Name: Deinococcus aerolatus 5516T-9
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 3897

Type strain:

Species: Deinococcus aerolatus

Strain Designation: 5516T-9

Culture col. no.: DSM 24781, JCM 15442, KACC 12745, CIP 110188

Strain history: CIP <- 2010, KACC

NCBI tax ID(s): 522487 (species)

SI-ID 370167

JCM 15442, KACC 12745, DSM 24781, CIP 110188

Special Collections

Section

Deinococcus aerolatus 5516T-9 is an aerobe, Gram-positive, coccus-shaped bacterium that was isolated from air sample.

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 aerolatus**
	Full Scientific Name (LPSN)	Deinococcus aerolatus Yoo et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #29569]	Gram stain	positive
[Ref.: #116073]	Gram stain	positive

[Ref.: #29569]	Cell width	1.45 µm

[Ref.: #29569]	Cell shape	coccus-shaped
[Ref.: #116073]	Cell shape	coccus-shaped

[Ref.: #29569]	Motility	no
[Ref.: #116073]	Motility	no

[Ref.: #29569]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #17769]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #17769]

Culture medium growth

[Ref.: #17769]

Culture medium link

Medium recipe at MediaDive

[Ref.: #17769]

Culture medium composition

expand / minimize

[Ref.: #41026]

Culture medium

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

[Ref.: #41026]

Culture medium growth

[Ref.: #41026]

Culture medium composition

expand / minimize

[Ref.: #116073]

Culture medium

CIP Medium 566

[Ref.: #116073]

Culture medium growth

[Ref.: #116073]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #17769]	growth	28 °C
[Ref.: #29569]	growth	05-40 °C
[Ref.: #29569]	optimum	30 °C
[Ref.: #41026]	growth	30 °C
[Ref.: #67770]	growth	30 °C

	pH	Kind of pH		pH
[Ref.: #29569]			optimum	7
[Ref.: #29569]			growth	07-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29569]

Oxygen tolerance

aerobe

[Ref.: #69481]

Ability of spore formation

no Confidence in %92

	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]	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.: #116073]	nitrate ChEBI	-	reduction
[Ref.: #116073]	nitrite ChEBI	-	reduction
[Ref.: #29569]	proline ChEBI	+	carbon source
[Ref.: #29569]	salicin ChEBI	+	carbon source
[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.: #116073]		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.: #116073]	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.: #116073]	oxidase	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #116073]	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.: #116073]	12426	-	+	+	+	-	+	+	-	-	-	+	+	-	+	-	+	-	-	-	-

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

[Ref.: #17769]	Sample type/isolated from	air sample
[Ref.: #17769]	Geographic location (country and/or sea, region)	Taean region
[Ref.: #17769]	Country	Republic of Korea
[Ref.: #17769]	Country ISO 3 Code	KOR
[Ref.: #17769]	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.: #116073]	Sample type/isolated from	Environment, Air sample
[Ref.: #116073]	Geographic location (country and/or sea, region)	Taean region
[Ref.: #116073]	Country	Republic of Korea
[Ref.: #116073]	Country ISO 3 Code	KOR
[Ref.: #116073]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Air

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EU622978 (>99% sequence identity) for Deinococcus aerolatus subclade from Microbeatlas

Aquatic Samples	152
Soil Samples	142
Animal Samples	905
Plant Samples	34
Total Samples	1233

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

[Ref.: #17769]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #116073]	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.: #17769]	Deinococcus aerolatus strain 5516T-9 16S ribosomal RNA gene, partial sequence	EU622978	1394	GenBank ENA	522487 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Deinococcus aerolatus JCM 15442	GCA_014647055	scaffold	GenBank ENA	522487 tax ID	*
[Ref.: #66792]	Deinococcus aerolatus strain JCM 15442	522487.3	wgs	PATRIC	522487 tax ID	*

[Ref.: #17769]	GC-content	61.0 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29569]	GC-content	61 mol%
[Ref.: #67770]	GC-content	61 mol%	high performance liquid chromatography (HPLC)

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 aerolatus JCM 15442 NCBI: GCA_014647055.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	92	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Deinococcus aerolatus JCM 15442 NCBI: GCA_014647055.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	54.084	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	93.181	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	81.2	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	75.295	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	83.849	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	71.797	yes

Availability in culture collections External links

[Ref.: #17769]

Culture collection no.

DSM 24781, JCM 15442, KACC 12745, CIP 110188

[Ref.: #73407]

SI-ID 370167

Literature:

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Deinococcus swuensis sp. nov., a gamma-radiation-resistant bacterium isolated from soil.	Lee JJ, Lee HJ, Jang GS, Yu JM, Cha JY, Kim SJ, Lee EB, Kim MK	J Microbiol	10.1007/s12275-013-3023-y	2013	*
Phylogeny	Deinococcus humi sp. nov., isolated from soil.	Srinivasan S, Lee JJ, Lim S, Joe M, Kim MK	Int J Syst Evol Microbiol	10.1099/ijs.0.037234-0	2012	*
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

#17769

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 24781

#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)

#41026 ; 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 .

#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) .

#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 )

#73407

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-ID370167.1 )

#116073 Collection of Institut Pasteur ; Curators of the CIP; CIP 110188

#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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