Name: Nocardia harenae WS-26
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 10817

Type strain:

Species: Nocardia harenae

Strain Designation: WS-26

Culture col. no.: DSM 45095, KCCM 42317, NRRL B-24459, JCM 14548, NBRC 108248

Strain history: KCCM 42317 <-- S. D. Lee WS-26.

NCBI tax ID(s): 1210074 (strain), 358707 (species)

SI-ID 298119

NRRL B-24459, JCM 14548, DSM 45095

Special Collections

Section

Nocardia harenae WS-26 is a spore-forming bacterium that was isolated from beach sand.

spore-forming
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	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Mycobacteriales*
	Family	*Nocardiaceae*
	Genus	*Nocardia*
	Species	**Nocardia harenae**
	Full Scientific Name (LPSN)	Nocardia harenae Seo and Lee 2006

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %92.637

[Ref.: #69480]	Motility	no Confidence in %92

[Ref.: #69372]	Colony color	Colourless
[Ref.: #69372]	Cultivation medium used	ISP 4

[Ref.: #69372]	Colony color	Beige red (3012)
[Ref.: #69372]	Cultivation medium used	ISP 3

[Ref.: #69372]	Colony color	Salmon pink (3022)
[Ref.: #69372]	Cultivation medium used	ISP 2

[Ref.: #69372]	Colony color	Salmon pink (3022)
[Ref.: #69372]	Cultivation medium used	ISP 5

[Ref.: #69372]	Colony color	Salmon pink (3022)
[Ref.: #69372]	Cultivation medium used	ISP 6

[Ref.: #69372]	Colony color	Salmon pink (3022)
[Ref.: #69372]	Cultivation medium used	ISP 7

[Ref.: #69372]	Colony color	Salmon pink (3022)
[Ref.: #69372]	Cultivation medium used	suter with tyrosine

[Ref.: #69372]	Colony color	Salmon pink (3022)
[Ref.: #69372]	Cultivation medium used	suter without tyrosine

[Ref.: #69372]	Pigment production	no
[Ref.: #69372]	Pigment name	Melanin
[Ref.: #69372]	Pigment production	yes
[Ref.: #69372]	Pigmentation color	Orange brown (8023)
[Ref.: #69372]	Pigment name	soluble pigment

[Ref.: #69372]	Multicellular complex forming ability	no
[Ref.: #69372]	Multicellular complex name	Aerial mycelium
[Ref.: #69372]	Medium Name (multicellularity)	ISP 2

[Ref.: #69372]	Multicellular complex forming ability	no
[Ref.: #69372]	Multicellular complex name	Aerial mycelium
[Ref.: #69372]	Medium Name (multicellularity)	ISP 3

[Ref.: #69372]	Multicellular complex forming ability	no
[Ref.: #69372]	Multicellular complex name	Aerial mycelium
[Ref.: #69372]	Medium Name (multicellularity)	ISP 4

[Ref.: #69372]	Multicellular complex forming ability	no
[Ref.: #69372]	Multicellular complex name	Aerial mycelium
[Ref.: #69372]	Medium Name (multicellularity)	ISP 5

[Ref.: #69372]	Multicellular complex forming ability	no
[Ref.: #69372]	Multicellular complex name	Aerial mycelium
[Ref.: #69372]	Medium Name (multicellularity)	ISP 6

[Ref.: #69372]	Multicellular complex forming ability	no
[Ref.: #69372]	Multicellular complex name	Aerial mycelium
[Ref.: #69372]	Medium Name (multicellularity)	ISP 7

[Ref.: #69372]	Multicellular complex forming ability	no
[Ref.: #69372]	Multicellular complex name	Aerial mycelium
[Ref.: #69372]	Medium Name (multicellularity)	suter with tyrosine

[Ref.: #69372]	Multicellular complex forming ability	no
[Ref.: #69372]	Multicellular complex name	Aerial mycelium
[Ref.: #69372]	Medium Name (multicellularity)	suter without tyrosine

Multimedia content

[Ref.: #12337]

Caption:

Medium 65 28°C

[Ref.: #12337]

Intellectual property rights:

[Ref.: #69372]

Caption:

Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)

[Ref.: #69372]

Intellectual property rights:

Helmholtz-Zentrum für Infektionsforschung GmbH

[Ref.: #69372]

Caption:

Plates (65, ISP2, ISP3, ISP4, ISP5, ISP7)

[Ref.: #69372]

Intellectual property rights:

Helmholtz-Zentrum für Infektionsforschung GmbH

Information on culture and growth conditions Culture and growth conditions

[Ref.: #12337]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #12337]

Culture medium growth

[Ref.: #12337]

Culture medium link

Medium recipe at MediaDive

[Ref.: #12337]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #12337]			growth	28 °C
[Ref.: #67770]			growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Oxygen tolerance

aerobe Confidence in %90.751

[Ref.: #69481]

Ability of spore formation

yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #69372]		NaCl		growth	0-2.5	%

[Ref.: #67770]

Observation

quinones: MK-8(H₄, ω-cycl)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #69372]	arabinose ChEBI	-	growth
[Ref.: #69372]	cellulose ChEBI	-	growth
[Ref.: #68379]	D-mannitol ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-ribose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	D-xylose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	esculin ChEBI	-	hydrolysis	* from API Coryne
[Ref.: #69372]	fructose ChEBI	-	growth
[Ref.: #68379]	gelatin ChEBI	-	hydrolysis	* from API Coryne
[Ref.: #69372]	glucose ChEBI	+	growth
[Ref.: #68379]	glycogen ChEBI	-	fermentation	* from API Coryne
[Ref.: #69372]	inositol ChEBI	-	growth
[Ref.: #68379]	lactose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	maltose ChEBI	-	fermentation	* from API Coryne
[Ref.: #69372]	mannose ChEBI	-	growth
[Ref.: #68379]	nitrate ChEBI	-	reduction	* from API Coryne
[Ref.: #69372]	raffinose ChEBI	-	growth
[Ref.: #69372]	rhamnose ChEBI	-	growth
[Ref.: #69372]	sucrose ChEBI	+/-	growth
[Ref.: #68379]	sucrose ChEBI	-	fermentation	* from API Coryne
[Ref.: #68379]	urea ChEBI	-	hydrolysis	* from API Coryne
[Ref.: #69372]	xylose ChEBI	-	growth
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68379]	alkaline phosphatase	+	3.1.3.1	* from API Coryne, 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.: #68379]	alpha-glucosidase	+	3.2.1.20	* from API Coryne, API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68379]	beta-galactosidase	-	3.2.1.23	* from API Coryne, API zym
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68379]	beta-glucosidase	-	3.2.1.21	* from API Coryne
[Ref.: #68379]	beta-glucuronidase	-	3.2.1.31	* from API Coryne, API zym
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68379]	gelatinase	-		* from API Coryne
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68379]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API Coryne, API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #68379]	pyrazinamidase	+	3.5.1.B15	* from API Coryne
[Ref.: #68379]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API Coryne
[Ref.: #68379]	urease	-	3.5.1.5	* from API Coryne
	Only first 10 entries are displayed. Click here to see all.

API® Coryne:

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

	API ID	Reduction of nitrateNIT	PyrazinamidasePYZ	Pyrrolidonyl arylamidasePYRA	Alkaline phosphatasePAL	beta-Glucuronidasebeta GUR	beta-Galactosidasebeta GAL	alpha-Glucosidasealpha GLU	N-Acetyl-beta-Glucosidasebeta NAG	Esculin hydrolysis/beta-GlucosidaseESC	Urease/urea hydrolysisURE	Gelatinase/gelatin hydrolysisGEL	Control fermentationControl	Fermentation of D-glucoseGLU	Fermentation of D-riboseRIB	Fermentation of D-xyloseXYL	Fermentation of D-mannitolMAN	Fermentation of maltoseMAL	Fermentation of lactoseLAC	Fermentation of sucroseSAC	Fermentation of glycogenGLYG	CatalaseCAT
[Ref.: #69372]	3865	-	+	-	+	-	-	+	-	-	-	-	not determinedn.d.	+/-	-	-	-	-	-	-	-	not determinedn.d.

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.: #69372]	6049	not determinedn.d.	+	+/-	+	+/-	+	+/-	-	+/-	-	+	+	-	-	-	+	+	-	-	-

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

[Ref.: #12337]	Sample type/isolated from	beach sand
[Ref.: #12337]	Geographic location (country and/or sea, region)	Jeju Island
[Ref.: #12337]	Country	Republic of Korea
[Ref.: #12337]	Country ISO 3 Code	KOR
[Ref.: #12337]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Beach sand on the coast of Jeju Island
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Coast
#Environmental	#Terrestrial	#Sandy

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GQ376170 (>99% sequence identity) for Nocardia harenae from Microbeatlas

Aquatic Samples	52
Soil Samples	263
Animal Samples	200
Plant Samples	5
Total Samples	520

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

[Ref.: #12337]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #67770]	Nocardia harenae 16S ribosomal RNA gene, partial sequence	GQ376170	1439	GenBank ENA	358707 tax ID
[Ref.: #12337]	Nocardia harenae strain WS-26 16S ribosomal RNA gene, partial sequence	DQ282122	1397	GenBank ENA	358707 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Nocardia harenae NBRC 108248	GCA_001612885	contig	GenBank ENA	1210074 tax ID
[Ref.: #66792]	Nocardia harenae NBRC 108248	1210074.4	wgs	PATRIC	1210074 tax ID	*
[Ref.: #66792]	Nocardia harenae NBRC 108248	2731957733	draft	JGI IMG/M	1210074 tax ID	*

[Ref.: #12337]	GC-content	68.9 mol%
[Ref.: #67770]	GC-content	68.9 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: Nocardia harenae NBRC 108248 PATRIC: 1210074.4
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Nocardia harenae NBRC 108248 PATRIC: 1210074.4
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	92.637	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	98.021	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	54.005	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	90.751	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	96.9	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	92	no

Availability in culture collections External links

[Ref.: #12337]

Culture collection no.

DSM 45095, KCCM 42317, NRRL B-24459, JCM 14548, NBRC 108248

[Ref.: #80079]

SI-ID 298119

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nocardiajiangsuensis sp. nov., an actinomycete isolated from coastal soil.	Bai JL, Wang Y, Qin S, Ding P, Xing K, Yuan B, Cao CL, Huang Y, Zhang YQ, Jiang JH	Int J Syst Evol Microbiol	10.1099/ijsem.0.001402	2016	*
Phylogeny	Nocardia harenae sp. nov., an actinomycete isolated from beach sand.	Seo JP, Lee SD	Int J Syst Evol Microbiol	10.1099/ijs.0.64187-0	2006	*

References

#12337

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45095

#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 )

#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;

#68379

Automatically annotated from API Coryne .

#68382

Automatically annotated from API zym .

#69372

Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .

#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 )

#80079

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-ID298119.1 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Nocardia harenae in external resources:
SILVA
BRENDA
PANGAEA
GBIF

Nocardia harenae NBRC 108248

Nocardia harenae NBRC 108248

Change proposal

Change proposal