Name: Streptomyces goshikiensis DSM 40190
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 15254

Type strain:

Species: Streptomyces goshikiensis

Culture col. no.: DSM 40190, ATCC 23914, CBS 835.68, IFO 12868, ISP 5190, NBRC 12868, RIA 1144, JCM 4294, BCRC 12330, CCUG 11121, CGMCC 4.1961, IMET 42067, JCM 4640, NCIMB 9828, NRRL B-5428, VKM Ac-1212

Strain history: KCC S-0294 <-- S. T. Williams A-105 <-- ISP 5190 <-- Meiji Seika Kaisha, Ltd..

NCBI tax ID(s): 1942 (species)

SI-ID 92906

ATCC 23914, IFO 12868, DSM 40190, JCM 4294, CCRC 12330, CCUG 11121, IMET 42067, NCIMB 9828, NRRL B-5428, VKM Ac-1212, JCM 4640, IFO5190, NBRC 12868, BCRC 12330, NCIB 9828, CGMCC 4.1961, CBS 835.68

Section

Streptomyces goshikiensis DSM 40190 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 goshikiensis**
	Full Scientific Name (LPSN)	Streptomyces goshikiensis Niida 1966 (Approved Lists 1980)

Information on morphological and physiological properties Morphology

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

[Ref.: #69480]	Motility	no Confidence in %92.141

Information on culture and growth conditions Culture and growth conditions

[Ref.: #9252]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #9252]

Culture medium growth

[Ref.: #9252]

Culture medium link

Medium recipe at MediaDive

[Ref.: #9252]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #9252]	growth	28 °C
[Ref.: #18554]	optimum	28 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #9252]	Temperature range	mesophilic
[Ref.: #18554]	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.: #9252]	Name of produced compound	bandamycin A
[Ref.: #9252]	Name of produced compound	bandamycin B
[Ref.: #9252]	Name of produced compound	pentaene antibiotic
[Ref.: #9252]	Name of produced compound	bandamycin A, B
[Ref.: #9252]	Name of produced compound	restriction endonuclease
[Ref.: #20216]	Name of produced compound	Bandamycin A
[Ref.: #20216]	Name of produced compound	Bandamycin B
[Ref.: #20216]	Name of produced compound	Pentaenic antibiotic
[Ref.: #20216]	Name of produced compound	Endonuclease SgoI

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #18554]	arabinose ChEBI	-
[Ref.: #68368]	arginine ChEBI	+	hydrolysis	* from API 20E
[Ref.: #18554]	cellulose ChEBI	+
[Ref.: #68368]	citrate ChEBI	+	assimilation	* from API 20E
[Ref.: #18554]	fructose ChEBI	+
[Ref.: #68368]	gelatin ChEBI	+	hydrolysis	* from API 20E
[Ref.: #18554]	glucose ChEBI	+
[Ref.: #68368]	lysine ChEBI	+	degradation	* from API 20E
[Ref.: #18554]	mannitol ChEBI	-
[Ref.: #18554]	myo-inositol ChEBI	+
[Ref.: #68368]	ornithine ChEBI	+	degradation	* from API 20E
[Ref.: #18554]	raffinose ChEBI	+
[Ref.: #18554]	rhamnose ChEBI	+
[Ref.: #18554]	sucrose ChEBI	+
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	+	hydrolysis	* from API 20E
[Ref.: #18554]	xylose ChEBI	+
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #67770]	bandamycin	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.: #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.: #68368]	arginine dihydrolase	+	3.5.3.6	* from API 20E
[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.: #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.: #68368]	gelatinase	+		* from API 20E
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68368]	lysine decarboxylase	+	4.1.1.18	* from API 20E
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #68368]	ornithine decarboxylase	+	4.1.1.17	* from API 20E
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #68368]	urease	+	3.5.1.5	* from API 20E
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #18554]	114	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.	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.: #18554]	228	not determinedn.d.	+	+	-	-	+	+	+	+	+	+	+	-	-	-	+	+	+	-	-

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

[Ref.: #9252]	Sample type/isolated from	soil
[Ref.: #9252]	Country	Japan
[Ref.: #9252]	Country ISO 3 Code	JPN
[Ref.: #9252]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Fukushima Pref.
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[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 EF178693 (>99% sequence identity) for Streptomyces from Microbeatlas

Aquatic Samples	1680
Soil Samples	19336
Animal Samples	1702
Plant Samples	3681
Total Samples	26399

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

[Ref.: #18554]	Biosafety level	1	German classification
[Ref.: #9252]	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 goshikiensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4294	D44044	120	ENA	1942 tax ID	*
[Ref.: #20218]	Streptomyces goshikiensis gene for 16S rRNA, partial sequence, strain: NBRC 12868	AB184204	1452	ENA	1942 tax ID	*
[Ref.: #20218]	Streptomyces goshikiensis strain NRRL B-5428 16S ribosomal RNA gene, partial sequence	EF178693	1481	ENA	1942 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Streptomyces goshikiensis JCM 4640	GCA_014650555	scaffold	GenBank	1942 tax ID	*
[Ref.: #66792]	Streptomyces goshikiensis strain JCM 4640	1942.3	wgs	PATRIC	1942 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 goshikiensis JCM 4640 NCBI: GCA_014650555.1
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Streptomyces goshikiensis JCM 4640 NCBI: GCA_014650555.1
[Ref.: #69480]	flagellated	no	97.4	no
[Ref.: #69480]	gram-positive	yes	87.025	no
[Ref.: #69480]	anaerobic	no	98.868	no
[Ref.: #69480]	aerobic	yes	86.835	no
[Ref.: #69480]	halophile	no	95.782	no
[Ref.: #69480]	spore-forming	yes	94.26	no
[Ref.: #69480]	glucose-util	yes	90.307	yes
[Ref.: #69480]	thermophile	no	99.202	yes
[Ref.: #69480]	motile	no	93.362	no
[Ref.: #69480]	glucose-ferment	no	89.06	no

Availability in culture collections External links

[Ref.: #9252]

Culture collection no.

DSM 40190, ATCC 23914, CBS 835.68, IFO 12868, ISP 5190, NBRC 12868, RIA 1144, JCM 4294, BCRC 12330, CCUG 11121, CGMCC 4.1961, IMET 42067, JCM 4640, NCIMB 9828, NRRL B-5428, VKM Ac-1212

[Ref.: #84350]

SI-ID 92906

References

#9252

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 40190

#18554

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 )

#20216

Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI) Curators of the HKI: Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI) .

#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 .

#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 )

#84350

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-ID92906.1 )

* These data were automatically processed and therefore are not curated

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Streptomyces goshikiensis JCM 4640

Streptomyces goshikiensis JCM 4640

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