab=map
- Last taxonomy: Geodermatophilus
- 16S sequence: HE654545
- Sequence Identity:
- Total samples: 6810
- soil counts: 4562
- aquatic counts: 408
- animal counts: 721
- plant counts: 1119
Safety information
risk assessment
- @ref: 20585
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20585
- description: Geodermatophilus tzadiensis partial 16S rRNA gene, culture collection DSM:45416, type strain CF5/2T
- accession: HE654545
- length: 1510
- database: ena
- NCBI tax ID: 1137988
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Geodermatophilus tzadiensis DSM 45416 | GCA_003002915 | scaffold | ncbi | 1137988 |
66792 | Geodermatophilus tzadiensis strain DSM 45416 | 1137988.3 | wgs | patric | 1137988 |
66792 | Geodermatophilus tzadiensis DSM 45416 | 2728369484 | draft | img | 1137988 |
GC content
- @ref: 20585
- GC-content: 75.2
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
flagellated | no | 92.829 | no |
gram-positive | yes | 92.075 | no |
anaerobic | no | 99.131 | no |
aerobic | yes | 91.971 | no |
halophile | no | 90.611 | no |
spore-forming | no | 74.763 | no |
glucose-util | yes | 87.162 | no |
thermophile | no | 97.474 | yes |
motile | yes | 75.437 | no |
glucose-ferment | no | 88.395 | no |
External links
@ref: 20585
culture collection no.: DSM 45416, CCUG 62762, MTCC 11411
straininfo link
- @ref: 88031
- straininfo: 400099
literature
- topic: Phylogeny
- Pubmed-ID: 23415483
- title: Geodermatophilus tzadiensis sp. nov., a UV radiation-resistant bacterium isolated from sand of the Saharan desert.
- authors: Montero-Calasanz Mdel C, Goker M, Broughton WJ, Cattaneo A, Favet J, Potter G, Rohde M, Sproer C, Schumann P, Klenk HP, Gorbushina AA
- journal: Syst Appl Microbiol
- DOI: 10.1016/j.syapm.2012.12.005
- year: 2013
- mesh: Actinomycetales/*classification/genetics/isolation & purification/*radiation effects/ultrastructure, Africa, Northern, Bacterial Typing Techniques, *Desert Climate, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, *Radiation Tolerance, *Silicon Dioxide, *Ultraviolet Rays
- topic2: Phenotype
Reference
@id | authors | title | doi/url | catalogue | journal | 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 | |||
20585 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45416 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45416) | |||
62895 | Curators of the CCUG | https://www.ccug.se/strain?id=62762 | Culture Collection University of Gothenburg (CCUG) (CCUG 62762) | |||
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 | |||
66793 | Mukherjee et al. | GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life | 10.1038/nbt.3886 | 35: 676-683 2017 | 28604660 | |
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/ | |||
88031 | 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-ID400099.1 |