Name: Streptomyces virginiae Ah-304
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 15098

Type strain:

Species: Streptomyces virginiae

Strain Designation: Ah-304

Culture col. no.: DSM 40803, ATCC 12308, CBS 411.63, IFO 3414, NBRC 3414, NRRL B-1588, JCM 4019, CECT 3198, CGMCC 4.1619, HUT 6050, IFO 15873, KCTC 9708, NBIMCC 67, NBRC 15873, NCIMB 12604, RIA 518, VKM Ac-1912

Strain history: KCC S-0019 <-- T. Yamaguchi (IAM 0020) <-- Y. Okami 154-T₄ (NIHJ 35).

NCBI tax ID(s): 1961 (species)

SI-ID 35533

ATCC 12308, IFO 3414, NRRL B-1588, JCM 4019, HUT 6050, IFO 15873, NCIMB 12604, IAM 0020, VKM Ac-1912, CBS 411.63, CECT 3198, KCTC 9708, AS 4.1619, NBRC 15873, NBRC 3414, NBIMCC 67, CGMCC 4.1619, DSM 40803

Other strains from Streptomyces virginiae

S. virginiae NA 255-88 (M808), DSM 40094, ATCC ... (type strain)
S. virginiae DSM 916, JCM 4974, NRRL 3630, UC ...
S. virginiae DSM 40669, IMRU 3652
S. virginiae ST005091(HKI), ChinaN-390,
S. virginiae ST005092(HKI), JA10088, IMET 40273
S. virginiae JCM 4093, IFO 3392, NBRC 3392

Section

Streptomyces virginiae Ah-304 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from Soil.

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 virginiae**
	Full Scientific Name (LPSN)	Streptomyces virginiae Grundy et al. 1952 (Approved Lists 1980)

Synonym

Streptomyces cinnamonensis

Information on morphological and physiological properties Morphology

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

[Ref.: #69480]	Motility	no Confidence in %92.591

[Ref.: #19489]	Colony color	Beige
[Ref.: #19489]	Incubation period	10-14 days
[Ref.: #19489]	Cultivation medium used	ISP 2

[Ref.: #19489]	Colony color	Beige
[Ref.: #19489]	Incubation period	10-14 days
[Ref.: #19489]	Cultivation medium used	ISP 3

[Ref.: #19489]	Colony color	Beige
[Ref.: #19489]	Incubation period	10-14 days
[Ref.: #19489]	Cultivation medium used	ISP 4

[Ref.: #19489]	Colony color	Yellow
[Ref.: #19489]	Incubation period	10-14 days
[Ref.: #19489]	Cultivation medium used	ISP 5

[Ref.: #19489]	Colony color	Yellow
[Ref.: #19489]	Incubation period	10-14 days
[Ref.: #19489]	Cultivation medium used	ISP 7

[Ref.: #19489]	Incubation period	10-14 days
[Ref.: #19489]	Cultivation medium used	ISP 6

[Ref.: #19489]	Multicellular complex forming ability	yes
[Ref.: #19489]	Multicellular complex name	Aerial Mycelium
[Ref.: #19489]	Multicellular complex color	White
[Ref.: #19489]	Medium Name (multicellularity)	ISP 2

[Ref.: #19489]	Multicellular complex forming ability	yes
[Ref.: #19489]	Multicellular complex name	Aerial Mycelium
[Ref.: #19489]	Multicellular complex color	White
[Ref.: #19489]	Medium Name (multicellularity)	ISP 3

[Ref.: #19489]	Multicellular complex forming ability	yes
[Ref.: #19489]	Multicellular complex name	Aerial Mycelium
[Ref.: #19489]	Multicellular complex color	Gray
[Ref.: #19489]	Medium Name (multicellularity)	ISP 4

[Ref.: #19489]	Multicellular complex forming ability	yes
[Ref.: #19489]	Multicellular complex name	Aerial Mycelium
[Ref.: #19489]	Multicellular complex color	Gray
[Ref.: #19489]	Medium Name (multicellularity)	ISP 5

[Ref.: #19489]	Multicellular complex forming ability	no
[Ref.: #19489]	Medium Name (multicellularity)	ISP 6

[Ref.: #19489]	Multicellular complex forming ability	yes
[Ref.: #19489]	Multicellular complex name	Aerial Mycelium
[Ref.: #19489]	Multicellular complex color	Red
[Ref.: #19489]	Medium Name (multicellularity)	ISP 7

Information on culture and growth conditions Culture and growth conditions

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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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Culture medium

ISP 6

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Culture medium growth

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Culture medium composition

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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

STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #9809]	growth	28 °C
[Ref.: #19489]	optimum	28 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #9809]	Temperature range	mesophilic
[Ref.: #19489]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #19489]	Spore description	Formation of spore chains (rectiflixibilis), spore surface smooth
[Ref.: #19489]	Type of spore	spore
[Ref.: #19489]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100

[Ref.: #9809]	Name of produced compound	actithiazic acid
[Ref.: #9809]	Name of produced compound	anti-mycobacterial antibiotic
[Ref.: #9809]	Name of produced compound	biotin antagonist
[Ref.: #19489]	Name of produced compound	Cephamycin B
[Ref.: #19489]	Name of produced compound	Phenazine antibiotic
[Ref.: #19489]	Name of produced compound	Kirrothricin
[Ref.: #19489]	Name of produced compound	Monensin

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #19489]		NaCl		maximum	2.5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #19489]	arabinose ChEBI	-
[Ref.: #68368]	arginine ChEBI	+	hydrolysis	* from API 20E
[Ref.: #19489]	cellulose ChEBI	-
[Ref.: #68368]	citrate ChEBI	-	assimilation	* from API 20E
[Ref.: #19489]	fructose ChEBI	-
[Ref.: #68368]	gelatin ChEBI	-	hydrolysis	* from API 20E
[Ref.: #19489]	glucose ChEBI	+
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #19489]	mannitol ChEBI	-
[Ref.: #19489]	myo-inositol ChEBI	-
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #19489]	raffinose ChEBI	-
[Ref.: #19489]	rhamnose ChEBI	-
[Ref.: #19489]	sucrose ChEBI	-
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	-	hydrolysis	* from API 20E
[Ref.: #19489]	xylose ChEBI	-
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #68368]	acetoin ChEBI	no	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	yes	* 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.: #19489]	347	-	+	-	-	-	+	-	+	-	-	-	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.: #67770]	Sample type/isolated from	Soil
[Ref.: #67770]	Geographic location (country and/or sea, region)	Kanegasaki, Iwate Pref.
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence DQ227422 (>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.: #9809]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #19489]	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 cinnamonensis strain CBS 411.63 16S ribosomal RNA gene	DQ227422	1353	ENA	1900 tax ID	*
[Ref.: #20218]	Streptomyces cinnamonensis strain JCM 4019 16S ribosomal RNA gene, partial sequence	AY999746	1434	ENA	1900 tax ID	*
[Ref.: #20218]	Streptomyces cinnamonensis gene for 16S ribosomal RNA, partial sequence, strain: JCM 4019	D43988	120	ENA	1900 tax ID	*
[Ref.: #20218]	Streptomyces cinnamonensis gene for 16S rRNA, partial sequence, strain: NBRC 15873	AB184707	1470	ENA	1900 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Streptomyces virginiae NBRC 15873	GCA_016755835	contig	GenBank	1961 tax ID
[Ref.: #66792]	Streptomyces virginiae DSM 40803	GCA_017876235	contig	GenBank	1961 tax ID	*
[Ref.: #66792]	Streptomyces virginiae JCM 4019	GCA_014648795	scaffold	GenBank	1961 tax ID	*
[Ref.: #66792]	Streptomyces cinnamonensis strain DSM 40803	1900.14	wgs	PATRIC	1900 tax ID	*
[Ref.: #66792]	Streptomyces cinnamonensis strain JCM 4019	1900.12	wgs	PATRIC	1900 tax ID	*
[Ref.: #66792]	Streptomyces cinnamonensis strain NBRC 15873	1900.13	wgs	PATRIC	1900 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 cinnamonensis JCM 4019 NCBI: GCA_014648795.1
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Streptomyces cinnamonensis JCM 4019 NCBI: GCA_014648795.1
[Ref.: #69480]	flagellated	no	97.526	no
[Ref.: #69480]	gram-positive	yes	86.455	no
[Ref.: #69480]	anaerobic	no	99.098	no
[Ref.: #69480]	aerobic	yes	88.167	no
[Ref.: #69480]	halophile	no	95.64	no
[Ref.: #69480]	spore-forming	yes	94.61	yes
[Ref.: #69480]	thermophile	no	99.21	yes
[Ref.: #69480]	glucose-util	yes	89.864	yes
[Ref.: #69480]	motile	no	94.03	no
[Ref.: #69480]	glucose-ferment	no	89.013	no

Availability in culture collections External links

[Ref.: #9809]

Culture collection no.

DSM 40803, ATCC 12308, CBS 411.63, IFO 3414, NBRC 3414, NRRL B-1588, JCM 4019, CECT 3198, CGMCC 4.1619, HUT 6050, IFO 15873, KCTC 9708, NBIMCC 67, NBRC 15873, NCIMB 12604, RIA 518, VKM Ac-1912

[Ref.: #84205]

SI-ID 35533

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Streptomyces manipurensis sp. nov., a novel actinomycete isolated from a limestone deposit site in Manipur, India.	Nimaichand S, Zhu WY, Yang LL, Ming H, Nie GX, Tang SK, Ningthoujam DS, Li WJ	Antonie Van Leeuwenhoek	10.1007/s10482-012-9720-4	2012	*

References

#9809

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 40803

#19489

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 )

#84205

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-ID35533.1 )

* These data were automatically processed and therefore are not curated

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Streptomyces cinnamonensis JCM 4019

Streptomyces cinnamonensis JCM 4019

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