Strain identifier

BacDive ID: 5822

Type strain: Yes

Species: Geodermatophilus telluris

Strain Designation: CF9/1/1

Strain history: <- A. Gorbushina, Bundesanstalt für Materialforschung und -prüfung, Berlin; CF9/1/1

NCBI tax ID(s): 1190417 (species)

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General

@ref: 17318

BacDive-ID: 5822

DSM-Number: 45421

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive, motile

description: Geodermatophilus telluris CF9/1/1 is an aerobe, spore-forming, mesophilic bacterium that was isolated from arid desert sand.

NCBI tax id

  • NCBI tax id: 1190417
  • Matching level: species

strain history

  • @ref: 17318
  • history: <- A. Gorbushina, Bundesanstalt für Materialforschung und -prüfung, Berlin; CF9/1/1

doi: 10.13145/bacdive5822.20230509.8.1

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 telluris
  • full scientific name: Geodermatophilus telluris Montero-Calasanz et al. 2013

@ref: 17318

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Geodermatophilaceae

genus: Geodermatophilus

species: Geodermatophilus telluris

full scientific name: Geodermatophilus telluris Montero-Calasanz et al. 2013 emend. Montero-Calasanz et al. 2017

strain designation: CF9/1/1

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
30889positiveyes
69480positive100

colony morphology

@refincubation periodcolony colormedium used
628973-4 days
69393Jet black (9005), green brown (8000)ISP 7
69393Jet black (9005), olive grey (7002)ISP 4
69393Jet black (9005), yellow olive (6014)ISP 2
69393Jet black (9005), yellow olive (6014)ISP 3
69393Khaki grey (7008)suter with tyrosine
69393Olive grey (7002), yellow olive (6014)ISP 5
69393Yellow olive (6014)ISP 6
69393Yellow olive (6014), grey olive (6006)suter without tyrosine

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69393noAerial myceliumISP 2
69393noAerial myceliumISP 3
69393noAerial myceliumISP 4
69393noAerial myceliumISP 5
69393noAerial myceliumISP 6
69393noAerial myceliumISP 7
69393noAerial myceliumsuter with tyrosine
69393noAerial myceliumsuter without tyrosine

pigmentation

@refproductionname
30889no
69393noMelanin
69393nosoluble pigment

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_45421_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_45421_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_45421_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_45421_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_45421_5.jpgelectron microscopic image© HZI/Manfred Rohde
69393DSM_45421_image3.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69393DSM_45421_image4.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

  • @ref: 17318
  • name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/65
  • composition: 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

@refgrowthtypetemperaturerange
17318positivegrowth28mesophilic
30889positivegrowth15-40
62897positivegrowth30-37mesophilic

culture pH

  • @ref: 30889
  • ability: positive
  • type: growth
  • pH: 6-8.5
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30889aerobe
62897aerobe

spore formation

@refspore formationconfidence
30889yes
69481yes100
69480no94.471

halophily

@refsaltgrowthtested relationconcentration
30889NaClpositivegrowth0-4 %
69393NaClpositivegrowth0-10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6939322599arabinose+growth
3088930089acetate+carbon source
3088918403L-arabitol+carbon source
3088929016arginine+carbon source
3088917057cellobiose+carbon source
3088923652dextrin+carbon source
3088924265gluconate+carbon source
3088929987glutamate+carbon source
3088917754glycerol+carbon source
3088924996lactate+carbon source
3088925115malate+carbon source
3088917306maltose+carbon source
3088929864mannitol+carbon source
3088951850methyl pyruvate+carbon source
3088917272propionate+carbon source
3088926490quinate+carbon source
3088917814salicin+carbon source
3088930911sorbitol+carbon source
3088930031succinate+carbon source
3088917992sucrose+carbon source
3088927082trehalose+carbon source
3088953423tween 40+carbon source
308894853esculin+hydrolysis
6939362968cellulose+growth
6939328757fructose+growth
6939317234glucose+growth
6939317268inositol-growth
6939337684mannose+growth
6939316634raffinose+growth
6939326546rhamnose+growth
6939317992sucrose+growth
6939318222xylose+growth
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin+hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

enzymes

@refvalueactivityec
30889acid phosphatase+3.1.3.2
30889alkaline phosphatase+3.1.3.1
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin+3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68379gelatinase+
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase+3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase+3.5.1.B15

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69393-+-+--+---+--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69393++++/-+++-+++---++---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
17318arid desert sandSaharan desert, near Vers OurbaChadTCDAfrica
62897Sand,desertnear OurbaChadTCDAfrica2007

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Sandy
#Climate#Hot#Arid

taxonmaps

  • @ref: 69479
  • File name: preview.99_43332.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_2039;97_2459;98_31472;99_43332&stattab=map
  • Last taxonomy: Geodermatophilus
  • 16S sequence: HE815469
  • Sequence Identity:
  • Total samples: 107
  • soil counts: 84
  • aquatic counts: 3
  • animal counts: 18
  • plant counts: 2

Safety information

risk assessment

  • @ref: 17318
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17318
  • description: Geodermatophilus telluris partial 16S rRNA gene, culture collection DSM:45421, type strain CF 9/1/1T
  • accession: HE815469
  • length: 1528
  • database: ena
  • NCBI tax ID: 1190417

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Geodermatophilus telluris DSM 45421GCA_900102745scaffoldncbi1190417
66792Geodermatophilus telluris strain DSM 454211190417.3wgspatric1190417
66792Geodermatophilus telluris DSM 454212602042050draftimg1190417

GC content

@refGC-contentmethod
1731875.4high performance liquid chromatography (HPLC)
3088975.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes77.36yes
flagellatedno92.571no
gram-positiveyes92.413yes
anaerobicno99.124yes
aerobicyes91.612yes
halophileno88.479no
spore-formingno69.472no
glucose-fermentno89.391yes
thermophileno97.437no
glucose-utilyes88.525yes

External links

@ref: 17318

culture collection no.: DSM 45421, CCUG 62764, MTCC 11415

straininfo link

  • @ref: 75304
  • straininfo: 403329

literature

  • topic: Phylogeny
  • Pubmed-ID: 23159748
  • title: Geodermatophilus telluris sp. nov., an actinomycete isolated from Saharan desert sand.
  • authors: Montero-Calasanz MDC, Goker M, Potter G, Rohde M, Sproer C, Schumann P, Klenk HP, Gorbushina AA
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.046888-0
  • year: 2012
  • mesh: Actinomycetales/*classification/genetics/isolation & purification, Africa, Northern, Bacterial Typing Techniques, Base Composition, Chad, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Peptidoglycan/analysis, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Silicon Dioxide, *Soil Microbiology, Vitamin K 2/analogs & derivatives/analysis
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
17318Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45421)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45421
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
30889Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2721928776041
62897Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 62764)https://www.ccug.se/strain?id=62764
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life28604660 35: 676-683 2017
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69393Wink, J.https://cdn.dsmz.de/wink/DSM%2045421.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
75304Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID403329.1StrainInfo: A central database for resolving microbial strain identifiers