Name: Deinococcus gobiensis I-0
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 3893

Type strain:

Species: Deinococcus gobiensis

Strain Designation: I-0

Culture col. no.: DSM 21396, CGMCC 1.7299, JCM 16679

Strain history: DSM 21396 <-- M. Yuan et al. I-0.

NCBI tax ID(s): 502394 (species)

SI-ID 405382

DSM 21396

Section

Deinococcus gobiensis I-0 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from upper sand layers of the Gobi desert, mixed sample.

coccus-shaped
Gram-positive
facultative anaerobe
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 gobiensis**
	Full Scientific Name (LPSN)	Deinococcus gobiensis Yuan et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29035]	Gram stain	positive

[Ref.: #29035]	Cell length	1.6 µm

[Ref.: #29035]	Cell width	1.6 µm

[Ref.: #29035]	Cell shape	coccus-shaped

[Ref.: #29035]	Motility	no

[Ref.: #29035]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15675]

Culture medium

TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)

[Ref.: #15675]

Culture medium growth

[Ref.: #15675]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15675]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #15675]	growth	28 °C
[Ref.: #29035]	growth	15-35 °C
[Ref.: #29035]	optimum	30 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #15675]	Temperature range	mesophilic
[Ref.: #29035]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29035]			optimum	7.5
[Ref.: #29035]			growth	7.0-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29035]

Oxygen tolerance

facultative anaerobe

[Ref.: #29035]

Ability of spore formation

[Ref.: #15675]	Murein short key	A21.01
[Ref.: #15675]	Murein types	A3ß L-Orn-Gly₂_-₃

[Ref.: #67770]

Observation

quinones: MK-8

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29035]	aspartate ChEBI	+	carbon source
[Ref.: #29035]	fructose ChEBI	+	carbon source
[Ref.: #29035]	glucose ChEBI	+	carbon source
[Ref.: #29035]	lactose ChEBI	+	carbon source
[Ref.: #29035]	nitrate ChEBI	+	reduction
[Ref.: #29035]	sucrose ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #29035]	catalase	+	1.11.1.6
[Ref.: #29035]	cytochrome oxidase	+	1.9.3.1
[Ref.: #29035]	urease	+	3.5.1.5

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

[Ref.: #15675]	Sample type/isolated from	upper sand layers of the Gobi desert, mixed sample
[Ref.: #15675]	Geographic location (country and/or sea, region)	Xinjiang
[Ref.: #15675]	Country	China
[Ref.: #15675]	Country ISO 3 Code	CHN
[Ref.: #15675]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Sand sample of the Gobi desert inxinjiang Autonomous Region
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Desert
#Environmental	#Terrestrial	#Sandy

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EU427464 (>99% sequence identity) for Deinococcus from Microbeatlas

Aquatic Samples	2149
Soil Samples	1279
Animal Samples	4196
Plant Samples	2180
Total Samples	9804

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

[Ref.: #15675]

Biosafety level

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.: #15675]	Deinococcus gobiensis strain I-0 16S ribosomal RNA gene, partial sequence	EU427464	1470	ENA	745776 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 gobiensis I-0, DSM 21396	2512564069	complete	JGI IMG/M	745776 tax ID	*
[Ref.: #66792]	Deinococcus gobiensis I-0	745776.15	plasmid	PATRIC	745776 tax ID	*
[Ref.: #66792]	Deinococcus gobiensis I-0	745776.14	plasmid	PATRIC	745776 tax ID	*
[Ref.: #66792]	Deinococcus gobiensis I-0	745776.17	plasmid	PATRIC	745776 tax ID	*
[Ref.: #66792]	Deinococcus gobiensis I-0	745776.13	plasmid	PATRIC	745776 tax ID	*
[Ref.: #66792]	Deinococcus gobiensis I-0	745776.4	complete	PATRIC	745776 tax ID	*

[Ref.: #15675]	GC-content	65.4 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #29035]	GC-content	65.4 mol%
[Ref.: #67770]	GC-content	70.2 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 Diaspora project based on: Deinococcus gobiensis I-0 I-0 NCBI: GCA_000252445.1
[Ref.: #69480]	motile	no	88.972	yes
[Ref.: #69480]	flagellated	no	93.871	yes
[Ref.: #69480]	gram-positive	yes	81.44	no
[Ref.: #69480]	anaerobic	no	98.263	yes
[Ref.: #69480]	aerobic	yes	93.44	no
[Ref.: #69480]	halophile	no	93.908	no
[Ref.: #69480]	spore-forming	no	91.744	yes
[Ref.: #69480]	glucose-util	yes	88.046	yes
[Ref.: #69480]	glucose-ferment	no	84.607	no
[Ref.: #69480]	thermophile	no	90.612	yes

Availability in culture collections External links

[Ref.: #15675]

Culture collection no.

DSM 21396, CGMCC 1.7299, JCM 16679

[Ref.: #73403]

SI-ID 405382

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Deinococcus citri sp. nov., isolated from citrus leaf canker lesions.	Ahmed I, Abbas S, Kudo T, Iqbal M, Fujiwara T, Ohkuma M	Int J Syst Evol Microbiol	10.1099/ijs.0.066555-0	2014	*
Phylogeny	Deinococcus gobiensis sp. nov., an extremely radiation-resistant bacterium.	Yuan M, Zhang W, Dai S, Wu J, Wang Y, Tao T, Chen M, Lin M	Int J Syst Evol Microbiol	10.1099/ijs.0.004523-0	2009	*

References

#15675

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21396

#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 )

#29035

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 #25465 (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) .

#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) .

#73403

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-ID405382.1 )

#25465

IJSEM 1513 2009 ( DOI 10.1099/ijs.0.004523-0 , PubMed 19502345 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Deinococcus gobiensis in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Deinococcus gobiensis I-0 I-0

Change proposal

Change proposal