Name: Streptomyces narbonensis DSM 40016
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 15420

Type strain:

Species: Streptomyces narbonensis

Culture col. no.: DSM 40016, ATCC 19790, CBS 542.68, IFO 12801, ISP 5016, JCM 4147, NBRC 12801, RIA 1069, ETH 7346, BCRC 13651, CBS 310.55, CCM 4151, CGMCC 4.1737, JCM 4596, NRRL B-1680, RIA 529, VKM Ac-1891

Strain history: KCC S-0147 <-- Y. Okami (NIHJ 181) <-- ETH 7346.

NCBI tax ID(s): 67333 (species)

SI-ID 389353

ATCC 19790, IFO 12801, DSM 40016, JCM 4147, CCRC 13651, NRRL B-1680, JCM 4596, CCM 4151, VKM Ac-1891, CBS 542.68, CBS 310.55, NBRC 12801, BCRC 13651, CGMCC 4.1737, LMG 20043

Section

Streptomyces narbonensis DSM 40016 is a spore-forming, mesophilic bacterium that produces antibiotic compounds and was isolated from soil.

antibiotic compound production
spore-forming
mesophilic
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	*Kitasatosporales*
	Family	*Streptomycetaceae*
	Genus	*Streptomyces*
	Species	**Streptomyces narbonensis**
	Full Scientific Name (LPSN)	Streptomyces narbonensis Corbaz et al. 1955 (Approved Lists 1980)

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #69480]	Motility	no Confidence in %93.313

Information on culture and growth conditions Culture and growth conditions

[Ref.: #9217]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #9217]

Culture medium growth

[Ref.: #9217]

Culture medium link

Medium recipe at MediaDive

[Ref.: #9217]

Culture medium composition

expand / minimize

[Ref.: #9217]

Culture medium

ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)

[Ref.: #9217]

Culture medium growth

[Ref.: #9217]

Culture medium link

Medium recipe at MediaDive

[Ref.: #9217]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #9217]	growth	28 °C
[Ref.: #18464]	optimum	30 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #9217]	Temperature range	mesophilic
[Ref.: #18464]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]	Ability of spore formation	yes Confidence in %100
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100

[Ref.: #9217]

Name of produced compound

narbomycin

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #18464]		NaCl		maximum	2.5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #18464]	arabinose ChEBI	+
[Ref.: #68368]	arginine ChEBI	-	hydrolysis	* from API 20E
[Ref.: #18464]	cellulose ChEBI	-
[Ref.: #68368]	citrate ChEBI	+	assimilation	* from API 20E
[Ref.: #18464]	fructose ChEBI	+
[Ref.: #68368]	gelatin ChEBI	+	hydrolysis	* from API 20E
[Ref.: #18464]	glucose ChEBI	+
[Ref.: #68368]	lysine ChEBI	+	degradation	* from API 20E
[Ref.: #18464]	mannitol ChEBI	-
[Ref.: #18464]	myo-inositol ChEBI	-
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #18464]	raffinose ChEBI	+
[Ref.: #18464]	rhamnose ChEBI	-
[Ref.: #18464]	sucrose ChEBI	+
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	+	hydrolysis	* from API 20E
[Ref.: #18464]	xylose ChEBI	+
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #67770]	narbomycin ChEBI	yes
[Ref.: #68368]	acetoin ChEBI	no	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68368]	indole ChEBI	no	* from API 20E

	Physiological tests	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #68368]		acetoin ChEBI	-		* from API 20E
[Ref.: #68368]		indole ChEBI		-	* from API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68368]	arginine dihydrolase	-	3.5.3.6	* from API 20E
[Ref.: #68368]	beta-galactosidase	+	3.2.1.23	* from API 20E
[Ref.: #68368]	gelatinase	+		* from API 20E
[Ref.: #68368]	lysine decarboxylase	+	4.1.1.18	* from API 20E
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[Ref.: #68368]	tryptophan deaminase	+	4.1.99.1	* from API 20E
[Ref.: #68368]	urease	+	3.5.1.5	* from API 20E

API® 20E:

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

	API ID	beta-GalactosidaseONPG	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Ornithine decarboxylaseODC	Citrate utilizationCIT	H2S productionH2S	Urease/urea hydrolysisURE	Tryptophan deaminaseTDA (Trp)	Indole productionIND	Acetoin production (Voges Proskauer test)VP	Gelatinase/gelatin hydrolysisGEL	Fermentation/oxidation of D-glucoseGLU	Fermentation/oxidation of D-mannitolMAN	Fermentation/oxidation of inositolINO	Fermentation/oxidation of sorbitolSor	Fermentation/oxidation of L-rhamnoseRHA	Fermentation/oxidation of sucroseSAC	Fermentation/oxidation of melibioseMEL	Fermentation/oxidation of amygdalinAMY	Fermentation/oxidation of L-arabinoseARA	Cytochrome oxidaseOX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	Oxidative catabolisation of D-glucoseOF-O	Fermentation of D-glucoseOF-F
[Ref.: #18464]	49	+	-	+	-	+	-	+	+	-	-	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

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

[Ref.: #9217]	Sample type/isolated from	soil
[Ref.: #9217]	Country	France
[Ref.: #9217]	Country ISO 3 Code	FRA
[Ref.: #9217]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Cannes, Côte d'Azur
[Ref.: #67770]	Country	France
[Ref.: #67770]	Country ISO 3 Code	FRA
[Ref.: #67770]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB184157 (>99% sequence identity) for Streptomyces from Microbeatlas

Aquatic Samples	336
Soil Samples	6254
Animal Samples	471
Plant Samples	2191
Total Samples	9252

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

[Ref.: #18464]	Biosafety level	1	German classification
[Ref.: #9217]	Biosafety level	1	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.: #20218]	Streptomyces narbonensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4596	D44255	120	ENA	67333 tax ID	*
[Ref.: #20218]	Streptomyces narbonensis gene for 16S rRNA, partial sequence, strain: NBRC 12801	AB184157	1473	ENA	67333 tax ID	*
[Ref.: #20218]	Streptomyces narbonensis strain NRRL B-1680 16S ribosomal RNA gene, partial sequence	DQ445794	1510	ENA	67333 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Streptomyces narbonensis JCM 4147	GCA_014649015	scaffold	GenBank	67333 tax ID	*
[Ref.: #66792]	Streptomyces narbonensis strain JCM 4147	67333.3	wgs	PATRIC	67333 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Streptomyces narbonensis JCM 4147 NCBI: GCA_014649015.1
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Streptomyces narbonensis JCM 4147 NCBI: GCA_014649015.1
[Ref.: #69480]	flagellated	no	97.513	no
[Ref.: #69480]	gram-positive	yes	89.172	no
[Ref.: #69480]	anaerobic	no	99.35	no
[Ref.: #69480]	aerobic	yes	94.031	no
[Ref.: #69480]	halophile	no	93.439	no
[Ref.: #69480]	spore-forming	yes	94.155	no
[Ref.: #69480]	glucose-util	yes	89.422	yes
[Ref.: #69480]	thermophile	no	99.027	no
[Ref.: #69480]	motile	no	94.525	no
[Ref.: #69480]	glucose-ferment	no	87.944	no

Availability in culture collections External links

[Ref.: #9217]

Culture collection no.

DSM 40016, ATCC 19790, CBS 542.68, IFO 12801, ISP 5016, JCM 4147, NBRC 12801, RIA 1069, ETH 7346, BCRC 13651, CBS 310.55, CCM 4151, CGMCC 4.1737, JCM 4596, NRRL B-1680, RIA 529, VKM Ac-1891

[Ref.: #84508]

SI-ID 389353

References

#9217

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 40016

#18464

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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#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;

#68368

Automatically annotated from API 20E .

#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 )

#84508

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-ID389353.1 )

* These data were automatically processed and therefore are not curated

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Streptomyces narbonensis JCM 4147

Streptomyces narbonensis JCM 4147

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