Name: Streptomyces daghestanicus DSM 40149
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 15120

Type strain:

Species: Streptomyces daghestanicus

Culture col. no.: DSM 40149, ATCC 19747, ATCC 23620, CBS 486.68, IFO 12762, INA 2656/55, ISP 5149, JCM 4365, NBRC 12762, RIA 1028, BCRC 11468, CGMCC 4.1690, NRRL B-5418, VKM Ac-1722, VKM Ac-1862

Strain history: KCC S-0365 <-- IFO 12762 <-- SAJ <-- ISP 5149 <-- INA 2656/55.

NCBI tax ID(s): 66885 (species)

SI-ID 386964

ATCC 23620, ATCC 19747, IFO 12762, DSM 40149, JCM 4365, CCRC 11468, NRRL B-5418, VKM Ac-1722, VKM Ac-1862, CBS 486.68, AS 4.169, NBRC 12762, BCRC 11468, CGMCC 4.1690

Special Collections

Section

Streptomyces daghestanicus DSM 40149 is a spore-forming bacterium that produces antibiotic compounds and was isolated from soil.

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 daghestanicus**
	Full Scientific Name (LPSN)	Streptomyces daghestanicus (Sveshnikova 1957) Pridham et al. 1958 (Approved Lists 1980)

Synonym

"Actinomyces daghestanicus"

Information on culture and growth conditions Culture and growth conditions

[Ref.: #9349]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #9349]

Culture medium growth

[Ref.: #9349]

Culture medium link

Medium recipe at MediaDive

[Ref.: #9349]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #9349]	growth	28 °C
[Ref.: #18547]	optimum	28 °C
[Ref.: #67770]	growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Oxygen tolerance

aerobe Confidence in %90.719

[Ref.: #69480]	Ability of spore formation	yes Confidence in %93.098
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100

[Ref.: #9349]

Name of produced compound

etamycin

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #18547]	arabinose ChEBI	+
[Ref.: #68368]	arginine ChEBI	-	hydrolysis	* from API 20E
[Ref.: #18547]	cellulose ChEBI	+
[Ref.: #68368]	citrate ChEBI	+	assimilation	* from API 20E
[Ref.: #18547]	fructose ChEBI	+
[Ref.: #68368]	gelatin ChEBI	+	hydrolysis	* from API 20E
[Ref.: #18547]	glucose ChEBI	+
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #18547]	mannitol ChEBI	+
[Ref.: #18547]	myo-inositol ChEBI	+
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #18547]	raffinose ChEBI	+
[Ref.: #18547]	rhamnose ChEBI	+
[Ref.: #18547]	sucrose ChEBI	+
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	+	hydrolysis	* from API 20E
[Ref.: #18547]	xylose ChEBI	+
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #67770]	etamycin	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.: #68368]	beta-galactosidase	+	3.2.1.23	* from API 20E, 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.: #18547]	107	+	-	-	-	+	-	+	-	-	-	+	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.: #18547]	224	not determinedn.d.	+	+	+	+	+	+	-	+	-	+	+	-	+	-	+	+	-	+	-

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

[Ref.: #9349]	Sample type/isolated from	soil
[Ref.: #9349]	Geographic location (country and/or sea, region)	Daghestan
[Ref.: #9349]	Country	Russia
[Ref.: #9349]	Country ISO 3 Code	RUS
[Ref.: #9349]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Soil
[Ref.: #67770]	Country	Russia
[Ref.: #67770]	Country ISO 3 Code	RUS
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ442497 (>99% sequence identity) for Streptomyces from Microbeatlas

Aquatic Samples	5
Soil Samples	39
Animal Samples	85
Plant Samples
Total Samples	129

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

[Ref.: #18547]	Biosafety level	1	German classification
[Ref.: #9349]	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.: #67770]	Streptomyces daghestanicus JCM 4365 gene for 16S rRNA, partial sequence	LC506592	1462	GenBank ENA	66885 tax ID
[Ref.: #20218]	Streptomyces daghestanicus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4365	D44082	120	GenBank ENA	66885 tax ID	*
[Ref.: #20218]	Streptomyces griseoviridis gene for 16S rRNA, partial sequence, strain: NBRC 12762	AB184125	1445	GenBank ENA	45398 tax ID	*
[Ref.: #20218]	Streptomyces daghestanicus strain NRRL B-5418T 16S ribosomal RNA gene, partial sequence	DQ442497	1481	GenBank ENA	66885 tax ID	*
[Ref.: #20218]	Streptomyces daghestanicus strain NRRL B-5418 16S ribosomal RNA gene, partial sequence	KJ027122	481	GenBank ENA	66885 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.: #66792]	Streptomyces daghestanicus JCM 4365	GCA_014649475	scaffold	GenBank ENA	66885 tax ID	*
[Ref.: #66792]	Streptomyces daghestanicus NBRC 12762	GCA_020521275	contig	GenBank ENA	66885 tax ID	*
[Ref.: #66792]	Streptomyces daghestanicus strain JCM 4365	66885.4	wgs	PATRIC	66885 tax ID	*
[Ref.: #66792]	Streptomyces daghestanicus strain NBRC 12762	66885.7	wgs	PATRIC	66885 tax ID	*
[Ref.: #66792]	Streptomyces daghestanicus strain NBRC 12762	66885.5	wgs	PATRIC	66885 tax ID	*
[Ref.: #66792]	Streptomyces daghestanicus strain NBRC 12762	66885.6	wgs	PATRIC	66885 tax ID	*

[Ref.: #67770]

GC-content

73 mol%

fluorimetric

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 daghestanicus JCM 4365 NCBI: GCA_014649475.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Streptomyces daghestanicus JCM 4365 NCBI: GCA_014649475.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	85.883	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	97.915	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	90.719	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	93.098	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	94.5	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	88	no

Availability in culture collections External links

[Ref.: #9349]

Culture collection no.

DSM 40149, ATCC 19747, ATCC 23620, CBS 486.68, IFO 12762, INA 2656/55, ISP 5149, JCM 4365, NBRC 12762, RIA 1028, BCRC 11468, CGMCC 4.1690, NRRL B-5418, VKM Ac-1722, VKM Ac-1862

[Ref.: #84225]

SI-ID 386964

Literature:

	Title	Authors	Journal	DOI	Year
	[Cell wall teichoic acids from Streptomyces daghestanicus VKM Ac-1722T and Streptomyces murinus INA-00524T].	Streshinskaia GM, Koslova IuI, Alferova IV, Shashkov AS, Evtushenko LI	Mikrobiologiia		2005	*

References

#9349

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 40149

#18547

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 .

#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 )

#84225

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-ID386964.1 )

* These data were automatically processed and therefore are not curated

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Streptomyces daghestanicus JCM 4365

Streptomyces daghestanicus JCM 4365

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