Deinococcus yunweiensis (DSM 17005, KCTC 3962, YIM 007)

Name: Deinococcus yunweiensis (DSM 17005, KCTC 3962, YIM 007)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 3886

Type strain

Culture col. no. DSM 17005 KCTC 3962 YIM 007 KCTC 3955

NCBI tax ID(s) 367282

Special Collections DSMZ KCTC Literature strains

History <- W.-J. Li; YIM 007 <- WJ Li, Yunnan Institute of Microbiology, China

Links

Deinococcus yunweiensis DSM 17005 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from contaminated agar plate.

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

Name and taxonomic classification

SI-ID 232161

KCTC 3955,DSM 17005,KCTC 3962

@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 yunweiensis

Full scientific name Deinococcus yunweiensis Zhang et al. 2007

BacDive ID	Other strains from **Deinococcus yunweiensis** (1)	Type strain
139997	D. yunweiensis DSM 18567, KACC 11605

Morphology

Cell morphology

@ref	Gram stain	Cell shape
31791	negative	rod-shaped
67771		rod-shaped
67771	negative

Pigmentation

31791

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6685	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
6685	GLYCEROL-YEAST EXTRACT-PEPTONE MEDIUM (DSMZ Medium 1484)		Medium recipe at MediaDive	Name: Glycerol-Yeast extract-Peptone Medium (DSMZ Medium 1484) Composition: Agar 15.0 g/l Yeast extract 5.0 g/l Bacto peptone 3.0 g/l Betaine 1.25 g/l Sodium pyruvate 1.25 g/l MgSO4 x 7 H2O 0.03 g/l Nitrilotriacetic acid 0.015 g/l NaCl 0.01 g/l MnSO4 x H2O 0.005 g/l ZnSO4 x 7 H2O 0.0018 g/l CoSO4 x 7 H2O 0.0018 g/l FeSO4 x 7 H2O 0.001 g/l CaCl2 x 2 H2O 0.001 g/l NiCl2 x 6 H2O 0.0003 g/l AlK(SO4)2 x 12 H2O 0.0002 g/l Pyridoxine hydrochloride 0.0001 g/l Na2MoO4 x 2 H2O 0.0001 g/l H3BO3 0.0001 g/l CuSO4 x 5 H2O 0.0001 g/l (DL)-alpha-Lipoic acid 5e-05 g/l p-Aminobenzoic acid 5e-05 g/l Calcium D-(+)-pantothenate 5e-05 g/l Nicotinic acid 5e-05 g/l Riboflavin 5e-05 g/l Thiamine HCl 5e-05 g/l Folic acid 2e-05 g/l Biotin 2e-05 g/l Na2WO4 x 2 H2O 4e-06 g/l Na2SeO3 x 5 H2O 3e-06 g/l Vitamin B12 1e-06 g/l Glycerol Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
6685	positive	growth	28	mesophilic
31791	positive	growth	10-50
31791	positive	optimum	30	mesophilic
67771	positive	growth	28	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
31791	positive	optimum	7.25
31791	positive	growth	06-09	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
31791	aerobe
67771	aerobe

Spore formation

@ref	Spore formation
31791
67771

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31791	NaCl	positive	optimum	0-1 %

Observation

67771

Observationquinones: MK-8

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31791	22599 ChEBI	arabinose	+	carbon source
31791	24175 ChEBI	galacturonate	+	carbon source
31791	17234 ChEBI	glucose	+	carbon source
31791	15792 ChEBI	malonate	+	carbon source
31791	17306 ChEBI	maltose	+	carbon source
31791	29864 ChEBI	mannitol	+	carbon source
31791	28053 ChEBI	melibiose	+	carbon source
31791	26546 ChEBI	rhamnose	+	carbon source
31791	17814 ChEBI	salicin	+	carbon source
31791	30911 ChEBI	sorbitol	+	carbon source
31791	17992 ChEBI	sucrose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
31791	alpha-galactosidase	+	3.2.1.22
31791	catalase	+	1.11.1.6
31791	cytochrome oxidase	+	1.9.3.1
31791	urease	+	3.5.1.5

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Contamination	-
#Engineered	#Laboratory	#Lab enrichment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6685	contaminated agar plate	Yunnan Province	China	CHN	Asia
67771	From contaminated plate	Yunnan Province	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence DQ344634 (>99% sequence identity) for Deinococcus yunweiensis subclade from Microbeatlas

Aquatic Samples	841
Soil Samples	512
Animal Samples	649
Plant Samples	410
Total Samples	2412

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6685	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	NCBI tax ID	Score
124043	ASM4677495v1 assembly for Deinococcus yunweiensis KCTC 3955	complete	GCA_046774955	367282	97.79

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6685	Deinococcus yunweiensis strain YIM 007 16S ribosomal RNA gene, partial sequence	DQ344634	1459		367282

GC content

6685

GC-content (mol%)64.1

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Proteome	Exploring Andean High-Altitude Lake Extremophiles through Advanced Proteotyping.	Runzheimer K, Lozano C, Boy D, Boy J, Godoy R, Matus FJ, Engel D, Pavletic B, Leuko S, Armengaud J, Moeller R.	J Proteome Res	10.1021/acs.jproteome.3c00538	2024
Phylogeny	Deinococcus rufus sp. nov., isolated from soil near an iron factory.	Wang Q, Song Y, Choi L, Liu H, Wang G, Li M	Int J Syst Evol Microbiol	10.1099/ijsem.0.002724	2018
Phylogeny	Description of Deinococcus populi sp. nov. from the trunk surface of a Japanese aspen tree.	Li J, Kudo C, Tonouchi A	Arch Microbiol	10.1007/s00203-017-1443-5	2017
Phylogeny	Deinococcus yunweiensis sp. nov., a gamma- and UV-radiation-resistant bacterium from China.	Zhang YQ, Sun CH, Li WJ, Yu LY, Zhou JQ, Zhang YQ, Xu LH, Jiang CL	Int J Syst Evol Microbiol	10.1099/ijs.0.64292-0	2007

References

#6685	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17005
#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 )
#28062	IJSEM 370 2007 ( DOI 10.1099/ijs.0.64292-0 , PubMed 17267981 )
#31791	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 #28062
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 yunweiensis (DSM 17005, KCTC 3962, YIM 007)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

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_046774955

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

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