Name: Streptomyces djakartensis FH 1279
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 15128

Type strain:

Species: Streptomyces djakartensis

Strain Designation: FH 1279

Culture col. no.: DSM 40743, ATCC 13441, JCM 4957, CGMCC 4.1674, IFO 15409, KCTC 9722, NBRC 15409, NRRL B-12103

Strain history: KCC S-0957 <-- DSM 40743 <-- Farbwerke Hoechst AG, FH 1279.

NCBI tax ID(s): 68193 (species)

SI-ID 35810

ATCC 13441, DSM 40743, JCM 4957, NRRL B-12103, IFO 15409, KCTC 9722, AS 4.1674, NBRC 15409, CGMCC 4.1674

Special Collections

Section

Streptomyces djakartensis FH 1279 is a spore-forming bacterium that builds an aerial mycelium and produces antibiotic compounds.

antibiotic compound production
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	*Kitasatosporales*
	Family	*Streptomycetaceae*
	Genus	*Streptomyces*
	Species	**Streptomyces djakartensis**
	Full Scientific Name (LPSN)	Streptomyces djakartensis Huber et al. 1962 (Approved Lists 1980)

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %90.274

[Ref.: #19485]	Colony color	Beige
[Ref.: #19485]	Incubation period	10-14 days
[Ref.: #19485]	Cultivation medium used	ISP 2

[Ref.: #19485]	Colony color	Beige
[Ref.: #19485]	Incubation period	10-14 days
[Ref.: #19485]	Cultivation medium used	ISP 4

[Ref.: #19485]	Colony color	White
[Ref.: #19485]	Incubation period	10-14 days
[Ref.: #19485]	Cultivation medium used	ISP 5

[Ref.: #19485]	Incubation period	10-14 days
[Ref.: #19485]	Cultivation medium used	ISP 3

[Ref.: #19485]	Incubation period	10-14 days
[Ref.: #19485]	Cultivation medium used	ISP 6

[Ref.: #19485]	Incubation period	10-14 days
[Ref.: #19485]	Cultivation medium used	ISP 7

[Ref.: #19485]	Multicellular complex forming ability	no
[Ref.: #19485]	Medium Name (multicellularity)	ISP 2

[Ref.: #19485]	Multicellular complex forming ability	no
[Ref.: #19485]	Medium Name (multicellularity)	ISP 3

[Ref.: #19485]	Multicellular complex forming ability	yes
[Ref.: #19485]	Multicellular complex name	Aerial Mycelium
[Ref.: #19485]	Multicellular complex color	White
[Ref.: #19485]	Medium Name (multicellularity)	ISP 4

[Ref.: #19485]	Multicellular complex forming ability	no
[Ref.: #19485]	Medium Name (multicellularity)	ISP 5

[Ref.: #19485]	Multicellular complex forming ability	no
[Ref.: #19485]	Medium Name (multicellularity)	ISP 6

[Ref.: #19485]	Multicellular complex forming ability	no
[Ref.: #19485]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

[Ref.: #9762]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

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Culture medium

ISP 2

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 3

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 4

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Culture medium growth

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Culture medium composition

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Culture medium

ISP 5

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Culture medium growth

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Culture medium composition

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[Ref.: #19485]

Culture medium

ISP 6

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Culture medium growth

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Culture medium composition

expand / minimize

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Culture medium

ISP 7

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Culture medium growth

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Culture medium composition

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Culture medium

ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #9762]	growth	28 °C
[Ref.: #19485]	optimum	28 °C
[Ref.: #67770]	growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]	Ability of spore formation	yes Confidence in %91.821
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100

[Ref.: #9762]	Name of produced compound	niddamycin
[Ref.: #9762]	Name of produced compound	antibiotic F3463
[Ref.: #19485]	Name of produced compound	Niddamycin

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #19485]		NaCl		maximum	5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #19485]	arabinose ChEBI	+
[Ref.: #68368]	arginine ChEBI	-	hydrolysis	* from API 20E
[Ref.: #19485]	cellulose ChEBI	-
[Ref.: #68368]	citrate ChEBI	+	assimilation	* from API 20E
[Ref.: #19485]	fructose ChEBI	+
[Ref.: #68368]	gelatin ChEBI	+	hydrolysis	* from API 20E
[Ref.: #19485]	glucose ChEBI	+
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #19485]	mannitol ChEBI	+
[Ref.: #19485]	myo-inositol ChEBI	+
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #19485]	raffinose ChEBI	+
[Ref.: #19485]	rhamnose ChEBI	+
[Ref.: #19485]	sucrose ChEBI	+
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	+	hydrolysis	* from API 20E
[Ref.: #19485]	xylose ChEBI	-
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #67770]	niddamycin ChEBI	yes
[Ref.: #68368]	acetoin ChEBI	yes	* 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.: #19485]	344	-	-	-	-	+	-	+	-	-	+	+	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.: #9762]	Sample type/isolated from	soil
[Ref.: #9762]	Geographic location (country and/or sea, region)	Java, Djakarta
[Ref.: #9762]	Country	Indonesia
[Ref.: #9762]	Country ISO 3 Code	IDN
[Ref.: #9762]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Djakarta
[Ref.: #67770]	Country	Indonesia
[Ref.: #67770]	Country ISO 3 Code	IDN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB184657 (>99% sequence identity) for Streptomyces from Microbeatlas

Aquatic Samples
Soil Samples	12
Animal Samples	16
Plant Samples
Total Samples	28

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

[Ref.: #9762]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #19485]	Biosafety level	1	Risk group (German 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.: #20218]	Streptomyces djakartensis gene for 16S rRNA, partial sequence	AB122780	565	GenBank ENA	68193 tax ID	*
[Ref.: #20218]	Streptomyces djakartensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4957	D44420	121	GenBank ENA	68193 tax ID	*
[Ref.: #20218]	Streptomyces djakartensis strain KCTC 9722 16S ribosomal RNA gene, partial sequence	AY999828	1420	GenBank ENA	68193 tax ID	*
[Ref.: #20218]	Streptomyces djakartensis gene for 16S rRNA, partial sequence, strain: NBRC 15409	AB184657	1481	GenBank ENA	68193 tax ID	*
[Ref.: #20218]	Streptomyces djakartensis gene for 16S ribosomal RNA, partial sequence, strain: NBRC 15409	AB915627	1138	GenBank ENA	68193 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Streptomyces djakartensis JCM 4957	GCA_014651075	scaffold	GenBank ENA	68193 tax ID
[Ref.: #66792]	Streptomyces djakartensis strain JCM 4957	68193.3	wgs	PATRIC	68193 tax ID	*

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: Streptomyces djakartensis JCM 4957 NCBI: GCA_014651075.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Streptomyces djakartensis strain JCM 4957 PATRIC: 68193.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	90.274	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	96.499	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	91.821	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	86.829	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	92.5	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	87	no

Availability in culture collections External links

[Ref.: #9762]

Culture collection no.

DSM 40743, ATCC 13441, JCM 4957, CGMCC 4.1674, IFO 15409, KCTC 9722, NBRC 15409, NRRL B-12103

[Ref.: #84233]

SI-ID 35810

References

#9762

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 40743

#19485

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 )

#84233

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-ID35810.1 )

* These data were automatically processed and therefore are not curated

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Streptomyces djakartensis JCM 4957

Streptomyces djakartensis strain JCM 4957

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