Streptomyces goshikiensis (DSM 40190, ATCC 23914, CBS 835.68)

Name: Streptomyces goshikiensis (DSM 40190, ATCC 23914, CBS 835.68)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 15254

Type strain

Culture col. no. DSM 40190 ATCC 23914 CBS 835.68 IFO 12868 ISP 5190 11 more

NCBI tax ID(s) 1942

Special Collections DSMZ CCUG JCM Wink compendium

History <- E.B. Shirling, ISP <- M. Oda, Meiji Seiko Co KCC S-0294 <-- S. T. Williams A-105 <-- ISP 5190 <-- Meiji Seika Kaisha, Ltd..

Links

Streptomyces goshikiensis DSM 40190 is a bacterium that produces antibiotic compounds and was isolated from soil.

antibiotic compound production genome sequence 16S sequence Bacteria

Name and taxonomic classification

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

@ref 20215

Last LPSN update 2026-02-09 11:21:38

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Kitasatosporales

Family Streptomycetaceae

Genus Streptomyces

Species Streptomyces goshikiensis

Full scientific name Streptomyces goshikiensis Niida 1966 (Approved Lists 1980)

Synonyms (1)

Streptomyces sporoverrucosus

Morphology

Cell morphology

@ref	Gram stain	Confidence	Motility
125439	positive	99.8
125439		92.7

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
9252	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)		Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
9252	positive	growth	28
18554	positive	optimum	28
67770	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.5

Spore formation

@ref	Spore formation	Confidence
125439		95.2
125438		90.183

Compound production

@ref	Compound
9252	bandamycin A
9252	bandamycin B
9252	pentaene antibiotic
9252	bandamycin A, B
9252	restriction endonuclease
20216	Bandamycin A
20216	Bandamycin B
20216	Pentaenic antibiotic
20216	Endonuclease SgoI

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
18554	22599 ChEBI	arabinose	-
68368	29016 ChEBI	arginine	+	hydrolysis	from API 20E
18554	62968 ChEBI	cellulose	+
68368	16947 ChEBI	citrate	+	assimilation	from API 20E
18554	28757 ChEBI	fructose	+
68368	5291 ChEBI	gelatin	+	hydrolysis	from API 20E
18554	17234 ChEBI	glucose	+
68368	25094 ChEBI	lysine	+	degradation	from API 20E
18554	29864 ChEBI	mannitol	-
18554	17268 ChEBI	myo-inositol	+
68368	18257 ChEBI	ornithine	+	degradation	from API 20E
18554	16634 ChEBI	raffinose	+
18554	26546 ChEBI	rhamnose	+
18554	17992 ChEBI	sucrose	+
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68368	16199 ChEBI	urea	+	hydrolysis	from API 20E
18554	18222 ChEBI	xylose	+

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
67770		bandamycin
68368	16136 ChEBI	hydrogen sulfide	from API 20E
68368	35581 ChEBI	indole	from API 20E

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Indole test
68368	15688 ChEBI	acetoin	-		from API 20E
68368	35581 ChEBI	indole		-	from API 20E

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
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
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68368	arginine dihydrolase	+	3.5.3.6	from API 20E
68382	beta-galactosidase	-	3.2.1.23	from API zym
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68382	cystine arylamidase	+	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	-		from API zym
68368	gelatinase	+		from API 20E
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68368	lysine decarboxylase	+	4.1.1.18	from API 20E
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
68368	ornithine decarboxylase	+	4.1.1.17	from API 20E
68382	trypsin	+	3.4.21.4	from API zym
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
68368	urease	+	3.5.1.5	from API 20E
68382	valine arylamidase	+		from API zym

API 20E

@ref	ONPG	ADH (Arg)	LDC (Lys)	ODC	CIT	H2S productionH2S	URE	TDA (Trp)	IND	Acetoin production (Voges Proskauer test)VP	GEL	GLU	MAN	INO	Sor	RHA	SAC	MEL	AMY	ARA	OX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	OF-O	OF-F
18554	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

@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
18554	not determinedn.d.	+	+	-	-	+	+	+	+	+	+	+	-	-	-	+	+	+	-	-

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
9252	soil		Japan	JPN	Asia
67770	Soil	Fukushima Pref.	Japan	JPN	Asia

Taxonmaps

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

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
9252	1	Risk group (German classification) According to TRBA 466
18554	1	German classification According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1465055v1 assembly for Streptomyces goshikiensis JCM 4640	scaffold	GCA_014650555	1942.3	8109623608	1942	68.79
124043	ASM4265994v1 assembly for Streptomyces goshikiensis JCM 4640	contig	GCA_042659945			1942	40.2
124043	ASM4266214v1 assembly for Streptomyces goshikiensis JCM 4640	scaffold	GCA_042662145			1942	9.25

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Streptomyces goshikiensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4294	D44044	120	1942
20218	Streptomyces goshikiensis gene for 16S rRNA, partial sequence, strain: NBRC 12868	AB184204	1452	1942
20218	Streptomyces goshikiensis strain NRRL B-5428 16S ribosomal RNA gene, partial sequence	EF178693	1481	1942
124043	Streptomyces goshikiensis strain JCM 4640 16S ribosomal RNA gene, partial sequence.	MT760590	1392	1942

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Streptomyces goshikiensis JCM 4640
NCBI: GCA_014650555

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	95.20	no
125439	motility	BacteriaNetⓘ	no	92.70	no
125439	gram_stain	BacteriaNetⓘ	positive	99.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Streptomyces goshikiensis JCM 4640
NCBI: GCA_014650555.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.45	no
125438	anaerobic	anaerobicⓘ	no	96.33	no
125438	aerobic	aerobicⓘ	yes	89.32	no
125438	spore-forming	spore-formingⓘ	yes	90.18	no
125438	thermophilic	thermophileⓘ	no	96.50	no
125438	flagellated	motile2+ⓘ	no	87.10	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Transcriptome	Proposal of Streptomyces sporoverrucosus Gause et al. 1983 as a later heterotypic synonym of Streptomyces goshikiensis Niida et al. 1966 and an emended description of Streptomyces goshikiensis.	Mo P, Xu L, Chen D, Chen Z, Li B.	Antonie Van Leeuwenhoek	10.1007/s10482-023-01827-y	2023
Genetics	Bacteriobiota of the Cave Church of Sts. Peter and Paul in Serbia-Culturable and Non-Culturable Communities' Assessment in the Bioconservation Potential of a Peculiar Fresco Painting.	Dimkic I, Copic M, Petrovic M, Stupar M, Savkovic Z, Knezevic A, Subakov Simic G, Ljaljevic Grbic M, Unkovic N.	Int J Mol Sci	10.3390/ijms24021016	2023

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	Curators of the HKI: Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI) . 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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Streptomyces goshikiensis (DSM 40190, ATCC 23914, CBS 835.68)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Compound production

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014650555

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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