Deinococcus deserti (DSM 17065, CIP 109153, LMG 22923)

Name: Deinococcus deserti (DSM 17065, CIP 109153, LMG 22923)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 3863

Type strain

Strain Designation VCD115

Culture col. no. DSM 17065 CIP 109153 LMG 22923 VCD115

NCBI tax ID(s) 310783

Special Collections DSMZ CIP Literature strains

History <- T. Heulin <- V. Chapon, VCD 115 CIP <- 2006, DSMZ <- T. Heulin <- V. Chapon, VCD 115

Links

Deinococcus deserti VCD115 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from desert soil.

Gram-negative rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 134961

LMG 22923,DSM 17065,CIP 109153,BCRC 17541,CCRC 17541

@ref 20215

Last LPSN update 2025-12-16 09:47:40

Domain Thermotogati

Phylum Deinococcota

Class Deinococci

Order Deinococcales

Family Deinococcaceae

Genus Deinococcus

Species Deinococcus deserti

Full scientific name Deinococcus deserti de Groot et al. 2005

BacDive ID	Other strains from **Deinococcus deserti** (1)	Type strain
3864	D. deserti VCD117, DSM 17066

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
31513	negative	rod-shaped
118916	positive	coccus-shaped
125439	negative		96.3

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6732	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)		Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
118916	CIP Medium 331		Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
6732	positive	growth	28	mesophilic
31513	positive	growth	23-37
31513	positive	optimum	30	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
31513	positive	optimum	7.5
31513	positive	growth	06-09	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
31513	aerobe
125439	obligate aerobe	93.1

Spore formation

@ref	Spore formation	Confidence
125439		96.3

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31513	NaCl	positive	growth	<0.5 %
31513	NaCl	positive	optimum	0.25 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31513	15740 ChEBI	formate	+	carbon source
31513	28757 ChEBI	fructose	+	carbon source
31513	28260 ChEBI	galactose	+	carbon source
31513	17234 ChEBI	glucose	+	carbon source
31513	27570 ChEBI	histidine	+	carbon source
31513	29864 ChEBI	mannitol	+	carbon source
31513	30911 ChEBI	sorbitol	+	carbon source

Enzymes

@ref	Value	Activity	Ec
31513	catalase	+	1.11.1.6

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Desert
#Environmental	#Terrestrial	#Soil
#Condition	#Xerophilic	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6732	desert soil	Sahara	Tunisia	TUN	Africa
118916	Environment, Gamma-irradiated mixed sand samples	Sahara desert	Tunisia	TUN	Africa

Taxonmaps

69479

Global distribution of 16S sequence AY876378 (>99% sequence identity) for Deinococcus deserti subclade from Microbeatlas

Aquatic Samples	190
Soil Samples	55
Animal Samples	125
Plant Samples	9
Total Samples	379

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6732	1	Risk group (German classification) According to TRBA 466
118916	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM2068v1 assembly for Deinococcus deserti VCD115	complete	GCA_000020685	546414.3	643692020	546414	97.48

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6732	Deinococcus deserti strain VCD115 16S ribosomal RNA gene, partial sequence	AY876378	1406		546414

GC content

6732

GC-content (mol%)59.8

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Deinococcus deserti VCD115
NCBI: GCA_000020685

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	96.30	no
125439	motility	BacteriaNetⓘ	yes	66.50	no
125439	gram_stain	BacteriaNetⓘ	negative	96.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	93.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Deinococcus deserti VCD115 VCD115
NCBI: GCA_000020685.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	62.32	yes
125438	anaerobic	anaerobicⓘ	no	92.33	yes
125438	aerobic	aerobicⓘ	yes	81.47	no
125438	spore-forming	spore-formingⓘ	no	72.22	no
125438	thermophilic	thermophileⓘ	no	84.84	no
125438	flagellated	motile2+ⓘ	no	77.66	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	The Membrane Attack Complex/Perforin Superfamily.	Moreno-Hagelsieb G, Vitug B, Medrano-Soto A, Saier MH.	J Mol Microbiol Biotechnol	10.1159/000481286	2017
Proteome	Major soluble proteome changes in Deinococcus deserti over the earliest stages following gamma-ray irradiation.	Dedieu A, Sahinovic E, Guerin P, Blanchard L, Fochesato S, Meunier B, de Groot A, Armengaud J	Proteome Sci	10.1186/1477-5956-11-3	2013
Genetics	Alliance of proteomics and genomics to unravel the specificities of Sahara bacterium Deinococcus deserti.	de Groot A, Dulermo R, Ortet P, Blanchard L, Guerin P, Fernandez B, Vacherie B, Dossat C, Jolivet E, Siguier P, Chandler M, Barakat M, Dedieu A, Barbe V, Heulin T, Sommer S, Achouak W, Armengaud J	PLoS Genet	10.1371/journal.pgen.1000434	2009
Phylogeny	Deinococcus malanensis sp. nov., isolated from radiation-polluted soil.	Zhu J, Li SH, Tang QY, Chu M, Wang W, Salam N, Li L, Hozzein WN, Zhang ZD, Li WJ	Arch Microbiol	10.1007/s00203-016-1335-0	2017
Phylogeny	Deinococcus cellulosilyticus sp. nov., isolated from air.	Weon HY, Kim BY, Schumann P, Son JA, Jang J, Go SJ, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijs.0.64951-0	2007
Phylogeny	Deinococcus deserti sp. nov., a gamma-radiation-tolerant bacterium isolated from the Sahara Desert.	de Groot A, Chapon V, Servant P, Christen R, Saux MF, Sommer S, Heulin T	Int J Syst Evol Microbiol	10.1099/ijs.0.63717-0	2005

References

#6732	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17065
#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 )
#27809	IJSEM 2441 2005 ( DOI 10.1099/ijs.0.63717-0 , PubMed 16280508 )
#31513	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #27809
#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) .
#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 .
#118916	Collection of Institut Pasteur ; Curators of the CIP; CIP 109153
#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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Deinococcus deserti (DSM 17065, CIP 109153, LMG 22923)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000020685

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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