Nocardioides insulae (DSM 17944, CIP 109626, KCTC 19180)

Name: Nocardioides insulae (DSM 17944, CIP 109626, KCTC 19180)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11120

Type strain

Strain Designation DS-51

Culture col. no. DSM 17944 CIP 109626 KCTC 19180 DS-51 JCM 15308

NCBI tax ID(s) 1122610 394734

Special Collections DSMZ JCM KCTC CIP Wink compendium Literature strains

History <- J.-H. Yoon; DS-51 KCTC 19180 <-- J.-H. Yoon DS-51. <- JH Yoon, KRIBB CIP <- 2007, DSMZ <- J.H. Yoon, KRIBB, Taejon, Korea: strain DS-51

Links

Nocardioides insulae DS-51 is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from soil.

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

Name and taxonomic classification

SI-ID 297274

DSM 17944,KCTC 19180,CIP 109626,JCM 15308

@ref 20215

Last LPSN update 2026-02-09 11:20:27

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Propionibacteriales

Family Nocardioidaceae

Genus Nocardioides

Species Nocardioides insulae

Full scientific name Nocardioides insulae Yoon et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
31895	positive	3.65 µm	0.8 µm	rod-shaped
67771	positive
120139	positive			rod-shaped
125438					91
125438	positive				91.068
125439	positive				99.3

Colony morphology

@ref	Colony color	Incubation period	Medium used
18409	Lemon yellow (1012)	10-14 days	ISP 2
18409	Beige (1001)	10-14 days	ISP 3
18409	Beige (1001)	10-14 days	ISP 4
18409	Beige (1001)	10-14 days	ISP 5
18409	Lemon yellow (1012)	10-14 days	ISP 6
18409	Lemon yellow (1012)	10-14 days	ISP 7

Multicellular morphology

@ref	Forms multicellular complex	Medium name
18409		ISP 2
18409		ISP 3
18409		ISP 4
18409		ISP 5
18409		ISP 6
18409		ISP 7

Pigmentation

31895

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
7280	TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)	Medium recipe at MediaDive	Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
18409	ISP 2		Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
18409	ISP 3		Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
18409	ISP 4		Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
18409	ISP 5		Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
18409	ISP 6		Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
18409	ISP 7		Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
33314	MEDIUM 328- for nutrient agar		Distilled water make up to (1000.000 ml);Agar (15.000 g);Peptone (5.000g);Beef extract (3.000 g)
120139	CIP Medium 328	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
7280	positive	growth	28	mesophilic
18409	positive	optimum	28	mesophilic
31895	positive	growth	10-34
31895	positive	optimum	30	mesophilic
33314	positive	growth	30	mesophilic
67770	positive	growth	28	mesophilic
67771	positive	growth	30	mesophilic

Culture pH

@ref	Ability	Type	PH
31895	positive	optimum	8
31895	positive	growth	6.5-8

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
31895	aerobe
67771	aerobe
120139	obligate aerobe
125438	aerobe	91.896
125439	obligate aerobe	99.1

Spore formation

31895

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31895	NaCl	positive	optimum	0-3 %

Observation

67770

Observationquinones: MK-8(H₄)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31895	30089 ChEBI	acetate	+	carbon source
31895	17057 ChEBI	cellobiose	+	carbon source
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
68379	4853 ChEBI	esculin	-	hydrolysis	from API Coryne
31895	28260 ChEBI	galactose	+	carbon source
68379	5291 ChEBI	gelatin	+	hydrolysis	from API Coryne
31895	17234 ChEBI	glucose	+	carbon source
31895	29987 ChEBI	glutamate	+	carbon source
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
31895	25115 ChEBI	malate	+	carbon source
31895	17306 ChEBI	maltose	+	carbon source
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
31895	37684 ChEBI	mannose	+	carbon source
31895	17632 ChEBI	nitrate	+	reduction
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
120139	17632 ChEBI	nitrate	+	reduction
120139	16301 ChEBI	nitrite	-	reduction
31895	15361 ChEBI	pyruvate	+	carbon source
31895	17814 ChEBI	salicin	+	carbon source
68379	17992 ChEBI	sucrose	+	fermentation	from API Coryne
31895	27082 ChEBI	trehalose	+	carbon source
68379	16199 ChEBI	urea	+	hydrolysis	from API Coryne
31895	18222 ChEBI	xylose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
120139	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
31895	alkaline phosphatase	+	3.1.3.1
68379	alkaline phosphatase	+	3.1.3.1	from API Coryne
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68379	alpha-glucosidase	+	3.2.1.20	from API Coryne
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	-	3.2.1.23	from API zym
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68382	beta-glucosidase	-	3.2.1.21	from API zym
68379	beta-glucosidase	-	3.2.1.21	from API Coryne
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
120139	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
31895	cytochrome oxidase	+	1.9.3.1
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
68379	gelatinase	+		from API Coryne
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
120139	oxidase	+
68379	pyrazinamidase	+	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	+	3.4.19.3	from API Coryne
120139	urease	-	3.5.1.5
68379	urease	+	3.5.1.5	from API Coryne
68382	valine arylamidase	-		from API zym

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
18409	-	+	+	+	-	-	+	-	-	+	+	not determinedn.d.	-	-	-	-	-	-	+	-	not determinedn.d.

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
18409	not determinedn.d.	+	+	+	-	+	-	-	+	-	+	+	-	-	-	+	-	-	-	-
120139	-	+	+	+	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
7280	soil	Dokdo	Republic of Korea	KOR	Asia
67770	Soil
67771	From soil	Dokdo	Republic of Korea	KOR	Asia
120139	Environment, Soil	Dokdo island	Republic of Korea	KOR	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7280	1	Risk group (German classification) According to TRBA 466
18409	1	German classification According to TRBA 466
120139	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM42282v1 assembly for Nocardioides insulae DSM 17944	scaffold	GCA_000422825	1122610.3	2524614651	1122610	74.38

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7280	Nocardioides insulae strain DS-51 16S ribosomal RNA gene, partial sequence	DQ786794	1484		394734

GC content

@ref	GC-content (mol%)	Method
7280	71.1
67770	71.1	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Nocardioides insulae DSM 17944
NCBI: GCA_000422825

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.10	no
125439	gram_stain	BacteriaNetⓘ	positive	99.30	no
125439	motility	BacteriaNetⓘ	no	74.60	no
125439	spore_formation	BacteriaNetⓘ	no	62.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Nocardioides insulae DSM 17944
PATRIC: 1122610.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.07	no
125438	anaerobic	anaerobicⓘ	no	98.07	yes
125438	spore-forming	spore-formingⓘ	no	61.42	yes
125438	aerobic	aerobicⓘ	yes	91.90	yes
125438	thermophilic	thermophileⓘ	no	98.11	no
125438	flagellated	motile2+ⓘ	no	91.00	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Pan-Genome Analysis Reveals Host-Specific Functional Divergences in Burkholderia gladioli.	Lee HH, Park J, Jung H, Seo YS.	Microorganisms	10.3390/microorganisms9061123	2021
Genetics	Noncontiguous finished genome sequence and description of Nocardioides massiliensis sp. nov. GD13(T).	Dubourg G, Sankar SA, Rathored J, Lagier JC, Robert C, Couderc C, Papazian L, Raoult D, Fournier PE.	New Microbes New Infect	10.1016/j.nmni.2016.01.001	2016
Phylogeny	Nocardioides fonticola sp. nov., a novel actinomycete isolated from spring water.	Chou JH, Cho NT, Arun AB, Young CC, Chen WM	Int J Syst Evol Microbiol	10.1099/ijs.0.65810-0	2008
Phylogeny	Nocardioides insulae sp. nov., isolated from soil.	Yoon JH, Kang SJ, Lee CH, Oh TK	Int J Syst Evol Microbiol	10.1099/ijs.0.64612-0	2007

References

#7280	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17944
#18409	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 )
#28154	IJSEM 136 2007 ( DOI 10.1099/ijs.0.64612-0 , PubMed 17220455 )
#31895	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 #28154
#33314	; Curators of the CIP;
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#120139	Collection of Institut Pasteur ; Curators of the CIP; CIP 109626
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#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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Nocardioides insulae (DSM 17944, CIP 109626, KCTC 19180)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Metabolite production

Enzymes

API coryne

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000422825

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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