Strain identifier

BacDive ID: 24060

Type strain: Yes

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)

For citation purpose refer to the digital object identifier (doi) of the current version.
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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

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_45416_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_45416_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_45416_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_45416_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_45416_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
20585R2A MEDIUM (DSMZ Medium 830)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium830.pdf
20585GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: 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

@refgrowthtypetemperaturerange
20585positivegrowth28mesophilic
62895positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 62895
  • oxygen tolerance: aerobe

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
20585desert sandSahara, near to Ouré CassoniChadTCDAfrica
62895Sand,desertnear OurbaChadTCDAfrica2007

isolation source categories

Cat1Cat2Cat3
#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

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Geodermatophilus tzadiensis DSM 45416GCA_003002915scaffoldncbi1137988
66792Geodermatophilus tzadiensis strain DSM 454161137988.3wgspatric1137988
66792Geodermatophilus tzadiensis DSM 454162728369484draftimg1137988

GC content

  • @ref: 20585
  • GC-content: 75.2
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno92.829no
gram-positiveyes92.075no
anaerobicno99.131no
aerobicyes91.971no
halophileno90.611no
spore-formingno74.763no
glucose-utilyes87.162no
thermophileno97.474yes
motileyes75.437no
glucose-fermentno88.395no

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

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
20585Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-45416Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45416)
62895Curators of the CCUGhttps://www.ccug.se/strain?id=62762Culture Collection University of Gothenburg (CCUG) (CCUG 62762)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66793Mukherjee et al.GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life10.1038/nbt.3886 35: 676-683 201728604660
69479João 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 betahttps://microbeatlas.org/
88031Reimer, 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 identifiers10.60712/SI-ID400099.1