Name: Deinococcus aerophilus 5516T-11
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 3898

Type strain:

Species: Deinococcus aerophilus

Strain Designation: 5516T-11

Culture col. no.: DSM 24869, JCM 15443, KACC 12746, CIP 110189

Strain history: CIP <- 2010, KACC

NCBI tax ID(s): 522488 (species)

SI-ID 370168

JCM 15443, KACC 12746, DSM 24869, CIP 110189

Special Collections

Section

Deinococcus aerophilus 5516T-11 is an aerobe, Gram-positive, coccus-shaped bacterium that was isolated from air.

coccus-shaped
Gram-positive
aerobe
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 aerophilus**
	Full Scientific Name (LPSN)	Deinococcus aerophilus Yoo et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #29569]	Gram stain	positive
[Ref.: #116077]	Gram stain	positive

[Ref.: #29569]	Cell width	1.7 µm

[Ref.: #29569]	Cell shape	coccus-shaped
[Ref.: #116077]	Cell shape	coccus-shaped

[Ref.: #29569]	Motility	no
[Ref.: #116077]	Motility	no

[Ref.: #29569]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #17794]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #17794]

Culture medium growth

[Ref.: #17794]

Culture medium link

Medium recipe at MediaDive

[Ref.: #17794]

Culture medium composition

expand / minimize

[Ref.: #41027]

Culture medium

MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati

[Ref.: #41027]

Culture medium growth

[Ref.: #41027]

Culture medium composition

expand / minimize

[Ref.: #116077]

Culture medium

CIP Medium 566

[Ref.: #116077]

Culture medium growth

[Ref.: #116077]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #17794]	growth	28 °C
[Ref.: #29569]	growth	05-45 °C
[Ref.: #29569]	optimum	30 °C
[Ref.: #41027]	growth	30 °C
[Ref.: #67770]	growth	30 °C

	pH	Kind of pH		pH
[Ref.: #29569]			optimum	7
[Ref.: #29569]			growth	06-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29569]	Oxygen tolerance	aerobe
[Ref.: #116077]	Oxygen tolerance	obligate aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29569]		NaCl		growth	0-1	%

[Ref.: #67770]

Observation

quinones: MK-8

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29569]	adipate ChEBI	+	carbon source
[Ref.: #29569]	esculin ChEBI	+	hydrolysis
[Ref.: #29569]	glucose ChEBI	+	carbon source
[Ref.: #29569]	glycogen ChEBI	+	carbon source
[Ref.: #29569]	histidine ChEBI	+	carbon source
[Ref.: #29569]	maltose ChEBI	+	carbon source
[Ref.: #29569]	mannitol ChEBI	+	carbon source
[Ref.: #29569]	mannose ChEBI	+	carbon source
[Ref.: #29569]	melibiose ChEBI	+	carbon source
[Ref.: #116077]	nitrate ChEBI	-	reduction
[Ref.: #116077]	nitrite ChEBI	-	reduction
[Ref.: #29569]	serine ChEBI	+	carbon source
[Ref.: #29569]	sorbitol ChEBI	+	carbon source
[Ref.: #29569]	sucrose ChEBI	+	carbon source
[Ref.: #29569]	valerate ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #116077]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	+	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #29569]	catalase	+	1.11.1.6
[Ref.: #116077]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #29569]	gelatinase	+
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #116077]	oxidase	-
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #116077]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #116077]	12427	-	+	+	-	-	+	-	-	+	+	+	+	-	+	-	+	-	-	-	-

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

[Ref.: #17794]	Sample type/isolated from	air
[Ref.: #17794]	Geographic location (country and/or sea, region)	Taean region
[Ref.: #17794]	Country	Republic of Korea
[Ref.: #17794]	Country ISO 3 Code	KOR
[Ref.: #17794]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Air sample from Taean region
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #116077]	Sample type/isolated from	Environment, Air sample
[Ref.: #116077]	Geographic location (country and/or sea, region)	Taean region
[Ref.: #116077]	Country	Republic of Korea
[Ref.: #116077]	Country ISO 3 Code	KOR
[Ref.: #116077]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Air

What are isolation sources categories?

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

[Ref.: #17794]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #116077]	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.: #17794]	Deinococcus aerophilus strain 5516T-11 16S ribosomal RNA gene, partial sequence	EU622979	1430	GenBank ENA	522488 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Deinococcus aerophilus JCM 15443	GCA_014647075	scaffold	GenBank ENA	522488 tax ID	*
[Ref.: #66792]	Deinococcus aerophilus strain JCM 15443	522488.3	wgs	PATRIC	522488 tax ID	*

[Ref.: #17794]	GC-content	59.3 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29569]	GC-content	59.3 mol%

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Deinococcus aerophilus JCM 15443 NCBI: GCA_014647075.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	82	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Deinococcus aerophilus JCM 15443 NCBI: GCA_014647075.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	51.957	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	93.143	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	83.873	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	76.75	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	86.166	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	73.287	yes

Availability in culture collections External links

[Ref.: #17794]

Culture collection no.

DSM 24869, JCM 15443, KACC 12746, CIP 110189

[Ref.: #73408]

SI-ID 370168

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Deinococcus budaensis sp. nov., a mesophilic species isolated from a biofilm sample of a hydrothermal spring cave.	Makk J, Toth EM, Anda D, Pal S, Schumann P, Kovacs AL, Madl-Szonyi J, Marialigeti K, Borsodi AK	Int J Syst Evol Microbiol	10.1099/ijsem.0.001519	2016	*
Phylogeny	Deinococcus aerolatus sp. nov. and Deinococcus aerophilus sp. nov., isolated from air samples.	Yoo SH, Weon HY, Kim SJ, Kim YS, Kim BY, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijs.0.016030-0	2009	*

References

#17794

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 24869

#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 )

#29569

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 #25964 (see below)

#41027 ; Curators of the CIP;

#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;

#68382

Automatically annotated from API zym .

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#73408

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-ID370168.1 )

#116077 Collection of Institut Pasteur ; Curators of the CIP; CIP 110189

#25964

IJSEM 1191 2010 ( DOI 10.1099/ijs.0.016030-0 , PubMed 19667390 )

* These data were automatically processed and therefore are not curated

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