Geodermatophilus siccatus CF6/1 | Type strain | DSM 45419, CCUG 62765, MTCC 11414, JCM 30066 | BacDiveID:5821

Strain identifier

BacDive ID: 5821

Type strain:

Species: Geodermatophilus siccatus

Strain Designation: CF6/1

Culture col. no.: DSM 45419, CCUG 62765, MTCC 11414, JCM 30066

Strain history: MTCC 11414 <-- A. A. Gorbushina CF6/1.

NCBI tax ID(s): 1137991 (species)

SI-ID 405405

DSM 45419, CCUG 62765

Section

Geodermatophilus siccatus CF6/1 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from desert sand.

Gram-positive
aerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Geodermatophilales*
	Family	*Geodermatophilaceae*
	Genus	*Geodermatophilus*
	Species	**Geodermatophilus siccatus**
	Full Scientific Name (LPSN)	Geodermatophilus siccatus Montero-Calasanz et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

Incubation period

3-4 days

Multimedia content

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Information on culture and growth conditions Culture and growth conditions

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

Culture medium

R2A MEDIUM (DSMZ Medium 830)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #16551]			growth	28 °C
[Ref.: #62898]			growth	30-37 °C
[Ref.: #67770]			growth	28 °C

[Ref.: #16551]	Temperature range	mesophilic
[Ref.: #62898]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

Oxygen tolerance

aerobe

Ability of spore formation

no Confidence in %92.531

Observation

quinones: MK-9(H₄)

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #16551]	Sample type/isolated from	desert sand
[Ref.: #16551]	Geographic location (country and/or sea, region)	Sahara, near Ourba
[Ref.: #16551]	Country	Chad
[Ref.: #16551]	Country ISO 3 Code	TCD
[Ref.: #16551]	Continent	Africa

[Ref.: #62898]	Sample type/isolated from	Sand,desert
[Ref.: #62898]	Sampling date	2007
[Ref.: #62898]	Geographic location (country and/or sea, region)	Ourba,Sahara Desert
[Ref.: #62898]	Country	Chad
[Ref.: #62898]	Country ISO 3 Code	TCD
[Ref.: #62898]	Continent	Africa

[Ref.: #67770]	Sample type/isolated from	Sand of the Sahara Desert near to Ourba
[Ref.: #67770]	Country	Chad
[Ref.: #67770]	Country ISO 3 Code	TCD
[Ref.: #67770]	Continent	Africa
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Desert
#Environmental	#Terrestrial	#Sandy
#Condition	#Xerophilic	-

What are isolation sources categories?

Global distribution of 16S sequence HE654548 (>99% sequence identity) for Geodermatophilus from Microbeatlas

Aquatic Samples	218
Soil Samples	1025
Animal Samples	141
Plant Samples	169
Total Samples	1553

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

Biosafety level

1

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #16551]	Geodermatophilus siccatus partial 16S rRNA gene, strain DSM 45419, type strain CF6/1T	HE654548	1472	ENA	1137991 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Geodermatophilus siccatus DSM 45419	GCA_900103785	scaffold	GenBank	1137991 tax ID
[Ref.: #66792]	Geodermatophilus siccatus strain DSM 45419	1137991.3	wgs	PATRIC	1137991 tax ID	*
[Ref.: #66792]	Geodermatophilus siccatus DSM 45419	2599185192	draft	JGI IMG/M	1137991 tax ID	*

GC-content

74.9 mol%

high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Geodermatophilus siccatus DSM 45419 NCBI: GCA_900103785.1
[Ref.: #69481]	spore-forming	yes	82	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Geodermatophilus siccatus strain DSM 45419 PATRIC: 1137991.3
[Ref.: #69480]	motile	yes	72.996	no
[Ref.: #69480]	flagellated	no	90.811	no
[Ref.: #69480]	gram-positive	yes	91.166	no
[Ref.: #69480]	anaerobic	no	98.637	yes
[Ref.: #69480]	aerobic	yes	89.74	no
[Ref.: #69480]	halophile	no	85.36	no
[Ref.: #69480]	spore-forming	no	60.169	no
[Ref.: #69480]	glucose-util	yes	86.615	no
[Ref.: #69480]	thermophile	no	97.536	yes
[Ref.: #69480]	glucose-ferment	no	89.681	no

Availability in culture collections External links

Culture collection no.

DSM 45419, CCUG 62765, MTCC 11414, JCM 30066

SI-ID 405405

*

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Geodermatophilus telluris sp. nov., an actinomycete isolated from Saharan desert sand.	Montero-Calasanz MDC, Goker M, Potter G, Rohde M, Sproer C, Schumann P, Klenk HP, Gorbushina AA	Int J Syst Evol Microbiol	10.1099/ijs.0.046888-0	2012	*
Phylogeny	Geodermatophilus siccatus sp. nov., isolated from arid sand of the Saharan desert in Chad.	del Carmen Montero-Calasanz M, Goker M, Rohde M, Schumann P, Potter G, Sproer C, Gorbushina AA, Klenk HP	Antonie Van Leeuwenhoek	10.1007/s10482-012-9824-x	2012	*

References

#16551

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45419

#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. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#62898 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 62765

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#75303

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 . ( DOI 10.60712/SI-ID405405.1 )

* These data were automatically processed and therefore are not curated

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