Name: Deinococcus deserti VCD115
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 3863

Type strain:

Species: Deinococcus deserti

Strain Designation: VCD115

Culture col. no.: DSM 17065, CIP 109153, LMG 22923

Strain history: CIP <- 2006, DSMZ <- T. Heulin <- V. Chapon, VCD 115

NCBI tax ID(s): 310783 (species)

SI-ID 134961

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

Other strains from Deinococcus deserti

D. deserti VCD117, DSM 17066

Section

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

Gram-negative
rod-shaped
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	*Deinococcota*
	Class	*Deinococci*
	Order	*Deinococcales*
	Family	*Deinococcaceae*
	Genus	*Deinococcus*
	Species	**Deinococcus deserti**
	Full Scientific Name (LPSN)	Deinococcus deserti de Groot et al. 2005

Information on morphological and physiological properties Morphology

[Ref.: #31513]	Gram stain	negative
[Ref.: #118916]	Gram stain	positive

[Ref.: #31513]	Cell shape	rod-shaped
[Ref.: #118916]	Cell shape	coccus-shaped

[Ref.: #31513]	Motility	no
[Ref.: #118916]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6732]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #6732]

Culture medium growth

[Ref.: #6732]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6732]

Culture medium composition

expand / minimize

[Ref.: #118916]

Culture medium

CIP Medium 331

[Ref.: #118916]

Culture medium growth

[Ref.: #118916]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #6732]	growth	28 °C
[Ref.: #31513]	growth	23-37 °C
[Ref.: #31513]	optimum	30 °C

[Ref.: #6732]	Temperature range	mesophilic
[Ref.: #31513]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31513]			optimum	7.5
[Ref.: #31513]			growth	06-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31513]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31513]		NaCl		growth	<0.5	%
[Ref.: #31513]		NaCl		optimum	0.25	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31513]	formate ChEBI	+	carbon source
[Ref.: #31513]	fructose ChEBI	+	carbon source
[Ref.: #31513]	galactose ChEBI	+	carbon source
[Ref.: #31513]	glucose ChEBI	+	carbon source
[Ref.: #31513]	histidine ChEBI	+	carbon source
[Ref.: #31513]	mannitol ChEBI	+	carbon source
[Ref.: #31513]	sorbitol ChEBI	+	carbon source

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #31513]		catalase	+	1.11.1.6

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

[Ref.: #6732]	Sample type/isolated from	desert soil
[Ref.: #6732]	Geographic location (country and/or sea, region)	Sahara
[Ref.: #6732]	Country	Tunisia
[Ref.: #6732]	Country ISO 3 Code	TUN
[Ref.: #6732]	Continent	Africa

[Ref.: #118916]	Sample type/isolated from	Environment, Gamma-irradiated mixed sand samples
[Ref.: #118916]	Geographic location (country and/or sea, region)	Sahara desert
[Ref.: #118916]	Country	Tunisia
[Ref.: #118916]	Country ISO 3 Code	TUN
[Ref.: #118916]	Continent	Africa
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Desert
#Environmental	#Terrestrial	#Soil
#Condition	#Xerophilic	-

What are isolation sources categories?

[Ref.: #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

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

[Ref.: #6732]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #118916]	Biosafety level	1	Risk group (French classification)

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.: #6732]	Deinococcus deserti strain VCD115 16S ribosomal RNA gene, partial sequence	AY876378	1406	ENA	546414 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Deinococcus deserti VCD115	GCA_000020685	complete	GenBank	546414 tax ID	*
[Ref.: #66792]	Deinococcus deserti VCD115	546414.3	complete	PATRIC	546414 tax ID	*
[Ref.: #66792]	Deinococcus deserti VCD115	546414.17	plasmid	PATRIC	546414 tax ID	*
[Ref.: #66792]	Deinococcus deserti VCD115	546414.19	plasmid	PATRIC	546414 tax ID	*
[Ref.: #66792]	Deinococcus deserti VCD115	546414.18	plasmid	PATRIC	546414 tax ID	*
[Ref.: #66792]	Deinococcus deserti VCD115	643692020	complete	JGI IMG/M	546414 tax ID	*

[Ref.: #6732]

GC-content

59.8 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Deinococcus deserti VCD115 VCD115 NCBI: GCA_000020685.1
[Ref.: #69480]	motile	no	90.461	yes
[Ref.: #69480]	flagellated	no	95.677	no
[Ref.: #69480]	gram-positive	yes	79.498	no
[Ref.: #69480]	anaerobic	no	99.167	yes
[Ref.: #69480]	aerobic	yes	93.263	yes
[Ref.: #69480]	halophile	no	94.61	yes
[Ref.: #69480]	spore-forming	no	90.858	no
[Ref.: #69480]	thermophile	no	85.517	no
[Ref.: #69480]	glucose-util	yes	90.279	yes
[Ref.: #69480]	glucose-ferment	no	88.621	no

Availability in culture collections External links

[Ref.: #6732]

Culture collection no.

DSM 17065, CIP 109153, LMG 22923

[Ref.: #73373]

SI-ID 134961

Literature:

Topic	Title	Authors	Journal	DOI	Year
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	*
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 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 )

#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 (see below)

#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 .

#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) .

#73373

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-ID134961.1 )

#118916 Collection of Institut Pasteur ; Curators of the CIP; CIP 109153

#27809

IJSEM 2441 2005 ( DOI 10.1099/ijs.0.63717-0 , PubMed 16280508 )

* These data were automatically processed and therefore are not curated

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Deinococcus deserti VCD115 VCD115

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