Name: Deinococcus rufus W37
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 158723

Type strain:

Species: Deinococcus rufus

Strain Designation: W37

Culture col. no.: KCTC 33913, CCTCC AB 2017081

Strain history: <- Qian Wang and Choi lina, Huzhong Agricultural Univ.

NCBI tax ID(s): 2136097 (species)

Section

Deinococcus rufus W37 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from soil near an iron factory in Busan.

colony-forming
Gram-negative
rod-shaped
aerobe
mesophilic
16S sequence
Bacteria

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 rufus**
	Full Scientific Name (LPSN)	Deinococcus rufus Wang et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #65470]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative

[Ref.: #65470]	Cell length	1.5-1.6 µm

[Ref.: #65470]	Cell width	0.5-0.6 µm

[Ref.: #65470]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #65470]	Motility	no
[Ref.: #67771]	Motility	no

[Ref.: #65470]	Colony color	reddish
[Ref.: #65470]	Colony shape	circular
[Ref.: #65470]	Incubation period	3 days
[Ref.: #65470]	Cultivation medium used	ISP 2 medium

Information on culture and growth conditions Culture and growth conditions

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Culture medium

ISP 2 medium

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Culture medium growth

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Culture medium

Reasoner's 2A agar

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Culture medium growth

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Culture medium

ISP 2 agar

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Culture medium growth

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Culture medium

NA agar

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Culture medium growth

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Culture medium

1/10 trypton soy agar

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Culture medium growth

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Culture medium

LB (Luria-Bertani) MEDIUM

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #65470]			optimum	28 °C
[Ref.: #67771]			growth	28 °C

[Ref.: #65470]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #65470]			optimum	7

Information on physiology and metabolism Physiology and metabolism

[Ref.: #65470]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #65470]		NaCl		optimum	0-1	%

[Ref.: #65470]	Observation	Flagella are not been observed by SEM and TEM
[Ref.: #65470]	Observation	major polar lipids are an unidentified phosphoglycolipid, an unidentified aminophospholipid, four unidentified glycolipids, two unidentified phospholipids and an unidentified lipid
[Ref.: #65470]	Observation	menaquinone MK-8 is the predominant quinine
[Ref.: #67771]	Observation	quinones: MK-8

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #65470]	3-hydroxybenzoate ChEBI	-	growth
[Ref.: #65470]	3-hydroxybutyrate ChEBI	+	growth
[Ref.: #65470]	5-dehydro-D-gluconate ChEBI	-	growth
[Ref.: #65470]	adipate ChEBI	-	growth
[Ref.: #65470]	cellobiose ChEBI	+	growth
[Ref.: #65470]	cellulose ChEBI	-	hydrolysis
[Ref.: #65470]	D-fructose ChEBI	+	growth
[Ref.: #65470]	D-galactose ChEBI	+	growth
[Ref.: #65470]	D-glucose ChEBI	+	growth
[Ref.: #65470]	D-ribose ChEBI	+	growth
[Ref.: #65470]	D-sorbitol ChEBI	+	growth
[Ref.: #65470]	D-xylose ChEBI	+	growth
[Ref.: #65470]	decanoate ChEBI	-	growth
[Ref.: #65470]	gelatin ChEBI	+	assimilation
[Ref.: #65470]	glycogen ChEBI	+	growth
[Ref.: #65470]	isocitrate ChEBI	-	growth
[Ref.: #65470]	L-alanine ChEBI	-	growth
[Ref.: #65470]	L-arabinose ChEBI	+	growth
[Ref.: #65470]	L-fucose ChEBI	+	growth
[Ref.: #65470]	L-histidine ChEBI	-	growth
[Ref.: #65470]	L-malate ChEBI	-	growth
[Ref.: #65470]	L-rhamnose ChEBI	+	growth
[Ref.: #65470]	L-serine ChEBI	+	growth
[Ref.: #65470]	lactate ChEBI	-	growth
[Ref.: #65470]	lactate ChEBI	+	growth
[Ref.: #65470]	maltose ChEBI	+	growth
[Ref.: #65470]	mannitol ChEBI	+	growth
[Ref.: #65470]	mannose ChEBI	+	growth
[Ref.: #65470]	myo-inositol ChEBI	+	growth
[Ref.: #65470]	N-acetylglucosamine ChEBI	+	growth
[Ref.: #65470]	nitrate ChEBI	-	reduction
[Ref.: #65470]	phenylalanine ChEBI	-	hydrolysis
[Ref.: #65470]	salicin ChEBI	+	growth
[Ref.: #65470]	salicylate ChEBI	+	growth
[Ref.: #65470]	sodium acetate ChEBI	-	growth
[Ref.: #65470]	sodium citrate ChEBI	-	growth
[Ref.: #65470]	starch ChEBI	-	hydrolysis
[Ref.: #65470]	suberic acid ChEBI	-	growth
[Ref.: #65470]	succinate ChEBI	-	growth
[Ref.: #65470]	sucrose ChEBI	+	growth
[Ref.: #65470]	tween 20 ChEBI	-	hydrolysis
[Ref.: #65470]	tween 40 ChEBI	-	hydrolysis
[Ref.: #65470]	tween 60 ChEBI	-	hydrolysis
[Ref.: #65470]	tween 80 ChEBI	-	hydrolysis
[Ref.: #65470]	tyrosine ChEBI	-	hydrolysis
[Ref.: #65470]	valerate ChEBI	-	growth
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	Metabolite production	Metabolite	Production
[Ref.: #65470]		sulfide ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #65470]	acid phosphatase	+	3.1.3.2
[Ref.: #65470]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #65470]	alpha-fucosidase	-	3.2.1.51
[Ref.: #65470]	alpha-galactosidase	-	3.2.1.22
[Ref.: #65470]	alpha-glucosidase	+	3.2.1.20
[Ref.: #65470]	alpha-mannosidase	-	3.2.1.24
[Ref.: #65470]	arginine dihydrolase	+	3.5.3.6
[Ref.: #65470]	beta-galactosidase	+	3.2.1.23
[Ref.: #65470]	beta-glucosidase	+	3.2.1.21
[Ref.: #65470]	beta-glucuronidase	-	3.2.1.31
[Ref.: #65470]	catalase	+	1.11.1.6
[Ref.: #65470]	cytochrome oxidase	+	1.9.3.1
[Ref.: #65470]	esterase	+
[Ref.: #65470]	esterase Lipase (C 8)	+
[Ref.: #65470]	lipase	-
[Ref.: #65470]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #65470]	trypsin	-	3.4.21.4
[Ref.: #65470]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #65470]

Fatty acid	Percentage
C16:1ω7c and/or C15:0 Iso 2OH	38.1
0,666666667	17.4
C17:1ω8c	9.3
C17:1 isoω9c	8.2
C17:0 iso	5
0,708333333	3.8
C16:1ω9c	3.6
C17:1ω6c	2.2
C18:1ω9c	1.8
0,625	1.7
C15:1ω6c	1.5
C18:1ω7c	1.5
C16:0 iso	0.9
C15:0 ISO	0.8
0,75	0.6
C17:0 anteiso	0.6
C17:1 anteisoω9c	0.6
C16:1 ISO H	0.6

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

[Ref.: #65470]	Sample type/isolated from	soil near an iron factory in Busan
[Ref.: #65470]	Geographic location	35.1641°/128.9760°
[Ref.: #65470]	Enrichment culture duration	1 week
[Ref.: #65470]	Enrichment culture temperature	28 ̊C
[Ref.: #65470]	Isolation/enrichment procedure	soil sample was diluted serially in saline solution (0.85 %, w/v), spread on Reasoner's 2A agar

[Ref.: #67771]	Sample type/isolated from	From wide-area sand district hang hole
[Ref.: #67771]	Geographic location (country and/or sea, region)	Busan
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Contamination	#Heavy metal
#Engineered	#Industrial	#Plant (Factory)
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KY689943 (>99% sequence identity) for Deinococcus yunweiensis subclade from Microbeatlas

Aquatic Samples	375
Soil Samples	150
Animal Samples	788
Plant Samples	51
Total Samples	1364

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.: #65470]	16S rRNA gene sequence	KY689943		GenBank

[Ref.: #65470]	GC-content	69 mol%
[Ref.: #67771]	GC-content	69.0 mol%

Availability in culture collections External links

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Culture collection no.

KCTC 33913, CCTCC AB 2017081

Literature:

Topic	Title	Authors	Journal	DOI	Year
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	*

References

#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 )

#65470

Qian Wang, Yali Song, Lina Choi, Hongyu Liu, Gejiao Wang, Mingshun Li: Deinococcus rufus sp. nov., isolated from soil near an iron factory. IJSEM 68: 1622 - 1626 2018 ( DOI 10.1099/ijsem.0.002724 , PubMed 29561256 )

#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 .

* These data were automatically processed and therefore are not curated

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