Streptomyces speibonae (DSM 41797, ATCC BAA-411, CIP 108060)

Name: Streptomyces speibonae (DSM 41797, ATCC BAA-411, CIP 108060)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16384

Type strain

Strain Designation PK-BLUE

Culture col. no. DSM 41797 ATCC BAA-411 CIP 108060 JCM 12682 KCTC 9973 5 more

NCBI tax ID(s) 195801

Special Collections DSMZ JCM KCTC CIP Wink compendium

History DSMZ <- P. Meyers; PK-BLUE JCM <-- DSM 41797 <-- P. R. Meyers strain PK-Blue. CIP <- 2003, P, Meyers, Univ. of Cape Town, Cape Town, South Africa: strain PK-BLUE

Links

Streptomyces speibonae PK-BLUE is an obligate aerobe, Gram-positive, filament-shaped bacterium that builds an aerial mycelium and was isolated from soil.

Gram-positive filament-shaped obligate aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 97611

ATCC BAA-411,DSM 41797,KCTC 9973,CIP 108060,NRRL B-24240,NBRC 101001,JCM 12682,NBRC 100916,BCRC 16379,CCRC 16379

@ref 20215

Last LPSN update 2026-05-29 08:28:46

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Kitasatosporales

Family Streptomycetaceae

Genus Streptomyces

Species Streptomyces speibonae

Full scientific name Streptomyces speibonae Meyers et al. 2003

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
122693	positive	filament-shaped

Colony morphology

@ref	Colony color	Incubation period	Medium used	Hemolysis ability
18722	Leaf green (6002)	10-14 days	ISP 2
18722	Leaf green (6002)	10-14 days	ISP 3
18722	Leaf green (6002)	10-14 days	ISP 4
18722	Leaf green (6002)	10-14 days	ISP 5
18722	Beige (1001)	10-14 days	ISP 6
18722	Leaf green (6002)	10-14 days	ISP 7
122693				0

Multicellular morphology

@ref	Complex name	Complex color	Medium name
18722	Aerial Mycelium	Signal grey (7004)	ISP 2
18722	Aerial Mycelium	Signal grey (7004)	ISP 3
18722	Aerial Mycelium	Signal grey (7004)	ISP 4
18722	Aerial Mycelium	White	ISP 5
18722			ISP 6
18722	Aerial Mycelium	White	ISP 7

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
10581	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
18722	ISP 2		Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
18722	ISP 3		Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
18722	ISP 4		Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
18722	ISP 5		Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
18722	ISP 7		Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
18722	ISP 6		Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
33882	MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulum		Distilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g)
10581	STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)	Medium recipe at MediaDive	Name: STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) Composition: Agar 14.985 g/l Starch 9.99001 g/l (NH4)2SO4 1.998 g/l CaCO3 1.998 g/l K2HPO4 0.999001 g/l MgSO4 x 7 H2O 0.999001 g/l NaCl 0.999001 g/l FeSO4 x 7 H2O 0.000999001 g/l MnCl2 x 4 H2O 0.000999001 g/l ZnSO4 x 7 H2O 0.000999001 g/l Distilled water
122693	CIP Medium 57	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
10581	positive	growth	28
18722	positive	optimum	28
33882	positive	growth	30
67770	positive	growth	28
122693	positive	growth	25-45
122693	negative	growth	10

Physiology and metabolism

Oxygen tolerance

122693

Oxygen toleranceobligate aerobe

Spore formation

@ref	Spore formation	Confidence
125438		92.025

Halophily

@ref	Salt	Growth	Tested relation	Concentration
122693	NaCl	positive	growth	0-6 %
122693	NaCl		growth	8 %
122693	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
122693	16947 ChEBI	citrate	-	carbon source
122693	4853 ChEBI	esculin	+	hydrolysis
122693	606565 ChEBI	hippurate	-	hydrolysis
122693	17632 ChEBI	nitrate	+	reduction
122693	17632 ChEBI	nitrate	+	respiration
122693	16301 ChEBI	nitrite	-	reduction

Metabolite production

@ref	Chebi-ID	Metabolite	Production
122693	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
122693	15688 ChEBI	acetoin	-
122693	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
122693	alcohol dehydrogenase	-	1.1.1.1
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-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	+	3.2.1.24	from API zym
122693	amylase	+
122693	beta-galactosidase	+	3.2.1.23
68382	beta-glucuronidase	-	3.2.1.31	from API zym
122693	caseinase	-	3.4.21.50
122693	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
122693	DNase	+
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
122693	gamma-glutamyltransferase	+	2.3.2.2
122693	gelatinase	+/-
122693	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
122693	lipase	-
68382	lipase (C 14)	-		from API zym
122693	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
122693	ornithine decarboxylase	-	4.1.1.17
122693	oxidase	-
122693	phenylalanine ammonia-lyase	-	4.3.1.24
122693	protease	+
68382	trypsin	-	3.4.21.4	from API zym
122693	tryptophan deaminase	-
122693	tween esterase	-
122693	urease	-	3.5.1.5
68382	valine arylamidase	+		from API zym

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
18722	not determinedn.d.	+	+	+	-	+	+	-	-	-	+	+	+	+	-	+	+	+	+	-
122693	-	+	+	+	-	+	+	-	-	-	+	+	-	-	-	+	-	+	+	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
122693	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	Isolation date
10581	soil	Cape Town	South Africa	ZAF	Africa
67770	Soil	Cape Town	South Africa	ZAF	Africa
122693	Environment, Soil	Cape Town	South Africa	ZAF	Africa	2000

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
10581	1	Risk group (German classification) According to TRBA 466
18722	1	German classification According to TRBA 466
122693	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM71560v1 assembly for Streptomyces speibonae NRRL B-24240	scaffold	GCA_000715605	195801.3	2775507106	195801	0

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
10581	Streptomyces speibonae 16S ribosomal RNA gene, partial sequence	AF452714	1490		195801
67770	Streptomyces speibonae gene for 16S rRNA, partial sequence, strain: NBRC 100916	AB249961	1475		195801

GC content

@ref	GC-content (mol%)	Method
10581	73.4
67770	73.4	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Streptomyces speibonae NRRL B-24240
NCBI: GCA_000715605.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.78	no
125438	anaerobic	anaerobicⓘ	no	92.62	no
125438	aerobic	aerobicⓘ	yes	89.15	yes
125438	spore-forming	spore-formingⓘ	yes	92.03	no
125438	thermophilic	thermophileⓘ	no	94.00	yes
125438	flagellated	motile2+ⓘ	no	87.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Actinobacteria associated with the marine sponges Cinachyra sp., Petrosia sp., and Ulosa sp. and their culturability.	Khan ST, Takagi M, Shin-ya K.	Microbes Environ	10.1264/jsme2.me11270	2012
	First draft genome sequence data of TA4-1, the type strain of Gram-positive bacterium Streptomyces chiangmaiensis.	Yasawong M, Rosyidah A, Songngamsuk T, Phatcharaharikarn M, Ganta P, Chanthasena P, Chudapongse N, Santapan N, Srisakvarangkool W, Kerdtoob S, Nantapong N.	Data Brief	10.1016/j.dib.2024.110611	2024
	Unveiling the bioactive potential of Actinomycetota from the Tagus River estuary.	Dos Santos JDN, Pinto E, Martin J, Vicente F, Reyes F, Lage OM.	Int Microbiol	10.1007/s10123-024-00483-0	2024
Phylogeny	Streptomyces speibonae sp. nov., a novel streptomycete with blue substrate mycelium isolated from South African soil.	Meyers PR, Porter DS, Omorogie C, Pule JM, Kwetane T	Int J Syst Evol Microbiol	10.1099/ijs.0.02341-0	2003
Phylogeny	Streptomyces caeni sp. nov., isolated from mangrove mud.	Huang H, Liu M, Zhong W, Mo K, Zhu J, Zou X, Hu Y, Bao S	Int J Syst Evol Microbiol	10.1099/ijsem.0.002916	2018

References

#10581	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 41797
#18722	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 )
#33882	; Curators of the CIP;
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68382	Automatically annotated from API zym .
#122693	Collection of Institut Pasteur ; Curators of the CIP; CIP 108060
#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 )
#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 speibonae (DSM 41797, ATCC BAA-411, CIP 108060)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000715605

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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