Streptomyces longispororuber (DSM 40599, ATCC 27443, CBS 789.72)

Name: Streptomyces longispororuber (DSM 40599, ATCC 27443, CBS 789.72)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 15381

Type strain

Culture col. no. DSM 40599 ATCC 27443 CBS 789.72 ETH 28545 IFO 13488 12 more

NCBI tax ID(s) 68230

Special Collections DSMZ JCM Wink compendium

History <- E.B. Shirling, ISP <- T.P. Preobrazhenskaya, INA KCC S-0784 <-- IFO 13488 <-- SAJ <-- ISP 5599 <-- INA 11668/54.

Links

Streptomyces longispororuber DSM 40599 is a mesophilic prokaryote of the family Streptomycetaceae.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 389342

PCM 2396,ATCC 27443,IFO 13488,DSM 40599,JCM 4784,NCIMB 9629,NRRL B-3736,NRRL B-5761,VKM Ac-1735,NBRC 13488,BCRC 16212,CCRC 16212,NCIB 9629,CBS 789.72

@ref 20215

Last LPSN update 2025-12-16 09:50:35

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Kitasatosporales

Family Streptomycetaceae

Genus Streptomyces

Species Streptomyces longispororuber

Full scientific name Streptomyces longispororuber Waksman 1953 (Approved Lists 1980)

BacDive ID	Other strains from **Streptomyces longispororuber** (7)	Type strain
15380	S. longispororuber M III, DSM 40667
15382	S. longispororuber Fal H 113, FH 1359, DSM 40749, ATCC 13931
15383	S. longispororuber China, JA 4653, DSM 46441, IMET 40340
127708	S. longispororuber ST005094(HKI), China, 8954,
127709	S. longispororuber ST004854(HKI), JA04143-7/5, EA2, CSR, IMET ...
127710	S. longispororuber ST007795(HKI),
127711	S. longispororuber ST007798(HKI), 1406,

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	positive	90.16
125439	positive	99.8

Colony morphology

@ref	Incubation period	Medium used
19484	10-14 days	ISP 2
19484	10-14 days	ISP 3
19484	10-14 days	ISP 4
19484	10-14 days	ISP 5
19484	10-14 days	ISP 6
19484	10-14 days	ISP 7

Multicellular morphology

@ref	Forms multicellular complex	Medium name
19484		ISP 2
19484		ISP 3
19484		ISP 4
19484		ISP 5
19484		ISP 6
19484		ISP 7

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
9675	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
19484	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
19484	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:
19484	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
19484	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
19484	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
19484	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
9675	ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)	Medium recipe at MediaDive	Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water
9675	STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)	Medium recipe at MediaDive	Name: STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) Composition: Agar 20.0 g/l Starch 10.0 g/l (NH4)2SO4 2.0 g/l CaCO3 2.0 g/l K2HPO4 1.0 g/l MgSO4 x 7 H2O 1.0 g/l NaCl 1.0 g/l FeSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l ZnSO4 x 7 H2O 0.001 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
9675	positive	growth	28	mesophilic
19484	positive	optimum	30	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.5

Spore formation

@ref	Spore formation	Confidence
125438		92.02
125439		91.6

Compound production

9675

Compoundundecylprodigiosine

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68368	29016 ChEBI	arginine	+	hydrolysis	from API 20E
68368	16947 ChEBI	citrate	+	assimilation	from API 20E
68368	5291 ChEBI	gelatin	+	hydrolysis	from API 20E
68368	25094 ChEBI	lysine	+	degradation	from API 20E
68368	18257 ChEBI	ornithine	+	degradation	from API 20E
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68368	16199 ChEBI	urea	+	hydrolysis	from API 20E

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
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
68368	arginine dihydrolase	+	3.5.3.6	from API 20E
68368	beta-galactosidase	+	3.2.1.23	from API 20E
68368	gelatinase	+		from API 20E
68368	lysine decarboxylase	+	4.1.1.18	from API 20E
68368	ornithine decarboxylase	+	4.1.1.17	from API 20E
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
68368	urease	+	3.5.1.5	from API 20E

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
19484	+	+	+	+	+	-	+	-	-	+	+	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.

Isolation, sampling and environmental information

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
9675	1	Risk group (German classification) According to TRBA 466
19484	1	Risk group (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	ASM1465609v1 assembly for Streptomyces longispororuber JCM 4784	scaffold	GCA_014656095	68230.3	2997421305	68230	5.51

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Streptomyces longispororuber gene for 16S ribosomal RNA, partial sequence, strain: JCM 4784	D44359	121	68230
20218	Streptomyces longispororuber gene for 16S rRNA, partial sequence, strain: NBRC 13488	AB184440	1429	68230
20218	Streptomyces sp. NTRHn8 gene for 16S ribosomal RNA, partial sequence	AB920595	1286	1571731
20218	Streptomyces longispororuber strain NRRL B-3736T 16S ribosomal RNA gene, partial sequence	DQ442521	1578	68230
124043	Streptomyces longispororuber strain JCM 4784 16S ribosomal RNA gene, partial sequence.	MT760611	1393	68230

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Streptomyces longispororuber JCM 4784
NCBI: GCA_014656095

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	91.60	no
125439	motility	BacteriaNetⓘ	no	89.10	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 longispororuber JCM 4784
NCBI: GCA_014656095.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	90.16	no
125438	anaerobic	anaerobicⓘ	no	98.86	no
125438	aerobic	aerobicⓘ	yes	86.48	no
125438	spore-forming	spore-formingⓘ	yes	92.02	no
125438	thermophilic	thermophileⓘ	no	97.00	yes
125438	flagellated	motile2+ⓘ	no	89.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Complete Genome Analysis of Undecylprodigiosin Pigment Biosynthesizing Marine Streptomyces Species Displaying Potential Bioactive Applications.	Ramesh C, Anwesh M, Vinithkumar NV, Kirubagaran R, Dufosse L.	Microorganisms	10.3390/microorganisms9112249	2021
	Physiological Basis of Plant Growth Promotion in Rice by Rhizosphere and Endosphere Associated Streptomyces Isolates from India.	Thenappan DP, Pandey R, Hada A, Jaiswal DK, Chinnusamy V, Bhattacharya R, Annapurna K.	Rice (N Y)	10.1186/s12284-024-00732-w	2024
	Streptomyces antibioticalis, a Novel Species from a Sanitary Landfill Soil.	Khanna M, Solanki R.	Indian J Microbiol	10.1007/s12088-012-0309-4	2012
Genetics	Investigation of Streptomyces sp. Strain EMB24 Secondary Metabolite Profile Has Unraveled Its Extraordinary Antibacterial Potency Against Drug-Resistant Bacteria.	Goel N, Singh R, Sood S, Khare SK.	Mar Biotechnol (NY)	10.1007/s10126-022-10168-2	2022
Enzymology	Optimized production and characterization of a thermostable cellulase from Streptomyces thermodiastaticus strain.	Waheeb MS, Elkhatib WF, Yassien MA, Hassouna NA.	AMB Express	10.1186/s13568-024-01787-0	2024
	Albocycline Is the Main Bioactive Antifungal Compound Produced by Streptomyces sp. OR6 against Verticillium dahliae.	Calvo-Pena C, Cobos R, Sanchez-Lopez JM, Ibanez A, Coque JJR.	Plants (Basel)	10.3390/plants12203612	2023
Phylogeny	Antimicrobial potential of phylogenetically unique actinomycete, Streptomyces sp. JRG-04 from marine origin.	Govindarajan G, Satheeja Santhi V, Jebakumar SR.	Biologicals	10.1016/j.biologicals.2014.08.003	2014
Genetics	Potentiality of Actinomycetia Prevalent in Selected Forest Ecosystems in Assam, India to Combat Multi-Drug-Resistant Microbial Pathogens.	Mazumdar R, Saikia K, Thakur D.	Metabolites	10.3390/metabo13080911	2023
Metabolism	Regio- and stereodivergent antibiotic oxidative carbocyclizations catalysed by Rieske oxygenase-like enzymes.	Sydor PK, Barry SM, Odulate OM, Barona-Gomez F, Haynes SW, Corre C, Song L, Challis GL.	Nat Chem	10.1038/nchem.1024	2011
Metabolism	(2R-trans)-2-butyl-5-heptylpyrrolidine as a potent sigma receptor ligand produced by Streptomyces longispororuber.	Kumagai K, Shono K, Nakayama H, Ohno Y, Saji I.	J Antibiot (Tokyo)	10.7164/antibiotics.53.467	2000
	Bioactive Potential of Several Actinobacteria Isolated from Microbiologically Barely Explored Desert Habitat, Saudi Arabia.	Almuhayawi MS, Mohamed MSM, Abdel-Mawgoud M, Selim S, Al Jaouni SK, AbdElgawad H.	Biology (Basel)	10.3390/biology10030235	2021
Metabolism	The sigma1 receptor interacts with N-alkyl amines and endogenous sphingolipids.	Ramachandran S, Chu UB, Mavlyutov TA, Pal A, Pyne S, Ruoho AE.	Eur J Pharmacol	10.1016/j.ejphar.2009.03.003	2009
Metabolism	The ligand binding region of the sigma-1 receptor: studies utilizing photoaffinity probes, sphingosine and N-alkylamines.	Ruoho AE, Chu UB, Ramachandran S, Fontanilla D, Mavlyutov T, Hajipour AR.	Curr Pharm Des	10.2174/138161212799436584	2012
Phylogeny	Cell wall distraction and biofilm inhibition of marine Streptomyces derived angucycline in methicillin resistant Staphylococcus aureus.	Jabila Mary TR, Kannan RR, Iniyan AM, Ramachandran D, Prakash Vincent SG	Microb Pathog	10.1016/j.micpath.2020.104712	2020
Phylogeny	Cell wall teichoic acids of streptomycetes of the phenetic cluster 'Streptomyces fulvissimus'.	Shashkov AS, Streshinskaya GM, Senchenkova SN, Kozlova YI, Alferova IV, Terekhova LP, Evtushenko LI	Carbohydr Res	10.1016/j.carres.2006.01.020	2006

References

#9675	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 40599
#19484	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 .
#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 longispororuber (DSM 40599, ATCC 27443, CBS 789.72)

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

Compound production

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

Isolation, sampling and environmental information

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014656095

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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