Name: Streptomyces humidus 23572
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 15307

Type strain:

Species: Streptomyces humidus

Strain Designation: 23572

Culture col. no.: DSM 40263, ATCC 12760, ATCC 23923, CBS 907.68, IFO 12877, ISP 5263, NBRC 12877, RIA 1186, JCM 4386, BCRC 13707, CGMCC 4.1910, NRRL B-3172, VKM Ac-1703

Strain history: KCC S-0386 <-- IFO 12877 <-- SAJ <-- ISP 5263 <-- ATCC 12760 <-- K. Nakazawa 23572 (IFO 3520).

NCBI tax ID(s): 52259 (species)

SI-ID 35650

ATCC 12760, ATCC 23923, IFO 3520, IFO 12877, DSM 40263, JCM 4386, CCRC 13707, NRRL B-3172, VKM Ac-1703, CBS 907.68, NBRC 12877, BCRC 13707, CGMCC 4.1910

Section

Streptomyces humidus 23572 is a spore-forming, mesophilic, Gram-positive bacterium that produces antibiotic compounds and was isolated from soil.

antibiotic compound production
Gram-positive
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 humidus**
	Full Scientific Name (LPSN)	Streptomyces humidus Nakazawa and Shibata 1956 (Approved Lists 1980)

Information on morphological and physiological properties Morphology

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

Information on culture and growth conditions Culture and growth conditions

[Ref.: #9417]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #9417]

Culture medium growth

[Ref.: #9417]

Culture medium link

Medium recipe at MediaDive

[Ref.: #9417]

Culture medium composition

expand / minimize

[Ref.: #9417]

Culture medium

ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)

[Ref.: #9417]

Culture medium growth

[Ref.: #9417]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #9417]	growth	28 °C
[Ref.: #18575]	optimum	28 °C
[Ref.: #67770]	growth	28 °C

[Ref.: #9417]	Temperature range	mesophilic
[Ref.: #18575]	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.: #9417]	Name of produced compound	cobalamine
[Ref.: #9417]	Name of produced compound	dihydrostreptomycin
[Ref.: #9417]	Name of produced compound	humidin

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #18575]		NaCl		maximum	5	%

[Ref.: #18575]	Name of tolerated compound	Lysozyme
[Ref.: #18575]	Tolerance percentage	0.1

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #18575]	arabinose ChEBI	+
[Ref.: #68368]	arginine ChEBI	+	hydrolysis	* from API 20E
[Ref.: #68368]	citrate ChEBI	-	assimilation	* from API 20E
[Ref.: #18575]	fructose ChEBI	+
[Ref.: #68368]	gelatin ChEBI	-	hydrolysis	* from API 20E
[Ref.: #18575]	glucose ChEBI	+
[Ref.: #68368]	lysine ChEBI	+	degradation	* from API 20E
[Ref.: #18575]	mannitol ChEBI	+/-
[Ref.: #18575]	myo-inositol ChEBI	+/-
[Ref.: #68368]	ornithine ChEBI	+	degradation	* from API 20E
[Ref.: #18575]	raffinose ChEBI	+/-
[Ref.: #18575]	rhamnose ChEBI	+
[Ref.: #18575]	sucrose ChEBI	-
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	+	hydrolysis	* from API 20E
[Ref.: #18575]	xylose ChEBI	-
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #67770]	dihydrostreptomycin 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.: #18575]	133	+	+	+	+	-	-	+	-	-	+	-	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.: #9417]	Sample type/isolated from	soil
[Ref.: #9417]	Country	Japan
[Ref.: #9417]	Country ISO 3 Code	JPN
[Ref.: #9417]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ442508 (>99% sequence identity) for Streptomyces from Microbeatlas

Aquatic Samples	88
Soil Samples	2400
Animal Samples	99
Plant Samples	1803
Total Samples	4390

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

[Ref.: #18575]	Biosafety level	1	German classification
[Ref.: #9417]	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 humidus 16S ribosomal RNA gene, partial sequence	U72169	269	ENA	52259 tax ID	*
[Ref.: #20218]	Streptomyces humidus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4386	D44101	120	ENA	52259 tax ID	*
[Ref.: #20218]	Streptomyces humidus humidus strain JCM 4386 16S ribosomal RNA gene, partial sequence	GU383149	779	ENA	52259 tax ID	*
[Ref.: #20218]	Streptomyces humidus gene for 16S rRNA, partial sequence, strain: NBRC 12877	AB184213	1469	ENA	52259 tax ID	*
[Ref.: #20218]	Streptomyces humidus strain NRRL B-3172T 16S ribosomal RNA gene, partial sequence	DQ442508	1495	ENA	52259 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Streptomyces humidus JCM 4386	GCA_014649655	scaffold	GenBank	52259 tax ID	*
[Ref.: #66792]	Streptomyces humidus strain JCM 4386	52259.3	wgs	PATRIC	52259 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 humidus JCM 4386 NCBI: GCA_014649655.1
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Streptomyces humidus JCM 4386 NCBI: GCA_014649655.1
[Ref.: #69480]	flagellated	no	98.244	no
[Ref.: #69480]	gram-positive	yes	87.656	no
[Ref.: #69480]	anaerobic	no	98.301	no
[Ref.: #69480]	aerobic	yes	87.378	no
[Ref.: #69480]	halophile	no	95.23	no
[Ref.: #69480]	spore-forming	yes	95.143	no
[Ref.: #69480]	thermophile	no	98.266	yes
[Ref.: #69480]	glucose-util	yes	89.678	yes
[Ref.: #69480]	motile	no	94.501	no
[Ref.: #69480]	glucose-ferment	no	86.579	no

Availability in culture collections External links

[Ref.: #9417]

Culture collection no.

DSM 40263, ATCC 12760, ATCC 23923, CBS 907.68, IFO 12877, ISP 5263, NBRC 12877, RIA 1186, JCM 4386, BCRC 13707, CGMCC 4.1910, NRRL B-3172, VKM Ac-1703

[Ref.: #84401]

SI-ID 35650

References

#9417

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 40263

#18575

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 )

#84401

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-ID35650.1 )

* These data were automatically processed and therefore are not curated

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Streptomyces humidus JCM 4386

Streptomyces humidus JCM 4386

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