Streptomyces subrutilus (DSM 40445, ATCC 27467, CBS 689.72)

Name: Streptomyces subrutilus (DSM 40445, ATCC 27467, CBS 689.72)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16030

Type strain

Culture col. no. DSM 40445 ATCC 27467 CBS 689.72 IFO 13388 ISP 5445 12 more

NCBI tax ID(s) 36818

Special Collections DSMZ JCM KCTC

History DSMZ <- E.B. Shirling, ISP <- T. Arai, Chiba Univ., IFM 713 JCM <-- KCC S-0695 <-- IFM 1222 (T. Arai 713).

Links

Streptomyces subrutilus DSM 40445 is a bacterium that produces antibiotic compounds and was isolated from Soil.

antibiotic compound production genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 92614

MTCC 4731,ATCC 27467,IFO 13388,DSM 40445,JCM 4695,JCM 4834,CCRC 11921,NRRL B-12377,VKM Ac-1210,CBS 689.72,KCTC 9045,NBRC 13388,LMG 20294,BCRC 11921,CGMCC 4.1784,AS 4.1784

@ref 20215

Last LPSN update 2026-05-29 08:28:41

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Kitasatosporales

Family Streptomycetaceae

Genus Streptomyces

Species Streptomyces subrutilus

Full scientific name Streptomyces subrutilus Arai et al. 1964 (Approved Lists 1980)

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	positive	91.815
125439	positive	90.54

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
9549	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
9549	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

Culture temp

@ref	Growth	Type	Temperature (°C)
9549	positive	growth	28
67770	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.067

Spore formation

@ref	Spore formation	Confidence
125438		90.763

Compound production

9549

Compoundhydroxystreptomycin

Metabolite production

@ref	Chebi-ID	Metabolite	Production
67770	24750 ChEBI	hydroxystreptomycin

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
66794	methylglyoxal degradation	100	5 of 5
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	valine metabolism	100	9 of 9
66794	cardiolipin biosynthesis	100	7 of 7
66794	biotin biosynthesis	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	glycogen metabolism	100	5 of 5
66794	glycine betaine biosynthesis	100	5 of 5
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	aclacinomycin biosynthesis	100	7 of 7
66794	glycolate and glyoxylate degradation	100	6 of 6
66794	adipate degradation	100	2 of 2
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	starch degradation	100	10 of 10
66794	ppGpp biosynthesis	100	4 of 4
66794	aerobactin biosynthesis	100	1 of 1
66794	acetate fermentation	100	4 of 4
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	suberin monomers biosynthesis	100	2 of 2
66794	cellulose degradation	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	phenylalanine metabolism	92.31	12 of 13
66794	pentose phosphate pathway	90.91	10 of 11
66794	proline metabolism	90.91	10 of 11
66794	threonine metabolism	90	9 of 10
66794	Entner Doudoroff pathway	90	9 of 10
66794	myo-inositol biosynthesis	90	9 of 10
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	NAD metabolism	88.89	16 of 18
66794	isoleucine metabolism	87.5	7 of 8
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	photosynthesis	85.71	12 of 14
66794	leucine metabolism	84.62	11 of 13
66794	alanine metabolism	82.76	24 of 29
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	metabolism of disaccharids	81.82	9 of 11
66794	vitamin K metabolism	80	4 of 5
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	flavin biosynthesis	80	12 of 15
66794	propionate fermentation	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	purine metabolism	79.79	75 of 94
66794	tryptophan metabolism	78.95	30 of 38
66794	citric acid cycle	78.57	11 of 14
66794	glutathione metabolism	78.57	11 of 14
66794	heme metabolism	78.57	11 of 14
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	serine metabolism	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	allantoin degradation	77.78	7 of 9
66794	urea cycle	76.92	10 of 13
66794	vitamin B12 metabolism	76.47	26 of 34
66794	glycolysis	76.47	13 of 17
66794	sulfopterin metabolism	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	toluene degradation	75	3 of 4
66794	arginine metabolism	75	18 of 24
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	gluconeogenesis	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	lipid metabolism	74.19	23 of 31
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	propanol degradation	71.43	5 of 7
66794	non-pathway related	71.05	27 of 38
66794	vitamin B1 metabolism	69.23	9 of 13
66794	histidine metabolism	68.97	20 of 29
66794	oxidative phosphorylation	67.03	61 of 91
66794	methane metabolism	66.67	2 of 3
66794	enterobactin biosynthesis	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	degradation of aromatic, nitrogen containing compounds	66.67	8 of 12
66794	octane oxidation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	cysteine metabolism	66.67	12 of 18
66794	acetoin degradation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	IAA biosynthesis	66.67	2 of 3
66794	methionine metabolism	65.38	17 of 26
66794	phenol degradation	65	13 of 20
66794	pyrimidine metabolism	64.44	29 of 45
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	tyrosine metabolism	64.29	9 of 14
66794	d-xylose degradation	63.64	7 of 11
66794	ketogluconate metabolism	62.5	5 of 8
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	polyamine pathway	60.87	14 of 23
66794	3-phenylpropionate degradation	60	9 of 15
66794	arachidonate biosynthesis	60	3 of 5
66794	glycine metabolism	60	6 of 10
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	gallate degradation	60	3 of 5
66794	lipoate biosynthesis	60	3 of 5
66794	lysine metabolism	59.52	25 of 42
66794	carotenoid biosynthesis	59.09	13 of 22
66794	degradation of pentoses	57.14	16 of 28
66794	degradation of sugar alcohols	56.25	9 of 16
66794	androgen and estrogen metabolism	56.25	9 of 16
66794	daunorubicin biosynthesis	55.56	5 of 9
66794	degradation of hexoses	55.56	10 of 18
66794	sulfate reduction	53.85	7 of 13
66794	phosphatidylethanolamine bioynthesis	53.85	7 of 13
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	vitamin E metabolism	50	2 of 4
66794	coenzyme A metabolism	50	2 of 4
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	cyclohexanol degradation	50	2 of 4
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	ribulose monophosphate pathway	50	1 of 2
66794	coenzyme M biosynthesis	50	5 of 10
66794	CMP-KDO biosynthesis	50	2 of 4
66794	ethanol fermentation	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	selenocysteine biosynthesis	50	3 of 6
66794	grixazone biosynthesis	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	bile acid biosynthesis, neutral pathway	47.06	8 of 17
66794	phenylpropanoid biosynthesis	46.15	6 of 13
66794	nitrate assimilation	44.44	4 of 9
66794	4-hydroxymandelate degradation	44.44	4 of 9
66794	lipid A biosynthesis	44.44	4 of 9
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	bacilysin biosynthesis	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	3-chlorocatechol degradation	40	2 of 5
66794	hydrogen production	40	2 of 5
66794	vitamin B6 metabolism	36.36	4 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
66794	arachidonic acid metabolism	33.33	6 of 18
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	chlorophyll metabolism	33.33	6 of 18
66794	sulfoquinovose degradation	33.33	1 of 3
66794	ascorbate metabolism	31.82	7 of 22
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	mevalonate metabolism	28.57	2 of 7
66794	degradation of sugar acids	28	7 of 25
66794	cholesterol biosynthesis	27.27	3 of 11
66794	lactate fermentation	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	carnitine metabolism	25	2 of 8
66794	methanogenesis from CO2	25	3 of 12

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67770	Soil	Aomori Pref.	Japan	JPN	Asia

Taxonmaps

69479

Global distribution of 16S sequence X80825 (>99% sequence identity) for Streptomyces from Microbeatlas

Aquatic Samples	1680
Soil Samples	19336
Animal Samples	1702
Plant Samples	3681
Total Samples	26399

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
9549	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	ASM870453v1 assembly for Streptomyces subrutilus ATCC 27467	complete	GCA_008704535	36818.16	2989898312	36818	98.4
66792	ASM1465093v1 assembly for Streptomyces subrutilus JCM 4834	scaffold	GCA_014650935	36818.17	8113685149	36818	29.9

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Streptomyces subrutilus 16S ribosomal RNA gene, partial sequence	U72172	269	36818
20218	Streptomyces subrutilus 16S rRNA gene, strain DSM 40445	X80825	1516	36818
20218	Streptomyces subrutilus gene for 16S rRNA, partial sequence, strain: NBRC 13388	AB184372	1474	36818
20218	Streptomyces subrutilus strain NRRL B-12377T 16S ribosomal RNA gene, partial sequence	DQ442545	1471	36818
124043	Streptomyces subrutilus strain JCM 4834 16S ribosomal RNA gene, partial sequence.	MT760622	1391	36818

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM870453v1 assembly for Streptomyces subrutilus ATCC 27467
BV-BRC: 36818.16

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.07	no
125439	gram_stain	BacteriaNetⓘ	positive	90.54	no
125439	spore_formation	BacteriaNetⓘ	yes	88.19	no
125439	motility	BacteriaNetⓘ	no	87.97	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Streptomyces subrutilus ATCC 27467
NCBI: GCA_008704535.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	91.82	no
125438	anaerobic	anaerobicⓘ	no	96.33	no
125438	aerobic	aerobicⓘ	yes	87.04	no
125438	spore-forming	spore-formingⓘ	yes	90.76	no
125438	thermophilic	thermophileⓘ	no	97.00	yes
125438	flagellated	motile2+ⓘ	no	88.10	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Avian incubation inhibits growth and diversification of bacterial assemblages on eggs.	Shawkey MD, Firestone MK, Brodie EL, Beissinger SR.	PLoS One	10.1371/journal.pone.0004522	2009
Enzymology	Functional characterisation of twelve terpene synthases from actinobacteria.	Chhalodia AK, Xu H, Tabekoueng GB, Gu B, Taizoumbe KA, Lauterbach L, Dickschat JS.	Beilstein J Org Chem	10.3762/bjoc.19.100	2023
Genetics	Bacteriobiota of the Cave Church of Sts. Peter and Paul in Serbia-Culturable and Non-Culturable Communities' Assessment in the Bioconservation Potential of a Peculiar Fresco Painting.	Dimkic I, Copic M, Petrovic M, Stupar M, Savkovic Z, Knezevic A, Subakov Simic G, Ljaljevic Grbic M, Unkovic N.	Int J Mol Sci	10.3390/ijms24021016	2023
Metabolism	Proteolytic Processing, Maturation, and Unique Synteny of the Streptomyces Hemagglutinin SHA.	Fujita-Yamaguchi Y, Muramatsu H, Tapia A, Bagramyan K, Desai M, Takehana Y, Igarashi M, Yamaguchi Y, Kalkum M.	Microbiol Spectr	10.1128/spectrum.00766-21	2021
Enzymology	Molecular detection of streptomycin-producing streptomycetes in Brazilian soils.	Huddleston AS, Cresswell N, Neves MC, Beringer JE, Baumberg S, Thomas DI, Wellington EM.	Appl Environ Microbiol	10.1128/aem.63.4.1288-1297.1997	1997
Phylogeny	Re-classification of Streptomyces venezuelae strains and mining secondary metabolite biosynthetic gene clusters.	Lee N, Choi M, Kim W, Hwang S, Lee Y, Kim JH, Kim G, Kim H, Cho S, Kim SC, Palsson B, Jang KS, Cho BK.	iScience	10.1016/j.isci.2021.103410	2021
Enzymology	Subrutilane-A Hexacyclic Sesterterpene from Streptomyces subrutilus.	Gu B, Goldfuss B, Schnakenburg G, Dickschat JS.	Angew Chem Int Ed Engl	10.1002/anie.202313789	2023
Phylogeny	Production of the antimalarial drug precursor amorphadiene by microbial terpene synthase-like from the moss Sanionia uncinata.	Kim H, Lee Y, Yu J, Park JY, Lee J, Kim SG, Hyun Y.	Planta	10.1007/s00425-024-04558-0	2024
	Evolutionary History of RNA Modifications at N6-Adenosine Originating from the R-M System in Eukaryotes and Prokaryotes.	Liu C, Cao J, Zhang H, Yin J.	Biology (Basel)	10.3390/biology11020214	2022
	Insights into the Activities and Usefulness of Deoxynojirimycin and Morus alba: A Comprehensive Review	Tricase A, Cavalluzzi M, Catalano A, De Bellis M, De Palma A, Basile G, Sinicropi M, Lentini G.	Molecules		2025
	Effects of bacterial inoculants on the indigenous microbiome and secondary metabolites of chamomile plants.	Schmidt R, Koberl M, Mostafa A, Ramadan EM, Monschein M, Jensen KB, Bauer R, Berg G.	Front Microbiol	10.3389/fmicb.2014.00064	2014
Metabolism	Influence of N-glycan processing disruption on tyrosinase and melanin synthesis in HM3KO melanoma cells.	Choi H, Ahn S, Chang H, Cho NS, Joo K, Lee BG, Chang I, Hwang JS.	Exp Dermatol	10.1111/j.1600-0625.2006.00515.x	2007
	The microbiome of medicinal plants: diversity and importance for plant growth, quality and health.	Koberl M, Schmidt R, Ramadan EM, Bauer R, Berg G.	Front Microbiol	10.3389/fmicb.2013.00400	2013
Enzymology	A lead-absorbing protein with superoxide dismutase activity from Streptomyces subrutilus.	So NW, Rho JY, Lee SY, Hancock IC, Kim JH.	FEMS Microbiol Lett	10.1111/j.1574-6968.2001.tb09452.x	2001
Biotechnology	Marine-Derived Actinomycetes: Biodegradation of Plastics and Formation of PHA Bioplastics-A Circular Bioeconomy Approach.	Oliveira J, Almeida PL, Sobral RG, Lourenco ND, Gaudencio SP.	Mar Drugs	10.3390/md20120760	2022
	Exploring Actinobacteria Associated With Rhizosphere and Endosphere of the Native Alpine Medicinal Plant Leontopodium nivale Subspecies alpinum.	Oberhofer M, Hess J, Leutgeb M, Gossnitzer F, Rattei T, Wawrosch C, Zotchev SB.	Front Microbiol	10.3389/fmicb.2019.02531	2019
	Phylogenetic and Physiological Diversity of Cultivable Actinomycetes Isolated From Alpine Habitats on the Qinghai-Tibetan Plateau.	Ma A, Zhang X, Jiang K, Zhao C, Liu J, Wu M, Wang Y, Wang M, Li J, Xu S.	Front Microbiol	10.3389/fmicb.2020.555351	2020
	Microbiome Modulation-Toward a Better Understanding of Plant Microbiome Response to Microbial Inoculants.	Berg G, Kusstatscher P, Abdelfattah A, Cernava T, Smalla K.	Front Microbiol	10.3389/fmicb.2021.650610	2021
	Microbial synthesis of three metabolites of a tachykinin receptor antagonist, TAK-637.	Tarui N, Ikeura Y, Natsugari H, Nakahama K	J Biosci Bioeng	10.1263/jbb.92.285	2001
Genetics	Streptomyces antarcticus sp. nov., isolated from Horseshoe Island, Antarctica.	Sahin SM, Saticioglu IB, Duman M, Ay H.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006856	2025

References

#9549	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 40445
#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) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#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 subrutilus (DSM 40445, ATCC 27467, CBS 689.72)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Compound production

Metabolite production

Pathway annotation

Isolation, sampling and environmental information

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_008704535

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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