Geodermatophilus obscurus (DSM 43162, ATCC 25079, CBS 235.69)

Name: Geodermatophilus obscurus (DSM 43162, ATCC 25079, CBS 235.69)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5817

Type strain

Strain Designation G-17

Culture col. no. DSM 43162 ATCC 25079 CBS 235.69 IFO 13318 KCC A-0155 8 more

NCBI tax ID(s) 1523248

Special Collections DSMZ JCM KCTC

Links

Geodermatophilus obscurus G-17 is a mesophilic prokaryote that was isolated from soil.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 38342

ATCC 25079,DSM 43162,IFO 13318,JCM 3155,IMET 9242,NRRL B-3580,VKM Ac-1443,CBS 235.69,KCTC 9361,NBRC 13318

@ref 20215

Last LPSN update 2025-12-16 09:48:09

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Geodermatophilales

Family Geodermatophilaceae

Genus Geodermatophilus

Species Geodermatophilus obscurus

Full scientific name Geodermatophilus obscurus Luedemann 1968 (Approved Lists 1980)

BacDive ID	Other strains from **Geodermatophilus obscurus** (2)	Type strain
5815	G. obscurus G-20, CCUG 61914, KCTC 9177, DSM 43160, ATCC ... (type strain)
128480	G. obscurus ST033402(HKI),

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	99.6

Multimedia

@ref:	66793
multimedia content:	EM_DSM_43162_1.jpg
multimedia.multimedia content:	EM_DSM_43162_1.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_43162_2.jpg
multimedia.multimedia content:	EM_DSM_43162_2.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_43162_3.jpg
multimedia.multimedia content:	EM_DSM_43162_3.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_43162_4.jpg
multimedia.multimedia content:	EM_DSM_43162_4.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_43162_5.jpg
multimedia.multimedia content:	EM_DSM_43162_5.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
10830	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)		Medium recipe at MediaDive	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
10830	CZAPEK PEPTONE AGAR (DSMZ Medium 83)		Medium recipe at MediaDive	Name: CZAPEK PEPTONE AGAR (DSMZ Medium 83) Composition: Sucrose 30.0 g/l Agar 20.0 g/l Peptone 5.0 g/l NaNO3 3.0 g/l Yeast extract 2.0 g/l K2HPO4 1.0 g/l MgSO4 x 7 H2O 0.5 g/l KCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
10830	positive	growth	37	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
10830	soil	Utah, Zion Nat. Park	USA	USA	North America
67770	Soil	Zion National Park, UT	USA	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence X92357 (>99% sequence identity) for Geodermatophilus from Microbeatlas

Aquatic Samples	3
Soil Samples	59
Animal Samples	6
Plant Samples
Total Samples	68

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
10830	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	IMG-taxon 2599185272 annotated assembly for Geodermatophilus obscurus DSM 43162	scaffold	GCA_900143215	1861.4	2599185272	1861	54.15

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Geodermatophilus obscurus subsp. utahensis 16S ribosomal RNA (strain DSM43162)	X92357	1477		1523248

GC content

@ref	GC-content (mol%)	Method
67770	73-73.8	thermal denaturation, midpoint method (Tm)
67770	74	Buoyant density centrifugation (BD)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Geodermatophilus obscurus DSM 43162
NCBI: GCA_900143215

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	74.60	no
125439	motility	BacteriaNetⓘ	no	78.50	no
125439	gram_stain	BacteriaNetⓘ	positive	99.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Geodermatophilus obscurus strain DSM 43162
PATRIC: 1861.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	88.20	no
125438	anaerobic	anaerobicⓘ	no	96.33	no
125438	spore-forming	spore-formingⓘ	yes	67.44	no
125438	aerobic	aerobicⓘ	yes	89.37	no
125438	thermophilic	thermophileⓘ	no	95.58	no
125438	flagellated	motile2+ⓘ	no	61.83	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Complete genome sequence of Geodermatophilus obscurus type strain (G-20).	Ivanova N, Sikorski J, Jando M, Munk C, Lapidus A, Glavina Del Rio T, Copeland A, Tice H, Cheng JF, Lucas S, Chen F, Nolan M, Bruce D, Goodwin L, Pitluck S, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Meincke L, Brettin T, Detter JC, Rohde M, Goker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides NC, Klenk HP.	Stand Genomic Sci	10.4056/sigs.711311	2010
Phylogeny	Real-time PCR for the detection and quantification of geodermatophilaceae from stone samples and identification of new members of the genus blastococcus.	Salazar O, Valverde A, Genilloud O.	Appl Environ Microbiol	10.1128/aem.72.1.346-352.2006	2006
Phylogeny	Geodermatophilus, a new genus of the Dermatophilaceae (Actinomycetales).	Luedemann GM.	J Bacteriol	10.1128/jb.96.5.1848-1858.1968	1968

References

#10830	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43162
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#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 .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Geodermatophilus obscurus (DSM 43162, ATCC 25079, CBS 235.69)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900143215

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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